diff --git a/404.html b/404.html index 21dad8348..b062d2821 100644 --- a/404.html +++ b/404.html @@ -15,7 +15,13 @@ + diff --git a/CODE_OF_CONDUCT.html b/CODE_OF_CONDUCT.html index e402d54c6..1e9b9447b 100644 --- a/CODE_OF_CONDUCT.html +++ b/CODE_OF_CONDUCT.html @@ -2,7 +2,13 @@ Contributor Covenant Code of Conduct • Giotto +
diff --git a/CONTRIBUTING.html b/CONTRIBUTING.html index e6c5bd1df..3563fe420 100644 --- a/CONTRIBUTING.html +++ b/CONTRIBUTING.html @@ -2,7 +2,13 @@ How to Contribute? • Giotto +
diff --git a/LICENSE.html b/LICENSE.html index 3116cf6d6..47ed03b03 100644 --- a/LICENSE.html +++ b/LICENSE.html @@ -2,7 +2,13 @@ GNU General Public License • Giotto +
diff --git a/articles/branches.html b/articles/branches.html index b7861a875..72e42d330 100644 --- a/articles/branches.html +++ b/articles/branches.html @@ -16,7 +16,13 @@ + diff --git a/articles/codex_mouse_spleen.html b/articles/codex_mouse_spleen.html index 282595f25..98ed1e27c 100644 --- a/articles/codex_mouse_spleen.html +++ b/articles/codex_mouse_spleen.html @@ -16,7 +16,13 @@ + diff --git a/articles/configuration.html b/articles/configuration.html index 23333e3d1..2bf99cf2a 100644 --- a/articles/configuration.html +++ b/articles/configuration.html @@ -16,7 +16,13 @@ + diff --git a/articles/contributing.html b/articles/contributing.html index 65aea054a..525c83217 100644 --- a/articles/contributing.html +++ b/articles/contributing.html @@ -16,7 +16,13 @@ + diff --git a/articles/docker.html b/articles/docker.html index 328727ccd..967f7df11 100644 --- a/articles/docker.html +++ b/articles/docker.html @@ -16,7 +16,13 @@ + diff --git a/articles/ecosystem.html b/articles/ecosystem.html index f75cded9c..70e279ab0 100644 --- a/articles/ecosystem.html +++ b/articles/ecosystem.html @@ -16,7 +16,13 @@ + diff --git a/articles/faqs.html b/articles/faqs.html index c03604ea0..9b0e319bf 100644 --- a/articles/faqs.html +++ b/articles/faqs.html @@ -16,7 +16,13 @@ + diff --git a/articles/github_issues.html b/articles/github_issues.html index 55980ab61..0d0807d69 100644 --- a/articles/github_issues.html +++ b/articles/github_issues.html @@ -16,7 +16,13 @@ + diff --git a/articles/image_alignment.html b/articles/image_alignment.html index a770fd314..ce3e3e316 100644 --- a/articles/image_alignment.html +++ b/articles/image_alignment.html @@ -16,7 +16,13 @@ + diff --git a/articles/index.html b/articles/index.html index 2aedd03c7..62d55420a 100644 --- a/articles/index.html +++ b/articles/index.html @@ -2,7 +2,13 @@ Articles • Giotto +
diff --git a/articles/installation.html b/articles/installation.html index 480750799..146caa83d 100644 --- a/articles/installation.html +++ b/articles/installation.html @@ -16,7 +16,13 @@ + diff --git a/articles/interactive_selection.html b/articles/interactive_selection.html index 0c2870adc..32882ccaf 100644 --- a/articles/interactive_selection.html +++ b/articles/interactive_selection.html @@ -16,7 +16,13 @@ + diff --git a/articles/interoperability_anndata.html b/articles/interoperability_anndata.html index 1da6aeb25..a73f746d9 100644 --- a/articles/interoperability_anndata.html +++ b/articles/interoperability_anndata.html @@ -16,7 +16,13 @@ + diff --git a/articles/interoperability_spatialexperiment.html b/articles/interoperability_spatialexperiment.html index 8768ecd21..dfc6558b9 100644 --- a/articles/interoperability_spatialexperiment.html +++ b/articles/interoperability_spatialexperiment.html @@ -16,7 +16,13 @@ + diff --git a/articles/merfish_mouse_hypothalamic.html b/articles/merfish_mouse_hypothalamic.html index d21b6262a..0dc722a00 100644 --- a/articles/merfish_mouse_hypothalamic.html +++ b/articles/merfish_mouse_hypothalamic.html @@ -16,7 +16,13 @@ + diff --git a/articles/mini_seqfish.html b/articles/mini_seqfish.html index cfb3b216c..3da68c847 100644 --- a/articles/mini_seqfish.html +++ b/articles/mini_seqfish.html @@ -16,7 +16,13 @@ + diff --git a/articles/mouse_embryo_dbitseq.html b/articles/mouse_embryo_dbitseq.html index ac265fd50..e524ab0e7 100644 --- a/articles/mouse_embryo_dbitseq.html +++ b/articles/mouse_embryo_dbitseq.html @@ -16,7 +16,13 @@ + diff --git a/articles/nanostring_cosmx_lung_cancer.html b/articles/nanostring_cosmx_lung_cancer.html index 6a1517edc..8e57b30bc 100644 --- a/articles/nanostring_cosmx_lung_cancer.html +++ b/articles/nanostring_cosmx_lung_cancer.html @@ -16,7 +16,13 @@ + diff --git a/articles/object_creation.html b/articles/object_creation.html index ae1833355..ece4379a9 100644 --- a/articles/object_creation.html +++ b/articles/object_creation.html @@ -16,7 +16,13 @@ + diff --git a/articles/osmfish_mouse_ss_cortex.html b/articles/osmfish_mouse_ss_cortex.html index b3424bdb5..911af3be6 100644 --- a/articles/osmfish_mouse_ss_cortex.html +++ b/articles/osmfish_mouse_ss_cortex.html @@ -16,7 +16,13 @@ + diff --git a/articles/presentations.html b/articles/presentations.html index fb4fa2f19..f1ed7b0e5 100644 --- a/articles/presentations.html +++ b/articles/presentations.html @@ -16,7 +16,13 @@ + diff --git a/articles/resolve_biosciences.html b/articles/resolve_biosciences.html index 307922250..c5e554f7e 100644 --- a/articles/resolve_biosciences.html +++ b/articles/resolve_biosciences.html @@ -16,7 +16,13 @@ + diff --git a/articles/saving_object.html b/articles/saving_object.html index db7feae0f..c96cb0799 100644 --- a/articles/saving_object.html +++ b/articles/saving_object.html @@ -16,7 +16,13 @@ + diff --git a/articles/saving_plots.html b/articles/saving_plots.html index 5caf2547b..c023fc4a1 100644 --- a/articles/saving_plots.html +++ b/articles/saving_plots.html @@ -16,7 +16,13 @@ + diff --git a/articles/seqfish_cortex.html b/articles/seqfish_cortex.html index cd815e125..a6aebef07 100644 --- a/articles/seqfish_cortex.html +++ b/articles/seqfish_cortex.html @@ -16,7 +16,13 @@ + diff --git a/articles/seqscope_mouse_liver.html b/articles/seqscope_mouse_liver.html index ef036cbc6..8353a9f0d 100644 --- a/articles/seqscope_mouse_liver.html +++ b/articles/seqscope_mouse_liver.html @@ -16,7 +16,13 @@ + diff --git a/articles/singlecell_lung_adenocarcinoma.html b/articles/singlecell_lung_adenocarcinoma.html index c39769618..50a6fe0e9 100644 --- a/articles/singlecell_lung_adenocarcinoma.html +++ b/articles/singlecell_lung_adenocarcinoma.html @@ -16,7 +16,13 @@ + diff --git a/articles/singlecell_prostate_integration.html b/articles/singlecell_prostate_integration.html index a89e443e3..f095ab302 100644 --- a/articles/singlecell_prostate_integration.html +++ b/articles/singlecell_prostate_integration.html @@ -16,7 +16,13 @@ + diff --git a/articles/singlecell_prostate_standard.html b/articles/singlecell_prostate_standard.html index 12d6c28e2..cf5888a52 100644 --- a/articles/singlecell_prostate_standard.html +++ b/articles/singlecell_prostate_standard.html @@ -16,7 +16,13 @@ + diff --git a/articles/singularity.html b/articles/singularity.html index 355f412a0..5d83278e3 100644 --- a/articles/singularity.html +++ b/articles/singularity.html @@ -16,7 +16,13 @@ + diff --git a/articles/spatial_citeseq_human_skin.html b/articles/spatial_citeseq_human_skin.html index 6cf939027..4084c054a 100644 --- a/articles/spatial_citeseq_human_skin.html +++ b/articles/spatial_citeseq_human_skin.html @@ -16,7 +16,13 @@ + diff --git a/articles/spatial_genomics_mouse_kidney.html b/articles/spatial_genomics_mouse_kidney.html index 43cd27f2b..883609e63 100644 --- a/articles/spatial_genomics_mouse_kidney.html +++ b/articles/spatial_genomics_mouse_kidney.html @@ -16,7 +16,13 @@ + diff --git a/articles/spatial_transformations.html b/articles/spatial_transformations.html index bfb5c50ab..fbf409020 100644 --- a/articles/spatial_transformations.html +++ b/articles/spatial_transformations.html @@ -16,7 +16,13 @@ + diff --git a/articles/structure.html b/articles/structure.html index 6671895dd..810beb5c5 100644 --- a/articles/structure.html +++ b/articles/structure.html @@ -16,7 +16,13 @@ + diff --git a/articles/team.html b/articles/team.html index 1cd472322..c58faca35 100644 --- a/articles/team.html +++ b/articles/team.html @@ -16,7 +16,13 @@ + diff --git a/articles/terra.html b/articles/terra.html index 9600b5f19..c7c1472f0 100644 --- a/articles/terra.html +++ b/articles/terra.html @@ -16,7 +16,13 @@ + diff --git a/articles/visium_cytassist_human_glioblastoma.html b/articles/visium_cytassist_human_glioblastoma.html index c9a7b6da3..7004725a5 100644 --- a/articles/visium_cytassist_human_glioblastoma.html +++ b/articles/visium_cytassist_human_glioblastoma.html @@ -16,7 +16,13 @@ + diff --git a/articles/visium_cytassist_lungcancer.html b/articles/visium_cytassist_lungcancer.html index f7b672e26..e5b8293bf 100644 --- a/articles/visium_cytassist_lungcancer.html +++ b/articles/visium_cytassist_lungcancer.html @@ -16,7 +16,13 @@ + diff --git a/articles/visium_mouse_brain.html b/articles/visium_mouse_brain.html index 856ec60b6..0630e83ee 100644 --- a/articles/visium_mouse_brain.html +++ b/articles/visium_mouse_brain.html @@ -16,7 +16,13 @@ + diff --git a/articles/visium_mouse_kidney.html b/articles/visium_mouse_kidney.html index 611533b4a..4a2f7f22e 100644 --- a/articles/visium_mouse_kidney.html +++ b/articles/visium_mouse_kidney.html @@ -16,7 +16,13 @@ + diff --git a/articles/visium_prostate_integration.html b/articles/visium_prostate_integration.html index 81514c6c1..e88a78ab5 100644 --- a/articles/visium_prostate_integration.html +++ b/articles/visium_prostate_integration.html @@ -16,7 +16,13 @@ + diff --git a/articles/visualizations.html b/articles/visualizations.html index 1c775f9d1..3932eb363 100644 --- a/articles/visualizations.html +++ b/articles/visualizations.html @@ -16,7 +16,13 @@ + diff --git a/articles/vizgen_mouse_brain.html b/articles/vizgen_mouse_brain.html index 1f3f21cc5..c16eb4fab 100644 --- a/articles/vizgen_mouse_brain.html +++ b/articles/vizgen_mouse_brain.html @@ -16,7 +16,13 @@ + diff --git a/articles/xenium_breast_cancer.html b/articles/xenium_breast_cancer.html index 48750ecee..d6d26b263 100644 --- a/articles/xenium_breast_cancer.html +++ b/articles/xenium_breast_cancer.html @@ -16,7 +16,13 @@ + diff --git a/authors.html b/authors.html index 4744f1a5e..28e13cc73 100644 --- a/authors.html +++ b/authors.html @@ -2,7 +2,13 @@ Authors and Citation • Giotto +
diff --git a/index.html b/index.html index 9ec726900..d08d3ff52 100644 --- a/index.html +++ b/index.html @@ -16,7 +16,13 @@ + diff --git a/news/index.html b/news/index.html index 830d52032..b018a686d 100644 --- a/news/index.html +++ b/news/index.html @@ -2,7 +2,13 @@ Changelog • Giotto +
diff --git a/pkgdown.yml b/pkgdown.yml index 79f613859..a3f1af713 100644 --- a/pkgdown.yml +++ b/pkgdown.yml @@ -45,7 +45,7 @@ articles: visualizations: visualizations.html vizgen_mouse_brain: vizgen_mouse_brain.html xenium_breast_cancer: xenium_breast_cancer.html -last_built: 2024-02-20T18:45Z +last_built: 2024-02-20T18:55Z urls: reference: https://drieslab.github.io/Giotto_website/reference article: https://drieslab.github.io/Giotto_website/articles diff --git a/reference/FSV_show.html b/reference/FSV_show.html index 87bdadcf8..c2994846b 100644 --- a/reference/FSV_show.html +++ b/reference/FSV_show.html @@ -2,7 +2,13 @@ FSV_show — FSV_show • Giotto +
diff --git a/reference/PAGEEnrich.html b/reference/PAGEEnrich.html index 38637657a..fbbbef209 100644 --- a/reference/PAGEEnrich.html +++ b/reference/PAGEEnrich.html @@ -2,7 +2,13 @@ PAGEEnrich — PAGEEnrich • Giotto +
diff --git a/reference/adapt_aspect_ratio.html b/reference/adapt_aspect_ratio.html index 2d12ed317..29504b586 100644 --- a/reference/adapt_aspect_ratio.html +++ b/reference/adapt_aspect_ratio.html @@ -2,7 +2,13 @@ adapt_aspect_ratio — adapt_aspect_ratio • Giotto +
diff --git a/reference/addCellIntMetadata.html b/reference/addCellIntMetadata.html index c61049913..d27a6dab7 100644 --- a/reference/addCellIntMetadata.html +++ b/reference/addCellIntMetadata.html @@ -3,7 +3,13 @@ selected cell-cell interaction."> +
diff --git a/reference/addCellStatistics.html b/reference/addCellStatistics.html index f86700c10..2fb9ead04 100644 --- a/reference/addCellStatistics.html +++ b/reference/addCellStatistics.html @@ -2,7 +2,13 @@ addCellStatistics — addCellStatistics • Giotto +
diff --git a/reference/addFeatStatistics.html b/reference/addFeatStatistics.html index 726a86dfb..21147265a 100644 --- a/reference/addFeatStatistics.html +++ b/reference/addFeatStatistics.html @@ -2,7 +2,13 @@ Add feature statistics — addFeatStatistics • Giotto +
diff --git a/reference/addFeatsPerc.html b/reference/addFeatsPerc.html index 768dab0a1..b1f683c89 100644 --- a/reference/addFeatsPerc.html +++ b/reference/addFeatsPerc.html @@ -2,7 +2,13 @@ addFeatsPerc — addFeatsPerc • Giotto +
diff --git a/reference/addHMRF.html b/reference/addHMRF.html index f63cfe38a..ed1bebfe5 100644 --- a/reference/addHMRF.html +++ b/reference/addHMRF.html @@ -2,7 +2,13 @@ addHMRF — addHMRF • Giotto +
diff --git a/reference/addHMRF_V2.html b/reference/addHMRF_V2.html index 53e30e893..e1659174d 100644 --- a/reference/addHMRF_V2.html +++ b/reference/addHMRF_V2.html @@ -2,7 +2,13 @@ addHMRF_V2 — addHMRF_V2 • Giotto +
