broadinstitute/fungal-wdl

Issues

• Doc: Indicate GATK4 dockerhub links for ease of usage

  #20 opened a year ago by xiaoli0
  0

• Add BAM Alignment and QC module before alignment

  #3 opened 4 years ago by xiaoli0
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• Add variant QC modules

  #4 opened 4 years ago by xiaoli0
  0

• add back scatter gather feature of GATK to speed up analysis

  #12 opened 4 years ago by xiaoli0
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• add GATK filtering step

  #13 opened 4 years ago by xiaoli0
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• Add a GATK4 wdl

  #14 opened 4 years ago by xiaoli0
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• Terra tutorial

  #17 opened 5 years ago by xiaoli0
  0

• snpeff tests

  #15 opened 6 years ago by xiaoli0
  1

• write documentation for utilizing firecloud

  #16 opened 6 years ago by xiaoli0
  0

• remove indel realignment

  #10 opened 6 years ago by xiaoli0
  0

• get jars from online

  #11 opened 5 years ago by xiaoli0
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• update docker image to export tools to PATH

  #9 opened 6 years ago by xiaoli0
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• Use compressed files in germline variant calling

  #6 opened 5 years ago by xiaoli0
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• Downgrade from GATK4 to GATK3

  #7 opened 6 years ago by xiaoli0
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• fix output name from GVCF to VCF

  #8 opened 6 years ago by xiaoli0
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• remove sample bam list input

  #5 opened 6 years ago by xiaoli0
  0

• improve germline calling

  #1 opened 6 years ago by xiaoli0
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• docker image for the workflow

  #2 opened 6 years ago by xiaoli0
  0