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Differing number of variant read counts for v3.3.0 and v3.5.0 and above

Status: Open.

#111 In cancerit/cgpPindel;

· sb43 opened on Apr 26, 2024

Try to identify pindel output fields containing info related to Read Depth (mutated allele) and Reference Depth?

Status: Open.

#109 In cancerit/cgpPindel;

· ipstone opened on Nov 14, 2022

Check for complex indel events

Status: Open.

#106 In cancerit/cgpPindel;

· ThomasSClarke opened on Feb 23, 2022

speed up flagging with ItervalTree

enhancement

Status: Open.

#78 In cancerit/cgpPindel;

· keiranmraine opened on Jul 20, 2019

pindel_merge_vcf_bam.pl - output threads

Status: Open.

#76 In cancerit/cgpPindel;

· keiranmraine opened on Jul 8, 2019

germline.bed - sort, compress, index

Status: Open.

#71 In cancerit/cgpPindel;

· keiranmraine opened on Mar 5, 2019

Add precommit checks

Status: Open.

#65 In cancerit/cgpPindel;

· keiranmraine opened on Nov 22, 2018

Switch out bamcollate for samtools fast paired collate

Status: Open.

#60 In cancerit/cgpPindel;

· keiranmraine opened on May 4, 2018

VCF header - unstable ordering of contigs

enhancement

Status: Open.

#51 In cancerit/cgpPindel;

· keiranmraine opened on Jul 20, 2017

PindelRecordParser - investigate accurate VAF

enhancement

Status: Open.

#42 In cancerit/cgpPindel;

· keiranmraine opened on Dec 11, 2015