From a860ade5d655f9d50b7dbebaad71f3da83243b7d Mon Sep 17 00:00:00 2001 From: Yasset Perez-Riverol Date: Fri, 15 Sep 2023 15:06:43 +0100 Subject: [PATCH] do not remove a plot for all proteins in msstats_tmt.R --- bin/msstats_tmt.R | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/bin/msstats_tmt.R b/bin/msstats_tmt.R index 61e1fb57..c975ac5a 100755 --- a/bin/msstats_tmt.R +++ b/bin/msstats_tmt.R @@ -814,7 +814,7 @@ processed.quant <- proteinSummarization(quant, method=args[8],remove_empty_chann reference_norm=reference_norm, remove_norm_channel=remove_norm_channel ) -dataProcessPlotsTMT(processed.quant, "ProfilePlot", width=12, height=12, which.Protein="all") +dataProcessPlotsTMT(processed.quant, "ProfilePlot", width=12, height=12, which.Protein="allonly") dataProcessPlotsTMT(processed.quant, "QCPlot", width=12, height=12, which.Protein="allonly") lvls <- levels(as.factor(processed.quant$ProteinLevelData$Condition))