diff --git a/reference/addPolygonCells.html b/reference/addPolygonCells.html index ce24acad0..1b2a40bf8 100644 --- a/reference/addPolygonCells.html +++ b/reference/addPolygonCells.html @@ -2,7 +2,13 @@ Add corresponding polygon IDs to cell metadata — addPolygonCells • Giotto +
diff --git a/reference/addStatistics.html b/reference/addStatistics.html index dc859050e..833d74933 100644 --- a/reference/addStatistics.html +++ b/reference/addStatistics.html @@ -2,7 +2,13 @@ addStatistics — addStatistics • Giotto +
diff --git a/reference/addVisiumPolygons.html b/reference/addVisiumPolygons.html index 265036efd..6bbe0758b 100644 --- a/reference/addVisiumPolygons.html +++ b/reference/addVisiumPolygons.html @@ -2,7 +2,13 @@ Add Visium Polygons to Giotto Object — addVisiumPolygons • Giotto +
diff --git a/reference/adjustGiottoMatrix.html b/reference/adjustGiottoMatrix.html index e1fb391f6..fc90b37fc 100644 --- a/reference/adjustGiottoMatrix.html +++ b/reference/adjustGiottoMatrix.html @@ -2,7 +2,13 @@ Adjust expression values — adjustGiottoMatrix • Giotto +
diff --git a/reference/average_feat_feat_expression_in_groups.html b/reference/average_feat_feat_expression_in_groups.html index 3c58fc1f1..14cc1b5f0 100644 --- a/reference/average_feat_feat_expression_in_groups.html +++ b/reference/average_feat_feat_expression_in_groups.html @@ -2,7 +2,13 @@ average_feat_feat_expression_in_groups — average_feat_feat_expression_in_groups • Giotto +
diff --git a/reference/binSpect.html b/reference/binSpect.html index f9535a9b2..2dd2e2dd8 100644 --- a/reference/binSpect.html +++ b/reference/binSpect.html @@ -3,7 +3,13 @@ that identifies genes with a spatially coherent expression pattern."> +
diff --git a/reference/binSpectMulti.html b/reference/binSpectMulti.html index 6020c4d1a..b486cd042 100644 --- a/reference/binSpectMulti.html +++ b/reference/binSpectMulti.html @@ -2,7 +2,13 @@ binSpectMulti — binSpectMulti • Giotto +
diff --git a/reference/binSpectMultiMatrix.html b/reference/binSpectMultiMatrix.html index 6046e3fe3..4f4e2cef4 100644 --- a/reference/binSpectMultiMatrix.html +++ b/reference/binSpectMultiMatrix.html @@ -2,7 +2,13 @@ binSpectMultiMatrix — binSpectMultiMatrix • Giotto +
diff --git a/reference/binSpectSingle.html b/reference/binSpectSingle.html index a5cc1d6c5..c2ead4116 100644 --- a/reference/binSpectSingle.html +++ b/reference/binSpectSingle.html @@ -2,7 +2,13 @@ binSpectSingle — binSpectSingle • Giotto +
diff --git a/reference/binSpectSingleMatrix.html b/reference/binSpectSingleMatrix.html index 8fe7086d7..f72e74327 100644 --- a/reference/binSpectSingleMatrix.html +++ b/reference/binSpectSingleMatrix.html @@ -2,7 +2,13 @@ binSpectSingleMatrix — binSpectSingleMatrix • Giotto +
diff --git a/reference/calculateHVF.html b/reference/calculateHVF.html index 511d573d2..ee0ce4b68 100644 --- a/reference/calculateHVF.html +++ b/reference/calculateHVF.html @@ -2,7 +2,13 @@ calculateHVF — calculateHVF • Giotto +
diff --git a/reference/calculate_spatial_enrichment.html b/reference/calculate_spatial_enrichment.html index cc593b1b1..ff03b3a8b 100644 --- a/reference/calculate_spatial_enrichment.html +++ b/reference/calculate_spatial_enrichment.html @@ -2,7 +2,13 @@ Calculate spatial enrichment — calculate_spatial_enrichment • Giotto +
diff --git a/reference/callSpdep.html b/reference/callSpdep.html index b153ea559..dfc4e3dfc 100644 --- a/reference/callSpdep.html +++ b/reference/callSpdep.html @@ -2,7 +2,13 @@ Call the spdep function with required parameters — callSpdep • Giotto +
diff --git a/reference/cellProximityBarplot.html b/reference/cellProximityBarplot.html index a4d5958cb..084872eb4 100644 --- a/reference/cellProximityBarplot.html +++ b/reference/cellProximityBarplot.html @@ -2,7 +2,13 @@ cellProximityBarplot — cellProximityBarplot • Giotto +
diff --git a/reference/cellProximityEnrichment.html b/reference/cellProximityEnrichment.html index e97bc94b0..0f3cb5493 100644 --- a/reference/cellProximityEnrichment.html +++ b/reference/cellProximityEnrichment.html @@ -2,7 +2,13 @@ cellProximityEnrichment — cellProximityEnrichment • Giotto +
diff --git a/reference/cellProximityEnrichmentEachSpot.html b/reference/cellProximityEnrichmentEachSpot.html index 5f0b4b24a..bdaddf0e5 100644 --- a/reference/cellProximityEnrichmentEachSpot.html +++ b/reference/cellProximityEnrichmentEachSpot.html @@ -3,7 +3,13 @@ interacted spots (observed)"> +
diff --git a/reference/cellProximityEnrichmentSpots.html b/reference/cellProximityEnrichmentSpots.html index 884e97fd6..86cb73fd0 100644 --- a/reference/cellProximityEnrichmentSpots.html +++ b/reference/cellProximityEnrichmentSpots.html @@ -2,7 +2,13 @@ cellProximityEnrichmentSpots — cellProximityEnrichmentSpots • Giotto +
diff --git a/reference/cellProximityHeatmap.html b/reference/cellProximityHeatmap.html index 68c6492b9..4206d94a9 100644 --- a/reference/cellProximityHeatmap.html +++ b/reference/cellProximityHeatmap.html @@ -2,7 +2,13 @@ cellProximityHeatmap — cellProximityHeatmap • Giotto +
diff --git a/reference/cellProximityNetwork.html b/reference/cellProximityNetwork.html index eee7974d7..bcc527ef7 100644 --- a/reference/cellProximityNetwork.html +++ b/reference/cellProximityNetwork.html @@ -2,7 +2,13 @@ cellProximityNetwork — cellProximityNetwork • Giotto +
diff --git a/reference/cellProximitySpatPlot.html b/reference/cellProximitySpatPlot.html index 38569c58f..38e7c9629 100644 --- a/reference/cellProximitySpatPlot.html +++ b/reference/cellProximitySpatPlot.html @@ -2,7 +2,13 @@ cellProximitySpatPlot — cellProximitySpatPlot • Giotto +
diff --git a/reference/cellProximitySpatPlot2D.html b/reference/cellProximitySpatPlot2D.html index cdf7f654f..bd8a3bb02 100644 --- a/reference/cellProximitySpatPlot2D.html +++ b/reference/cellProximitySpatPlot2D.html @@ -2,7 +2,13 @@ cellProximitySpatPlot2D — cellProximitySpatPlot2D • Giotto +
diff --git a/reference/cellProximitySpatPlot3D.html b/reference/cellProximitySpatPlot3D.html index d62d75301..b387fc7df 100644 --- a/reference/cellProximitySpatPlot3D.html +++ b/reference/cellProximitySpatPlot3D.html @@ -2,7 +2,13 @@ cellProximitySpatPlot3D — cellProximitySpatPlot3D • Giotto +
diff --git a/reference/cellProximityVisPlot.html b/reference/cellProximityVisPlot.html index 2dd154308..68d5cf95b 100644 --- a/reference/cellProximityVisPlot.html +++ b/reference/cellProximityVisPlot.html @@ -2,7 +2,13 @@ cellProximityVisPlot — cellProximityVisPlot • Giotto +
diff --git a/reference/cellProximityVisPlot_internals.html b/reference/cellProximityVisPlot_internals.html index 2d745d10a..c4982cc42 100644 --- a/reference/cellProximityVisPlot_internals.html +++ b/reference/cellProximityVisPlot_internals.html @@ -2,7 +2,13 @@ cellProximityVisPlot internals — cellProximityVisPlot_internals • Giotto +
diff --git a/reference/cell_proximity_spots.html b/reference/cell_proximity_spots.html index 518427968..c15056c7f 100644 --- a/reference/cell_proximity_spots.html +++ b/reference/cell_proximity_spots.html @@ -3,7 +3,13 @@ external spots"> +
diff --git a/reference/cell_proximity_tests.html b/reference/cell_proximity_tests.html index 537f0ddb8..20f9aad03 100644 --- a/reference/cell_proximity_tests.html +++ b/reference/cell_proximity_tests.html @@ -2,7 +2,13 @@ Interaction changed features test methods — cell_proximity_tests • Giotto +
diff --git a/reference/checkAndFixSpatialGenes.html b/reference/checkAndFixSpatialGenes.html index 979a4cf89..03a0f9187 100644 --- a/reference/checkAndFixSpatialGenes.html +++ b/reference/checkAndFixSpatialGenes.html @@ -2,7 +2,13 @@ checkAndFixSpatialGenes — checkAndFixSpatialGenes • Giotto +
diff --git a/reference/chooseAvailableSpatialGenes.html b/reference/chooseAvailableSpatialGenes.html index 39fb82342..c22eeed20 100644 --- a/reference/chooseAvailableSpatialGenes.html +++ b/reference/chooseAvailableSpatialGenes.html @@ -2,7 +2,13 @@ chooseAvailableSpatialGenes — chooseAvailableSpatialGenes • Giotto +
diff --git a/reference/clusterCells.html b/reference/clusterCells.html index 85cc3d6c3..581ebec12 100644 --- a/reference/clusterCells.html +++ b/reference/clusterCells.html @@ -2,7 +2,13 @@ clusterCells — clusterCells • Giotto +
diff --git a/reference/clusterSpatialCorFeats.html b/reference/clusterSpatialCorFeats.html index 580add77e..8e15fed99 100644 --- a/reference/clusterSpatialCorFeats.html +++ b/reference/clusterSpatialCorFeats.html @@ -2,7 +2,13 @@ clusterSpatialCorFeats — clusterSpatialCorFeats • Giotto +
diff --git a/reference/clusterSpatialCorGenes.html b/reference/clusterSpatialCorGenes.html index f3da9da87..a31cdeee4 100644 --- a/reference/clusterSpatialCorGenes.html +++ b/reference/clusterSpatialCorGenes.html @@ -2,7 +2,13 @@ clusterSpatialCorGenes — clusterSpatialCorGenes • Giotto +
diff --git a/reference/cluster_enrich_analysis.html b/reference/cluster_enrich_analysis.html index a51f13b10..e7c770421 100644 --- a/reference/cluster_enrich_analysis.html +++ b/reference/cluster_enrich_analysis.html @@ -2,7 +2,13 @@ cluster_enrich_analysis — cluster_enrich_analysis • Giotto +
diff --git a/reference/combCCcom.html b/reference/combCCcom.html index fcb403de2..68b442dfd 100644 --- a/reference/combCCcom.html +++ b/reference/combCCcom.html @@ -2,7 +2,13 @@ combCCcom — combCCcom • Giotto +
diff --git a/reference/combineCPG.html b/reference/combineCPG.html index 71f9bbbad..e9974550d 100644 --- a/reference/combineCPG.html +++ b/reference/combineCPG.html @@ -2,7 +2,13 @@ combineCPG — combineCPG • Giotto +
diff --git a/reference/combineCellProximityGenes.html b/reference/combineCellProximityGenes.html index 3da5d9102..3b8aa7ee2 100644 --- a/reference/combineCellProximityGenes.html +++ b/reference/combineCellProximityGenes.html @@ -2,7 +2,13 @@ combineCellProximityGenes — combineCellProximityGenes • Giotto +
diff --git a/reference/combineICF.html b/reference/combineICF.html index ee7e151dd..c89957a3a 100644 --- a/reference/combineICF.html +++ b/reference/combineICF.html @@ -2,7 +2,13 @@ combineICF — combineICF • Giotto +
diff --git a/reference/combineICG.html b/reference/combineICG.html index e5fa26a36..f9ddff848 100644 --- a/reference/combineICG.html +++ b/reference/combineICG.html @@ -2,7 +2,13 @@ combineICG — combineICG • Giotto +
diff --git a/reference/combineInteractionChangedFeats.html b/reference/combineInteractionChangedFeats.html index 3c4d06db5..2e46d0b0b 100644 --- a/reference/combineInteractionChangedFeats.html +++ b/reference/combineInteractionChangedFeats.html @@ -2,7 +2,13 @@ combineInteractionChangedFeats — combineInteractionChangedFeats • Giotto +
diff --git a/reference/combineInteractionChangedGenes.html b/reference/combineInteractionChangedGenes.html index b157f87c1..7d364f22d 100644 --- a/reference/combineInteractionChangedGenes.html +++ b/reference/combineInteractionChangedGenes.html @@ -2,7 +2,13 @@ combineInteractionChangedGenes — combineInteractionChangedGenes • Giotto +
diff --git a/reference/compareCellAbundance.html b/reference/compareCellAbundance.html index c17dd1f49..606ce19de 100644 --- a/reference/compareCellAbundance.html +++ b/reference/compareCellAbundance.html @@ -2,7 +2,13 @@ Compare cell types percent per polygon — compareCellAbundance • Giotto +
diff --git a/reference/comparePolygonExpression.html b/reference/comparePolygonExpression.html index 28db519b2..ed5dc4e5b 100644 --- a/reference/comparePolygonExpression.html +++ b/reference/comparePolygonExpression.html @@ -2,7 +2,13 @@ Compare gene expression between polygon areas — comparePolygonExpression • Giotto +
diff --git a/reference/convertEnsemblToGeneSymbol.html b/reference/convertEnsemblToGeneSymbol.html index b1afa26cf..90b2758f3 100644 --- a/reference/convertEnsemblToGeneSymbol.html +++ b/reference/convertEnsemblToGeneSymbol.html @@ -2,7 +2,13 @@ convertEnsemblToGeneSymbol — convertEnsemblToGeneSymbol • Giotto +
diff --git a/reference/createArchRProj.html b/reference/createArchRProj.html index 5ec9b0749..16e0df901 100644 --- a/reference/createArchRProj.html +++ b/reference/createArchRProj.html @@ -2,7 +2,13 @@ Create an ArchR project and run LSI dimension reduction — createArchRProj • Giotto +
diff --git a/reference/createCrossSection.html b/reference/createCrossSection.html index 336287c3b..a97b9eec5 100644 --- a/reference/createCrossSection.html +++ b/reference/createCrossSection.html @@ -2,7 +2,13 @@ createCrossSection — createCrossSection • Giotto +
diff --git a/reference/createGiottoCosMxObject.html b/reference/createGiottoCosMxObject.html index 9906fc587..46932d6ed 100644 --- a/reference/createGiottoCosMxObject.html +++ b/reference/createGiottoCosMxObject.html @@ -3,7 +3,13 @@ object."> +
diff --git a/reference/createGiottoMerscopeObject.html b/reference/createGiottoMerscopeObject.html index 1a918ae75..b5d696962 100644 --- a/reference/createGiottoMerscopeObject.html +++ b/reference/createGiottoMerscopeObject.html @@ -3,7 +3,13 @@ object."> +
diff --git a/reference/createGiottoObjectfromArchR.html b/reference/createGiottoObjectfromArchR.html index 7e482b70c..18cdc6533 100644 --- a/reference/createGiottoObjectfromArchR.html +++ b/reference/createGiottoObjectfromArchR.html @@ -2,7 +2,13 @@ Create a Giotto object from an ArchR project — createGiottoObjectfromArchR • Giotto +
