fix: hmrf and cross section functions

iqraAmin · May 21, 2024 · 490b714 · 490b714
1 parent cbf05ad
commit 490b714
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diff --git a/DESCRIPTION b/DESCRIPTION
@@ -42,7 +42,7 @@ Imports:
     ggplot2 (>= 3.1.1),
     ggrepel,
     GiottoUtils (>= 0.1.7),
-    GiottoVisuals (>= 0.2.0),
+    GiottoVisuals (>= 0.2.1),
     igraph (>= 1.2.4.1),
     jsonlite,
     limma,

diff --git a/NAMESPACE b/NAMESPACE
@@ -145,8 +145,8 @@ export(create_jackstrawplot)
 export(create_screeplot)
 export(crop)
 export(cropGiottoLargeImage)
-export(crossSectionGenePlot)
-export(crossSectionGenePlot3D)
+export(crossSectionFeatPlot)
+export(crossSectionFeatPlot3D)
 export(crossSectionPlot)
 export(crossSectionPlot3D)
 export(detectSpatialCorFeats)
@@ -258,7 +258,7 @@ export(heatmSpatialCorGenes)
 export(hexVertices)
 export(hyperGeometricEnrich)
 export(initHMRF_V2)
-export(insertCrossSectionGenePlot3D)
+export(insertCrossSectionFeatPlot3D)
 export(insertCrossSectionSpatPlot3D)
 export(installGiottoEnvironment)
 export(instructions)

diff --git a/NEWS.md b/NEWS.md
@@ -1,4 +1,19 @@
 
+# Giotto 4.0.7
+
+## Breaking changes
+* `crossSectionGenePlot()` removed. Use `crossSectionFeatPlot()` instead
+* `crossSectionGenePlot3D()` removed. Use `crossSectionFeatPlot3D()` instead
+* `insertCrossSectionGenePlot3D()` removed Use `insertCrossSectionFeatPlot3D()` instead
+
+## Bug fixes
+* `binSpect()` param passing error introduced in _v4.0.6_
+* updated `viewHMRFresults3D()` and `viewHMRFresults2D()`
+* updated `createCrossSections()`, `insertCrossSectionSpatPlot3D()`, `crossSectionPlot()`, `crossSectionFeatPlot3D()`, `insertCrossSectionFeatPlot3D()`, `crossSectionPlot3D()`, `crossSectionFeatPlot()`
+
+## Changes
+* GiottoVisuals (>= 0.2.1) and GiottoClass (>= 0.3.1) are now required.
+
 # Giotto 4.0.6 (2024/05/13)
 
 ## Enhancements