- #!/bin/sh
- #PBS -N MSIpair_15R_msisensor2
- #PBS -j oe
- #PBS -l ncpus=12
- #PBS -l nodes=1
- #PBS -l mem=20G
- source /home/liuxiangqiong/miniconda3/bin/activate base
- outputdir=${inputpath}/3MSI_msisensor2_pair
- msisensor2 msi -d /cgdata/liuxiangqiong/work62pancancer/pipeline/v0/refdata/MSI_15.slop50.msisensor.b37.str.tsv -n ${bam_dir}/${normal}_clean.bam -t ${bam_dir}/${tumor}_clean.bam -o ${outputdir}/${sample}.15STR
|
