Skip to content

Issues: lh3/bwa

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Clear current search query, filters, and sorts
198 Open 114 Closed
198 Open 114 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
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

how to Improve mapping results
#52 opened Feb 25, 2016 by zusman updated Feb 25, 2016
bwa.1, line 1: recommend updating to reflect current release date and version
#53 opened Feb 26, 2016 by vogelwk updated Feb 26, 2016
remove scaffold and other unplaced sequences before mapping ?
#57 opened Mar 28, 2016 by CTLife updated Mar 28, 2016
4
what's the difference between mapping PE fastqs to genome and to specified target region?
#58 opened Mar 30, 2016 by WinterLi1993 updated Mar 30, 2016
making XA_drop_ratio an option
#59 opened Mar 31, 2016 by voutcn updated Mar 31, 2016
how to calculate MAPQ in a bam ?
#61 opened Apr 11, 2016 by WinterLi1993 updated Apr 11, 2016
bwa sampe [fread] Unexpected end of file
#62 opened Apr 12, 2016 by GSbioinfo updated Apr 12, 2016
Minor http vs https issue in kopen.c
#63 opened Apr 21, 2016 by SHuang-Broad updated Apr 21, 2016
Add support to force global / glocal / end-to-end alignment
#64 opened Apr 29, 2016 by tseemann updated Apr 29, 2016
Is README-alt.md up to date?
#67 opened Jun 4, 2016 by vdauwera updated Jun 4, 2016
how to get uniquely mapped reads from a bam produced by BWA version 0.7.10 ?
#76 opened Jun 23, 2016 by WinterLi1993 updated Jun 23, 2016
bwa-postalt.js marks some records as supplementary that (I think) should be secondary
#85 opened Aug 25, 2016 by tfenne updated Aug 25, 2016
1
how to learn bioinformatics algorithm
#86 opened Sep 5, 2016 by WinterLi1993 updated Sep 6, 2016
1
A question for MD and NM meaning ?
#87 opened Sep 13, 2016 by WinterLi1993 updated Sep 13, 2016
Ambiguous reference bases
#88 opened Sep 19, 2016 by armintoepfer updated Sep 19, 2016
1
alt alignments and supplementary records
#103 opened Jan 4, 2017 by mozack updated Jan 4, 2017
bwa aln CL arguments from BAM @PG line output by samse
#107 opened Jan 30, 2017 by plijnzaad updated Jan 30, 2017
Pair information for ALT
#97 opened Nov 14, 2016 by mjko1210 updated Feb 5, 2017
1
pac2bwtgen error: Not enough space allocated to continue construction!
#119 opened Apr 7, 2017 by karel-brinda updated Apr 7, 2017
Valid alignment dropped if extension crosses reference sequences in bwa mem
#124 opened Apr 30, 2017 by mvdbeek updated Apr 30, 2017
Identifying Reads with Small Number of Multi-Mappers
#125 opened May 1, 2017 by imk1 updated May 1, 2017
insertsize = 0 from bwa mem
#128 opened May 18, 2017 by JhinAir updated May 18, 2017
Can bwa mem or index run out memory when reading files which sizes are more than available RAM ?
#135 opened Jun 13, 2017 by ampawd updated Jun 13, 2017
How to fix a randomization seed while aligning reads?
#117 opened Mar 21, 2017 by ltnetcase updated Jun 15, 2017
1
The difference between SA and XA in the optional field
#136 opened Jun 21, 2017 by WortJohn updated Jun 21, 2017
ProTip! no:milestone will show everything without a milestone.