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pileup: worker panic (base_mods_adapter.rs:80 "entered unreachable code") is silently swallowed in whole-genome mode — presents as an infinite zero-CPU hang

Status: Open.

#719 In nanoporetech/modkit;

· eelkebos opened on Aug 25, 2026

Question regarding region-based DMR analysis

Status: Open.

#718 In nanoporetech/modkit;

· tinatucci opened on Aug 25, 2026

Bug in modkit v0.6.4："fail" column in "modkit extract calls" output may use MM tag when matching --filter-threshold, G-h and G-m are not recognized as C

bugSomething isn't workingSomething isn't working

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#717 In nanoporetech/modkit;

· jinglicharles-pixel opened on Aug 23, 2026

Effect of unequal coverage and lack of biological replicates on global 6mA comparisons

Status: Open.

#716 In nanoporetech/modkit;

· angelluigi opened on Aug 20, 2026

Bug in modkit extract full, canonical_base does not match reference sequence

Status: Open.

#715 In nanoporetech/modkit;

· awjga opened on Aug 19, 2026

Modkit extract calls: 5hmC ("h") calls correspond mostly to <50% Mod_qual from modkit extract full

Status: Open.

#646 In nanoporetech/modkit;

· ahong017 opened on Aug 3, 2026

Question regarding N1-methylpseudouridine detection support

Status: Open.

#645 In nanoporetech/modkit;

· Seongmin-Jang-1165 opened on Aug 3, 2026

Bug in modkit pileup with --combine-mods v0.6.4

Status: Open.

#644 In nanoporetech/modkit;

· SchwarzMarek opened on Jul 30, 2026

max-depth and high-depth options

Status: Open.

#643 In nanoporetech/modkit;

· SchwarzMarek opened on Jul 27, 2026

Abnormal color gradient observed when plotting using the dmr isoform command

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#642 In nanoporetech/modkit;

· rain-zjg opened on Jul 27, 2026

Does modkit sample-probs still have an option for only mapped regions?

build-availablecustom build produced for fix.custom build produced for fix.

questionLooking for clarification on inputs and/or outputsLooking for clarification on inputs and/or outputs

Status: Open.

#641 In nanoporetech/modkit;

· MafaldaSoares opened on Jul 22, 2026

modkit (V0.6.4 )pileup hangs mid-run (process alive, 0% CPU) on large metagenomic BAM

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#640 In nanoporetech/modkit;

· ran525 opened on Jul 18, 2026