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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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Add to GRDI-AMR.com
#211
chapb
opened
2 weeks ago
1
CGE phenotype not populated for E. faecium pbp5 when all essential mutations are present
#210
lerminin
opened
3 weeks ago
1
Adding more databases
#209
joao1980
opened
2 months ago
0
A Full Set of pbp5 Ampicillin Mutations are on the Threshold of the Default Percent Identity
#208
emarinier
opened
3 months ago
0
Dashes in updated pointfinder db cause crash
#207
lerminin
opened
3 months ago
0
AttributeError: type object 'object' has no attribute 'dtype'
#206
siupenyau
opened
5 months ago
4
conda install gets an old version which does not run well
#205
splaisan
closed
7 months ago
4
docker image v0.8.0 does not accept --user
#204
splaisan
closed
7 months ago
3
Update MLST references in README
#203
emarinier
opened
8 months ago
0
ERROR: the local id is too long or OSError: [Errno 39] Directory not empty: 'input-genomes'
#202
elina2410
opened
8 months ago
3
different percent identity/alignment length for identical sequences on opposite strands
#201
lerminin
opened
9 months ago
5
Add option to specify database path
#200
pimarin
opened
10 months ago
4
Changing CGE Notes Entry for Complex Mutations
#199
emarinier
closed
10 months ago
0
Update the README
#198
emarinier
closed
10 months ago
0
Update Plasmidfinder Database
#197
emarinier
closed
10 months ago
0
Adding Additional Columns to Pointfinder Output
#196
emarinier
closed
10 months ago
0
Add PointFinder "Required_mut" column to pointfinder.tsv results
#195
apetkau
closed
10 months ago
1
Better Handling of 'None' in ARG Drug Table
#194
emarinier
closed
10 months ago
0
Pandas 2 Compatibility
#193
emarinier
closed
10 months ago
1
Testing gyrA Duplicate in E. coli
#192
emarinier
closed
10 months ago
0
Update StarAMR documentation
#191
apetkau
closed
10 months ago
1
Adding CGE Predicted Phenotypes to Pointfinder Results
#190
emarinier
closed
10 months ago
0
Fix GitHub Actions CI
#189
apetkau
closed
10 months ago
1
Update Plasmidfinder DB
#188
emarinier
closed
10 months ago
1
Merge dev into dev/notes
#187
emarinier
closed
11 months ago
0
Updating --mlst-scheme Descrption
#186
emarinier
closed
11 months ago
0
Adding Notes to the Resfinder and Pointfinder Outputs
#185
emarinier
closed
11 months ago
4
an unexpected keyword argument "inplace" and can't out the "results.xlxs"
#184
Yovelaaa
closed
10 months ago
3
Changing Sensitive to Susceptible in Outputs
#183
emarinier
closed
11 months ago
1
Updating Plasmidfinder Blast Database "enterobacteriaceae" to "enterobacteriales"
#182
emarinier
closed
11 months ago
1
cant run staramr
#181
Hedi65
closed
10 months ago
3
Duplicated resfinder hits with update to database
#180
kimyoungw
closed
1 year ago
5
Fixing Typo in Resistance Table
#179
emarinier
closed
1 year ago
1
The plasmidfinder.tsv shows that there is no plasmid present
#178
qianxin-kxy
closed
1 year ago
4
ERROR: ('Error, plasmidfinder database type [{}] is either incorrect or plasmidfinder database not installed properly', 'enterobacteriaceae')
#177
qianxin-kxy
closed
1 year ago
2
start and end position
#176
vappiah
closed
1 year ago
1
AttributeError: 'float' object has no attribute 'split'
#175
vappiah
closed
10 months ago
5
Error: multiple matches for gene=gyrA
#174
stanikae
closed
10 months ago
3
Propagating CGE-predicted phenotypes from Resfinder to the summary outputs
#173
emarinier
closed
1 year ago
1
Adding the ability to handle "complex" point mutations
#172
emarinier
closed
1 year ago
4
Include CGE-Predicted Phenotype results in summary results
#171
apetkau
closed
1 year ago
0
Include CGE-Predicted Phenotypes for PointFinder results
#170
apetkau
closed
10 months ago
3
PlasmidFinder database enterobacteriaceae no longer an option
#169
eam12
closed
11 months ago
1
Available MLST scheme list is out of date
#168
eam12
closed
11 months ago
4
Adding CGE-Predicted Phenotypes to staramr's Resfinder Output
#167
emarinier
closed
1 year ago
1
staramr db info error: [Errno 2] No such file or directory: 'mlst'
#166
FeMa94
closed
11 months ago
4
Include drug resistances from PointFinder in StarAMR report
#165
apetkau
closed
11 months ago
1
Change sensitive to susceptible in report
#164
apetkau
closed
11 months ago
1
Fixed install instructions to not mention specific version of staramr
#163
apetkau
closed
1 year ago
0
Bioconda channel order
#162
lenorakepler
closed
1 year ago
2
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