Search results

V0.6.1 does not work on pacbio samples, while v0.5.0 worked fine (no problems with ONT)

Status: Open.

#612 In nanoporetech/modkit;

· AmberVerhasselt opened on Apr 22, 2026

estimated pass threshold with default settings very high (v0.5.0 and v.0.6.1)

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#611 In nanoporetech/modkit;

· AmberVerhasselt opened on Apr 15, 2026

How to interpret Cohen_h CI

Status: Open.

#610 In nanoporetech/modkit;

· sulfudioxid opened on Apr 13, 2026

pileup CLI parse failure

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#609 In nanoporetech/modkit;

· aadali opened on Apr 10, 2026

Modkit pileup - segmentation fault and performance issues in high-coverage regions

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#607 In nanoporetech/modkit;

· mfurla opened on Apr 7, 2026

Discrepancy in calls when running individual modified base pileup and combined modbase pileup

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#606 In nanoporetech/modkit;

· gsukrit opened on Apr 7, 2026

modkit pileup --include-bed silently rejects BED4 files, produces zero valid positions with no warning

bugSomething isn't workingSomething isn't working

Status: Open.

#605 In nanoporetech/modkit;

· sahuno opened on Apr 6, 2026

Invalid data for modkit dmr pair

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#604 In nanoporetech/modkit;

· caballero opened on Apr 1, 2026

Question about DMR pair results

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

Status: Open.

#603 In nanoporetech/modkit;

· AlvinTam-lab opened on Mar 31, 2026

Can I use modkit pileup on newly identified insertions from ONT reads?

enhancementNew feature or requestNew feature or request

Status: Open.

#602 In nanoporetech/modkit;

· msfalmeida opened on Mar 26, 2026

Please provide a script to compile modkit for macOS

Status: Open.

#600 In nanoporetech/modkit;

· SuhasSrinivasan opened on Mar 23, 2026

--sampling-frac issues in v0.6.1

Status: Open.

#599 In nanoporetech/modkit;

· SuhasSrinivasan opened on Mar 21, 2026