Merge pull request #154 from zhanghao-njmu/develop

Develop
zhanghao-njmu · Sep 1, 2023 · c2f6a55 · c2f6a55
2 parents 5141d48 + a79c2da
commit c2f6a55
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Showing 8 changed files with 1,113 additions and 1,090 deletions.
diff --git a/R/SCP-analysis.R b/R/SCP-analysis.R
@@ -3528,8 +3528,8 @@ RunEnrichment <- function(srt = NULL, group_by = NULL, test.use = "wilcox", DE_t
 #'   scoreType = "std", db = "GO_BP", species = "Mus_musculus"
 #' )
 #' GSEAPlot(pancreas_sub, db = "GO_BP", group_by = "CellType", plot_type = "comparison")
-#' GSEAPlot(pancreas_sub, db = "GO_BP", group_by = "CellType", group_use = "Ductal", geneSetID = "GO:0006412")
-#' GSEAPlot(pancreas_sub, db = "GO_BP", group_by = "CellType", group_use = "Endocrine", geneSetID = c("GO:0046903", "GO:0015031", "GO:0007600"))
+#' GSEAPlot(pancreas_sub, db = "GO_BP", group_by = "CellType", group_use = "Ductal", id_use = "GO:0006412")
+#' GSEAPlot(pancreas_sub, db = "GO_BP", group_by = "CellType", group_use = "Endocrine", id_use = c("GO:0046903", "GO:0015031", "GO:0007600"))
 #'
 #' # Remove redundant GO terms
 #' pancreas_sub <- RunGSEA(srt = pancreas_sub, group_by = "CellType", db = "GO_BP", GO_simplify = TRUE, species = "Mus_musculus")