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Bug fix in trimmomatic paired-end flag.

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Hylke C. Donker 2021-03-10 13:45:06 +01:00
parent 1c42a61e48
commit 4b449ded08
1 changed files with 1 additions and 1 deletions
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rnaseq/step2_trim/snippet.sh
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@ -33,7 +33,7 @@ java -jar $EBROOTTRIMMOMATIC/trimmomatic.jar PE \
"${FASTQ_OUT}/sample1_R1_unpaired.fastq.gz" \ "${FASTQ_OUT}/sample1_R1_unpaired.fastq.gz" \
"${FASTQ_OUT}/sample1_R2_paired.fastq.gz" \ "${FASTQ_OUT}/sample1_R2_paired.fastq.gz" \
"${FASTQ_OUT}/sample1_R2_unpaired.fastq.gz" \ "${FASTQ_OUT}/sample1_R2_unpaired.fastq.gz" \
ILLUMINACLIP: TruSeq3-PE.fa:2:30:10 \ ILLUMINACLIP:TruSeq3-PE.fa:2:30:10 \
LEADING:3 \ LEADING:3 \
TRAILING:3 \ TRAILING:3 \
SLIDINGWINDOW:4:25 \ SLIDINGWINDOW:4:25 \