Issues

• Allow Ensembl VEP to take plugins and custom files

  enhancement
  nf-core/pacvar#60 · Filter by author chaochaowong opened on Jun 19, 2026
  

• Update the HiPhase module

  enhancement
  nf-core/pacvar#59 · Filter by author chaochaowong opened on Jun 19, 2026
  

• swapping the remaining modules to use topics

  enhancement
  nf-core/pacvar#58 · Filter by author chaochaowong opened on Jun 19, 2026
  

• PBSV_CALL inserts NUL bytes (^@) in the middle of a record?

  bughelp wanted
  nf-core/pacvar#47 · Filter by author MikeHala opened on Apr 6, 2026
  1

• Replace pipeline parameter skip_snp to skip_snv

  enhancement
  nf-core/pacvar#45 · Filter by author chaochaowong opened on Mar 16, 2026

• GATK needs a sequence dictionary to run

  enhancement
  nf-core/pacvar#27 · Filter by author jos4uke opened on Mar 1, 2025
  3

• ERROR nextflow.cli.Launcher

  nf-core/pacvar#18 · Filter by author quynhbui1907 opened on Feb 13, 2025
  3

• Expand on possible ref genome suffixes

  enhancement
  nf-core/pacvar#16 · Filter by author mvheetve opened on Feb 12, 2025