From 6ddf33f5b9ffce53eb24d0300177c4bb2ca3869e Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Wed, 21 Jul 2021 17:05:17 +0200
Subject: [PATCH] macs2: set default qvalue to 0.99
---
src/nf_modules/macs2/main.nf | 2 ++
1 file changed, 2 insertions(+)
diff --git a/src/nf_modules/macs2/main.nf b/src/nf_modules/macs2/main.nf
index 7742fcf4..51bed4be 100644
--- a/src/nf_modules/macs2/main.nf
+++ b/src/nf_modules/macs2/main.nf
@@ -30,6 +30,7 @@ macs2 callpeak \
--call-summits \
--control ${bam_control} \
--keep-dup all \
+ --qvalue 0.99 \
--name ${bam_ip.simpleName} 2> \
${bam_ip.simpleName}_macs2_report.txt
@@ -68,6 +69,7 @@ awk '{print \$1"\t"\$2"\t"\$3"\t.\t+\t"\$4}' ${bg_control} > \
macs2 callpeak \
${params.peak_calling_bg} \
--treatment ${bg_ip.simpleName}.bed \
+ --qvalue 0.99 \
--call-summits \
--control ${bg_control.simpleName}.bed \
--keep-dup all \
--
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