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2 Workflows visible to you, out of a total of 2
Work-in-progress

SLURM HPC Cromwell implementation of GATK4 germline variant calling pipeline

See the GATK website for more information on this toolset

Assumptions

  • Using hg38 human reference genome build
  • Running using HPC/SLURM scheduling. This repo was specifically tested on Pawsey Zeus machine, primarily running in the /scratch partition.
  • Starting from short-read Illumina paired-end fastq files as input

Dependencies

The following versions have been ...

Type: Workflow Description Language

Creators: None

Submitter: Sarah Beecroft

Work-in-progress

Local Cromwell implementation of GATK4 germline variant calling pipeline

See the GATK website for more information on this toolset

Assumptions

  • Using hg38 human reference genome build
  • Running 'locally' i.e. not using HPC/SLURM scheduling, or containers. This repo was specifically tested on Pawsey Nimbus 16 CPU, 64GB RAM virtual machine, primarily running in the /data volume storage partition.
  • Starting from short-read Illumina paired-end fastq ...

Type: Workflow Description Language

Creators: None

Submitter: Sarah Beecroft

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