diff --git a/reference/createGiottoVisiumObject.html b/reference/createGiottoVisiumObject.html index ef12efad1..f9bbf71bc 100644 --- a/reference/createGiottoVisiumObject.html +++ b/reference/createGiottoVisiumObject.html @@ -2,7 +2,13 @@ Create a giotto object from 10x visium data — createGiottoVisiumObject • Giotto +
diff --git a/reference/createGiottoXeniumObject.html b/reference/createGiottoXeniumObject.html index 735c47b1d..699782ae4 100644 --- a/reference/createGiottoXeniumObject.html +++ b/reference/createGiottoXeniumObject.html @@ -3,7 +3,13 @@ object"> +
diff --git a/reference/createMerscopeLargeImage.html b/reference/createMerscopeLargeImage.html index f43cc5813..2e3233e76 100644 --- a/reference/createMerscopeLargeImage.html +++ b/reference/createMerscopeLargeImage.html @@ -4,7 +4,13 @@ points and polygon data."> +
diff --git a/reference/createSpatialEnrich.html b/reference/createSpatialEnrich.html index 4c7733d02..bf7351a47 100644 --- a/reference/createSpatialEnrich.html +++ b/reference/createSpatialEnrich.html @@ -2,7 +2,13 @@ createSpatialEnrich — createSpatialEnrich • Giotto +
diff --git a/reference/createSpatialGenomicsObject.html b/reference/createSpatialGenomicsObject.html index de6b3ccc6..61aa3f74f 100644 --- a/reference/createSpatialGenomicsObject.html +++ b/reference/createSpatialGenomicsObject.html @@ -3,7 +3,13 @@ Giotto object."> +
diff --git a/reference/create_2d_mesh_grid_line_obj.html b/reference/create_2d_mesh_grid_line_obj.html index 2af6081f7..b361a3f94 100644 --- a/reference/create_2d_mesh_grid_line_obj.html +++ b/reference/create_2d_mesh_grid_line_obj.html @@ -2,7 +2,13 @@ create_2d_mesh_grid_line_obj — create_2d_mesh_grid_line_obj • Giotto +
diff --git a/reference/create_crossSection_object.html b/reference/create_crossSection_object.html index a3bb6f9f4..9507dc991 100644 --- a/reference/create_crossSection_object.html +++ b/reference/create_crossSection_object.html @@ -2,7 +2,13 @@ create_crossSection_object — create_crossSection_object • Giotto +
diff --git a/reference/create_jackstrawplot.html b/reference/create_jackstrawplot.html index 970616781..e01242d06 100644 --- a/reference/create_jackstrawplot.html +++ b/reference/create_jackstrawplot.html @@ -2,7 +2,13 @@ create_jackstrawplot — create_jackstrawplot • Giotto +
diff --git a/reference/create_mesh_grid_lines.html b/reference/create_mesh_grid_lines.html index 05fa58200..7b8f312f4 100644 --- a/reference/create_mesh_grid_lines.html +++ b/reference/create_mesh_grid_lines.html @@ -2,7 +2,13 @@ create_mesh_grid_lines — create_mesh_grid_lines • Giotto +
diff --git a/reference/create_screeplot.html b/reference/create_screeplot.html index d855fd657..ea5ed1e47 100644 --- a/reference/create_screeplot.html +++ b/reference/create_screeplot.html @@ -2,7 +2,13 @@ create_screeplot — create_screeplot • Giotto +
diff --git a/reference/crossSectionGenePlot.html b/reference/crossSectionGenePlot.html index cf2b9f187..3a03525bc 100644 --- a/reference/crossSectionGenePlot.html +++ b/reference/crossSectionGenePlot.html @@ -2,7 +2,13 @@ crossSectionGenePlot — crossSectionGenePlot • Giotto +
diff --git a/reference/crossSectionGenePlot3D.html b/reference/crossSectionGenePlot3D.html index dbe0ab978..935fa1f37 100644 --- a/reference/crossSectionGenePlot3D.html +++ b/reference/crossSectionGenePlot3D.html @@ -2,7 +2,13 @@ crossSectionGenePlot3D — crossSectionGenePlot3D • Giotto +
diff --git a/reference/crossSectionPlot.html b/reference/crossSectionPlot.html index a74616306..9fe99bdf5 100644 --- a/reference/crossSectionPlot.html +++ b/reference/crossSectionPlot.html @@ -2,7 +2,13 @@ crossSectionPlot — crossSectionPlot • Giotto +
diff --git a/reference/crossSectionPlot3D.html b/reference/crossSectionPlot3D.html index d0fa069fc..f1e2da73e 100644 --- a/reference/crossSectionPlot3D.html +++ b/reference/crossSectionPlot3D.html @@ -2,7 +2,13 @@ crossSectionPlot3D — crossSectionPlot3D • Giotto +
diff --git a/reference/data_access_params.html b/reference/data_access_params.html index 831771742..3abb36086 100644 --- a/reference/data_access_params.html +++ b/reference/data_access_params.html @@ -2,7 +2,13 @@ data_access_params — data_access_params • Giotto +
diff --git a/reference/detectSpatialCorFeats.html b/reference/detectSpatialCorFeats.html index cbd7bab30..c2eb1d8f1 100644 --- a/reference/detectSpatialCorFeats.html +++ b/reference/detectSpatialCorFeats.html @@ -2,7 +2,13 @@ detectSpatialCorFeats — detectSpatialCorFeats • Giotto +
diff --git a/reference/detectSpatialCorFeatsMatrix.html b/reference/detectSpatialCorFeatsMatrix.html index e3049666f..ffbd6ba75 100644 --- a/reference/detectSpatialCorFeatsMatrix.html +++ b/reference/detectSpatialCorFeatsMatrix.html @@ -2,7 +2,13 @@ detectSpatialCorFeatsMatrix — detectSpatialCorFeatsMatrix • Giotto +
diff --git a/reference/detectSpatialCorGenes.html b/reference/detectSpatialCorGenes.html index 12d909f60..18a91eff5 100644 --- a/reference/detectSpatialCorGenes.html +++ b/reference/detectSpatialCorGenes.html @@ -2,7 +2,13 @@ detectSpatialCorGenes — detectSpatialCorGenes • Giotto +
diff --git a/reference/detectSpatialPatterns.html b/reference/detectSpatialPatterns.html index 792d54ceb..0e3022356 100644 --- a/reference/detectSpatialPatterns.html +++ b/reference/detectSpatialPatterns.html @@ -2,7 +2,13 @@ detectSpatialPatterns — detectSpatialPatterns • Giotto +
diff --git a/reference/doCellSegmentation.html b/reference/doCellSegmentation.html index 48eaaf0b3..d17bdccf3 100644 --- a/reference/doCellSegmentation.html +++ b/reference/doCellSegmentation.html @@ -2,7 +2,13 @@ doCellSegmentation — doCellSegmentation • Giotto +
diff --git a/reference/doClusterProjection.html b/reference/doClusterProjection.html index 9453a4082..63aa309e5 100644 --- a/reference/doClusterProjection.html +++ b/reference/doClusterProjection.html @@ -2,7 +2,13 @@ Projection of cluster labels — doClusterProjection • Giotto +
diff --git a/reference/doFeatureSetEnrichment.html b/reference/doFeatureSetEnrichment.html index 8591c90e2..bc91f8177 100644 --- a/reference/doFeatureSetEnrichment.html +++ b/reference/doFeatureSetEnrichment.html @@ -2,7 +2,13 @@ doFeatureSetEnrichment — doFeatureSetEnrichment • Giotto +
diff --git a/reference/doGiottoClustree.html b/reference/doGiottoClustree.html index 47bf360e9..aecf1ba05 100644 --- a/reference/doGiottoClustree.html +++ b/reference/doGiottoClustree.html @@ -2,7 +2,13 @@ doGiottoClustree — doGiottoClustree • Giotto +
diff --git a/reference/doHMRF.html b/reference/doHMRF.html index e699a60f1..3e1b894ef 100644 --- a/reference/doHMRF.html +++ b/reference/doHMRF.html @@ -2,7 +2,13 @@ doHMRF — doHMRF • Giotto +
diff --git a/reference/doHMRF_V2.html b/reference/doHMRF_V2.html index 1ed13e614..7c27067ca 100644 --- a/reference/doHMRF_V2.html +++ b/reference/doHMRF_V2.html @@ -2,7 +2,13 @@ doHMRF_V2 — doHMRF_V2 • Giotto +
diff --git a/reference/doHclust.html b/reference/doHclust.html index 469b10da6..3a38eb0b4 100644 --- a/reference/doHclust.html +++ b/reference/doHclust.html @@ -2,7 +2,13 @@ doHclust — doHclust • Giotto +
diff --git a/reference/doKmeans.html b/reference/doKmeans.html index d193a0bd3..73199afee 100644 --- a/reference/doKmeans.html +++ b/reference/doKmeans.html @@ -2,7 +2,13 @@ doKmeans — doKmeans • Giotto +
diff --git a/reference/doLeidenCluster.html b/reference/doLeidenCluster.html index 901bf8eb1..589f6c92b 100644 --- a/reference/doLeidenCluster.html +++ b/reference/doLeidenCluster.html @@ -2,7 +2,13 @@ doLeidenCluster — doLeidenCluster • Giotto +
diff --git a/reference/doLeidenClusterIgraph.html b/reference/doLeidenClusterIgraph.html index cb9f9ed45..4f9fa1c68 100644 --- a/reference/doLeidenClusterIgraph.html +++ b/reference/doLeidenClusterIgraph.html @@ -3,7 +3,13 @@ detection algorithm as implemented in igraph"> +
diff --git a/reference/doLeidenSubCluster.html b/reference/doLeidenSubCluster.html index 36a52e9cf..5538f6baf 100644 --- a/reference/doLeidenSubCluster.html +++ b/reference/doLeidenSubCluster.html @@ -2,7 +2,13 @@ doLeidenSubCluster — doLeidenSubCluster • Giotto +
diff --git a/reference/doLouvainCluster.html b/reference/doLouvainCluster.html index 53ff8914a..949e90513 100644 --- a/reference/doLouvainCluster.html +++ b/reference/doLouvainCluster.html @@ -2,7 +2,13 @@ doLouvainCluster — doLouvainCluster • Giotto +
diff --git a/reference/doLouvainSubCluster.html b/reference/doLouvainSubCluster.html index e0d4b7fcb..4d1defcca 100644 --- a/reference/doLouvainSubCluster.html +++ b/reference/doLouvainSubCluster.html @@ -2,7 +2,13 @@ doLouvainSubCluster — doLouvainSubCluster • Giotto +
diff --git a/reference/doRandomWalkCluster.html b/reference/doRandomWalkCluster.html index 7f82b62c0..b1bf818cf 100644 --- a/reference/doRandomWalkCluster.html +++ b/reference/doRandomWalkCluster.html @@ -2,7 +2,13 @@ doRandomWalkCluster — doRandomWalkCluster • Giotto +
diff --git a/reference/doSNNCluster.html b/reference/doSNNCluster.html index dbd10caf8..de089feda 100644 --- a/reference/doSNNCluster.html +++ b/reference/doSNNCluster.html @@ -2,7 +2,13 @@ doSNNCluster — doSNNCluster • Giotto +
diff --git a/reference/doScrubletDetect.html b/reference/doScrubletDetect.html index bbb31436b..2539a0586 100644 --- a/reference/doScrubletDetect.html +++ b/reference/doScrubletDetect.html @@ -2,7 +2,13 @@ doScrubletDetect — doScrubletDetect • Giotto +
diff --git a/reference/do_permuttest_spot.html b/reference/do_permuttest_spot.html index d7d592df7..ddd2f5b3e 100644 --- a/reference/do_permuttest_spot.html +++ b/reference/do_permuttest_spot.html @@ -2,7 +2,13 @@ Spot permutation testing — do_permuttest_spot • Giotto +
diff --git a/reference/do_spatial_grid_averaging.html b/reference/do_spatial_grid_averaging.html index 21abffbeb..573cd53da 100644 --- a/reference/do_spatial_grid_averaging.html +++ b/reference/do_spatial_grid_averaging.html @@ -2,7 +2,13 @@ do_spatial_grid_averaging — do_spatial_grid_averaging • Giotto +
diff --git a/reference/do_spatial_knn_smoothing.html b/reference/do_spatial_knn_smoothing.html index 990ed3fbd..5ff771512 100644 --- a/reference/do_spatial_knn_smoothing.html +++ b/reference/do_spatial_knn_smoothing.html @@ -2,7 +2,13 @@ do_spatial_knn_smoothing — do_spatial_knn_smoothing • Giotto +
diff --git a/reference/dot-cal_diff_per_interaction.html b/reference/dot-cal_diff_per_interaction.html index ed91837c8..66d3eed97 100644 --- a/reference/dot-cal_diff_per_interaction.html +++ b/reference/dot-cal_diff_per_interaction.html @@ -3,7 +3,13 @@ cell proximity score of selected cell for spots"> +
diff --git a/reference/dot-cal_expr_residual.html b/reference/dot-cal_expr_residual.html index 9c1616726..366bf0511 100644 --- a/reference/dot-cal_expr_residual.html +++ b/reference/dot-cal_expr_residual.html @@ -2,7 +2,13 @@ Calculate feature expression residual — .cal_expr_residual • Giotto +
diff --git a/reference/dot-combineInteractionChangedFeatures_per_interaction.html b/reference/dot-combineInteractionChangedFeatures_per_interaction.html index 583c2192c..43ddfeb30 100644 --- a/reference/dot-combineInteractionChangedFeatures_per_interaction.html +++ b/reference/dot-combineInteractionChangedFeatures_per_interaction.html @@ -2,7 +2,13 @@ Combine ICF scores per interaction — .combineInteractionChangedFeatures_per_interaction • Giotto +
diff --git a/reference/dot-createGiottoCosMxObject_aggregate.html b/reference/dot-createGiottoCosMxObject_aggregate.html index a2eb3ae6a..e270514f4 100644 --- a/reference/dot-createGiottoCosMxObject_aggregate.html +++ b/reference/dot-createGiottoCosMxObject_aggregate.html @@ -2,7 +2,13 @@ Load and create a CosMx Giotto object from aggregate info — .createGiottoCosMxObject_aggregate • Giotto +
diff --git a/reference/dot-createGiottoCosMxObject_all.html b/reference/dot-createGiottoCosMxObject_all.html index ccbbd111d..7087e6900 100644 --- a/reference/dot-createGiottoCosMxObject_all.html +++ b/reference/dot-createGiottoCosMxObject_all.html @@ -2,7 +2,13 @@ Load and create a CosMx Giotto object from subcellular and aggregate info — .createGiottoCosMxObject_all • Giotto +
diff --git a/reference/dot-createGiottoCosMxObject_subcellular.html b/reference/dot-createGiottoCosMxObject_subcellular.html index f315e189a..3e08dbdf8 100644 --- a/reference/dot-createGiottoCosMxObject_subcellular.html +++ b/reference/dot-createGiottoCosMxObject_subcellular.html @@ -2,7 +2,13 @@ Load and create a CosMx Giotto object from subcellular info — .createGiottoCosMxObject_subcellular • Giotto +
diff --git a/reference/dot-createGiottoXeniumObject_aggregate.html b/reference/dot-createGiottoXeniumObject_aggregate.html index ffb0106a6..7dd109e4f 100644 --- a/reference/dot-createGiottoXeniumObject_aggregate.html +++ b/reference/dot-createGiottoXeniumObject_aggregate.html @@ -2,7 +2,13 @@ Create a Xenium Giotto object from aggregate info — .createGiottoXeniumObject_aggregate • Giotto +
diff --git a/reference/dot-createGiottoXeniumObject_subcellular.html b/reference/dot-createGiottoXeniumObject_subcellular.html index d2cdbe86c..932033f9f 100644 --- a/reference/dot-createGiottoXeniumObject_subcellular.html +++ b/reference/dot-createGiottoXeniumObject_subcellular.html @@ -2,7 +2,13 @@ Create a Xenium Giotto object from subcellular info — .createGiottoXeniumObject_subcellular • Giotto +
