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Commits on Dec 12, 2023

• Merge version number bump and NEWS file from master

  daviesrob

  committed
  0172073

• Release 1.19

  daviesrob

  committed
  bb75b76

Commits on Dec 11, 2023

• Do not flag paternal genotyping errors as de novo mutations.

  Show description for 37cf779
  pd3

  committed
  37cf779

Commits on Dec 1, 2023

• Fix the lost ability to filter on subfield names

  Show description for 4014f7e
  pd3

  committed
  4014f7e

Commits on Nov 30, 2023

• bcftools sort has duplicate -O in the usage

  

  nh13

  authored and

  pd3

  committed
  92f911b

• Remove forgotten debugging output

  pd3

  committed
  6e72e59

• Replace semicolons with commas

  Show description for d5d280b
  pd3

  committed
  d5d280b

Commits on Nov 29, 2023

• Add flexibility to FILTER column transfers

  Show description for 43d954e
  pd3

  committed
  43d954e

Commits on Nov 21, 2023

• Fix bus error in bcftools merge on armhf (32-bit hard-float)

  Show description for 752ce93
  

  daviesrob

  authored and

  pd3

  committed
  752ce93

Commits on Nov 9, 2023

• Add support for optional removal of the unseen allele

  Show description for 44deedc
  pd3

  committed
  44deedc

Commits on Nov 7, 2023

• Modify the interpretation -E, --error-probability

  Show description for 39a81be
  pd3

  committed
  39a81be

Commits on Nov 3, 2023

• New -s, --samples option to include the #CHROM header line with samples.

  Show description for bd85368
  pd3

  committed
  bd85368

• Improvements and changes in gtcheck

  Show description for 983e610
  pd3

  committed
  983e610

Commits on Nov 1, 2023

• Don't expand REF when symbolic <DEL> allele is present

  Show description for a1b781d
  pd3

  committed
  a1b781d

Commits on Oct 23, 2023

• New -*,--keep-unseen-allele option. Resolves samtools#2015

  pd3

  committed
  3b24f36

Commits on Oct 22, 2023

• Output MIN_DP instead of MinDP in gvcf mode

  pd3

  committed
  6374c6a

Commits on Oct 21, 2023

• Remove unused test

  pd3

  committed
  14ce44c

• Make --indels-2.0 work with BAM_CREF_SKIP operator

  Show description for 07bfddc
  pd3

  committed
  07bfddc

• Allow combining -m and -a with --old-rec-tag

  Show description for a012786
  pd3

  committed
  a012786

Commits on Oct 2, 2023

• Acknowledge functionality of -i'REF="N"'

  pd3

  committed
  2175551

Commits on Sep 13, 2023

• Add the number of merged lines to the summary output

  Show description for 2c81697
  pd3

  committed
  2c81697

Commits on Sep 6, 2023

• Silly error left vcmp uninitialized. Fixes samtools#1990

  pd3

  committed
  7a00a28

Commits on Sep 5, 2023

• Add new -F, --print-filtered option and include sample names in the header

  Show description for a220acf
  pd3

  committed
  a220acf

• Fix bcftools annotate --mark-sites

  Show description for 40aa67d
  pd3

  committed
  40aa67d

Commits on Aug 28, 2023

• Prevent multiple -w options, clarify documentation

  Show description for be69539
  pd3

  committed
  be69539

Commits on Aug 23, 2023

• [docs] add section on terminology. Resolves samtools#1982

  pd3

  committed
  4ddbb77

Commits on Aug 21, 2023

• Fix grammar in bcftools gtcheck help

  

  ghuls

  authored and

  pd3

  committed
  23dcc5a

• Filtering expressions can be given a file with list of strings to match

  Show description for ccc45f4
  pd3

  committed
  ccc45f4

Commits on Aug 3, 2023

• Add --disable-automatic-newline option; Improve automatic behavior

  Show description for c7cbe0b
  pd3

  committed
  c7cbe0b

• Stop make check from running tests twice

  

  daviesrob

  authored and

  pd3

  committed
  122a564

• Print uint32_t values via PRIu32 rather than %d [minor]

  

  jmarshall

  authored and

  pd3

  committed
  698773c

• Fix Makefile dependencies

  Show description for 94109ac
  

  jmarshall

  authored and

  pd3

  committed
  94109ac

• Move includes needed by gff.c (not by gff.h) to gff.c

  Show description for 6c9b541
  

  jmarshall

  authored and

  pd3

  committed
  6c9b541

Commits on Jul 25, 2023

• Merge version number bump and NEWS file from master

  daviesrob

  committed
  f6a4ae6

• Release 1.18

  daviesrob

  committed
  6c2c1e9

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