From e93fedb1d46895c55a5397451e011da39de68dda Mon Sep 17 00:00:00 2001
From: Rachel LEGENDRE <rachel.legendre@pasteur.fr>
Date: Thu, 18 Nov 2021 14:55:38 +0100
Subject: [PATCH] Update config.yaml
---
config/config.yaml | 4 ++--
1 file changed, 2 insertions(+), 2 deletions(-)
diff --git a/config/config.yaml b/config/config.yaml
index 6140d49..a3db8b9 100644
--- a/config/config.yaml
+++ b/config/config.yaml
@@ -108,7 +108,7 @@ adapters:
cutadapt_file: file:config/TruSeq_Stranded_RNA.fa
alien_file: config/TruSeq_Stranded_RNA.fa
m: 25
- mode: a
+ mode: b
options: -O 6 --trim-n --max-n 1 # for cutadapt
#options: -k 10 -m 5 -p 80 # for alienTrimmer
quality: 30
@@ -144,7 +144,7 @@ bowtie2_mapping:
star_mapping:
do: yes
# for small genome, STAR may abort with segmentation fault. Setting sjdb Over hang to 250 skips this issue
- options: "--outFilterMismatchNoverLmax 0.05 --outSAMunmapped Within --sjdbOverhang 250"
+ options: "--outSAMunmapped None "
threads: 4
--
GitLab