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Chromap Alleic Hi-C

Status: Open.

#208 In haowenz/chromap;

· BenxiaHu opened on Apr 17, 2026

Chromap HiChIP

Status: Open.

#205 In haowenz/chromap;

· BenxiaHu opened on Feb 23, 2026

Output gzipped pairs?

Status: Open.

#202 In haowenz/chromap;

· Phlya opened on Jan 13, 2026

When outputting pairs format, also output mapQ.

Status: Open.

#199 In haowenz/chromap;

· qz1024 opened on Dec 19, 2025

[BUG] Negative statistics in summary file when processing large datasets (~500 GB)

bugSomething isn't workingSomething isn't working

Status: Open.

#198 In haowenz/chromap;

· WANGchuang715 opened on Oct 24, 2025

create both bam and fragment for scATAC-seq

Status: Open.

#196 In haowenz/chromap;

· yang-kaist opened on Sep 24, 2025

[BUG] meet a error when I use it construct the index file

bugSomething isn't workingSomething isn't working

Status: Open.

#192 In haowenz/chromap;

· fly005304 opened on Aug 15, 2025

Translocations in alignment?

Status: Open.

#189 In haowenz/chromap;

· jeremymsimon opened on Jul 18, 2025

[BUG] Abnormal less mapped reads with soft-masked reference genome.

bugSomething isn't workingSomething isn't working

Status: Open.

#187 In haowenz/chromap;

· Runda-Xu opened on Jun 17, 2025

SAM output is erratic

Status: Open.

#185 In haowenz/chromap;

· fengchuiguo1994 opened on May 28, 2025

For CUT&Tag data

Status: Open.

#180 In haowenz/chromap;

· liufuyan2016 opened on Apr 19, 2025

is chromap suitable for 35bp single-end read of genomic DNA

Status: Open.

#179 In haowenz/chromap;

· liuhankui opened on Mar 19, 2025