Commits

History for

Commits on Aug 30, 2026

New option `-F, --format` to extend the consequence annotation.
pd3
committed
905ea78

Commits on Aug 28, 2026

To comply with the VCF specification, the INFO/MQ output tag is now declared as Type=Float rather than Type=Integer
pd3
committed
9fb92d7

Commits on Aug 21, 2026

New option `--allow` to selectively relax validation checks
pd3
committed
6eaa935

Commits on Jul 23, 2026

Add more CI tests for linux containers and BSD/Solaris VMs

jkbonfield
authored and
pd3
committed
61ba4d0

Commits on Jun 23, 2026

Change sort order for trio-dnm3 test file

daviesrob
authored and
whitwham
committed
7813ff9

Commits on Jun 16, 2026

Fix the -v/V, --types/--exclude-types option to work with ref
pd3
committed
8d3f754
Merge branch 'develop' of github.com:samtools/bcftools into develop
pd3
committed
c972fb2
Add support for SnpEff output
pd3
committed
3b0ec92

Commits on Jun 1, 2026

Commits on May 22, 2026

Add a new -G, --greedy option
pd3
committed
90e6025

Commits on May 20, 2026

Stage text output through canonical VCF consequences
pd3
committed
e0ec6ab
Add forgotten test file
pd3
committed
da89859

Commits on May 19, 2026

Fix sex handling and report non-error trio states
pd3
committed
6dbd8fe

Commits on May 18, 2026

Fix a start_lost issue in haplotype mode
pd3
committed
eecce29

Commits on May 7, 2026

Remove usage of sprintf()

daviesrob
authored and
pd3
committed
7fd0dfb

Commits on Apr 7, 2026

Fix erroneous INFO/END recalculation; New --no-realign option
pd3
committed
d937577

Commits on Apr 3, 2026

Extend per-population filtering
pd3
committed
381e693

Commits on Mar 31, 2026

Commits on Mar 30, 2026

Update test
pd3
committed
c9224d0
Update test
pd3
committed
529d2ce
Add part #1 of #2524, adding a test and fixing the introduced bug
pd3
committed
449a8af
Add new `-m exact` merging mode. Resolves #2498
pd3
committed
9be8367
Make test sort use the same order on windows and linux
pd3
committed
89dfe49
Add test for #2520
pd3
committed
d73ed56
Update tests
pd3
committed
78c13cd

Commits on Mar 27, 2026

Add missing test file
pd3
committed
391af41
Fix per-sample statistics
pd3
committed
e4b8ecf
Fix OOB codon
pd3
committed
d2ed9a6

Commits on Mar 26, 2026

Add forgotten test file
pd3
committed
5f4fd43
Fix a bug in annotation renaming via `--rename-annots` and `-c NEW:=OLD`,
pd3
committed
83dad30

Commits on Mar 24, 2026

Make --gvcf2vcf work around malformed gVCF records
pd3
committed
0b249f0

Commits on Mar 23, 2026

Add new --with-cAD option
pd3
committed
ff97925

Commits on Mar 19, 2026

Fix Windows trio-dnm3 tests.

jkbonfield
authored and
pd3
committed
98c99a0