From 0cbe350593602539709a46e4ecbcf57519979efa Mon Sep 17 00:00:00 2001
From: Mateusz Staniak <mtst@mstaniak.pl>
Date: Tue, 22 Nov 2022 00:26:27 +0100
Subject: [PATCH] changed default for useNumProteinsColumn in PD con

---
 R/converters.R | 2 +-
 1 file changed, 1 insertion(+), 1 deletion(-)

diff --git a/R/converters.R b/R/converters.R
index 06df7c8..af9bb3a 100644
--- a/R/converters.R
+++ b/R/converters.R
@@ -187,7 +187,7 @@ OpenMStoMSstatsTMTFormat = function(
 #' 
 PDtoMSstatsTMTFormat <- function(
   input, annotation, which.proteinid = 'Protein.Accessions', 
-  useNumProteinsColumn = TRUE, useUniquePeptide = TRUE, 
+  useNumProteinsColumn = FALSE, useUniquePeptide = TRUE, 
   rmPSM_withfewMea_withinRun = TRUE, rmProtein_with1Feature = FALSE, 
   summaryforMultipleRows = sum, 
   use_log_file = TRUE, append = FALSE, verbose = TRUE, log_file_path = NULL, ...