biod sambamba issues - Githubissues

biod / sambamba

Tools for working with SAM/BAM data

http://thebird.nl/blog/D_Dragon.html

GNU General Public License v2.0

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issues

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A Segmentation fault occurred in the sambamba markdup

#520 Xiangyue-Meng opened 3 months ago
0
sambamba markdup stuck in the finding positions of the duplicate reads in the file...

#519 xiechangxiao opened 4 months ago
0
Compile binary with ldc 1.38.0

#518 corneliusroemer opened 4 months ago
0
sambamba (v. 0.8.0) sort: exit code 271

#517 jeffreycyyu opened 6 months ago
0
sambamba-sort: index [1] exceeds array of length 1

#516 ScienceAdvances opened 7 months ago
0
Sambamba slice - 94 Segmentation fault (core dumped)

#515 alexvasilikop opened 9 months ago
2
mpileup fail to execute bin/sh

#514 ghost opened 12 months ago
0
sambamba slice piped with sambamba view is having runtime problem when running in parallel

#513 yangyxt opened 1 year ago
0
problem of deduplication

#512 crazysummerW opened 1 year ago
0
Support removal of duplicates for paired-end reads

#511 rikrdo89 opened 1 year ago
0
Difference of depth/mean coverage calculation among sambamba, bedtools, and mosdepth in high coverage panel data

#510 ipstone opened 1 year ago
0
sambamba-markdup：(No space left on device)

#509 weirdo-onlooker opened 1 year ago
1
chore: remove travis config

#508 chenrui333 closed 1 year ago
1
sambamba 1.0.1 build failure

#507 chenrui333 closed 1 year ago
4
Sambamba subsample produces truncated BAMs

#506 Sven-Winter opened 1 year ago
0
Sambamba depth output repeats positions!

#505 Sven-Winter opened 1 year ago
0
provide an example of pipping sambamba in documentation

#504 DrRLS closed 1 year ago
1
conda sambamba 1.0 is running slower than conda sambamba 0.6

#503 ericpanyc closed 1 year ago
1
porting from old sambamba/BioD

#502 RichardCorbett closed 1 year ago
1
sambamba-markdup: Range violation

#501 Cynthia1012 opened 1 year ago
2
Minor subversion number missing in 1.0 release

#500 Stikus closed 1 year ago
3
Can you add sort by tag function?

#499 cherryamme opened 1 year ago
1
extends past source array of length 131072

#498 charliechen912ilovbash opened 1 year ago
0
Test suite error on Debian unstable

#497 tillea closed 1 year ago
4
Add CI config for Github Actions

#496 martin-g closed 2 years ago
2
Updates readme grammar, spelling, markdown

#495 nikoandpiko closed 2 years ago
1
sambamba depth region function add median value

#494 tamadezhenshiyuncai closed 2 years ago
1
Fixed a typo

#493 samsonjm closed 2 years ago
0
sambamba depth region: Segmentation fault (core dumped)

#492 QichenFU opened 2 years ago
0
depth region -L for multiple bam

#491 yuanjianwen-gif opened 2 years ago
0
Why does `sambamba sort` give me a different sort order across multiple runs (on the same BAM file)? Isn't `sort` by coordinates determinstic?

#490 etrh closed 2 years ago
2
Feature request: fixmate like samtools

#489 kaji331 opened 2 years ago
1
Feature request: Slice BAM file by query name

#488 yangyxt opened 2 years ago
1
can sambamba markdup give duprate concrete number?

#487 asmlgkj opened 2 years ago
0
sambamba --version's output doubled

#486 kim-fehl opened 2 years ago
1
`Samtools + libdeflate` out performs `sambamba` on a single thread

#485 mebbert opened 2 years ago
3
Sambamba has remaining references to libbiod

#484 tillea closed 2 years ago
9
markdup - segmentation fault

#483 BioinfoRDX closed 2 years ago
1
Cannot build 0.8.1 with Guix

#482 rekado closed 2 years ago
7
do you support aggregation and dedup in one command?

#481 AlisaGU closed 3 years ago
3
Made compile with removed alias this in Nullable

#480 dukc closed 3 years ago
3
Support filtering of absolute template length

#479 tolot27 closed 1 year ago
2
Fix build when GCC is not installed

#478 stephank closed 3 years ago
1
sambamba -F "not duplicate" processed bam still have duplicated marked by sambamba markdup

#477 piyushjo15 closed 3 years ago
2
sambamba-markdup: Unexpected '-' when converting from type string to type ulong

#476 ls233 opened 3 years ago
1
sambamba markdup: Unable to write to stream

#475 sklages closed 3 years ago
1
Inaccessible google groups support forum

#474 Poshi closed 3 years ago
2
Compiling from source v.0.8.0 fails

#473 nadyawilliams closed 3 years ago
2
MultiQC support for sambamba markdup

#472 gartician closed 3 years ago
3
downsampling by sambamba with seed

#471 dulunar opened 3 years ago
1