diff --git a/reference/dot-create_cell_type_random_cell_IDs.html b/reference/dot-create_cell_type_random_cell_IDs.html index d0fa05262..7370b16c6 100644 --- a/reference/dot-create_cell_type_random_cell_IDs.html +++ b/reference/dot-create_cell_type_random_cell_IDs.html @@ -2,7 +2,13 @@ Create randomized cell IDs within a selection of cell types — .create_cell_type_random_cell_IDs • Giotto +
diff --git a/reference/dot-create_feats_to_use_matrix.html b/reference/dot-create_feats_to_use_matrix.html index d146a039b..d0476918d 100644 --- a/reference/dot-create_feats_to_use_matrix.html +++ b/reference/dot-create_feats_to_use_matrix.html @@ -2,7 +2,13 @@ Create features to use matrix — .create_feats_to_use_matrix • Giotto +
diff --git a/reference/dot-create_switch_string_unequal.html b/reference/dot-create_switch_string_unequal.html index 29afb0351..b235f5f94 100644 --- a/reference/dot-create_switch_string_unequal.html +++ b/reference/dot-create_switch_string_unequal.html @@ -2,7 +2,13 @@ Create switch string unequal — .create_switch_string_unequal • Giotto +
diff --git a/reference/dot-determine_switch_string_equal.html b/reference/dot-determine_switch_string_equal.html index 186eb4754..b48a6afd5 100644 --- a/reference/dot-determine_switch_string_equal.html +++ b/reference/dot-determine_switch_string_equal.html @@ -2,7 +2,13 @@ Determine switch string equal — .determine_switch_string_equal • Giotto +
diff --git a/reference/dot-determine_switch_string_unequal.html b/reference/dot-determine_switch_string_unequal.html index 0bcd0ff66..e3fa508e4 100644 --- a/reference/dot-determine_switch_string_unequal.html +++ b/reference/dot-determine_switch_string_unequal.html @@ -2,7 +2,13 @@ Determine switch string unequal — .determine_switch_string_unequal • Giotto +
diff --git a/reference/dot-doLouvainCluster_community.html b/reference/dot-doLouvainCluster_community.html index 295797858..2d47748b8 100644 --- a/reference/dot-doLouvainCluster_community.html +++ b/reference/dot-doLouvainCluster_community.html @@ -2,7 +2,13 @@ doLouvainCluster community — .doLouvainCluster_community • Giotto +
diff --git a/reference/dot-doLouvainCluster_multinet.html b/reference/dot-doLouvainCluster_multinet.html index 879d08c9c..16f5052f8 100644 --- a/reference/dot-doLouvainCluster_multinet.html +++ b/reference/dot-doLouvainCluster_multinet.html @@ -2,7 +2,13 @@ doLouvainCluster multinet — .doLouvainCluster_multinet • Giotto +
diff --git a/reference/dot-doLouvainSubCluster_community.html b/reference/dot-doLouvainSubCluster_community.html index af155507e..8761b5c90 100644 --- a/reference/dot-doLouvainSubCluster_community.html +++ b/reference/dot-doLouvainSubCluster_community.html @@ -2,7 +2,13 @@ doLouvainSubCluster community — .doLouvainSubCluster_community • Giotto +
diff --git a/reference/dot-doLouvainSubCluster_multinet.html b/reference/dot-doLouvainSubCluster_multinet.html index 21d3eef0f..cfcdf0638 100644 --- a/reference/dot-doLouvainSubCluster_multinet.html +++ b/reference/dot-doLouvainSubCluster_multinet.html @@ -2,7 +2,13 @@ doLouvainSubCluster multinet — .doLouvainSubCluster_multinet • Giotto +
diff --git a/reference/dot-do_cell_proximity_test.html b/reference/dot-do_cell_proximity_test.html index 76e807e05..637f6155e 100644 --- a/reference/dot-do_cell_proximity_test.html +++ b/reference/dot-do_cell_proximity_test.html @@ -2,7 +2,13 @@ Do cell proximity test — .do_cell_proximity_test • Giotto +
diff --git a/reference/dot-do_cell_proximity_test_spot.html b/reference/dot-do_cell_proximity_test_spot.html index b7c1f3a4b..6020ca159 100644 --- a/reference/dot-do_cell_proximity_test_spot.html +++ b/reference/dot-do_cell_proximity_test_spot.html @@ -2,7 +2,13 @@ Cell proximity testing for spot data — .do_cell_proximity_test_spot • Giotto +
diff --git a/reference/dot-do_page_permutation.html b/reference/dot-do_page_permutation.html index f503fd667..85e827745 100644 --- a/reference/dot-do_page_permutation.html +++ b/reference/dot-do_page_permutation.html @@ -2,7 +2,13 @@ PAGE permutation — .do_page_permutation • Giotto +
diff --git a/reference/dot-do_rank_permutation.html b/reference/dot-do_rank_permutation.html index b12e244f4..ce1684cf2 100644 --- a/reference/dot-do_rank_permutation.html +++ b/reference/dot-do_rank_permutation.html @@ -2,7 +2,13 @@ Rank permutation — .do_rank_permutation • Giotto +
diff --git a/reference/dot-findCellProximityFeats_per_interaction.html b/reference/dot-findCellProximityFeats_per_interaction.html index 8f12d8070..c8ecb78d7 100644 --- a/reference/dot-findCellProximityFeats_per_interaction.html +++ b/reference/dot-findCellProximityFeats_per_interaction.html @@ -2,7 +2,13 @@ Find cell proximity features per interaction — .findCellProximityFeats_per_interaction • Giotto +
diff --git a/reference/dot-findICF_per_interaction_spot.html b/reference/dot-findICF_per_interaction_spot.html index f06ddf461..bfb35ad5b 100644 --- a/reference/dot-findICF_per_interaction_spot.html +++ b/reference/dot-findICF_per_interaction_spot.html @@ -2,7 +2,13 @@ Find ICF per interaction for spot data — .findICF_per_interaction_spot • Giotto +
diff --git a/reference/dot-get_img_corners.html b/reference/dot-get_img_corners.html index 675b317a8..ef0d605d3 100644 --- a/reference/dot-get_img_corners.html +++ b/reference/dot-get_img_corners.html @@ -2,7 +2,13 @@ Get image corners — .get_img_corners • Giotto +
diff --git a/reference/dot-h5_read_bare.html b/reference/dot-h5_read_bare.html index 463b7ac56..cbde43f04 100644 --- a/reference/dot-h5_read_bare.html +++ b/reference/dot-h5_read_bare.html @@ -2,7 +2,13 @@ Read dataset from opened HDF5 with C functions — .h5_read_bare • Giotto +
diff --git a/reference/dot-igraph_remove_hetero_edges.html b/reference/dot-igraph_remove_hetero_edges.html index 25a6e605f..5971482f4 100644 --- a/reference/dot-igraph_remove_hetero_edges.html +++ b/reference/dot-igraph_remove_hetero_edges.html @@ -5,7 +5,13 @@ be further broken up based on whether they are spatially touching."> +
diff --git a/reference/dot-igraph_vertex_membership.html b/reference/dot-igraph_vertex_membership.html index 770e15726..30b05fc20 100644 --- a/reference/dot-igraph_vertex_membership.html +++ b/reference/dot-igraph_vertex_membership.html @@ -2,7 +2,13 @@ igraph vertex membership — .igraph_vertex_membership • Giotto +
diff --git a/reference/dot-kmeans_arma_binarize.html b/reference/dot-kmeans_arma_binarize.html index 25ed5de87..483866842 100644 --- a/reference/dot-kmeans_arma_binarize.html +++ b/reference/dot-kmeans_arma_binarize.html @@ -2,7 +2,13 @@ .kmeans_arma_binarize — .kmeans_arma_binarize • Giotto +
diff --git a/reference/dot-kmeans_arma_subset_binarize.html b/reference/dot-kmeans_arma_subset_binarize.html index 5b2ef498d..48185bdb2 100644 --- a/reference/dot-kmeans_arma_subset_binarize.html +++ b/reference/dot-kmeans_arma_subset_binarize.html @@ -2,7 +2,13 @@ .kmeans_arma_subset_binarize — .kmeans_arma_subset_binarize • Giotto +
diff --git a/reference/dot-kmeans_binarize.html b/reference/dot-kmeans_binarize.html index 4c0ceea46..e85a3dd41 100644 --- a/reference/dot-kmeans_binarize.html +++ b/reference/dot-kmeans_binarize.html @@ -2,7 +2,13 @@ .kmeans_binarize — .kmeans_binarize • Giotto +
diff --git a/reference/dot-lib_norm_giotto.html b/reference/dot-lib_norm_giotto.html index eb6b7e218..f4ced9c13 100644 --- a/reference/dot-lib_norm_giotto.html +++ b/reference/dot-lib_norm_giotto.html @@ -2,7 +2,13 @@ Normalize expression matrix for library size — .lib_norm_giotto • Giotto +
diff --git a/reference/dot-load_cosmx_folder_aggregate.html b/reference/dot-load_cosmx_folder_aggregate.html index 0fbe6f00b..06abd0f5d 100644 --- a/reference/dot-load_cosmx_folder_aggregate.html +++ b/reference/dot-load_cosmx_folder_aggregate.html @@ -2,7 +2,13 @@ Load CosMx folder aggregate info — .load_cosmx_folder_aggregate • Giotto +
diff --git a/reference/dot-load_cosmx_folder_subcellular.html b/reference/dot-load_cosmx_folder_subcellular.html index 05ef4b145..fc0558873 100644 --- a/reference/dot-load_cosmx_folder_subcellular.html +++ b/reference/dot-load_cosmx_folder_subcellular.html @@ -4,7 +4,13 @@ in .createGiottoCosMxObject_subcellular"> +
diff --git a/reference/dot-log_norm_giotto.html b/reference/dot-log_norm_giotto.html index 93eaf226f..78cf3558a 100644 --- a/reference/dot-log_norm_giotto.html +++ b/reference/dot-log_norm_giotto.html @@ -2,7 +2,13 @@ Log normalize expression matrix — .log_norm_giotto • Giotto +
diff --git a/reference/dot-mean_expr_det_test.html b/reference/dot-mean_expr_det_test.html index 4f2e77885..ab4766c4b 100644 --- a/reference/dot-mean_expr_det_test.html +++ b/reference/dot-mean_expr_det_test.html @@ -2,7 +2,13 @@ Mean expression detected test — .mean_expr_det_test • Giotto +
diff --git a/reference/dot-node_clusters.html b/reference/dot-node_clusters.html index e8cb99cdf..eeb36d058 100644 --- a/reference/dot-node_clusters.html +++ b/reference/dot-node_clusters.html @@ -2,7 +2,13 @@ Node clusters — .node_clusters • Giotto +
diff --git a/reference/dot-or_test_func.html b/reference/dot-or_test_func.html index 901d9ba35..a06c57338 100644 --- a/reference/dot-or_test_func.html +++ b/reference/dot-or_test_func.html @@ -2,7 +2,13 @@ Odds ratio test — .or_test_func • Giotto +
diff --git a/reference/dot-page_dt_method.html b/reference/dot-page_dt_method.html index bb57751b7..d6edf6104 100644 --- a/reference/dot-page_dt_method.html +++ b/reference/dot-page_dt_method.html @@ -2,7 +2,13 @@ PAGE data.table method — .page_dt_method • Giotto +
diff --git a/reference/dot-plotRecovery_sub.html b/reference/dot-plotRecovery_sub.html index 9e38fb2f1..0c9142b6c 100644 --- a/reference/dot-plotRecovery_sub.html +++ b/reference/dot-plotRecovery_sub.html @@ -2,7 +2,13 @@ Create recovery plot — .plotRecovery_sub • Giotto +
diff --git a/reference/dot-rank_binarize.html b/reference/dot-rank_binarize.html index de980add2..ef9dab0cd 100644 --- a/reference/dot-rank_binarize.html +++ b/reference/dot-rank_binarize.html @@ -2,7 +2,13 @@ Rank binarize — .rank_binarize • Giotto +
diff --git a/reference/dot-read_cosmx_folder.html b/reference/dot-read_cosmx_folder.html index 99c0566cf..d7527192f 100644 --- a/reference/dot-read_cosmx_folder.html +++ b/reference/dot-read_cosmx_folder.html @@ -2,7 +2,13 @@ Read a structured CosMx folder — .read_cosmx_folder • Giotto +
diff --git a/reference/dot-read_xenium_folder.html b/reference/dot-read_xenium_folder.html index 363b08a75..d30c2aed9 100644 --- a/reference/dot-read_xenium_folder.html +++ b/reference/dot-read_xenium_folder.html @@ -2,7 +2,13 @@ Read a structured xenium folder — .read_xenium_folder • Giotto +
diff --git a/reference/dot-reg_img_minmax_finder.html b/reference/dot-reg_img_minmax_finder.html index c15037074..96e9e0395 100644 --- a/reference/dot-reg_img_minmax_finder.html +++ b/reference/dot-reg_img_minmax_finder.html @@ -2,7 +2,13 @@ Find minmax of registered image — .reg_img_minmax_finder • Giotto +
diff --git a/reference/dot-rigid_transform_spatial_locations.html b/reference/dot-rigid_transform_spatial_locations.html index 5b628e396..d41f289a7 100644 --- a/reference/dot-rigid_transform_spatial_locations.html +++ b/reference/dot-rigid_transform_spatial_locations.html @@ -2,7 +2,13 @@ Rigid transform spatial locations — .rigid_transform_spatial_locations • Giotto +
diff --git a/reference/dot-rna_osmfish_normalization.html b/reference/dot-rna_osmfish_normalization.html index 45c53c57f..6f2dcfbd4 100644 --- a/reference/dot-rna_osmfish_normalization.html +++ b/reference/dot-rna_osmfish_normalization.html @@ -2,7 +2,13 @@ RNA osmfish normalization — .rna_osmfish_normalization • Giotto +
diff --git a/reference/dot-rna_pears_resid_normalization.html b/reference/dot-rna_pears_resid_normalization.html index 32b1bbb19..956072b40 100644 --- a/reference/dot-rna_pears_resid_normalization.html +++ b/reference/dot-rna_pears_resid_normalization.html @@ -3,7 +3,13 @@ Adapted from https://gist.github.com/hypercompetent/51a3c428745e1c06d826d76c3671797c#file-pearson_residuals-r"> +
diff --git a/reference/dot-rna_standard_normalization.html b/reference/dot-rna_standard_normalization.html index afdb78481..babbbdc93 100644 --- a/reference/dot-rna_standard_normalization.html +++ b/reference/dot-rna_standard_normalization.html @@ -2,7 +2,13 @@ RNA standard normalization — .rna_standard_normalization • Giotto +
diff --git a/reference/dot-run_pca_biocsingular.html b/reference/dot-run_pca_biocsingular.html index 67d92b53d..7a0696ebb 100644 --- a/reference/dot-run_pca_biocsingular.html +++ b/reference/dot-run_pca_biocsingular.html @@ -2,7 +2,13 @@ Run PCA - BiocSingular — .run_pca_biocsingular • Giotto +
diff --git a/reference/dot-run_pca_biocsingular_irlba_projection.html b/reference/dot-run_pca_biocsingular_irlba_projection.html index 4f31952c6..f3b1158ff 100644 --- a/reference/dot-run_pca_biocsingular_irlba_projection.html +++ b/reference/dot-run_pca_biocsingular_irlba_projection.html @@ -4,7 +4,13 @@ for the remaining matrix."> +
diff --git a/reference/dot-run_pca_factominer.html b/reference/dot-run_pca_factominer.html index beeed8a49..e8d68975c 100644 --- a/reference/dot-run_pca_factominer.html +++ b/reference/dot-run_pca_factominer.html @@ -2,7 +2,13 @@ Run PCA - factominer — .run_pca_factominer • Giotto +
