trio_whole_exome_bcbio_template.yaml

details:
- algorithm:
    platform: illumina
    quality_format: standard
    aligner: bwa
    mark_duplicates: true
    realign: false
    recalibrate: true
    effects: vep
    effects_transcripts: all
    variantcaller: gatk-haplotype
    indelcaller: false
    remove_lcr: true
    tools_on:
    - vep_splicesite_annotations
  analysis: variant2
  genome_build: hg38
upload:
  dir: /scratch/u035/u035/shared/trio_whole_exome/analysis/output