Skip to content

Issues: pezmaster31/bamtools

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

56 Open 101 Closed
56 Open 101 Closed
Author
Filter by author
Label
Filter by label
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Milestones
Filter by milestone
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

heap-buffer-overflow in bam/BamReader_p.cpp:507:30, BamReaderPrivate::LoadReferenceData()
#234 opened Jan 4, 2024 by schsiung
global-buffer-overflow in BamReader_p.cpp:462:23, BamTools::Internal::BamReaderPrivate::LoadNextAlignment(BamTools::BamAlignment&)
#233 opened Jan 4, 2024 by schsiung
bamtools random reads are highly skewed towards small chromosomes
#230 opened Nov 12, 2023 by benbfly
Is there any way to get total number of reads in the alignment bam file?
#228 opened Sep 2, 2022 by yazhinia
Unnecessary space in BamAlignment object?
#226 opened Apr 22, 2022 by rlorigro
Allow fetching read name field without fetching other string fields?
#225 opened Apr 21, 2022 by rlorigro
1
Documentation URL broken
#215 opened Jun 25, 2021 by telatin
1
bamtools split ERROR: could not open basecalls.sort.REF_NM_001019297.2.bam for writing.
#198 opened Oct 31, 2019 by weir12
1
bamtools fails to open stdin when running in a Node environment
#192 opened May 29, 2019 by anderspitman
feature request: allow custom SM tag in the merged bam header
#191 opened May 15, 2019 by sclan
queryBases filter with pattern returns no matching reads
#190 opened May 5, 2019 by adomingues
RefLength of BamMultiReader does not appear to be correct
#187 opened Mar 13, 2019 by SebastianHollizeck
1
big contig
#184 opened Nov 21, 2018 by lw3259111
htslib is 10 times faster than bamtools
#183 opened Sep 3, 2018 by beaulian
does bamtools stats consider supplementary alignment
#175 opened Feb 8, 2018 by prasundutta87
core dumped when converting to BED with unmapped read
#162 opened Oct 25, 2017 by khillion
CRAM file support
#149 opened Sep 22, 2017 by jjfarrell
2
wrong reference length reported on big endian archs
#147 opened Aug 8, 2017 by satta
Possible error
#145 opened Jul 24, 2017 by kemin711
4
Incorrect bin field set in bam file
#144 opened Jun 19, 2017 by jrderuiter
Filter by alignment score [feature request]
#141 opened Dec 21, 2016 by sjackman
3
wiki modification proposal (building and installing step)
#138 opened Nov 30, 2016 by ltaulell
split by reference chr = "EOF marker is absent. The input is probably truncated."
#137 opened Nov 3, 2016 by map2085
2
Bamtools unable to write into split files
#135 opened Oct 28, 2016 by asenabouth
17
Checking for truncated BAM files
#125 opened Apr 22, 2016 by lamortenera
ProTip! Add no:assignee to see everything that’s not assigned.