lethalfang/strelka repository overview

⁠Example command

docker run -v /:/mnt -i lethalfang/strelka:2.8.2
/opt/strelka/bin/configureStrelkaSomaticWorkflow.py
--tumorBam=/mnt/ABSOLUTE/PATH/TO/Tumor.bam
--normalBam=/mnt/ABSOLUTE/PATH/TO/Matched_Normal.bam
--referenceFasta=/mnt/ABSOLUTE/PATH/TO/GRCh38.fa
--callMemMb=4096
--exome
--callRegions=/mnt/indexBED_regions.bed.gz
--runDir=/mnt/ABSOLUTE/PATH/TO/RESULTS/Strelka

docker run -v /:/mnt -i lethalfang/strelka:2.8.2
/mnt/ABSOLUTE/PATH/TO/RESULTS/Strelka/runWorkflow.py -m local -j 1