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BenLangmead
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bowtie
An ultrafast memory-efficient short read aligner
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Extremely low mapping rate using D. melanogaster, Flybase, r5.22 genome index
#91
ruochenj
closed
5 years ago
1
bowtie-1.2.2: ebwt.h:865:44: error: cannot convert 'TIndexOffU* const' {aka 'long unsigned int* const'} to 'uint32_t*' {aka 'unsigned int*'} in return
#90
mmokrejs
closed
3 years ago
3
Maximum mismatches allowed is 2
#89
johanzi
closed
4 years ago
3
Re-open issue: invalid fastq files produced using --un #8
#88
elenichri
opened
5 years ago
4
bowtie fails to build on Debian testing/gcc-8
#87
mestia
closed
6 years ago
4
bowtie mapping with fasta input - segmentation fault.
#86
mortunco
closed
3 years ago
1
r
#85
AustinGutierrez
closed
6 years ago
0
Allow compilation w/ both c++03 and c++11
#84
BenLangmead
closed
6 years ago
2
bowtie installation
#83
VizeacoumarLab
opened
6 years ago
1
-m and -M options don't make a difference
#82
alj1983
opened
6 years ago
7
specifying --fast-local causes bowtie2 to always fail
#81
nivekkagicom
closed
6 years ago
1
Bowtie-build (v1.2.2) db will fail indexing gz DNA input fasta file
#80
davidvilanova
closed
3 years ago
3
Bowtie 1.2.2 fails to find indexes directory
#79
mestia
closed
3 years ago
3
Bowtie doesn't stop runing and return not complete alignment result!
#78
kingdynasty
opened
6 years ago
0
Compilation of Bowtie 1.2.2 with Intel 17.0.4
#77
marcc-hpc
opened
6 years ago
9
Cannot compile with newer versions of C++ standard
#76
cljacobs
opened
6 years ago
1
Document `-F` input mode
#75
BenLangmead
closed
3 years ago
0
Fix clipping first letter of first read in batches after first
#74
BenLangmead
closed
1 year ago
2
Fix issue with -F mode omitting final base
#73
BenLangmead
closed
5 years ago
0
'make NO_TBB=1' failed for bowtie 1.2.2
#72
wangyugui
closed
6 years ago
1
Cannot find bowtie index
#71
sagnikbanerjee15
closed
6 years ago
4
wrong number of reads processed
#70
sklasfeld
closed
6 years ago
3
bowtie-1.2.1.1 randomly reports wrong lines of output when processing reads from stdin
#69
ankebusch
closed
6 years ago
16
bowtie-1.2.1.1 fails w/ SIGPROF and Python 2.7.12
#68
Gracklewolf
opened
6 years ago
0
ftp server for indexes is down?
#67
iriet
closed
6 years ago
2
Examples 6 and 9
#66
domibel
closed
6 years ago
2
Fix # alignments reported for paired-end, and exiting after -u
#65
BenLangmead
closed
6 years ago
0
Alignment results vary depending on read names?
#64
mlovci
closed
3 years ago
6
Create Per-Sample Read Mapping Summary Files
#63
DarioS
opened
7 years ago
0
Manual formatting issue
#62
BenLangmead
closed
6 years ago
0
Error for colorspace data
#61
ghost
closed
6 years ago
3
Removes --refout
#60
BenLangmead
closed
6 years ago
0
Failure to truncate R2 read names with spaces
#59
brisk022
closed
6 years ago
1
bowtie 1.2.1.1 --strata reports all valid alignments instead of best stratum
#58
ceiabreu
closed
6 years ago
3
Could not locate a Bowtie index corresponding to basename "genome"
#57
pandafish123
closed
6 years ago
4
Error: Could not allocate ChunkPool of ... bytes
#56
meecle
closed
3 years ago
1
wrong report of reads processed when "-k" is used in Bowtie 1.2.1.1
#55
ndaniel
closed
6 years ago
3
corrupted MAP output is sometime generated by bowtie 1.2.1
#54
ndaniel
closed
6 years ago
7
misbehavior of --un parameter when more than 1 core is used
#53
germaximus
opened
7 years ago
0
Version 1.2 Causes Improperly Paired Alignments Error in RSEM
#52
DarioS
closed
6 years ago
4
No reads processed from stdin in tab5 format when using --12 -
#51
heuermh
closed
7 years ago
1
Do fast bowtie with option -c
#50
OrsonMM
closed
6 years ago
2
Option To Exclude Unmapped Reads From SAM
#49
DarioS
closed
7 years ago
1
Reads Can Map Entirely Beyond Reference Sequence End
#48
DarioS
closed
7 years ago
9
Elimiate -f for bowtie-build
#47
DarioS
closed
7 years ago
2
Eliminate `--refout`
#46
BenLangmead
closed
6 years ago
0
explanation for differences between bowtie-1.2-linux-legacy-x86_64.zip and bowtie-1.2-linux-x86_64.zip
#45
ndaniel
closed
7 years ago
3
Bowtie 1.2 error when using symlink
#44
egaffo
closed
7 years ago
3
problem with fastq input
#43
jchenpku
closed
4 years ago
6
Typo: Deleteing -> Deleting
#42
daissi
closed
5 years ago
0
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