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

195 Open 113 Closed
195 Open 113 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

one end of paired end reads disappeared in the aligned BAM file
#435 opened Oct 4, 2024 by sotuamax
After running make，I did not see ref.fa
#434 opened Sep 16, 2024 by tudousiZzz
No matching manifest for linux/arm64/v8 in the manifest list entries
#432 opened Aug 28, 2024 by DrDinhLuong
discarding reads which contains too many mismatches
#431 opened Aug 23, 2024 by nicolo-tellini
Cannot allocate memory
#430 opened Aug 20, 2024 by emilyhokning
Continuation after error "paired reads have different names"
#425 opened Jul 24, 2024 by scg40
1
BWA and short read mapping
#424 opened Jul 10, 2024 by alessandromacc
the significance of the -V parameter and XR tag
#423 opened Jun 30, 2024 by YettaWang
How are ambiguity charaters handled in BWA?
#422 opened Jun 26, 2024 by SaitouAsuka
bwa alignment of Nanopro sequences to call the transposable elements (TEs)
#420 opened Jun 6, 2024 by Anees-caas
Set min insert size with -I option. Why do I still get proper pairs with insert size < min insert size?
#419 opened May 3, 2024 by js72587
Is there MD tag in output of bwa?
#418 opened Apr 16, 2024 by YuanHank
missing bwa-0.7.18.tar.bz2 for 0.7.18 release
#417 opened Apr 15, 2024 by chenrui333
1
Could anyone tell me the exact meaning of '-5SP'?
#416 opened Mar 21, 2024 by hanshanmengqi
no ID within the read group line
#415 opened Mar 21, 2024 by FengjuanjuanCMS
Indexing large genome failed
#413 opened Mar 14, 2024 by xzhoubayer
3
[M::bwa_idx_load_from_disk] read 0 ALT contigs
#412 opened Mar 13, 2024 by erah1
Build fails with LTO
#411 opened Feb 29, 2024 by eli-schwartz
1
When i use bwa for mapping with grch37.p13.fa and hg19.fa，there exists some differences in some regions.
#410 opened Dec 28, 2023 by zhangshouwei309194
Fail to read header from fasta input
#409 opened Dec 6, 2023 by gustavogregoracci
Did bwa index use the SA-IS algorithm?
#408 opened Nov 30, 2023 by MiyaaL
bwa mem hangs after a few thousand reads
#407 opened Nov 29, 2023 by chklee30
Reads with mapq=0 not mapped to the same location as their mates
#405 opened Nov 3, 2023 by pinbo
Output reads not paired with a mixture of single end and paired end reads when using smart-pairing
#403 opened Oct 6, 2023 by nh13
Non-text characters appearing in SEQ field
#402 opened Sep 6, 2023 by csoeder
ProTip! Type g p on any issue or pull request to go back to the pull request listing page.