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nf-cmgg / structural

A bioinformatics best-practice analysis pipeline for calling structural variants (SVs), copy number variants (CNVs) and repeat region expansions (RREs) from short DNA reads
https://nf-cmgg.github.io/structural/
MIT License
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Add comprehensive filter steps #54

Closed nvnieuwk closed 1 year ago

nvnieuwk commented 1 year ago

Description of feature

After Jasmine some filter steps should still be added.

  1. A possibility to filter commonly occurring variants given through an input VCF
  2. A way to hard filter based on fields (like you can do with bcftools filter)
nvnieuwk commented 1 year ago

=> Add annotations from the input VCF with vcfanno => filter on these annotations to remove common variants

nvnieuwk commented 1 year ago

Added in #55