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Wrong phasing assertion by Whatshap 2.8

Status: Open.

#627 In whatshap/whatshap;

· gokalpcelik opened on Mar 7, 2026

About the haplotype of the splitted reads

Status: Open.

#625 In whatshap/whatshap;

· charliechen912ilovbash opened on Dec 15, 2025

[whatshap haplotag] Introduce invalid barcode screening

Status: Open.

#624 In whatshap/whatshap;

· pdimens opened on Nov 21, 2025

How to interpret colocalized SNPs on same haplotype?

Status: Open.

#623 In whatshap/whatshap;

· doshirLV opened on Oct 30, 2025

How does whatshap treat the splited read?

Status: Open.

#622 In whatshap/whatshap;

· charliechen912ilovbash opened on Oct 21, 2025

Question about generating phased reads for polishing haplotype assemblies

Status: Open.

#620 In whatshap/whatshap;

· kuanchiun opened on Sep 5, 2025

Incorrect phasing of a single variant - whatshap polyphase

Status: Open.

#619 In whatshap/whatshap;

· Jesspalmer92 opened on Jul 28, 2025

virtual parent

Status: Open.

#618 In whatshap/whatshap;

· Xiuqi123 opened on Jul 18, 2025

split not recognising certain fq extensions

Status: Open.

#615 In whatshap/whatshap;

· mattheatley opened on Jun 24, 2025

WhatsHap does not understand fasta of region on chr

Status: Open.

#614 In whatshap/whatshap;

· tobsecret opened on Jun 18, 2025

Document behavior of whatshap compare when phase sets are present

documentationImprovements or additions to documentationImprovements or additions to documentation

Status: Open.

#613 In whatshap/whatshap;

· tgong1 opened on Jun 17, 2025

comparing vcf files for switch errors

Status: Open.

#612 In whatshap/whatshap;

· rsandean opened on Jun 13, 2025