Skip to content

Pull requests: samtools/htslib

New pull request New
28 Open 1,155 Closed
28 Open 1,155 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Reviews
Filter by reviews
No reviews Review required Approved review Changes requested
Assignee
Filter by who’s assigned
Assigned to nobody Loading
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Pull requests list

Consolidate and simplify SAM header parsing
#1947 opened Aug 18, 2025 by daviesrob
Fix compilation failure on MacOS X 10.9 (and likely other very old platforms)
#1945 opened Aug 14, 2025 by daviesrob
1
1
For the VCF rlen calculation, only use SVLEN for DEL, DUP and CNV symbolic alleles
#1942 opened Aug 4, 2025 by daviesrob • Approved
1
@pd3 @vasudeva8
4
converting bcf 1st phase data as in v44
#1938 opened Jul 22, 2025 by vasudeva8
@daviesrob
16
ISA-L compression support evaluation.
#1908 opened Apr 29, 2025 by rhpvorderman • Draft
2
Add support for VCFv4.4 / VCFv4.5 Number= fields
#1874 opened Jan 16, 2025 by daviesrob • Draft
2
Add VCF/BCF support for POS=0 coordinate
#1573 opened Mar 1, 2023 by pd3
1
5
Proposal to add hts_log callback function and hts_log_set_logger()
#1414 opened Mar 23, 2022 by jmarshall • Draft
@daviesrob
2
Progress and Cancelation for Indexing
#1379 opened Jan 12, 2022 by BickfordA
11
Iteration over SAM header lines and header expression filtering
#1351 opened Nov 2, 2021 by jmarshall • Draft
@whitwham
2
Improve cross-compilation support [once autoconf 2.70 is widespread]
#1199 opened Jan 4, 2021 by jmarshall • Draft
2
improve compatibility for c++
#1191 opened Dec 11, 2020 by s-wakaba
6
Update to the depth filtering for mpileup.
#1084 opened Jun 15, 2020 by jkbonfield
4
Speed up of VCF parsing / writing with FORMAT fields.
#1081 opened May 28, 2020 by jkbonfield
4
Add method sam_open_write
#1055 opened Apr 6, 2020 by valeriuo
14
Fixes involving CRAM and header API for long references.
#976 opened Nov 15, 2019 by jkbonfield
2
sam_format1 : replace if/then with switch/case
#704 opened May 24, 2018 by lindenb
1
Add mmap hfile backend
#690 opened Apr 23, 2018 by ThomasHickman
12
Provide more informative error message when encountering unexpected n…
#689 opened Apr 22, 2018 by cinquin
2
Add hts_open_cb() interface which allows callback function used as data source
#647 opened Jan 10, 2018 by 38
12
Abstract ref_to_m5 from cram_io
#589 opened Sep 8, 2017 by ThomasHickman • Changes requested
@jkbonfield
37
Added "make dist" and "make distcheck" targets.
#533 opened May 15, 2017 by jkbonfield
Add a flexible array member to the bam1_t struct to facilitate a BAM … breaks-ABI
#393 opened Jun 21, 2016 by nathanweeks
1
IAM role support enhancement
#362 opened Mar 28, 2016 by jpiper
6
vcf.h: Remove const specifiers that are not honoured
#274 opened Sep 22, 2015 by noporpoise
6
ProTip! Filter pull requests by the default branch with base:develop.