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196 Open 113 Closed
196 Open 113 Closed
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Issues list

BWA-MEM2 for repetitive regions
#437 opened Dec 3, 2024 by rmayang28
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
ProTip! Exclude everything labeled bug with -label:bug.