Update analysis workflows to incorporate the latest song/score modules to support automation in Prod - Githubissues

icgc-argo / workflow-roadmap

Roadmap and management for genomic data processing

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Update analysis workflows to incorporate the latest song/score modules to support automation in Prod #361

Closed lindaxiang closed 1 year ago

lindaxiang commented 1 year ago

The analysis workflows to be updated:

[x] DNA-Seq alignment PR: https://github.com/icgc-argo-workflows/dna-seq-processing-wfs/pull/70
[x] Sanger WGS variant calling Issues: https://github.com/icgc-argo-workflows/sanger-wgs-variant-calling/issues/15 https://github.com/icgc-argo-workflows/sanger-wgs-variant-calling/issues/17

PR: https://github.com/icgc-argo-workflows/sanger-wgs-variant-calling/pull/16
[x] Saner WXS variant calling PR: https://github.com/icgc-argo-workflows/sanger-wxs-variant-calling/pull/18
[x] GATK-Mutect2 variant calling Issues: https://github.com/icgc-argo-workflows/gatk-mutect2-variant-calling/issues/33 PR: https://github.com/icgc-argo-workflows/gatk-mutect2-variant-calling/pull/34
[x] Open-access variant filtering PR: https://github.com/icgc-argo-workflows/open-access-variant-filtering/pull/5

lindaxiang commented 1 year ago

All tasks have been addressed, closing.