diff --git a/reference/dot-run_spat_autocor_global.html b/reference/dot-run_spat_autocor_global.html index 3851017e4..1fe17fb55 100644 --- a/reference/dot-run_spat_autocor_global.html +++ b/reference/dot-run_spat_autocor_global.html @@ -2,7 +2,13 @@ .run_spat_autocor_global — .run_spat_autocor_global • Giotto +
diff --git a/reference/dot-run_spat_autocor_local.html b/reference/dot-run_spat_autocor_local.html index 62d36baef..534ea82e9 100644 --- a/reference/dot-run_spat_autocor_local.html +++ b/reference/dot-run_spat_autocor_local.html @@ -2,7 +2,13 @@ .run_spat_autocor_local — .run_spat_autocor_local • Giotto +
diff --git a/reference/dot-specific_CCCScores_spots.html b/reference/dot-specific_CCCScores_spots.html index 00dfbadc6..d8524e636 100644 --- a/reference/dot-specific_CCCScores_spots.html +++ b/reference/dot-specific_CCCScores_spots.html @@ -2,7 +2,13 @@ Specific cell-cell communication scores for spot data — .specific_CCCScores_spots • Giotto +
diff --git a/reference/dot-split_dendrogram_in_two.html b/reference/dot-split_dendrogram_in_two.html index f31296efb..b2f44abd5 100644 --- a/reference/dot-split_dendrogram_in_two.html +++ b/reference/dot-split_dendrogram_in_two.html @@ -2,7 +2,13 @@ Split dendrogram in two — .split_dendrogram_in_two • Giotto +
diff --git a/reference/dot-trakem2_rigid_transforms.html b/reference/dot-trakem2_rigid_transforms.html index 213552cde..33af21fa0 100644 --- a/reference/dot-trakem2_rigid_transforms.html +++ b/reference/dot-trakem2_rigid_transforms.html @@ -2,7 +2,13 @@ Read trakem2 rigid transforms — .trakem2_rigid_transforms • Giotto +
diff --git a/reference/dot-visium_read_scalefactors.html b/reference/dot-visium_read_scalefactors.html index 7950367ad..b27c7feb8 100644 --- a/reference/dot-visium_read_scalefactors.html +++ b/reference/dot-visium_read_scalefactors.html @@ -2,7 +2,13 @@ Read Visium ScaleFactors — .visium_read_scalefactors • Giotto +
diff --git a/reference/dot-visium_spot_poly.html b/reference/dot-visium_spot_poly.html index e3e4e13ff..f717933f9 100644 --- a/reference/dot-visium_spot_poly.html +++ b/reference/dot-visium_spot_poly.html @@ -2,7 +2,13 @@ Create Polygons for Visium Data — .visium_spot_poly • Giotto +
diff --git a/reference/enrich_analysis.html b/reference/enrich_analysis.html index 8d99b5946..0d810c551 100644 --- a/reference/enrich_analysis.html +++ b/reference/enrich_analysis.html @@ -2,7 +2,13 @@ enrich_analysis — enrich_analysis • Giotto +
diff --git a/reference/enrich_deconvolution.html b/reference/enrich_deconvolution.html index 536ce4c9a..b27f1ce53 100644 --- a/reference/enrich_deconvolution.html +++ b/reference/enrich_deconvolution.html @@ -2,7 +2,13 @@ enrich_deconvolution — enrich_deconvolution • Giotto +
diff --git a/reference/estimateCellCellDistance.html b/reference/estimateCellCellDistance.html index 32a595bd3..5d912392a 100644 --- a/reference/estimateCellCellDistance.html +++ b/reference/estimateCellCellDistance.html @@ -2,7 +2,13 @@ estimateCellCellDistance — estimateCellCellDistance • Giotto +
diff --git a/reference/evaluate_provided_spatial_locations.html b/reference/evaluate_provided_spatial_locations.html index 4fdbea2d6..cae6af0f7 100644 --- a/reference/evaluate_provided_spatial_locations.html +++ b/reference/evaluate_provided_spatial_locations.html @@ -2,7 +2,13 @@ Evaluate provided spatial locations — evaluate_provided_spatial_locations • Giotto +
diff --git a/reference/exportGiottoViewer.html b/reference/exportGiottoViewer.html index 893e34041..69656029d 100644 --- a/reference/exportGiottoViewer.html +++ b/reference/exportGiottoViewer.html @@ -2,7 +2,13 @@ exportGiottoViewer — exportGiottoViewer • Giotto +
diff --git a/reference/exprCellCellcom.html b/reference/exprCellCellcom.html index ab99d6de6..fae202890 100644 --- a/reference/exprCellCellcom.html +++ b/reference/exprCellCellcom.html @@ -2,7 +2,13 @@ exprCellCellcom — exprCellCellcom • Giotto +
diff --git a/reference/extend_vector.html b/reference/extend_vector.html index 20fa9bf90..a8d1b54d4 100644 --- a/reference/extend_vector.html +++ b/reference/extend_vector.html @@ -2,7 +2,13 @@ extend_vector — extend_vector • Giotto +
diff --git a/reference/extended_gini_fun.html b/reference/extended_gini_fun.html index 647e78f5d..230dcbfdd 100644 --- a/reference/extended_gini_fun.html +++ b/reference/extended_gini_fun.html @@ -2,7 +2,13 @@ extended_gini_fun — extended_gini_fun • Giotto +
diff --git a/reference/featExpDWLS.html b/reference/featExpDWLS.html index 1c6cc75f4..66e2ef6ef 100644 --- a/reference/featExpDWLS.html +++ b/reference/featExpDWLS.html @@ -3,7 +3,13 @@ average feature expression for cell type"> +
diff --git a/reference/filterCPG.html b/reference/filterCPG.html index 148531c1d..b5823fd02 100644 --- a/reference/filterCPG.html +++ b/reference/filterCPG.html @@ -2,7 +2,13 @@ filterCPG — filterCPG • Giotto +
diff --git a/reference/filterCellProximityGenes.html b/reference/filterCellProximityGenes.html index 2f976b164..39967eccb 100644 --- a/reference/filterCellProximityGenes.html +++ b/reference/filterCellProximityGenes.html @@ -2,7 +2,13 @@ filterCellProximityGenes — filterCellProximityGenes • Giotto +
diff --git a/reference/filterCombinations.html b/reference/filterCombinations.html index 089b1e474..602f31a2a 100644 --- a/reference/filterCombinations.html +++ b/reference/filterCombinations.html @@ -2,7 +2,13 @@ filterCombinations — filterCombinations • Giotto +
diff --git a/reference/filterDistributions.html b/reference/filterDistributions.html index babb36434..e6cb59629 100644 --- a/reference/filterDistributions.html +++ b/reference/filterDistributions.html @@ -2,7 +2,13 @@ filterDistributions — filterDistributions • Giotto +
diff --git a/reference/filterGiotto.html b/reference/filterGiotto.html index 34870bd99..c5e56be84 100644 --- a/reference/filterGiotto.html +++ b/reference/filterGiotto.html @@ -2,7 +2,13 @@ filterGiotto — filterGiotto • Giotto +
diff --git a/reference/filterICF.html b/reference/filterICF.html index d28ab4b77..03b5964e8 100644 --- a/reference/filterICF.html +++ b/reference/filterICF.html @@ -2,7 +2,13 @@ filterICF — filterICF • Giotto +
diff --git a/reference/filterICFSpot.html b/reference/filterICFSpot.html index e744ebcc5..f1624d58c 100644 --- a/reference/filterICFSpot.html +++ b/reference/filterICFSpot.html @@ -2,7 +2,13 @@ filterICFSpot — filterICFSpot • Giotto +
diff --git a/reference/filterICG.html b/reference/filterICG.html index 72c6825ec..18671e97a 100644 --- a/reference/filterICG.html +++ b/reference/filterICG.html @@ -2,7 +2,13 @@ filterICG — filterICG • Giotto +
diff --git a/reference/filterInteractionChangedFeats.html b/reference/filterInteractionChangedFeats.html index 0cdf79bc8..4265aa19c 100644 --- a/reference/filterInteractionChangedFeats.html +++ b/reference/filterInteractionChangedFeats.html @@ -2,7 +2,13 @@ filterInteractionChangedFeats — filterInteractionChangedFeats • Giotto +
diff --git a/reference/filterInteractionChangedGenes.html b/reference/filterInteractionChangedGenes.html index 97d5df0a8..0a36570ec 100644 --- a/reference/filterInteractionChangedGenes.html +++ b/reference/filterInteractionChangedGenes.html @@ -2,7 +2,13 @@ filterInteractionChangedGenes — filterInteractionChangedGenes • Giotto +
diff --git a/reference/filterSpatialGenes.html b/reference/filterSpatialGenes.html index 3a2b78c06..b791f2983 100644 --- a/reference/filterSpatialGenes.html +++ b/reference/filterSpatialGenes.html @@ -2,7 +2,13 @@ filterSpatialGenes — filterSpatialGenes • Giotto +
diff --git a/reference/findCPG.html b/reference/findCPG.html index d9606213e..0ea078a68 100644 --- a/reference/findCPG.html +++ b/reference/findCPG.html @@ -3,7 +3,13 @@ i.e. genes that are differentially expressed due to proximity to other cell types."> +
diff --git a/reference/findCellProximityGenes.html b/reference/findCellProximityGenes.html index f61f25938..e63c6fb9c 100644 --- a/reference/findCellProximityGenes.html +++ b/reference/findCellProximityGenes.html @@ -3,7 +3,13 @@ i.e. genes that are differentially expressed due to proximity to other cell types."> +
diff --git a/reference/findCellTypesFromEnrichment.html b/reference/findCellTypesFromEnrichment.html index 49ff6b206..f76dabcec 100644 --- a/reference/findCellTypesFromEnrichment.html +++ b/reference/findCellTypesFromEnrichment.html @@ -2,7 +2,13 @@ findCellTypesFromEnrichment — findCellTypesFromEnrichment • Giotto +
diff --git a/reference/findGiniMarkers.html b/reference/findGiniMarkers.html index c1a6c6ff1..f3dced423 100644 --- a/reference/findGiniMarkers.html +++ b/reference/findGiniMarkers.html @@ -2,7 +2,13 @@ findGiniMarkers — findGiniMarkers • Giotto +
diff --git a/reference/findGiniMarkers_one_vs_all.html b/reference/findGiniMarkers_one_vs_all.html index 6b6acc1d0..f2d7024a7 100644 --- a/reference/findGiniMarkers_one_vs_all.html +++ b/reference/findGiniMarkers_one_vs_all.html @@ -2,7 +2,13 @@ findGiniMarkers_one_vs_all — findGiniMarkers_one_vs_all • Giotto +
diff --git a/reference/findICF.html b/reference/findICF.html index 621336ebc..b40768b4b 100644 --- a/reference/findICF.html +++ b/reference/findICF.html @@ -3,7 +3,13 @@ i.e. features that are differentially expressed due to proximity to other cell types.#'"> +
diff --git a/reference/findICFSpot.html b/reference/findICFSpot.html index ce1d14100..ad00a559c 100644 --- a/reference/findICFSpot.html +++ b/reference/findICFSpot.html @@ -3,7 +3,13 @@ i.e. features expression residual that are different due to proximity to other cell types."> +
diff --git a/reference/findICG.html b/reference/findICG.html index d89a186d6..984ab17d3 100644 --- a/reference/findICG.html +++ b/reference/findICG.html @@ -3,7 +3,13 @@ i.e. genes that are differentially expressed due to interaction with other cell types."> +
diff --git a/reference/findInteractionChangedFeats.html b/reference/findInteractionChangedFeats.html index a41266bee..11de0d24f 100644 --- a/reference/findInteractionChangedFeats.html +++ b/reference/findInteractionChangedFeats.html @@ -3,7 +3,13 @@ i.e. features that are differentially expressed due to proximity to other cell types.#'"> +
diff --git a/reference/findInteractionChangedGenes.html b/reference/findInteractionChangedGenes.html index 765d96a51..ab4910c5c 100644 --- a/reference/findInteractionChangedGenes.html +++ b/reference/findInteractionChangedGenes.html @@ -3,7 +3,13 @@ i.e. genes that are differentially expressed due to interactions with other cell types."> +
diff --git a/reference/findMarkers.html b/reference/findMarkers.html index 37d16aa6d..eb3c521e5 100644 --- a/reference/findMarkers.html +++ b/reference/findMarkers.html @@ -2,7 +2,13 @@ findMarkers — findMarkers • Giotto +
diff --git a/reference/findMarkers_one_vs_all.html b/reference/findMarkers_one_vs_all.html index f37fc1822..95a577cf7 100644 --- a/reference/findMarkers_one_vs_all.html +++ b/reference/findMarkers_one_vs_all.html @@ -2,7 +2,13 @@ findMarkers_one_vs_all — findMarkers_one_vs_all • Giotto +
diff --git a/reference/findMastMarkers.html b/reference/findMastMarkers.html index 91ab90f8e..0fa4f8668 100644 --- a/reference/findMastMarkers.html +++ b/reference/findMastMarkers.html @@ -2,7 +2,13 @@ findMastMarkers — findMastMarkers • Giotto +
diff --git a/reference/findMastMarkers_one_vs_all.html b/reference/findMastMarkers_one_vs_all.html index 385ddc762..2b6c2b796 100644 --- a/reference/findMastMarkers_one_vs_all.html +++ b/reference/findMastMarkers_one_vs_all.html @@ -2,7 +2,13 @@ findMastMarkers_one_vs_all — findMastMarkers_one_vs_all • Giotto +
diff --git a/reference/findNetworkNeighbors.html b/reference/findNetworkNeighbors.html index 55fb9514e..efb094720 100644 --- a/reference/findNetworkNeighbors.html +++ b/reference/findNetworkNeighbors.html @@ -2,7 +2,13 @@ Find network neighbors — findNetworkNeighbors • Giotto +
diff --git a/reference/findScranMarkers.html b/reference/findScranMarkers.html index 83f9de9c7..f01ca29c1 100644 --- a/reference/findScranMarkers.html +++ b/reference/findScranMarkers.html @@ -2,7 +2,13 @@ findScranMarkers — findScranMarkers • Giotto +
diff --git a/reference/findScranMarkers_one_vs_all.html b/reference/findScranMarkers_one_vs_all.html index 56267b3e8..b036367b2 100644 --- a/reference/findScranMarkers_one_vs_all.html +++ b/reference/findScranMarkers_one_vs_all.html @@ -2,7 +2,13 @@ findScranMarkers_one_vs_all — findScranMarkers_one_vs_all • Giotto +
diff --git a/reference/find_dampening_constant.html b/reference/find_dampening_constant.html index f9918667c..f27cd63c7 100644 --- a/reference/find_dampening_constant.html +++ b/reference/find_dampening_constant.html @@ -2,7 +2,13 @@ find_dampening_constant — find_dampening_constant • Giotto +
diff --git a/reference/find_x_y_ranges.html b/reference/find_x_y_ranges.html index bd6a4d058..eee062f97 100644 --- a/reference/find_x_y_ranges.html +++ b/reference/find_x_y_ranges.html @@ -2,7 +2,13 @@ find_x_y_ranges — find_x_y_ranges • Giotto +
diff --git a/reference/get10Xmatrix.html b/reference/get10Xmatrix.html index 67c1def03..44f69c6bd 100644 --- a/reference/get10Xmatrix.html +++ b/reference/get10Xmatrix.html @@ -2,7 +2,13 @@ get10Xmatrix — get10Xmatrix • Giotto +
