Issues

• Enable output as JSON for easier parsing

  enhancement
  nf-core/variantprioritization#105 · Filter by author mfranlab opened on Sep 24, 2026

• Somatic tumor only option fails due to mismatch in bin/pcgr_vcf.py

  bug
  nf-core/variantprioritization#104 · Filter by author mfranlab opened on Sep 22, 2026

• Add test with tumor-only VCF files

  enhancement
  nf-core/variantprioritization#98 · Filter by author famosab opened on Jun 3, 2026

• Catch sample name identifier length with validation to avoid errors

  enhancement
  nf-core/variantprioritization#97 · Filter by author famosab opened on Jun 3, 2026

• Space in manta vcf header causes bcftools norm error

  enhancement
  nf-core/variantprioritization#95 · Filter by author vmkalbskopf opened on May 18, 2026

• Considering moving the sample-specific parameters to samplesheet

  enhancement
  nf-core/variantprioritization#87 · Filter by author praveenraj2018 opened on Apr 1, 2026
  

• Add parameter --sex

  enhancement
  nf-core/variantprioritization#86 · Filter by author praveenraj2018 opened on Apr 1, 2026
  1

  

• Param --pcgr_run_arguments instead of divided params?

  Task

  nf-core/variantprioritization#77 · Filter by author famosab opened on Mar 16, 2026
  1

• Handling of multiple germline VCFs per sample

  enhancement
  Enhancement

  nf-core/variantprioritization#69 · Filter by author famosab opened on Feb 25, 2026

• Implement feature to aggregate multiple pcgr outputs into a multiqc report

  enhancement
  Enhancement

  nf-core/variantprioritization#62 · Filter by author YussAb opened on Feb 9, 2026
  

• Use bcftools/isec to improve local/isec_vcfs.py

  Task

  nf-core/variantprioritization#28 · Filter by author famosab opened on Oct 24, 2025