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_pkgdown.yml
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url: ~
template:
bootstrap: 5
reference:
- title: Cross-species integration
- contents:
- crossSpecies_integrate
- species_percentage
- title: Functional annotation
- contents:
- RunGSEA_plant
- title: Gene regulatory network construction
- contents:
- ras_exp_hmp
- ras_exp_scatter
- topRegulons
- toptargets
- ToptargetsofTopregulons
- SpecificityRank
- targets_MINIEX
- topRegulons_MINIEX
- enrich_exp_hmp
- enrich_exp_scatter
- BordaRank_MINIEX
- title: Paired motif enrichment
- contents:
- processPMET
- PMEThmp
- triHmp
- topPairsNet
- title: Automatic cell-type annotation
- contents:
- AutoAnnotate_SingleR
- AutoAnnotate_Celaref
- AutoAnnotate_scCATCH
- AutoAnnotate_Garnett
- AutoAnnotate_CellAssign
- get_marker_file
- get_marker_scCATCH
- title: Cell type decomposition of bulk samples
- contents:
- decomposeBulk
- fractionHmp
- meanExpHmp
- title: Pseudotime trajectory inference
- contents:
- RunMonocle2
- RunMonocle3
- RunSlingshot
- RunCytoTRACE
- title: Built-in Shiny APP
- contents:
- load_shinyApp
- title: Other visualizaiton
- contents:
- constellationPlot
- RunMetacell
- title: Internal data
- contents:
- example_Ath
- example_Osa
- example_Zma
articles:
- title: Get started
navbar: ~
contents:
- pre-processing
- integration
- functional_annotation
- regulatory_network
- paired_motif_enrichment
- auto-annotation
- deconvolution
- pseudotime
- shiny_app
---
title: My Document
resource_files:
- images/shinyExample.gif
---