From 6c0e8739e4ece19807bfd97d1a988afd78630b0a Mon Sep 17 00:00:00 2001
From: Brandi Cantarel <brandi.cantarel@utsouthwestern.edu>
Date: Sun, 9 Feb 2020 15:42:20 -0600
Subject: [PATCH] missing snpeffgeno option
---
variants/uni_norm_annot.sh | 4 ++++
1 file changed, 4 insertions(+)
diff --git a/variants/uni_norm_annot.sh b/variants/uni_norm_annot.sh
index 2fa40ac..ffb9c50 100755
--- a/variants/uni_norm_annot.sh
+++ b/variants/uni_norm_annot.sh
@@ -33,6 +33,10 @@ else
usage
fi
+if [[ -z $snpeffgeno ]]
+then
+ snpeffgeno='GRCh38.86'
+fi
source /etc/profile.d/modules.sh
module load bedtools/2.26.0 samtools/1.6 bcftools/1.6 snpeff/4.3q
--
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