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Custom Ucell param should be a SeuratToolParameterDescriptor
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singlecell/src/org/labkey/singlecell/pipeline/singlecell/CustomUCell.java

Lines changed: 2 additions & 2 deletions
Original file line numberDiff line numberDiff line change
@@ -24,14 +24,14 @@ public static class Provider extends AbstractPipelineStepProvider<SingleCellStep
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public Provider()
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{
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super("CustomUCell", "UCell (Custom)", "UCell/RIRA", "The seurat object will be subset based on the expression below, which is passed directly to Seurat's subset(subset = X).", Arrays.asList(
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ToolParameterDescriptor.create("geneSets", "Gene Sets(s)", "This should contain one UCell module per line, where the module is in the format (no spaces): SetName:Gene1,Gene2,Gene3. The first token is the name given to UCell and the second is a comma-delimited list of gene names.", "sequenceanalysis-trimmingtextarea", new JSONObject(){{
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SeuratToolParameter.create("geneSets", "Gene Sets(s)", "This should contain one UCell module per line, where the module is in the format (no spaces): SetName:Gene1,Gene2,Gene3. The first token is the name given to UCell and the second is a comma-delimited list of gene names.", "sequenceanalysis-trimmingtextarea", new JSONObject(){{
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put("allowBlank", false);
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put("replaceAllWhitespace", true);
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put("height", 150);
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put("width", 600);
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put("delimiter", DELIM);
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put("stripCharsRe", "/['\"]/g");
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}}, null),
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}}, null).delimiter(DELIM),
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SeuratToolParameter.create("storeRanks", "Store Ranks", "Passed directly to UCell::AddModuleScore_UCell.", "checkbox", new JSONObject(){{
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}}, false),

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