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jdidion
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atropos
An NGS read trimming tool that is specific, sensitive, and speedy. (production)
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cython is required at build time but not install time
#138
tillea
closed
9 months ago
1
Fix compatibility issues with Python 3.10-3.12
#137
jdidion
closed
9 months ago
0
Replace SafeConfigParser with ConfigParser
#136
vpa1977
closed
9 months ago
0
Python 3.12 build errors due to SafeConfigParser removal
#135
vpa1977
closed
9 months ago
2
Move CI to github actions
#134
jdidion
opened
1 year ago
0
Test python 3.10 compatibility
#133
jdidion
closed
9 months ago
0
Install Error
#132
JChristopherEllis
opened
1 year ago
1
Make code compatible with Python 3.10
#131
jmarshall
closed
1 year ago
0
defaults not listed in cli docs
#130
nick-youngblut
opened
2 years ago
0
detect: --max-reads default
#129
nick-youngblut
opened
2 years ago
1
Can atropos remove 5' adapter variants that are incomplete from the tail?
#128
lokapal
opened
3 years ago
5
error while running the detect command
#127
manasakaringula
opened
3 years ago
2
Empty gz
#126
jdidion
closed
3 years ago
0
Use xopen when opening `force_create` files
#125
jdidion
closed
3 years ago
0
Atropos generated empty gzip files are not proper gzip file
#124
jganbat-fn
closed
3 years ago
3
Bioconda atropos package tied to python 3.6
#123
gabeng
opened
3 years ago
1
Atropos trim multi thread stuck in infinite loop on empty files.
#122
jganbat-fn
closed
3 years ago
2
Cutadapt version
#121
Citteny
closed
3 years ago
1
Add poweron architecture ppc64le to travis build
#120
asellappen
closed
3 years ago
1
Implement non-internal adapters
#119
jdidion
opened
4 years ago
0
multiqc support?
#118
plijnzaad
closed
3 years ago
2
TypeError: 'CountingDict' object is not callable when using --metrics
#117
plijnzaad
closed
4 years ago
2
Bundle adapters file with atropos wheel
#116
jdidion
closed
4 years ago
1
Issue112
#115
plijnzaad
closed
4 years ago
1
atropos --version exits with stack trace and error status
#114
plijnzaad
closed
4 years ago
1
atropos --version prints errors and exits with error status
#113
plijnzaad
closed
4 years ago
1
TypeError: can only concatenate tuple (not "list") to tuple
#112
plijnzaad
closed
4 years ago
1
sequencing_adapters.fa : 404 not found
#111
plijnzaad
closed
4 years ago
1
N-prefixes / wildcards before an adapter sequence leads to shortening *all* reads at the 3'-end ?
#110
plijnzaad
closed
3 years ago
3
Retain SAM tags, add modifier to filter out specific/all SAM tags
#109
jdidion
closed
4 years ago
0
Bug/102 json serialize
#108
jdidion
closed
4 years ago
0
Fix #101
#107
jdidion
closed
4 years ago
0
Trimmed fastq ordering is not deterministic
#106
annamerk
closed
4 years ago
2
request: with --output-format sam , add @PG and @CO header lines to output
#105
plijnzaad
closed
4 years ago
2
--output-sam sets all SAM flags to 0
#104
plijnzaad
closed
4 years ago
1
--output-format sam discards all SAM tags !?
#103
plijnzaad
closed
4 years ago
2
TypeError: Object of type 'ProgressBarType' is not JSON serializable
#102
plijnzaad
closed
4 years ago
1
--output-format sam inserts extra header lines every batch-size output lines ?!
#101
plijnzaad
closed
4 years ago
4
atropos qc multithreads not working ?
#100
aathbt
closed
4 years ago
5
Add configuration option to choose which library to use for reading BAM
#99
jdidion
opened
4 years ago
0
Bug/97 single end qc
#98
jdidion
closed
4 years ago
0
atropos qc not handling single-end reads ?
#97
aathbt
closed
4 years ago
3
bam (but not sam) reader crashes on '@CO' line in header
#96
plijnzaad
closed
4 years ago
6
Add support for output to BAM
#95
plijnzaad
opened
4 years ago
10
(partial) fix for issue #86
#94
plijnzaad
closed
4 years ago
1
Push latest version to DockerHub
#93
jdidion
opened
4 years ago
1
Update sequencing_adapters.fa
#92
amizeranschi
opened
4 years ago
0
atropos crashes all the time
#91
antonkulaga
closed
4 years ago
1
Dockerfile for atropos-paper fails to build due to required apt-get upgrade interactivity
#90
nkrumm
closed
4 years ago
1
Dockerfile is missing pip `wheel` package
#89
nkrumm
closed
4 years ago
1
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