Issues

• Variants reported in haplogroups.txt not present in variants.annotated.txt

  genepi/mtdna-server-2#35 · Filter by author kelly-chen6 opened on Apr 7, 2026

• [possible bug] calling actual reference variant as high heteroplasmic

  genepi/mtdna-server-2#34 · Filter by author wwoskie opened on Dec 16, 2025

• Some variants are not being reported (including a known pathogenic one)

  genepi/mtdna-server-2#32 · Filter by author amhaaning opened on Jul 11, 2025
  6

• BUG: Reporting single variant for multiallelic variants

  genepi/mtdna-server-2#30 · Filter by author amhaaning opened on Apr 30, 2025
  3

• Process MTDNA_SERVER_2:QUALITY_CONTROL terminated with an error exit status (137)

  genepi/mtdna-server-2#29 · Filter by author PawelWojciechowski opened on Apr 15, 2025
  3

• Low mean coverage setting

  genepi/mtdna-server-2#28 · Filter by author jannavb opened on Apr 8, 2025
  2

• Is it possible to keep the merged, filtered VCF?

  genepi/mtdna-server-2#27 · Filter by author amhaaning opened on Mar 13, 2025
  3

• ERROR ~ Unable to parse config file: '/media/manish/Data/Jyoti_Mridha_AIC/Program/mtdna-server-2-2.1.14/nextflow.config'

  genepi/mtdna-server-2#26 · Filter by author Jyoti-Mridha opened on Sep 18, 2024
  2

• Feature request: publishDir, annotation , etc...

  genepi/mtdna-server-2#25 · Filter by author lindenb opened on Jun 10, 2024
  1