diff --git a/reference/get10XmatrixOLD.html b/reference/get10XmatrixOLD.html index dc027d93a..ad9f9aca3 100644 --- a/reference/get10XmatrixOLD.html +++ b/reference/get10XmatrixOLD.html @@ -2,7 +2,13 @@ get10XmatrixOLD — get10XmatrixOLD • Giotto +
diff --git a/reference/get10Xmatrix_h5.html b/reference/get10Xmatrix_h5.html index 9df7395dc..c8636f9c9 100644 --- a/reference/get10Xmatrix_h5.html +++ b/reference/get10Xmatrix_h5.html @@ -2,7 +2,13 @@ get10Xmatrix_h5 — get10Xmatrix_h5 • Giotto +
diff --git a/reference/getBalancedSpatCoexpressionFeats.html b/reference/getBalancedSpatCoexpressionFeats.html index c63d84200..0e4fe8ee6 100644 --- a/reference/getBalancedSpatCoexpressionFeats.html +++ b/reference/getBalancedSpatCoexpressionFeats.html @@ -2,7 +2,13 @@ getBalancedSpatCoexpressionFeats — getBalancedSpatCoexpressionFeats • Giotto +
diff --git a/reference/getCellsFromPolygon.html b/reference/getCellsFromPolygon.html index 17f2cf43e..2a872d8b5 100644 --- a/reference/getCellsFromPolygon.html +++ b/reference/getCellsFromPolygon.html @@ -2,7 +2,13 @@ Get cells located within the polygons area — getCellsFromPolygon • Giotto +
diff --git a/reference/getClusterSimilarity.html b/reference/getClusterSimilarity.html index 1ae92d8e8..2d120c778 100644 --- a/reference/getClusterSimilarity.html +++ b/reference/getClusterSimilarity.html @@ -2,7 +2,13 @@ getClusterSimilarity — getClusterSimilarity • Giotto +
diff --git a/reference/getDendrogramSplits.html b/reference/getDendrogramSplits.html index 09f807d1d..99d7f4733 100644 --- a/reference/getDendrogramSplits.html +++ b/reference/getDendrogramSplits.html @@ -2,7 +2,13 @@ getDendrogramSplits — getDendrogramSplits • Giotto +
diff --git a/reference/getGEFtxCoords.html b/reference/getGEFtxCoords.html index f87e41a11..ee486cadf 100644 --- a/reference/getGEFtxCoords.html +++ b/reference/getGEFtxCoords.html @@ -3,7 +3,13 @@ transcript with coordinates"> +
diff --git a/reference/get_cross_section_coordinates.html b/reference/get_cross_section_coordinates.html index 1d6152d81..f6e1eb916 100644 --- a/reference/get_cross_section_coordinates.html +++ b/reference/get_cross_section_coordinates.html @@ -2,7 +2,13 @@ get_cross_section_coordinates — get_cross_section_coordinates • Giotto +
diff --git a/reference/get_sectionThickness.html b/reference/get_sectionThickness.html index d8acb80ea..987ace4eb 100644 --- a/reference/get_sectionThickness.html +++ b/reference/get_sectionThickness.html @@ -2,7 +2,13 @@ get_sectionThickness — get_sectionThickness • Giotto +
diff --git a/reference/gpoly_from_dfr_smoothed_wrapped.html b/reference/gpoly_from_dfr_smoothed_wrapped.html index fc6c01431..685c707d0 100644 --- a/reference/gpoly_from_dfr_smoothed_wrapped.html +++ b/reference/gpoly_from_dfr_smoothed_wrapped.html @@ -2,7 +2,13 @@ Polygon creation and smoothing for parallel — gpoly_from_dfr_smoothed_wrapped • Giotto +
diff --git a/reference/heatmSpatialCorFeats.html b/reference/heatmSpatialCorFeats.html index 04049dab8..7ee3435ea 100644 --- a/reference/heatmSpatialCorFeats.html +++ b/reference/heatmSpatialCorFeats.html @@ -2,7 +2,13 @@ heatmSpatialCorFeats — heatmSpatialCorFeats • Giotto +
diff --git a/reference/heatmSpatialCorGenes.html b/reference/heatmSpatialCorGenes.html index 1e43e03d8..2bf0f770b 100644 --- a/reference/heatmSpatialCorGenes.html +++ b/reference/heatmSpatialCorGenes.html @@ -2,7 +2,13 @@ heatmSpatialCorGenes — heatmSpatialCorGenes • Giotto +
diff --git a/reference/hyperGeometricEnrich.html b/reference/hyperGeometricEnrich.html index 314d7658e..7e477b16b 100644 --- a/reference/hyperGeometricEnrich.html +++ b/reference/hyperGeometricEnrich.html @@ -2,7 +2,13 @@ hyperGeometricEnrich — hyperGeometricEnrich • Giotto +
diff --git a/reference/index.html b/reference/index.html index 9016427e4..19f55387d 100644 --- a/reference/index.html +++ b/reference/index.html @@ -2,7 +2,13 @@ Function reference • Giotto +
diff --git a/reference/initHMRF_V2.html b/reference/initHMRF_V2.html index 24fd03652..87dd750fb 100644 --- a/reference/initHMRF_V2.html +++ b/reference/initHMRF_V2.html @@ -2,7 +2,13 @@ initHMRF_V2 — initHMRF_V2 • Giotto +
diff --git a/reference/insertCrossSectionGenePlot3D.html b/reference/insertCrossSectionGenePlot3D.html index 89bd83ed9..2c8bf8855 100644 --- a/reference/insertCrossSectionGenePlot3D.html +++ b/reference/insertCrossSectionGenePlot3D.html @@ -2,7 +2,13 @@ insertCrossSectionGenePlot3D — insertCrossSectionGenePlot3D • Giotto +
diff --git a/reference/insertCrossSectionSpatPlot3D.html b/reference/insertCrossSectionSpatPlot3D.html index 02069541f..c5265ea75 100644 --- a/reference/insertCrossSectionSpatPlot3D.html +++ b/reference/insertCrossSectionSpatPlot3D.html @@ -2,7 +2,13 @@ insertCrossSectionSpatPlot3D — insertCrossSectionSpatPlot3D • Giotto +
diff --git a/reference/jackstrawPlot.html b/reference/jackstrawPlot.html index 1edf511cf..3a81be957 100644 --- a/reference/jackstrawPlot.html +++ b/reference/jackstrawPlot.html @@ -2,7 +2,13 @@ jackstrawPlot — jackstrawPlot • Giotto +
diff --git a/reference/kmeans_binarize_wrapper.html b/reference/kmeans_binarize_wrapper.html index 7a4a95935..b282bcdfd 100644 --- a/reference/kmeans_binarize_wrapper.html +++ b/reference/kmeans_binarize_wrapper.html @@ -2,7 +2,13 @@ kmeans_binarize_wrapper — kmeans_binarize_wrapper • Giotto +
diff --git a/reference/loadHMRF.html b/reference/loadHMRF.html index ac5008be0..50a113580 100644 --- a/reference/loadHMRF.html +++ b/reference/loadHMRF.html @@ -2,7 +2,13 @@ loadHMRF — loadHMRF • Giotto +
diff --git a/reference/load_merscope_folder.html b/reference/load_merscope_folder.html index b3dfb2305..4301d1777 100644 --- a/reference/load_merscope_folder.html +++ b/reference/load_merscope_folder.html @@ -2,7 +2,13 @@ Load MERSCOPE data from folder — load_merscope_folder • Giotto +
diff --git a/reference/load_xenium_folder.html b/reference/load_xenium_folder.html index 42a138c70..f8b909741 100644 --- a/reference/load_xenium_folder.html +++ b/reference/load_xenium_folder.html @@ -2,7 +2,13 @@ Load xenium data from folder — load_xenium_folder • Giotto +
diff --git a/reference/makeSignMatrixDWLS.html b/reference/makeSignMatrixDWLS.html index d7c7c1a7f..9648f0f3b 100644 --- a/reference/makeSignMatrixDWLS.html +++ b/reference/makeSignMatrixDWLS.html @@ -4,7 +4,13 @@ for parameter cell_type_vector can be created from the cell metadata (pDataDT)."> +
diff --git a/reference/makeSignMatrixDWLSfromMatrix.html b/reference/makeSignMatrixDWLSfromMatrix.html index fecbb5edb..22e17b4fe 100644 --- a/reference/makeSignMatrixDWLSfromMatrix.html +++ b/reference/makeSignMatrixDWLSfromMatrix.html @@ -3,7 +3,13 @@ that can be used with runDWLSDeconv."> +
diff --git a/reference/makeSignMatrixPAGE.html b/reference/makeSignMatrixPAGE.html index 531eee67e..bbf37d575 100644 --- a/reference/makeSignMatrixPAGE.html +++ b/reference/makeSignMatrixPAGE.html @@ -5,7 +5,13 @@ The names of the cell types or processes that are provided in the list need to be given (sign_names)."> +
diff --git a/reference/makeSignMatrixRank.html b/reference/makeSignMatrixRank.html index 4f81ec0d0..89825e67a 100644 --- a/reference/makeSignMatrixRank.html +++ b/reference/makeSignMatrixRank.html @@ -4,7 +4,13 @@ a rank matrix that can be used with the Rank enrichment option."> +
diff --git a/reference/make_simulated_network.html b/reference/make_simulated_network.html index c2369bdf5..15eb77c7f 100644 --- a/reference/make_simulated_network.html +++ b/reference/make_simulated_network.html @@ -2,7 +2,13 @@ make_simulated_network — make_simulated_network • Giotto +
diff --git a/reference/mergeClusters.html b/reference/mergeClusters.html index f38a832eb..e66c10aa1 100644 --- a/reference/mergeClusters.html +++ b/reference/mergeClusters.html @@ -2,7 +2,13 @@ mergeClusters — mergeClusters • Giotto +
diff --git a/reference/mygini_fun.html b/reference/mygini_fun.html index 40c2a9be8..738956dea 100644 --- a/reference/mygini_fun.html +++ b/reference/mygini_fun.html @@ -2,7 +2,13 @@ mygini_fun — mygini_fun • Giotto +
diff --git a/reference/normalizeGiotto.html b/reference/normalizeGiotto.html index c99b5c421..189dfe830 100644 --- a/reference/normalizeGiotto.html +++ b/reference/normalizeGiotto.html @@ -2,7 +2,13 @@ normalizeGiotto — normalizeGiotto • Giotto +
diff --git a/reference/numPts_below_line.html b/reference/numPts_below_line.html index b642d2c0a..803d1e556 100644 --- a/reference/numPts_below_line.html +++ b/reference/numPts_below_line.html @@ -2,7 +2,13 @@ numPts_below_line — numPts_below_line • Giotto +
diff --git a/reference/optimize_deconvolute_dwls.html b/reference/optimize_deconvolute_dwls.html index 60447ff1d..c26cf9b65 100644 --- a/reference/optimize_deconvolute_dwls.html +++ b/reference/optimize_deconvolute_dwls.html @@ -2,7 +2,13 @@ optimize_deconvolute_dwls — optimize_deconvolute_dwls • Giotto +
diff --git a/reference/optimize_solveDampenedWLS.html b/reference/optimize_solveDampenedWLS.html index 2f53534a7..a3d13f61f 100644 --- a/reference/optimize_solveDampenedWLS.html +++ b/reference/optimize_solveDampenedWLS.html @@ -2,7 +2,13 @@ optimize_solveDampenedWLS — optimize_solveDampenedWLS • Giotto +
diff --git a/reference/parse_affine.html b/reference/parse_affine.html index 3a90948b2..af488327e 100644 --- a/reference/parse_affine.html +++ b/reference/parse_affine.html @@ -5,7 +5,13 @@ needed to perform them."> +
diff --git a/reference/pieCellTypesFromEnrichment.html b/reference/pieCellTypesFromEnrichment.html index 7c6a00a9b..591c02519 100644 --- a/reference/pieCellTypesFromEnrichment.html +++ b/reference/pieCellTypesFromEnrichment.html @@ -2,7 +2,13 @@ pieCellTypesFromEnrichment — pieCellTypesFromEnrichment • Giotto +
diff --git a/reference/plotCCcomDotplot.html b/reference/plotCCcomDotplot.html index 9a305835e..774701f56 100644 --- a/reference/plotCCcomDotplot.html +++ b/reference/plotCCcomDotplot.html @@ -2,7 +2,13 @@ plotCCcomDotplot — plotCCcomDotplot • Giotto +
diff --git a/reference/plotCCcomHeatmap.html b/reference/plotCCcomHeatmap.html index 9fa4d51f4..6a9740cc5 100644 --- a/reference/plotCCcomHeatmap.html +++ b/reference/plotCCcomHeatmap.html @@ -2,7 +2,13 @@ plotCCcomHeatmap — plotCCcomHeatmap • Giotto +
diff --git a/reference/plotCPF.html b/reference/plotCPF.html index 87f0b73ed..c27d654be 100644 --- a/reference/plotCPF.html +++ b/reference/plotCPF.html @@ -2,7 +2,13 @@ plotCPF — plotCPF • Giotto +
diff --git a/reference/plotCellProximityFeatSpot.html b/reference/plotCellProximityFeatSpot.html index 76c88170c..0186f90c2 100644 --- a/reference/plotCellProximityFeatSpot.html +++ b/reference/plotCellProximityFeatSpot.html @@ -2,7 +2,13 @@ plotCellProximityFeatSpot — plotCellProximityFeatSpot • Giotto +
diff --git a/reference/plotCellProximityFeats.html b/reference/plotCellProximityFeats.html index 7162a7261..fa6926ed4 100644 --- a/reference/plotCellProximityFeats.html +++ b/reference/plotCellProximityFeats.html @@ -2,7 +2,13 @@ plotCellProximityFeats — plotCellProximityFeats • Giotto +
diff --git a/reference/plotCellTypesFromEnrichment.html b/reference/plotCellTypesFromEnrichment.html index 66deddd2d..9f6fc8831 100644 --- a/reference/plotCellTypesFromEnrichment.html +++ b/reference/plotCellTypesFromEnrichment.html @@ -2,7 +2,13 @@ plotCellTypesFromEnrichment — plotCellTypesFromEnrichment • Giotto +
diff --git a/reference/plotCombineCCcom.html b/reference/plotCombineCCcom.html index 3bfeacddc..d45ab50fb 100644 --- a/reference/plotCombineCCcom.html +++ b/reference/plotCombineCCcom.html @@ -2,7 +2,13 @@ plotCombineCCcom — plotCombineCCcom • Giotto +
diff --git a/reference/plotCombineCellCellCommunication.html b/reference/plotCombineCellCellCommunication.html index c26dbcd4d..92e2ec157 100644 --- a/reference/plotCombineCellCellCommunication.html +++ b/reference/plotCombineCellCellCommunication.html @@ -2,7 +2,13 @@ plotCombineCellCellCommunication — plotCombineCellCellCommunication • Giotto +
diff --git a/reference/plotCombineICF.html b/reference/plotCombineICF.html index 44a643063..e6fdf8cf4 100644 --- a/reference/plotCombineICF.html +++ b/reference/plotCombineICF.html @@ -2,7 +2,13 @@ plotCombineICF — plotCombineICF • Giotto +
diff --git a/reference/plotCombineInteractionChangedFeats.html b/reference/plotCombineInteractionChangedFeats.html index 3070a1597..0aa1673d2 100644 --- a/reference/plotCombineInteractionChangedFeats.html +++ b/reference/plotCombineInteractionChangedFeats.html @@ -2,7 +2,13 @@ plotCombineInteractionChangedFeats — plotCombineInteractionChangedFeats • Giotto +
diff --git a/reference/plotICF.html b/reference/plotICF.html index d7dc08b0a..4a9af152a 100644 --- a/reference/plotICF.html +++ b/reference/plotICF.html @@ -2,7 +2,13 @@ Plot interaction changed features — plotICF • Giotto +
diff --git a/reference/plotICFSpot.html b/reference/plotICFSpot.html index 0a6d6c8ee..2c689c0cf 100644 --- a/reference/plotICFSpot.html +++ b/reference/plotICFSpot.html @@ -2,7 +2,13 @@ plotICFSpot — plotICFSpot • Giotto +
