Search results

Possible memory leak by modkit sample-probs

Status: Open.

#592 In nanoporetech/modkit;

· Simon-Brandt opened on Mar 11, 2026

modkit dmr results- question

Status: Open.

#591 In nanoporetech/modkit;

· khushimamgain opened on Mar 11, 2026

Question about DMR pair results

Status: Open.

#590 In nanoporetech/modkit;

· zine-el-aabidine opened on Mar 10, 2026

How to extract one modification at a time- used to use --call-code parameter?

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

Status: Open.

#589 In nanoporetech/modkit;

· haileye4 opened on Mar 9, 2026

Using Modkit pileup --modified base C

Status: Open.

#587 In nanoporetech/modkit;

· serignebasse opened on Feb 27, 2026

Issue with ModKit DMR Analysis (m6A)

Status: Open.

#586 In nanoporetech/modkit;

· zine-el-aabidine opened on Feb 26, 2026

What does modkit extract calls do with reads that do not have a considered motif?

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

Status: Open.

#585 In nanoporetech/modkit;

· billytcl opened on Feb 22, 2026

CRAM Reference Path Issue in Nextflow Environments

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#584 In nanoporetech/modkit;

· zaka-edd opened on Feb 19, 2026

Large no. of reads go into "Nfail" column in pileup

bugSomething isn't workingSomething isn't working

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

Status: Open.

#583 In nanoporetech/modkit;

· gsukrit opened on Feb 17, 2026

Pileup in v6 not giving correct methylation versus the versions before

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

Status: Open.

#581 In nanoporetech/modkit;

· ArnavBharti opened on Feb 15, 2026

pileup command is giving BED files that dmr command says invalid-bedmethyl-data.

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#580 In nanoporetech/modkit;

· ArnavBharti opened on Feb 9, 2026

Question: modkit dmr pair throws invalid-bedmethyl-data when BedMethyl comes from pileup --partition-tag/--phased (HP-tagged BAM); splitting BAM by HP avoids the crash

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

troubleshootingworkflow and data preparation questionsworkflow and data preparation questions

Status: Open.

#579 In nanoporetech/modkit;

· ChenyuLi0627 opened on Feb 9, 2026