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69 Open 244 Closed
69 Open 244 Closed
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Issues list

Fail to read header from fasta input Data needed
#409 opened Dec 6, 2023 by gustavogregoracci
bwa mem hangs after a few thousand reads Data needed
#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 Bug
#403 opened Oct 6, 2023 by nh13
Is this an wrong alignment score in bwa-mem alignment?
#398 opened Aug 15, 2023 by huichanghuang
bwa mem failed to locate index files
#386 opened Feb 8, 2023 by isabelluo
2
bwa mem -a and -t options are incompatible?
#382 opened Jan 3, 2023 by yazhinia
mapping on subset of a bigger reference gives different results Data needed
#381 opened Jan 3, 2023 by mewu3
Adding chm13 option in bwakit
#364 opened Aug 5, 2022 by mikecuoco
T2T-CHM13 index file not recognized
#363 opened Aug 2, 2022 by abbeythorpe
Different alignment numbers to same reference sequence Data needed
#360 opened Jul 5, 2022 by stewalsh04
bwa aln returning less alignments for higher number of mismatches bwa-aln Investigation needed
#358 opened Jun 23, 2022 by Jfortin1
4
install bwa 0.7.17 in alpine docker image
#353 opened May 5, 2022 by cmccabe0728
1
bwa: bntseq.c:428: bns_fetch_seq: Assertion `*beg <= mid && mid < *end' failed.
#347 opened Mar 15, 2022 by ZZH19999
1
postalt.js MAPQ 0 on both chr17 and Alternate Contigs
#342 opened Feb 18, 2022 by DarioS
1
Increasing the 5' clipping penalty drops alignments with no 5' clipping
#296 opened Aug 19, 2020 by nh13
Deletion at the end of the alignment
#280 opened Apr 24, 2020 by tprodanov
1
BWA Kit uses an outdated version of BWA
#268 opened Feb 10, 2020 by rhpvorderman
BWA stuck on this sequence?
#261 opened Dec 4, 2019 by harveyche
3
assertion in bntseq fails
#258 opened Nov 18, 2019 by AliSajid
bwakit/run-gen-ref not checking NCBI checksums
#257 opened Oct 22, 2019 by coreymhudson
fail to locate the index
#244 opened Jul 3, 2019 by wbsimey
Segmentation fault Data needed
#240 opened May 7, 2019 by ucassee
[bwa_index] Pack FASTA... *** buffer overflow detected ***
#239 opened Apr 16, 2019 by H4niz
4
Some Alignments Have Impossible Flag Values
#235 opened Feb 13, 2019 by DarioS
1
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