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Issues list

how to learn bioinformatics algorithm
#86 opened Sep 5, 2016 by WinterLi1993
1
remove scaffold and other unplaced sequences before mapping ?
#57 opened Mar 28, 2016 by CTLife
4
what's the difference between mapping PE fastqs to genome and to specified target region?
#58 opened Mar 30, 2016 by WinterLi1993
making XA_drop_ratio an option
#59 opened Mar 31, 2016 by voutcn
how to calculate MAPQ in a bam ?
#61 opened Apr 11, 2016 by WinterLi1993
bwa sampe [fread] Unexpected end of file
#62 opened Apr 12, 2016 by GSbioinfo
Minor http vs https issue in kopen.c
#63 opened Apr 21, 2016 by SHuang-Broad
Add support to force global / glocal / end-to-end alignment
#64 opened Apr 29, 2016 by tseemann
Is README-alt.md up to date?
#67 opened Jun 4, 2016 by vdauwera
bwa index problem
#75 opened Jun 20, 2016 by gsong1205
1
how to get uniquely mapped reads from a bam produced by BWA version 0.7.10 ?
#76 opened Jun 23, 2016 by WinterLi1993
Inclusion of literal tab characters in command line leads to SAM spec violation
#83 opened Aug 9, 2016 by jblachly
2
how to Improve mapping results
#52 opened Feb 25, 2016 by zusman
bwa-postalt.js marks some records as supplementary that (I think) should be secondary
#85 opened Aug 25, 2016 by tfenne
1
A question for MD and NM meaning ?
#87 opened Sep 13, 2016 by WinterLi1993
Ambiguous reference bases
#88 opened Sep 19, 2016 by armintoepfer
1
incorrect alignment of long contigs / problem with bandwidth tracking?
#89 opened Sep 22, 2016 by pmarks
2
64 bit index breaks alt aware alignment.
#94 opened Oct 20, 2016 by shawarden
2
Pair information for ALT
#97 opened Nov 14, 2016 by mjko1210
1
Typo in README-alt.md file ?
#98 opened Nov 16, 2016 by alexey-larionov
1
alt alignments and supplementary records
#103 opened Jan 4, 2017 by mozack
bwa aln CL arguments from BAM @PG line output by samse
#107 opened Jan 30, 2017 by plijnzaad
explanation of insert sizes from BWA-MEM
#113 opened Mar 7, 2017 by roblanf
18
bwa bwasw crashed with the error '[vfprintf(stdout)] Value too large for defined data type'
#114 opened Mar 13, 2017 by wangyugui
7
BWA-MEM2 for repetitive regions
#437 opened Dec 3, 2024 by rmayang28
ProTip! Exclude everything labeled bug with -label:bug.