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Is there a way to keep refcalls in merge_output.vcf.gz?

Status: Open.

#367 In HKU-BAL/Clair3;

· weishwu opened on Mar 3, 2025

Variant not picked for amplicon sequence

Status: Open.

#366 In HKU-BAL/Clair3;

· innamittal opened on Mar 3, 2025

GVCF output problem

Status: Open.

#365 In HKU-BAL/Clair3;

· jimmykhchiu opened on Feb 28, 2025

malloc(): unaligned tcache chunk detected

community support neededQuestions that are not directly related to development and can receive helps from the user communityQuestions that are not directly related to development and can receive helps from the user community

Status: Open.

#364 In HKU-BAL/Clair3;

· Biswanath2410 opened on Feb 26, 2025

Favor Pileup over Full_alignment when SNP has high QUAL and Full alignment incorrectly assigns as Refcall

Status: Open.

#360 In HKU-BAL/Clair3;

· wshropshire opened on Feb 13, 2025

Loosen the parallel 20191122.* bioconda pin

enhancementNew feature or requestNew feature or request

Status: Open.

#347 In HKU-BAL/Clair3;

· BioWilko opened on Nov 21, 2024

show more allele counts in INFO

enhancementNew feature or requestNew feature or request

Status: Open.

#320 In HKU-BAL/Clair3;

· hoyonh opened on Jul 12, 2024

choose pileup call over full-alignment call if pileup call has 1) a way higher QUAL, 2) is an indel

enhancementNew feature or requestNew feature or request

Status: Open.

#318 In HKU-BAL/Clair3;

· drtconway opened on Jul 2, 2024

Incorrect SNP representation when it overlaps a deletion

enhancementNew feature or requestNew feature or request

Status: Open.

#272 In HKU-BAL/Clair3;

· ymcki opened on Feb 23, 2024

Send adjacent SNP and Indel candidates both to full-alignment model

enhancementNew feature or requestNew feature or request

Status: Open.

#260 In HKU-BAL/Clair3;

· haraldgrove opened on Jan 10, 2024

Variant not detected within 16bp from the start/end

enhancementNew feature or requestNew feature or request

Status: Open.

#257 In HKU-BAL/Clair3;

· peterk87 opened on Dec 19, 2023