Pull requests: samtools/htslib

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Pull requests list

hts wide maxdepth limit check

#1965 opened Oct 30, 2025 by vasudeva8 • Draft

S3 Code Rewrite

#1958 opened Oct 1, 2025 by whitwham • Draft

@daviesrob

ISA-L compression support evaluation.

#1908 opened Apr 29, 2025 by rhpvorderman • Draft

Add VCF/BCF support for POS=0 coordinate

#1573 opened Mar 1, 2023 by pd3

Proposal to add hts_log callback function and hts_log_set_logger()

#1414 opened Mar 23, 2022 by jmarshall • Draft

@daviesrob

Progress and Cancelation for Indexing

#1379 opened Jan 12, 2022 by BickfordA

Iteration over SAM header lines and header expression filtering

#1351 opened Nov 2, 2021 by jmarshall • Draft

@whitwham

Improve cross-compilation support [once autoconf 2.70 is widespread]

#1199 opened Jan 4, 2021 by jmarshall • Draft

improve compatibility for c++

#1191 opened Dec 11, 2020 by s-wakaba

Update to the depth filtering for mpileup.

#1084 opened Jun 15, 2020 by jkbonfield

Speed up of VCF parsing / writing with FORMAT fields.

#1081 opened May 28, 2020 by jkbonfield

Add method sam_open_write

#1055 opened Apr 6, 2020 by valeriuo

Fixes involving CRAM and header API for long references.

#976 opened Nov 15, 2019 by jkbonfield

sam_format1 : replace if/then with switch/case

#704 opened May 24, 2018 by lindenb

Add mmap hfile backend

#690 opened Apr 23, 2018 by ThomasHickman

Provide more informative error message when encountering unexpected n...

#689 opened Apr 22, 2018 by cinquin

Add hts_open_cb() interface which allows callback function used as data source

#647 opened Jan 10, 2018 by 38

Abstract ref_to_m5 from cram_io

#589 opened Sep 8, 2017 by ThomasHickman

@jkbonfield

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

IAM role support enhancement

#362 opened Mar 28, 2016 by jpiper

[DISCUSS] Add HTS_PARSE_* parsing flags

#260 opened Aug 26, 2015 by jmarshall

wishlist

for creating indexing file in samtools merge D2: Moderate P2: Desirable

#193 opened Mar 25, 2015 by ionzhangj8

wishlist

Support for mips/mipsel

#99 opened May 28, 2014 by azlicic

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Pull requests: samtools/htslib

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Pull requests list