From 538ff01f2e42bfe5023113b3b89301ea5041776f Mon Sep 17 00:00:00 2001
From: Laurent Modolo <laurent.modolo@ens-lyon.fr>
Date: Fri, 8 Oct 2021 16:59:44 +0200
Subject: [PATCH] agat: group by cds
---
src/nf_modules/agat/main.nf | 2 +-
1 file changed, 1 insertion(+), 1 deletion(-)
diff --git a/src/nf_modules/agat/main.nf b/src/nf_modules/agat/main.nf
index 03b1a3f5..a2e3d420 100644
--- a/src/nf_modules/agat/main.nf
+++ b/src/nf_modules/agat/main.nf
@@ -18,6 +18,6 @@ process gff_to_bed {
script:
"""
-agat_convert_sp_gff2bed.pl --gff ${gff} -o ${gff.simpleName}.bed
+agat_convert_sp_gff2bed.pl --gff ${gff} --sub cds -o ${gff.simpleName}.bed
"""
}
\ No newline at end of file
--
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