Support mean.var.plot for HVGs

bbimber · bbimber · commit becb1f75345d · 2024-12-13T15:53:19.000-08:00
diff --git a/singlecell/src/org/labkey/singlecell/pipeline/singlecell/NormalizeAndScale.java b/singlecell/src/org/labkey/singlecell/pipeline/singlecell/NormalizeAndScale.java
@@ -22,7 +22,7 @@ public Provider()
         {
             super("NormalizeAndScale", "Normalize/Scale", "CellMembrane/Seurat", "This will run standard Seurat processing steps to normalize and scale the data.", Arrays.asList(
                     SeuratToolParameter.create("variableFeatureSelectionMethod", "Variable Feature Selection Method", "The value, passed directly to Seurat's FindVariableFeatures, variableFeatureSelectionMethod", "ldk-simplecombo", new JSONObject(){{
-                        put("storeValues", "vst");
+                        put("storeValues", "vst;mean.var.plot");
                         put("initialValues", "vst");
                         put("allowBlank", false);
                     }}, "vst"),

Original file line number	Diff line number	Diff line change
`@@ -22,7 +22,7 @@ public Provider()`
`22`	`22`	`{`
`23`	`23`	`super("NormalizeAndScale", "Normalize/Scale", "CellMembrane/Seurat", "This will run standard Seurat processing steps to normalize and scale the data.", Arrays.asList(`
`24`	`24`	`SeuratToolParameter.create("variableFeatureSelectionMethod", "Variable Feature Selection Method", "The value, passed directly to Seurat's FindVariableFeatures, variableFeatureSelectionMethod", "ldk-simplecombo", new JSONObject(){{`
`25`		`- put("storeValues", "vst");`
	`25`	`+ put("storeValues", "vst;mean.var.plot");`
`26`	`26`	`put("initialValues", "vst");`
`27`	`27`	`put("allowBlank", false);`
`28`	`28`	`}}, "vst"),`