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Commits (2)
# prepare_wgs_data
Check WGS data
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Check WGS data
# 0. Downloads data
see details @ [mullus_surmuletus/infos](mullus_surmuletus/infos)
# 1. Check quality
## 1.1 Fastqc
We run fastqc on each fastq files. Reports are stored into [mullus_surmuletus/fastqc_report/](mullus_surmuletus/fastqc_report/)
```
nohup bash mullus_surmuletus/control_quality.sh &
```
## 1.2 MultiQC
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......@@ -5,7 +5,7 @@ SINGULARITY_IMG="/media/superdisk/utils/conteneurs/recettes/fastqc.simg"
## folder with fastq files path
RUN_FOLDER="/media/superdisk/popedna/donnees/ngs/mullus_surmuletus/"
## run fastqc on each fastq file
for FICHIER in $(ls ${RUN_FOLDER})
do
SAMPLE=`basename ${FICHIER}`
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