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phac-nml
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staramr
Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
Apache License 2.0
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Doc/installation
#116
apetkau
closed
4 years ago
1
staramr fails with "KeyError: 'Predicted Phenotype'"
#115
apetkau
closed
4 years ago
10
New test
#114
RichardDavidsonTheGreat
closed
4 years ago
0
Star am rresfinder bug
#113
RichardDavidsonTheGreat
closed
4 years ago
0
Staramr M. tuberculosis integration?
#112
Takadonet
closed
5 years ago
4
Bugfix/specification
#111
RichardDavidsonTheGreat
closed
5 years ago
0
Update reame for 0.6.5
#110
RichardDavidsonTheGreat
closed
5 years ago
0
How to update to version 0.6.5 using conda?
#109
SK-N-BE
closed
2 years ago
7
update release verison and CHANGELOG.md
#108
Takadonet
closed
5 years ago
0
Release 0.7.0
#107
Takadonet
closed
5 years ago
0
Update ReadMe to reflect the added Sequence column in resfinder.tsv
#106
RichardDavidsonTheGreat
closed
5 years ago
1
Add documentation for DNA column in README.md
#105
Takadonet
closed
5 years ago
0
Updated default commits to latest with ResFinder and PlasmidFinder
#104
jennifertran
closed
3 years ago
1
Version 0_6_5. Add Criteria based on following value N50 > 10000 Geno…
#103
RichardDavidsonTheGreat
closed
5 years ago
0
Version 0_6_5
#102
RichardDavidsonTheGreat
closed
5 years ago
0
Version0 6 5
#101
RichardDavidsonTheGreat
closed
5 years ago
0
bugfix add --output mlst to Search.py
#100
RichardDavidsonTheGreat
closed
5 years ago
0
Missing --output-mlst
#99
apetkau
closed
5 years ago
2
Quality Module on input set
#98
Takadonet
closed
5 years ago
1
Add Sequence column in Resfinder results
#97
Takadonet
closed
5 years ago
0
Release 0.6.0
#96
apetkau
closed
5 years ago
0
Pointfinder-Campylobacter
#95
haan12345
closed
5 years ago
5
Updated StarAMR README, Tutorial, and settings to include MLST
#94
jennifertran
closed
5 years ago
1
Downgraded Database version
#93
jennifertran
closed
5 years ago
2
Added cmd line options to specify MLST scheme
#92
jennifertran
closed
5 years ago
1
Switch next version to `0.6.0`
#91
apetkau
closed
5 years ago
1
Add command-line option to specify the MLST scheme
#90
apetkau
closed
5 years ago
0
Downgrade database before release
#89
apetkau
closed
5 years ago
0
Added MLST results to detailed summary table
#88
jennifertran
closed
5 years ago
1
Add MLST results to Detailed_Summary
#87
jennifertran
closed
5 years ago
1
Updating databases in Galaxy
#86
PHemarajata
opened
5 years ago
20
Updated Scheme and Sequence type to summary and optimized MLST to use thread pools
#85
jennifertran
closed
5 years ago
2
Set the --pointfinder-organism based on results of organism id
#84
apetkau
opened
5 years ago
0
Map the MLST scheme to an organism name
#83
apetkau
closed
5 years ago
1
Add documentation about MLST results
#82
apetkau
closed
5 years ago
1
Look into optimizing the running of MLST
#81
apetkau
closed
5 years ago
1
Test the performance of the MLST scheme selection for organism detection
#80
apetkau
closed
5 years ago
1
Add MLST results to the Summary
#79
apetkau
closed
5 years ago
1
Add MLST results to staramr report
#78
apetkau
closed
5 years ago
1
Added MLST output to StarAMR
#77
jennifertran
closed
5 years ago
1
Renamed columns for clarification
#76
jennifertran
closed
5 years ago
1
Rename "Plasmid Genes" column
#75
apetkau
closed
5 years ago
2
Added coloredlogs library
#74
jennifertran
closed
5 years ago
1
Added --output-detailed-summary command
#73
jennifertran
closed
5 years ago
0
Output to individual files is raising an exception (development)
#72
apetkau
closed
5 years ago
1
Reformatting code using pyCharm
#71
apetkau
closed
5 years ago
1
Release/0.5.0
#70
apetkau
closed
5 years ago
0
Add contribution guide
#69
jennifertran
opened
5 years ago
0
Add color logging to Staramr
#68
jennifertran
closed
5 years ago
2
Fixed exclude phenotype column command
#67
jennifertran
closed
5 years ago
2
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