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135 Open 582 Closed
135 Open 582 Closed
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Issues list

HTSlib does not support VCF v4.4's explicit first phasing indicator
#1847 opened Oct 5, 2024 by jmarshall
@vasudeva8
The htscodecs version.h is not built unless its .git is present; no instructions to prepare a working tarball
#1846 opened Oct 3, 2024 by adamnovak
@daviesrob
1
VCF 4.4/4.5 specs: rlen should be computed rather than populated from END INFO field
#1820 opened Aug 12, 2024 by davmlaw
@vasudeva8
3
Google Cloud Storage hFILE not using multipart / resumable uploads or downloads for reliability
#1814 opened Jul 31, 2024 by pettyalex wishlist
@whitwham
1
No warning on messed up VCF
#1778 opened Apr 30, 2024 by pd3
todo: Improve --regions-overlap variant
#1746 opened Feb 9, 2024 by pd3
htslib in pysam.fetch on S3 Bucket
#1670 opened Sep 7, 2023 by StephanHolgerD
@whitwham
6
Index file downloads when using GCS file
#1615 opened May 3, 2023 by ggydush
1
bcftools view with region filter drops variants at POS=0 (telomeres)
#1571 opened Feb 24, 2023 by colin-nolan
1
@pd3
5
int overflow for big variant lines in vcf
#1539 opened Dec 16, 2022 by arnaldurgylfason
@daviesrob
4
bcf_hdr_remove leaves hash keys behind
#1533 opened Dec 6, 2022 by pd3
@pd3
10
tabix returns row from VCF file multiple times
#1470 opened Jul 11, 2022 by jwimberl
4
Extend vcf.h API to distinguish between the two indel types breaks-ABI
#1454 opened Jun 14, 2022 by pd3
1
Feature request: extend mpileup API
#1453 opened Jun 14, 2022 by pd3
3
Add support for bam/bai files in Azure blob storage
#1440 opened May 25, 2022 by smrgit
@whitwham
6
tabix: how to retain header for arbitrary file types?
#1434 opened May 11, 2022 by carbocation
@daviesrob
2
Random read error on google cloud.
#1424 opened Apr 21, 2022 by stefangroha
@whitwham
4
hts_log_error() extension for better error reporting
#1397 opened Feb 14, 2022 by lczech
@whitwham
5
[Documentation] Short examples?
#1368 opened Jan 1, 2022 by rubyFeedback wishlist
1
Feature request: Add option to tabix to interleave multiple bgzipped indexed files, without the need for external resorting.
#1338 opened Oct 4, 2021 by ghuls wishlist
12
Warning: shared-lib-calls-exit detected by a lint tool
#1315 opened Aug 8, 2021 by junaruga wishlist
1
Increase the mpileup default maximum depth
#1272 opened Apr 20, 2021 by valeriuo
@valeriuo
hts_str2dbl() (and hts_expr) can't parse hex by default on Illumos/OpenIndiana
#1251 opened Mar 9, 2021 by jmarshall
@daviesrob
HTSlib should fail on trailing INFO garbage
#1253 opened Mar 9, 2021 by yangyxt
3
Trouble building htslib-1.11.tar.bz2
#1243 opened Feb 26, 2021 by moldach
5
ProTip! Exclude everything labeled bug with -label:bug.