diff --git a/reference/plotInteractionChangedFeats.html b/reference/plotInteractionChangedFeats.html index 1d5840b3e..024121a5b 100644 --- a/reference/plotInteractionChangedFeats.html +++ b/reference/plotInteractionChangedFeats.html @@ -2,7 +2,13 @@ Plot interaction changed features — plotInteractionChangedFeats • Giotto +
diff --git a/reference/plotInteractive3D.html b/reference/plotInteractive3D.html index ead2610c0..588d87252 100644 --- a/reference/plotInteractive3D.html +++ b/reference/plotInteractive3D.html @@ -2,7 +2,13 @@ Plot interactive 3D spatial plot — plotInteractive3D • Giotto +
diff --git a/reference/plotInteractivePolygons.html b/reference/plotInteractivePolygons.html index 4a7763fc3..fbe0d5279 100644 --- a/reference/plotInteractivePolygons.html +++ b/reference/plotInteractivePolygons.html @@ -2,7 +2,13 @@ Select image regions by plotting interactive polygons — plotInteractivePolygons • Giotto +
diff --git a/reference/plotPolygons.html b/reference/plotPolygons.html index 0d948ef6b..1461c5014 100644 --- a/reference/plotPolygons.html +++ b/reference/plotPolygons.html @@ -2,7 +2,13 @@ Plot stored polygons — plotPolygons • Giotto +
diff --git a/reference/plotRankSpatvsExpr.html b/reference/plotRankSpatvsExpr.html index 211f51c87..0ec74afa0 100644 --- a/reference/plotRankSpatvsExpr.html +++ b/reference/plotRankSpatvsExpr.html @@ -2,7 +2,13 @@ plotRankSpatvsExpr — plotRankSpatvsExpr • Giotto +
diff --git a/reference/plotRecovery.html b/reference/plotRecovery.html index 39786741c..488da11c0 100644 --- a/reference/plotRecovery.html +++ b/reference/plotRecovery.html @@ -2,7 +2,13 @@ plotRecovery — plotRecovery • Giotto +
diff --git a/reference/plot_cell_params.html b/reference/plot_cell_params.html index 80fa2cd9f..c886d1f31 100644 --- a/reference/plot_cell_params.html +++ b/reference/plot_cell_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_cell_params — plot_cell_params • Giotto +
diff --git a/reference/plot_cow_params.html b/reference/plot_cow_params.html index 0da31151e..47bfcd74b 100644 --- a/reference/plot_cow_params.html +++ b/reference/plot_cow_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_cow_params — plot_cow_params • Giotto +
diff --git a/reference/plot_dimred_params.html b/reference/plot_dimred_params.html index 8f4d9b7ed..4b6344fbd 100644 --- a/reference/plot_dimred_params.html +++ b/reference/plot_dimred_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_dimred_params — plot_dimred_params • Giotto +
diff --git a/reference/plot_feat_params.html b/reference/plot_feat_params.html index 18defe88b..fac293008 100644 --- a/reference/plot_feat_params.html +++ b/reference/plot_feat_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_feat_params — plot_feat_params • Giotto +
diff --git a/reference/plot_image_params.html b/reference/plot_image_params.html index a771455e3..1bce95c76 100644 --- a/reference/plot_image_params.html +++ b/reference/plot_image_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_image_params — plot_image_params • Giotto +
diff --git a/reference/plot_nn_net_params.html b/reference/plot_nn_net_params.html index 6900d6ef7..f86b6ca3b 100644 --- a/reference/plot_nn_net_params.html +++ b/reference/plot_nn_net_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_nn_net_params — plot_nn_net_params • Giotto +
diff --git a/reference/plot_output_params.html b/reference/plot_output_params.html index 7d0afbdbc..c54a06761 100644 --- a/reference/plot_output_params.html +++ b/reference/plot_output_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_output_params — plot_output_params • Giotto +
diff --git a/reference/plot_params.html b/reference/plot_params.html index ceb7041ca..ad0a4be6f 100644 --- a/reference/plot_params.html +++ b/reference/plot_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_params — plot_params • Giotto +
diff --git a/reference/plot_poly_params.html b/reference/plot_poly_params.html index c65f600f5..9ce457afc 100644 --- a/reference/plot_poly_params.html +++ b/reference/plot_poly_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_poly_params — plot_poly_params • Giotto +
diff --git a/reference/plot_spatenr_params.html b/reference/plot_spatenr_params.html index 18bf3bdbf..7773c6afd 100644 --- a/reference/plot_spatenr_params.html +++ b/reference/plot_spatenr_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_spatenr_params — plot_spatenr_params • Giotto +
diff --git a/reference/plot_spatnet_params.html b/reference/plot_spatnet_params.html index 73516f323..c80574ac6 100644 --- a/reference/plot_spatnet_params.html +++ b/reference/plot_spatnet_params.html @@ -2,7 +2,13 @@ Params documentation template: plot_spatnet_params — plot_spatnet_params • Giotto +
diff --git a/reference/processGiotto.html b/reference/processGiotto.html index f1260ac3a..029f79fb5 100644 --- a/reference/processGiotto.html +++ b/reference/processGiotto.html @@ -2,7 +2,13 @@ processGiotto — processGiotto • Giotto +
diff --git a/reference/projection_fun.html b/reference/projection_fun.html index 77db28935..df753c280 100644 --- a/reference/projection_fun.html +++ b/reference/projection_fun.html @@ -2,7 +2,13 @@ projection_fun — projection_fun • Giotto +
diff --git a/reference/rankEnrich.html b/reference/rankEnrich.html index b99246e93..c2f0fd24a 100644 --- a/reference/rankEnrich.html +++ b/reference/rankEnrich.html @@ -2,7 +2,13 @@ rankEnrich — rankEnrich • Giotto +
diff --git a/reference/rankSpatialCorGroups.html b/reference/rankSpatialCorGroups.html index fa5e87f2e..61a59a6ab 100644 --- a/reference/rankSpatialCorGroups.html +++ b/reference/rankSpatialCorGroups.html @@ -2,7 +2,13 @@ rankSpatialCorGroups — rankSpatialCorGroups • Giotto +
diff --git a/reference/rank_binarize_wrapper.html b/reference/rank_binarize_wrapper.html index 20483df8b..59b71f557 100644 --- a/reference/rank_binarize_wrapper.html +++ b/reference/rank_binarize_wrapper.html @@ -2,7 +2,13 @@ rank_binarize_wrapper — rank_binarize_wrapper • Giotto +
diff --git a/reference/readPolygonFilesVizgen.html b/reference/readPolygonFilesVizgen.html index b99908bbd..fbc9dfdf2 100644 --- a/reference/readPolygonFilesVizgen.html +++ b/reference/readPolygonFilesVizgen.html @@ -3,7 +3,13 @@ object and add the smoothed polygons to the object"> +
diff --git a/reference/readPolygonFilesVizgenHDF5.html b/reference/readPolygonFilesVizgenHDF5.html index f8001cf80..edced8c31 100644 --- a/reference/readPolygonFilesVizgenHDF5.html +++ b/reference/readPolygonFilesVizgenHDF5.html @@ -4,7 +4,13 @@ of the requested z indices."> +
diff --git a/reference/readPolygonFilesVizgenHDF5_old.html b/reference/readPolygonFilesVizgenHDF5_old.html index 390d4e62f..45d787cf6 100644 --- a/reference/readPolygonFilesVizgenHDF5_old.html +++ b/reference/readPolygonFilesVizgenHDF5_old.html @@ -2,7 +2,13 @@ readPolygonFilesVizgenHDF5 — readPolygonFilesVizgenHDF5_old • Giotto +
diff --git a/reference/readPolygonVizgenParquet.html b/reference/readPolygonVizgenParquet.html index b3d07c6a2..3c5135f7c 100644 --- a/reference/readPolygonVizgenParquet.html +++ b/reference/readPolygonVizgenParquet.html @@ -3,7 +3,13 @@ can be selected."> +
diff --git a/reference/read_crossSection.html b/reference/read_crossSection.html index 125dad42c..d0923aef8 100644 --- a/reference/read_crossSection.html +++ b/reference/read_crossSection.html @@ -2,7 +2,13 @@ read_crossSection — read_crossSection • Giotto +
diff --git a/reference/read_data_folder.html b/reference/read_data_folder.html index 3c887709a..efa287f39 100644 --- a/reference/read_data_folder.html +++ b/reference/read_data_folder.html @@ -6,7 +6,13 @@ reader functions should be built using it as a base."> +
diff --git a/reference/read_data_params.html b/reference/read_data_params.html index 8090b486c..6b1871980 100644 --- a/reference/read_data_params.html +++ b/reference/read_data_params.html @@ -2,7 +2,13 @@ read_data_params — read_data_params • Giotto +
diff --git a/reference/reexports.html b/reference/reexports.html index 52cccd4cd..a0d1c044c 100644 --- a/reference/reexports.html +++ b/reference/reexports.html @@ -17,7 +17,13 @@ "> +
diff --git a/reference/registerGiottoObjectList.html b/reference/registerGiottoObjectList.html index dc4071d8c..dc403a2a8 100644 --- a/reference/registerGiottoObjectList.html +++ b/reference/registerGiottoObjectList.html @@ -2,7 +2,13 @@ registerGiottoObjectList — registerGiottoObjectList • Giotto +
diff --git a/reference/registerGiottoObjectListFiji.html b/reference/registerGiottoObjectListFiji.html index cece226fb..9c5b28bd5 100644 --- a/reference/registerGiottoObjectListFiji.html +++ b/reference/registerGiottoObjectListFiji.html @@ -2,7 +2,13 @@ registerGiottoObjectListFiji — registerGiottoObjectListFiji • Giotto +
diff --git a/reference/registerGiottoObjectListRvision.html b/reference/registerGiottoObjectListRvision.html index c31eb0e0d..df65c3af6 100644 --- a/reference/registerGiottoObjectListRvision.html +++ b/reference/registerGiottoObjectListRvision.html @@ -2,7 +2,13 @@ registerGiottoObjectListRvision — registerGiottoObjectListRvision • Giotto +
diff --git a/reference/registerImagesFIJI.html b/reference/registerImagesFIJI.html index 3cc232371..4ece0487d 100644 --- a/reference/registerImagesFIJI.html +++ b/reference/registerImagesFIJI.html @@ -2,7 +2,13 @@ registerImagesFIJI — registerImagesFIJI • Giotto +
diff --git a/reference/reshape_to_data_point.html b/reference/reshape_to_data_point.html index e5a3545c3..9529c3aca 100644 --- a/reference/reshape_to_data_point.html +++ b/reference/reshape_to_data_point.html @@ -2,7 +2,13 @@ reshape_to_data_point — reshape_to_data_point • Giotto +
diff --git a/reference/reshape_to_mesh_grid_obj.html b/reference/reshape_to_mesh_grid_obj.html index 771c1e67a..e5b13d550 100644 --- a/reference/reshape_to_mesh_grid_obj.html +++ b/reference/reshape_to_mesh_grid_obj.html @@ -2,7 +2,13 @@ reshape_to_mesh_grid_obj — reshape_to_mesh_grid_obj • Giotto +
diff --git a/reference/runDWLSDeconv.html b/reference/runDWLSDeconv.html index 01334c82f..07e4a583d 100644 --- a/reference/runDWLSDeconv.html +++ b/reference/runDWLSDeconv.html @@ -2,7 +2,13 @@ runDWLSDeconv — runDWLSDeconv • Giotto +
diff --git a/reference/runFijiMacro.html b/reference/runFijiMacro.html index ed2da935c..222ec9c12 100644 --- a/reference/runFijiMacro.html +++ b/reference/runFijiMacro.html @@ -3,7 +3,13 @@ This function is modified from jimpipeline by jefferislab"> +
diff --git a/reference/runGiottoHarmony.html b/reference/runGiottoHarmony.html index 0b2bcc46a..0b4017f79 100644 --- a/reference/runGiottoHarmony.html +++ b/reference/runGiottoHarmony.html @@ -2,7 +2,13 @@ runGiottoHarmony — runGiottoHarmony • Giotto +
diff --git a/reference/runHyperGeometricEnrich.html b/reference/runHyperGeometricEnrich.html index d328d4b66..d15c04bb5 100644 --- a/reference/runHyperGeometricEnrich.html +++ b/reference/runHyperGeometricEnrich.html @@ -2,7 +2,13 @@ runHyperGeometricEnrich — runHyperGeometricEnrich • Giotto +
diff --git a/reference/runIntegratedUMAP.html b/reference/runIntegratedUMAP.html index a7e0ab20f..323af9293 100644 --- a/reference/runIntegratedUMAP.html +++ b/reference/runIntegratedUMAP.html @@ -2,7 +2,13 @@ Run integrated UMAP — runIntegratedUMAP • Giotto +
diff --git a/reference/runPAGEEnrich.html b/reference/runPAGEEnrich.html index 8a76e7559..1be4e42c2 100644 --- a/reference/runPAGEEnrich.html +++ b/reference/runPAGEEnrich.html @@ -2,7 +2,13 @@ runPAGEEnrich — runPAGEEnrich • Giotto +
diff --git a/reference/runPAGEEnrich_OLD.html b/reference/runPAGEEnrich_OLD.html index d72203ea0..20bb11de8 100644 --- a/reference/runPAGEEnrich_OLD.html +++ b/reference/runPAGEEnrich_OLD.html @@ -2,7 +2,13 @@ runPAGEEnrich_OLD — runPAGEEnrich_OLD • Giotto +
diff --git a/reference/runPCA.html b/reference/runPCA.html index 869563cdc..52ff0a221 100644 --- a/reference/runPCA.html +++ b/reference/runPCA.html @@ -2,7 +2,13 @@ runPCA — runPCA • Giotto +
diff --git a/reference/runPCAprojection.html b/reference/runPCAprojection.html index 5b8f54c74..9a7858295 100644 --- a/reference/runPCAprojection.html +++ b/reference/runPCAprojection.html @@ -2,7 +2,13 @@ runPCAprojection — runPCAprojection • Giotto +
diff --git a/reference/runPCAprojectionBatch.html b/reference/runPCAprojectionBatch.html index 3ea10c693..6211bb430 100644 --- a/reference/runPCAprojectionBatch.html +++ b/reference/runPCAprojectionBatch.html @@ -2,7 +2,13 @@ runPCAprojectionBatch — runPCAprojectionBatch • Giotto +
diff --git a/reference/runPatternSimulation.html b/reference/runPatternSimulation.html index 0268f6b82..8927e0941 100644 --- a/reference/runPatternSimulation.html +++ b/reference/runPatternSimulation.html @@ -2,7 +2,13 @@ runPatternSimulation — runPatternSimulation • Giotto +
diff --git a/reference/runRankEnrich.html b/reference/runRankEnrich.html index 1b9afa2ec..4c1afb159 100644 --- a/reference/runRankEnrich.html +++ b/reference/runRankEnrich.html @@ -2,7 +2,13 @@ runRankEnrich — runRankEnrich • Giotto +
diff --git a/reference/runSpatialDeconv.html b/reference/runSpatialDeconv.html index 7ab28367f..d35a281c2 100644 --- a/reference/runSpatialDeconv.html +++ b/reference/runSpatialDeconv.html @@ -2,7 +2,13 @@ runSpatialDeconv — runSpatialDeconv • Giotto +
