From cd2b26a84ac4e9e0ae6ca6532fb8c9286d1a3fc4 Mon Sep 17 00:00:00 2001
From: Brandi Cantarel <brandi.cantarel@utsouthwestern.edu>
Date: Tue, 13 Feb 2018 13:34:36 -0600
Subject: [PATCH] adding rnaseq umi
---
alignment/dnaseqalign.sh | 2 +-
alignment/rnaseqalign.sh | 2 +-
2 files changed, 2 insertions(+), 2 deletions(-)
diff --git a/alignment/dnaseqalign.sh b/alignment/dnaseqalign.sh
index c5793fa..219f7f8 100644
--- a/alignment/dnaseqalign.sh
+++ b/alignment/dnaseqalign.sh
@@ -7,7 +7,7 @@ usage() {
echo "-x --FastQ R1"
echo "-y --FastQ R2"
echo "-p --Prefix for output file name"
- echo "-u UMI"
+ echo "-u --UMI"
echo "Example: bash dnaseqalign.sh -p prefix -u 1 -r /project/shared/bicf_workflow_ref/GRCh38 -x SRR1551047_1.fastq.gz -y SRR1551047_2.fastq.gz"
exit 1
}
diff --git a/alignment/rnaseqalign.sh b/alignment/rnaseqalign.sh
index de0e0e6..52de23a 100644
--- a/alignment/rnaseqalign.sh
+++ b/alignment/rnaseqalign.sh
@@ -8,7 +8,7 @@ usage() {
echo "-y --FastQ R2"
echo "-a --Method: hisat or star"
echo "-p --Prefix for output file name"
- echo "-u [UMI sequences are in FQ Read Name]"
+ echo "-u --UMI sequences are in FQ Read Name"
echo "Example: bash rnaseqalign.sh -a hisat -p prefix -u -r /project/shared/bicf_workflow_ref/GRCh38 -x SRR1551047_1.fastq.gz -y SRR1551047_2.fastq.gz"
exit 1
}
--
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