I ran nextflow sarek previously without issue with ```nextfl nf-core #raredisease

I ran nextflow sarek previously without issue with...

Madhava Jay

06/04/2025, 2:39 AM

I ran nextflow sarek previously without issue with:

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nextflow run nf-core/sarek \
  -r 3.5.1 \
  -profile docker \
  --input ./samplesheet.csv \
  --outdir ./results \
  --genome GATK.GRCh38 \
  --tools manta,strelka,tiddit,vep,snpeff,controlfreec \
  --step mapping

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