diff --git a/reference/runSpatialEnrich.html b/reference/runSpatialEnrich.html index 549d4b17a..72ef6a1bb 100644 --- a/reference/runSpatialEnrich.html +++ b/reference/runSpatialEnrich.html @@ -2,7 +2,13 @@ runSpatialEnrich — runSpatialEnrich • Giotto +
diff --git a/reference/runUMAP.html b/reference/runUMAP.html index 1e5bdb4e7..8a94a135d 100644 --- a/reference/runUMAP.html +++ b/reference/runUMAP.html @@ -2,7 +2,13 @@ Run UMAP dimension reduction — runUMAP • Giotto +
diff --git a/reference/runUMAPprojection.html b/reference/runUMAPprojection.html index 86596b07c..e719de551 100644 --- a/reference/runUMAPprojection.html +++ b/reference/runUMAPprojection.html @@ -2,7 +2,13 @@ Run UMAP dimension reduction — runUMAPprojection • Giotto +
diff --git a/reference/runWNN.html b/reference/runWNN.html index acfa263de..fbb4630a9 100644 --- a/reference/runWNN.html +++ b/reference/runWNN.html @@ -2,7 +2,13 @@ Multi omics integration with WNN — runWNN • Giotto +
diff --git a/reference/run_spatial_sim_tests_multi.html b/reference/run_spatial_sim_tests_multi.html index b83c334b7..ad453595c 100644 --- a/reference/run_spatial_sim_tests_multi.html +++ b/reference/run_spatial_sim_tests_multi.html @@ -2,7 +2,13 @@ run_spatial_sim_tests_multi — run_spatial_sim_tests_multi • Giotto +
diff --git a/reference/run_spatial_sim_tests_one_rep.html b/reference/run_spatial_sim_tests_one_rep.html index 1c1b726e3..0c82e2f67 100644 --- a/reference/run_spatial_sim_tests_one_rep.html +++ b/reference/run_spatial_sim_tests_one_rep.html @@ -2,7 +2,13 @@ run_spatial_sim_tests_one_rep — run_spatial_sim_tests_one_rep • Giotto +
diff --git a/reference/runtSNE.html b/reference/runtSNE.html index bd180db94..723440495 100644 --- a/reference/runtSNE.html +++ b/reference/runtSNE.html @@ -2,7 +2,13 @@ Run tSNE dimensional reduction — runtSNE • Giotto +
diff --git a/reference/sampling_sp_genes.html b/reference/sampling_sp_genes.html index 9e8596534..032aa592f 100644 --- a/reference/sampling_sp_genes.html +++ b/reference/sampling_sp_genes.html @@ -2,7 +2,13 @@ sampling_sp_genes — sampling_sp_genes • Giotto +
diff --git a/reference/screePlot.html b/reference/screePlot.html index 20a731415..39a3676a4 100644 --- a/reference/screePlot.html +++ b/reference/screePlot.html @@ -2,7 +2,13 @@ screePlot — screePlot • Giotto +
diff --git a/reference/selectPatternGenes.html b/reference/selectPatternGenes.html index cf680decb..f3ab294fa 100644 --- a/reference/selectPatternGenes.html +++ b/reference/selectPatternGenes.html @@ -2,7 +2,13 @@ selectPatternGenes — selectPatternGenes • Giotto +
diff --git a/reference/showCellProportionSwitchedPie.html b/reference/showCellProportionSwitchedPie.html index 0cc21fd8f..d451c8142 100644 --- a/reference/showCellProportionSwitchedPie.html +++ b/reference/showCellProportionSwitchedPie.html @@ -2,7 +2,13 @@ showCellProportionSwitchedPie — showCellProportionSwitchedPie • Giotto +
diff --git a/reference/showCellProportionSwitchedSanKey.html b/reference/showCellProportionSwitchedSanKey.html index df5da5c1e..be4141edd 100644 --- a/reference/showCellProportionSwitchedSanKey.html +++ b/reference/showCellProportionSwitchedSanKey.html @@ -2,7 +2,13 @@ showCellProportionSwitchedSanKey — showCellProportionSwitchedSanKey • Giotto +
diff --git a/reference/showPattern.html b/reference/showPattern.html index d9cfbe1e5..91ac1452c 100644 --- a/reference/showPattern.html +++ b/reference/showPattern.html @@ -2,7 +2,13 @@ showPattern — showPattern • Giotto +
diff --git a/reference/showPattern2D.html b/reference/showPattern2D.html index c48f30cea..95588d527 100644 --- a/reference/showPattern2D.html +++ b/reference/showPattern2D.html @@ -2,7 +2,13 @@ showPattern2D — showPattern2D • Giotto +
diff --git a/reference/showPattern3D.html b/reference/showPattern3D.html index aeae908ec..9fb373753 100644 --- a/reference/showPattern3D.html +++ b/reference/showPattern3D.html @@ -2,7 +2,13 @@ showPattern3D — showPattern3D • Giotto +
diff --git a/reference/showPatternGenes.html b/reference/showPatternGenes.html index 0c8f6013f..ea81c0c71 100644 --- a/reference/showPatternGenes.html +++ b/reference/showPatternGenes.html @@ -2,7 +2,13 @@ showPatternGenes — showPatternGenes • Giotto +
diff --git a/reference/showPolygonSizeInfluence.html b/reference/showPolygonSizeInfluence.html index 6fc7dfade..46fb3b5c2 100644 --- a/reference/showPolygonSizeInfluence.html +++ b/reference/showPolygonSizeInfluence.html @@ -2,7 +2,13 @@ showPolygonSizeInfluence — showPolygonSizeInfluence • Giotto +
diff --git a/reference/showSpatialCorFeats.html b/reference/showSpatialCorFeats.html index 3e65d4c8b..57e1e1509 100644 --- a/reference/showSpatialCorFeats.html +++ b/reference/showSpatialCorFeats.html @@ -2,7 +2,13 @@ showSpatialCorFeats — showSpatialCorFeats • Giotto +
diff --git a/reference/showSpatialCorGenes.html b/reference/showSpatialCorGenes.html index d4d0350ae..a60813f0f 100644 --- a/reference/showSpatialCorGenes.html +++ b/reference/showSpatialCorGenes.html @@ -2,7 +2,13 @@ showSpatialCorGenes — showSpatialCorGenes • Giotto +
diff --git a/reference/signPCA.html b/reference/signPCA.html index 87aa8a18f..f58e7cab1 100644 --- a/reference/signPCA.html +++ b/reference/signPCA.html @@ -2,7 +2,13 @@ signPCA — signPCA • Giotto +
diff --git a/reference/silhouetteRank.html b/reference/silhouetteRank.html index bda149030..fce50b922 100644 --- a/reference/silhouetteRank.html +++ b/reference/silhouetteRank.html @@ -6,7 +6,13 @@ New multi aggregator implementation can be found at silhouetteRankTest"> +
diff --git a/reference/silhouetteRankTest.html b/reference/silhouetteRankTest.html index 128e84604..cfdc1d06e 100644 --- a/reference/silhouetteRankTest.html +++ b/reference/silhouetteRankTest.html @@ -2,7 +2,13 @@ silhouetteRankTest — silhouetteRankTest • Giotto +
diff --git a/reference/simulateOneGenePatternGiottoObject.html b/reference/simulateOneGenePatternGiottoObject.html index 19ba4756d..e051bb27a 100644 --- a/reference/simulateOneGenePatternGiottoObject.html +++ b/reference/simulateOneGenePatternGiottoObject.html @@ -2,7 +2,13 @@ simulateOneGenePatternGiottoObject — simulateOneGenePatternGiottoObject • Giotto +
diff --git a/reference/solve_OLS_internal.html b/reference/solve_OLS_internal.html index 349200980..b905b0121 100644 --- a/reference/solve_OLS_internal.html +++ b/reference/solve_OLS_internal.html @@ -2,7 +2,13 @@ solve_OLS_internal — solve_OLS_internal • Giotto +
diff --git a/reference/solve_dampened_WLSj.html b/reference/solve_dampened_WLSj.html index 139df56d1..18040fd6f 100644 --- a/reference/solve_dampened_WLSj.html +++ b/reference/solve_dampened_WLSj.html @@ -2,7 +2,13 @@ solve_dampened_WLSj — solve_dampened_WLSj • Giotto +
diff --git a/reference/spark.html b/reference/spark.html index d51846ee2..992cf7b19 100644 --- a/reference/spark.html +++ b/reference/spark.html @@ -2,7 +2,13 @@ spark — spark • Giotto +
diff --git a/reference/spatCellCellcom.html b/reference/spatCellCellcom.html index 8ddafc1c0..8e2d6de34 100644 --- a/reference/spatCellCellcom.html +++ b/reference/spatCellCellcom.html @@ -2,7 +2,13 @@ spatCellCellcom — spatCellCellcom • Giotto +
diff --git a/reference/spatCellCellcomSpots.html b/reference/spatCellCellcomSpots.html index 550b7dcaf..9c5e014f2 100644 --- a/reference/spatCellCellcomSpots.html +++ b/reference/spatCellCellcomSpots.html @@ -2,7 +2,13 @@ spatCellCellcomSpots — spatCellCellcomSpots • Giotto +
diff --git a/reference/spat_fisher_exact.html b/reference/spat_fisher_exact.html index 4379d8342..5ce7e2d18 100644 --- a/reference/spat_fisher_exact.html +++ b/reference/spat_fisher_exact.html @@ -2,7 +2,13 @@ Fisher exact test — spat_fisher_exact • Giotto +
diff --git a/reference/spat_odds_ratio.html b/reference/spat_odds_ratio.html index 82b7b97a2..8e58392ce 100644 --- a/reference/spat_odds_ratio.html +++ b/reference/spat_odds_ratio.html @@ -2,7 +2,13 @@ Spatial odds-ratio — spat_odds_ratio • Giotto +
diff --git a/reference/spatialAEH.html b/reference/spatialAEH.html index 560a50baa..b47cf128c 100644 --- a/reference/spatialAEH.html +++ b/reference/spatialAEH.html @@ -2,7 +2,13 @@ spatialAEH — spatialAEH • Giotto +
diff --git a/reference/spatialAutoCor.html b/reference/spatialAutoCor.html index c0950fd28..3566150b3 100644 --- a/reference/spatialAutoCor.html +++ b/reference/spatialAutoCor.html @@ -8,7 +8,13 @@ columns and rows of the weight matrix."> +
diff --git a/reference/spatialDE.html b/reference/spatialDE.html index cb1583db9..4fbfac584 100644 --- a/reference/spatialDE.html +++ b/reference/spatialDE.html @@ -2,7 +2,13 @@ spatialDE — spatialDE • Giotto +
diff --git a/reference/spatialSplitCluster.html b/reference/spatialSplitCluster.html index fa3a565fb..c2cb4701c 100644 --- a/reference/spatialSplitCluster.html +++ b/reference/spatialSplitCluster.html @@ -2,7 +2,13 @@ Split cluster annotations based on a spatial network — spatialSplitCluster • Giotto +
diff --git a/reference/spdepAutoCorr.html b/reference/spdepAutoCorr.html index 4c01b590e..638be1624 100644 --- a/reference/spdepAutoCorr.html +++ b/reference/spdepAutoCorr.html @@ -2,7 +2,13 @@ Compute spatial auto correlation using spdep — spdepAutoCorr • Giotto +
diff --git a/reference/specificCellCellcommunicationScores.html b/reference/specificCellCellcommunicationScores.html index 36b270e46..af5e7a476 100644 --- a/reference/specificCellCellcommunicationScores.html +++ b/reference/specificCellCellcommunicationScores.html @@ -2,7 +2,13 @@ specificCellCellcommunicationScores — specificCellCellcommunicationScores • Giotto +
diff --git a/reference/spot_deconvolution.html b/reference/spot_deconvolution.html index a74d5027a..b46882f57 100644 --- a/reference/spot_deconvolution.html +++ b/reference/spot_deconvolution.html @@ -2,7 +2,13 @@ spot_deconvolution — spot_deconvolution • Giotto +
diff --git a/reference/subClusterCells.html b/reference/subClusterCells.html index 9766a45ab..25368df40 100644 --- a/reference/subClusterCells.html +++ b/reference/subClusterCells.html @@ -2,7 +2,13 @@ subClusterCells — subClusterCells • Giotto +
diff --git a/reference/transform_2d_mesh_to_3d_mesh.html b/reference/transform_2d_mesh_to_3d_mesh.html index eaadf14b2..13461f65f 100644 --- a/reference/transform_2d_mesh_to_3d_mesh.html +++ b/reference/transform_2d_mesh_to_3d_mesh.html @@ -2,7 +2,13 @@ transform_2d_mesh_to_3d_mesh — transform_2d_mesh_to_3d_mesh • Giotto +
diff --git a/reference/trendSceek.html b/reference/trendSceek.html index a9d8235b8..80502a2c6 100644 --- a/reference/trendSceek.html +++ b/reference/trendSceek.html @@ -2,7 +2,13 @@ trendSceek — trendSceek • Giotto +
diff --git a/reference/viewHMRFresults.html b/reference/viewHMRFresults.html index 0546936db..0c4f70af0 100644 --- a/reference/viewHMRFresults.html +++ b/reference/viewHMRFresults.html @@ -2,7 +2,13 @@ viewHMRFresults — viewHMRFresults • Giotto +
diff --git a/reference/viewHMRFresults2D.html b/reference/viewHMRFresults2D.html index 145f44887..1bd391db6 100644 --- a/reference/viewHMRFresults2D.html +++ b/reference/viewHMRFresults2D.html @@ -2,7 +2,13 @@ viewHMRFresults2D — viewHMRFresults2D • Giotto +
diff --git a/reference/viewHMRFresults3D.html b/reference/viewHMRFresults3D.html index 10cca805c..33d694033 100644 --- a/reference/viewHMRFresults3D.html +++ b/reference/viewHMRFresults3D.html @@ -2,7 +2,13 @@ viewHMRFresults3D — viewHMRFresults3D • Giotto +
diff --git a/reference/viewHMRFresults_V2.html b/reference/viewHMRFresults_V2.html index 339d40f8b..b8e2fd018 100644 --- a/reference/viewHMRFresults_V2.html +++ b/reference/viewHMRFresults_V2.html @@ -2,7 +2,13 @@ viewHMRFresults_V2 — viewHMRFresults_V2 • Giotto +
diff --git a/reference/visium_micron_scalefactor.html b/reference/visium_micron_scalefactor.html index 0cdf2e5ff..ae2aaad18 100644 --- a/reference/visium_micron_scalefactor.html +++ b/reference/visium_micron_scalefactor.html @@ -2,7 +2,13 @@ Calculate Pixel to Micron Scalefactor — visium_micron_scalefactor • Giotto +
diff --git a/reference/writeHMRFresults.html b/reference/writeHMRFresults.html index f45a49b57..aa6fddcce 100644 --- a/reference/writeHMRFresults.html +++ b/reference/writeHMRFresults.html @@ -2,7 +2,13 @@ writeHMRFresults — writeHMRFresults • Giotto +
diff --git a/reference/write_giotto_viewer_annotation.html b/reference/write_giotto_viewer_annotation.html index 31c8aafb7..3a6ff5ca1 100644 --- a/reference/write_giotto_viewer_annotation.html +++ b/reference/write_giotto_viewer_annotation.html @@ -2,7 +2,13 @@ write_giotto_viewer_annotation — write_giotto_viewer_annotation • Giotto +
diff --git a/reference/write_giotto_viewer_dim_reduction.html b/reference/write_giotto_viewer_dim_reduction.html index 142fcf7c2..5d9965e5f 100644 --- a/reference/write_giotto_viewer_dim_reduction.html +++ b/reference/write_giotto_viewer_dim_reduction.html @@ -2,7 +2,13 @@ write_giotto_viewer_dim_reduction — write_giotto_viewer_dim_reduction • Giotto +
diff --git a/reference/write_giotto_viewer_numeric_annotation.html b/reference/write_giotto_viewer_numeric_annotation.html index e790ffa0f..6a79464dc 100644 --- a/reference/write_giotto_viewer_numeric_annotation.html +++ b/reference/write_giotto_viewer_numeric_annotation.html @@ -2,7 +2,13 @@ write_giotto_viewer_numeric_annotation — write_giotto_viewer_numeric_annotation • Giotto +