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<code>mpileup --max-depth 0</code>?

Status: Open.

#2435 In samtools/bcftools;

· schorlton-bugseq opened on Jul 11, 2025

Sample names cannot be included in +split-vep output

Status: Open.

#2434 In samtools/bcftools;

· JamesR-S opened on Jul 10, 2025

Building sequences using ref+clinvar but there are no variant applied (no errors given)

Status: Open.

#2433 In samtools/bcftools;

· Chiara2d94 opened on Jul 9, 2025

gtcheck -i qry|gt prefix not removed

Status: Open.

#2432 In samtools/bcftools;

· aheinzel opened on Jul 7, 2025

bcftools view changes GT format field value when it is declared as Type=Integer

Status: Open.

#2431 In samtools/bcftools;

· jkmatila opened on Jul 3, 2025

reheader: unrecognized option '--samples-file'

Status: Open.

#2430 In samtools/bcftools;

· haa-essex opened on Jul 3, 2025

bcftools call with "-m" and "--ploidy 1" ignores mpileup heterozygous allele data

Status: Open.

#2429 In samtools/bcftools;

· korneel-emweb opened on Jul 2, 2025

Add a AB tag based on AD and DP

Status: Open.

#2428 In samtools/bcftools;

· ryshi06 opened on Jul 1, 2025

bcftools norm unknown segfault

Status: Open.

#2427 In samtools/bcftools;

· BioWilko opened on Jul 1, 2025

<code>bcftools convert --tsv2vcf</code> with sites-only input generates an incorrect vcf header

Status: Open.

#2426 In samtools/bcftools;

· dvg-p4 opened on Jun 30, 2025

bcftools merge works but outputs a merged vcf with some of the genotypes prefixed with "/" e.g. /0|0, /0|1, /1|1 etc

htslib-dependentCannot be fixed until htslib is fixedCannot be fixed until htslib is fixed

Status: Open.

#2422 In samtools/bcftools;

· mubita3 opened on Jun 22, 2025

bcftools view to subset VCF by region file in BED format gives only header without warning or error

requires-test-case

Status: Open.

#2421 In samtools/bcftools;

· yifangt opened on Jun 19, 2025