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Change CNV callers

question

Status: Open.

#305 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Jan 29, 2025

hgvs_indels.py: Substitutions with length of short_seq1 of 0

bug

Status: Open.

#301 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Nov 9, 2024

If "fs*" is in hgvs_id, annotate_snvs_indels.py gets confused with OncoKB indels

bug

Status: Open.

#300 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Mar 22, 2023

For splice-site indels, mark CanDL and OncoKB annotation as False

bug

Status: Open.

#299 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Oct 2, 2022

Account for indel length when flagging MSI indels

bug

Status: Open.

#298 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Sep 27, 2022

"?" in CanDL SNVs mutant condons

bug

Status: Open.

#297 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Jul 19, 2022

Length of poor-seq regions

enhancement

Status: Open.

#294 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Apr 14, 2022

Patient 661

bug

Status: Open.

#290 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Feb 18, 2022

1N mult T datasets: epilog data being printed multiple times

enhancement

Status: Open.

#289 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Nov 29, 2021

One of the patients has a MYD88 mutations that misses an amino acid change

bug

Status: Open.

#288 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Nov 12, 2021

hgvs_indels.py: "coding_start" and "coding_end" does not need to regard strand.

bug

Status: Open.

#287 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on Jun 1, 2021

MNP's should be annotated as CanDL or OncoKB SNVs

enhancement

Status: Open.

#283 In OSU-SRLab/DNASeq;

· esamorodnitsky opened on May 6, 2021