Search results

Incorrect allele ("2") in... when trying to merge, merged files

Status: Open.

#2488 In samtools/bcftools;

· j-gillespie-dna opened on Dec 12, 2025

fixref round up float numbers, convert small numbers to 0.

Status: Open.

#2486 In samtools/bcftools;

· logust79 opened on Nov 27, 2025

Site with low DP retained after applying FORMAT/DP>=10 filter in bcftools view

Status: Open.

#2485 In samtools/bcftools;

· hungweichen0327 opened on Nov 26, 2025

plugin trio-dnm2 with deepvariant vcf

Status: Open.

#2484 In samtools/bcftools;

· fcliquet opened on Nov 25, 2025

norm -m + --atomize inconsistent representation of complex variants

Status: Open.

#2482 In samtools/bcftools;

· mi3112 opened on Nov 24, 2025

GQ not included in bcf output - beginner question

Status: Open.

#2480 In samtools/bcftools;

· sagedale opened on Nov 18, 2025

bcftools csq throw sanity_check_ref error and could not pass by --force

Status: Open.

#2478 In samtools/bcftools;

· qqwang-berkeley opened on Nov 14, 2025

bcftools norm crashes with combination of --atomize and -m -indels

Status: Open.

#2476 In samtools/bcftools;

· wm75 opened on Nov 6, 2025

Inexplicable +prune behavior

Status: Open.

#2475 In samtools/bcftools;

· shbrainard opened on Oct 31, 2025

<code>bcftools merge</code> seemingly opens all files together, hitting open file limits

Status: Open.

#2474 In samtools/bcftools;

· jchorl opened on Oct 30, 2025

documentation for <code>--pair-logic</code> is missing

Status: Open.

#2472 In samtools/bcftools;

· TedBrookings opened on Oct 28, 2025

bcftools stats --samples-file give wrong results if sample order is different than vcf

Status: Open.

#2469 In samtools/bcftools;

· niederhuth opened on Oct 20, 2025