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BenLangmead
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bowtie2
A fast and sensitive gapped read aligner
GNU General Public License v3.0
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2.5.1 mingw binary release do not contain *.exe files.
#429
sis6789
closed
8 months ago
7
Bowtie forward and reverse complement fastq files
#428
KarinElimelech
closed
8 months ago
3
fail to build a large index
#427
nashanghenzan
opened
1 year ago
0
Is the --sra-acc option available with the binaries?
#426
scotronq
opened
1 year ago
3
bowtie2 loses alignments when aligning the second time
#425
tluan
opened
1 year ago
0
many tests fail with 2.5.1
#424
nieder
closed
1 year ago
5
Saw ASCII character 10 but expected 33-based Phred qual. Aborted (core dumped)
#423
TeddyLee1
opened
1 year ago
5
Can someone push 2.5.1 release to bioconda please?
#422
russellsmithies
opened
1 year ago
1
Bowtie 2.5.1 - living in the future
#421
HenrikBengtsson
closed
1 year ago
1
2.5.0 does not produce identical output to 2.4.5; alignment rate is substantially lower
#420
eboyden
closed
8 months ago
3
Fix paper link
#419
alienzj
closed
1 year ago
0
bowtie2-build and --threads
#418
raygozag
opened
1 year ago
4
Output only unmapped read of pair to --un-mates/conc, when only one maps
#417
ohickl
opened
1 year ago
1
Bowtie2 can not read input file
#416
aerlaut
closed
1 year ago
2
Does the newest version of bowtie2 not have a pre-built SRA enabled version?
#415
jmrussell
opened
1 year ago
3
Typo in command line section of the MANUAL
#414
sameerd
closed
1 year ago
0
Feature request: only report the best alignment of one sequence
#413
seahurt
opened
1 year ago
0
Fix build on FreeBSD/powerpc64*
#412
pkubaj
closed
1 year ago
0
--nodc option not working
#411
tekitekitekiteki
opened
1 year ago
1
Referencing Biocontainers Links in Manual
#410
jamesbraza
opened
1 year ago
7
Feature Request: bowtie2-explain command
#409
jamesbraza
opened
1 year ago
0
Contig length consideration?
#408
TJrogers86
closed
1 year ago
2
MAPQ for uniquely mapped read in end-to-end mode
#407
gamerino
opened
1 year ago
1
How To Extract Reads-Pairs Aligned Concordantly Exactly 1 Time from Bowtie2 (version 2.3.4.1 or high)?
#406
D1Pan
closed
1 year ago
4
Make reading of buffers fully asynchronous
#405
sfiligoi
closed
1 year ago
12
Minor optimization of SwAligner::alignNucleotidesEnd2EndSse*
#404
sfiligoi
closed
1 year ago
2
Bug: Bowtie2 crashes on Zstandard-compressed FASTQ files with high compression level
#403
vejnar
closed
1 year ago
5
Make ZSTD support work
#402
vejnar
closed
1 year ago
1
Dumb question
#401
jakewendt
closed
1 year ago
0
SwAligner::alignGatherEE16 trying to alloc 32TB in expandCopyExact
#400
tuxsoft
opened
1 year ago
1
bowtie-inspect --wrapper basic-0 lambda_virus.1.bt2
#399
Wasim100
opened
1 year ago
1
bowtie2 index generates only tmp files
#398
mmpust
opened
1 year ago
1
Conda install uses version 2.2.5
#397
ryandikdan
opened
1 year ago
2
Bowtie2 taking a lot of time to run
#396
rb56
closed
2 years ago
0
reads aligned concordantly exactly 1 time
#395
lissur
opened
2 years ago
2
Conditionally enable AVX2 256-bit instructions
#394
sfiligoi
closed
1 year ago
10
SAMFormatException in aligned reads
#393
GiuliaGuiducci
closed
7 months ago
2
Installing Bowtie2
#392
tlarocca282
opened
2 years ago
2
Low alignment rate using fastq files obtained from SRA
#391
cdiazmun
closed
2 years ago
2
Guidance on making changes to mismatch tolerance
#390
bmorledge-hampton19
opened
2 years ago
0
A question about -X
#389
NJU-Bio-Info
closed
1 year ago
3
chromosome length
#388
pxxiao-hz
opened
2 years ago
2
Size of sam file
#387
cpavloud
closed
7 months ago
2
-a option returns one valid alignment, but -k 1 returns none.
#386
bmorledge-hampton19
opened
2 years ago
6
Bowtie2-build didn't generate two *rev.bt2 files.
#385
minglu-xie
closed
2 years ago
1
end-to-end or local alignment when mapping short reads to long reference genome
#384
SarahIsme
opened
2 years ago
0
The optimized read length for bowtie2 to handle
#383
Duannai
closed
7 months ago
1
Make output asynchronous
#382
sfiligoi
closed
2 years ago
4
Question on mouse index, bowtie2-build not indexing properly?
#381
josruirod
opened
2 years ago
0
Improve prefetch effectiveness by refactoring loops in SeedAligner::searchAllSeeds, SeedAligner::searchSeedBi and SeedAligner::exactSweep
#380
sfiligoi
closed
2 years ago
5
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