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Issues list

Feature request: fixmate like samtools enhancement help wanted
#489 opened May 24, 2022 by kaji331
1
sambamba depth region -L <(expression) bam segfaults bug reproducible!
#406 opened Aug 6, 2019 by isthisthat v1.0.0
@pjotrp
10
sambamba-markdup: not enough data in stream via /dev/stdin enhancement markdup reproducible!
#421 opened Dec 17, 2019 by heuermh v1.0.0
@pjotrp
15
Sambamba depth -q error bug reproducible!
#458 opened Nov 27, 2020 by MatthieuBeukers v1.0.0
@pjotrp
2
sambamba markdup deadlock in Ubuntu 14.04 bug hard to reproduce help wanted markdup
#463 opened Feb 10, 2021 by dulunar
3
Is it necessary to sort bam files by read names before markdup? support request - please use google groups instead see the README
#466 opened Mar 7, 2021 by xiekunwhy
depth error Follow the checklist to report an issue Did you follow the https://github.com/biod/sambamba#check-list ? support request - please use google groups instead see the README
#467 opened Mar 8, 2021 by Masaru-iehisa
downsampling by sambamba with seed support request - please use google groups instead see the README
#471 opened Apr 21, 2021 by dulunar
1
sambamba-markdup: Unexpected '-' when converting from type string to type ulong support request - please use google groups instead see the README
#476 opened May 6, 2021 by ls233
1
Samtools + libdeflate out performs sambamba on a single thread enhancement
#485 opened Feb 26, 2022 by mebbert
3
sambamba --version's output doubled bug
#486 opened Mar 28, 2022 by kim-fehl
1
can sambamba markdup give duprate concrete number? bug
#487 opened Apr 27, 2022 by asmlgkj
depth region -m: meanCoverage influenced by preceding BED target bug
#290 opened Apr 25, 2017 by melferink v1.0.0
2
Feature request: Slice BAM file by query name enhancement help wanted
#488 opened May 9, 2022 by yangyxt
1
depth region -L for multiple bam
#491 opened Jun 10, 2022 by yuanjianwen-gif
sambamba depth region: Segmentation fault (core dumped) Follow the checklist to report an issue Did you follow the https://github.com/biod/sambamba#check-list ? support request - please use google groups instead see the README
#492 opened Jul 13, 2022 by QichenFU
extends past source array of length 131072 bug
#498 opened Dec 9, 2022 by charliechen912ilovbash
Can you add sort by tag function? Follow the checklist to report an issue Did you follow the https://github.com/biod/sambamba#check-list ?
#499 opened Dec 13, 2022 by cherryamme
1
sambamba-markdup: Range violation bug
#501 opened Feb 16, 2023 by Cynthia1012
2
Sambamba depth output repeats positions! bug
#505 opened May 30, 2023 by Sven-Winter
Sambamba subsample produces truncated BAMs bug
#506 opened Jun 14, 2023 by Sven-Winter
sambamba-markdup：(No space left on device)
#509 opened Sep 6, 2023 by weirdo-onlooker
1
Difference of depth/mean coverage calculation among sambamba, bedtools, and mosdepth in high coverage panel data
#510 opened Sep 13, 2023 by ipstone
Support removal of duplicates for paired-end reads bug
#511 opened Sep 14, 2023 by rikrdo89
Segmentation fault in sambamba depth base bug
#522 opened Feb 7, 2025 by emollier
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