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dieterich-lab
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rp-bp
Rp-Bp is a Bayesian approach to predict, at base-pair resolution, ribosome occupancy and translation.
MIT License
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estimate-metagene-profile-bayes-factors: error: argument --periodic-models: expected at least one argument
#110
z626093820
closed
2 years ago
5
subprocess.CalledProcessError: Command 'STAR --runMode genomeGenerate --genomeDir 。。。。
#109
z626093820
closed
2 years ago
1
pip._vendor.packaging.requirements.InvalidRequirement: Parse error at "'[--insta'": Expected stringEnd
#108
z626093820
closed
2 years ago
1
Bump pyyaml from 5.1 to 5.4
#107
dependabot[bot]
closed
3 years ago
0
AttributeError: 'StanModel' object has no attribute 'fit_class'
#106
yuan777
closed
1 year ago
1
Added docker as a potential source for installation
#105
HeyLifeHD
closed
1 year ago
0
Error using de novo assembly
#104
HeyLifeHD
closed
4 years ago
1
Test-run fails
#103
HeyLifeHD
closed
4 years ago
3
Error during: extract-metagene-profiles (no files in without-rrna folder)
#102
HeyLifeHD
closed
4 years ago
1
Problems during installation
#101
HeyLifeHD
closed
4 years ago
2
Error in "run-all-rpbp-instances"
#100
yuan777
closed
1 year ago
7
error during predict-translated-orfs step
#99
jogmiers
closed
5 years ago
3
'StanModel' object has no attribute 'fit_class'
#98
saketkc
closed
5 years ago
4
Fix version requirements
#97
eboileau
closed
5 years ago
4
same strand overlapping ORFs
#96
eboileau
closed
5 years ago
13
Error in 'prepare-rpbp-genome'
#95
PSSUN
closed
5 years ago
14
'str' object has no 'keys' attribute
#94
m-swirski
closed
6 years ago
4
Error during ORF prediction step
#93
PSSUN
closed
6 years ago
4
sORFs not found or filtered out
#92
TamaraO
closed
6 years ago
1
seqids_to_keep not recognized
#91
TamaraO
closed
6 years ago
1
Converting from SLURM to SGE
#90
TamaraO
closed
6 years ago
1
Inconsistent requirements for bio-utils
#89
joshua-gould
closed
6 years ago
2
General enhancements
#88
eboileau
closed
1 year ago
0
QC and downstream analysis
#87
eboileau
closed
6 years ago
5
rpbp install under conda virtual environment
#86
eboileau
closed
6 years ago
1
Use of deprecated functions
#85
bmmalone
closed
6 years ago
1
Add documentation for internals
#84
bmmalone
closed
6 years ago
1
Trouble parsing refseq annotations
#83
bmmalone
closed
6 years ago
21
Add bio to uninstallation
#82
bmmalone
closed
6 years ago
0
Sampling syntax for pystan changed
#81
bmmalone
closed
5 years ago
1
ORF segmentation (AUG vs non-canonical starts)
#80
CDieterich
opened
6 years ago
3
Quantitative ORF visualization
#79
CDieterich
closed
6 years ago
1
Remove cluster_subcodon_counts
#78
bmmalone
closed
6 years ago
0
Add detailed description of all output file columns
#77
bmmalone
closed
6 years ago
1
Add test to compare expected output to actual output for example
#76
bmmalone
closed
6 years ago
3
Add reference to install-bio-programs gist
#75
bmmalone
closed
6 years ago
1
Update dependencies to pymisc-utils and pybio-utils
#74
bmmalone
closed
6 years ago
0
Make more clear how to use custom bam files
#73
bmmalone
closed
7 years ago
0
Models not detected in linux
#72
bmmalone
closed
6 years ago
5
usage instructions links broken
#71
jorgeboucas
closed
7 years ago
0
Create report table for ORF types
#70
bmmalone
closed
6 years ago
2
Read filtering report does not report periodic read length counts
#69
bmmalone
closed
7 years ago
1
NUG starts results in many canonical_extended ORFs
#68
bmmalone
opened
7 years ago
3
plot-read-length-distribution --ymax is fixed to 1.5e6
#67
tmargus
closed
7 years ago
1
Error during ORF prediction step
#66
alexey0308
closed
7 years ago
3
Long time for NUG ORFs genome preparation step
#65
alexey0308
closed
6 years ago
2
ORF extraction occasionally extracts "wrong" ORFs
#64
bmmalone
closed
7 years ago
7
Unnecessary tmp argument causes pipeline to crash
#63
bmmalone
closed
7 years ago
2
Ensure required annotation files are present
#62
bmmalone
closed
7 years ago
0
STAR sortedBAM output
#61
bmmalone
closed
1 year ago
0
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