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Variant prioritisation, cram compression

mwham requested to merge variant_prioritisation into master
  • Adds pre-DECIPHER variant prioritisation
    • Modifies extract_*_FAM_PRO_ID.py
  • Adds post-DECIPHER variant prioritisation for trios
    • Uses DECIPHER_INTERNAL_IDs.txt from independent upload
  • Had to refactor some of the scripts in bin/ to work with Nextflow
  • Moves param defaults from main.nf to nextflow.config
  • Splits Cram compression/decompression off into their own workflow
  • Makes validation.nf less spammy
  • Adds a bunch of documentaton of channel formats
  • Makes test family IDs reflect reality better
Edited by mwham

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