Issues

• Add and test GR tag during surject (plus implement some kind of post-processing)

  NBISweden/grave#46 · Filter by author CormacKinsella opened on Jun 26, 2026
  3

• VCF processing, annotation intersection

  NBISweden/grave#42 · Filter by author CormacKinsella opened on Jun 24, 2026
  1

• graphs with phased haplotypes - potential name clash in multiref mode

  NBISweden/grave#41 · Filter by author CormacKinsella opened on Jun 24, 2026

• Intersect graph & linear VCFs - consensus mode?

  NBISweden/grave#38 · Filter by author CormacKinsella opened on Jun 17, 2026

• aDNA graph construction and MAPQ defaults

  NBISweden/grave#35 · Filter by author CormacKinsella opened on Jun 16, 2026

• kraken2 prefiltering

  NBISweden/grave#34 · Filter by author CormacKinsella opened on Jun 15, 2026

• Update links in test ymls (once repo public)

  NBISweden/grave#26 · Filter by author CormacKinsella opened on Jan 30, 2026
  1

• Unmerged aDNA, consider improvements

  Chore

  NBISweden/grave#25 · Filter by author CormacKinsella opened on Oct 7, 2025

• VG_GENOTYPE module future improvements

  ideal
  NBISweden/grave#24 · Filter by author CormacKinsella opened on Oct 6, 2025

• GATK caller

  NBISweden/grave#20 · Filter by author CormacKinsella opened on Sep 16, 2025

• remove multiref requirement for paths files

  enhancement
  Task

  NBISweden/grave#18 · Filter by author CormacKinsella opened on Sep 9, 2025

• read length distribution reports & GC content

  enhancement
  Feature

  NBISweden/grave#14 · Filter by author CormacKinsella opened on Aug 19, 2025