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pha4ge
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hAMRonization
Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure
GNU Lesser General Public License v3.0
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software and reference version
#89
MPC21
closed
3 weeks ago
1
Add pre-print link to README
#88
tseemann
closed
1 month ago
0
nucleotide specific fileds are empty while importing AmrFinderPlus results based on nucleotide sequences
#87
m3hdad
opened
4 months ago
2
New Resfinder v4.5.0
#86
DanyMatute
closed
4 months ago
3
Updating version support for starmar, amrfinderplus, kmerresistance - summarize output breaks
#85
lerminin
opened
6 months ago
4
[BUG] - RGI bwt gene_mapping
#84
MicroSeq
opened
11 months ago
3
Request for Zenodo archive
#82
jasmezz
closed
1 year ago
0
[BUG] Generated output does not follow CSP rules
#81
remimestdagh
closed
4 months ago
1
[BUG] `KeyError: 'reference_database_name'` when running summarize
#80
jfy133
closed
2 years ago
9
Bump version to be in line latest release
#79
jfy133
closed
2 years ago
1
PyPi not updated, 1.0.4 tarball reports version 1.0.3
#78
jfy133
closed
2 years ago
2
Update parsers
#77
fmaguire
closed
2 years ago
0
Update parsers with new schema version
#76
cimendes
closed
2 years ago
0
Add fARGene
#75
jasmezz
closed
2 years ago
0
Add CONTRIBUTING.md
#74
cimendes
closed
2 years ago
0
Add xlsx output
#73
fmaguire
closed
2 years ago
1
Update README
#72
cimendes
closed
2 years ago
0
Obtain specification field data information from JSON schema
#71
cimendes
opened
2 years ago
1
AMR Variant detection - Parsers to be updated
#70
cimendes
closed
2 years ago
1
Add draft parser for mykrobe
#69
pvanheus
closed
2 years ago
2
Changes to TBProfilerIO
#68
jodyphelan
closed
2 years ago
0
Flag overlapping ranges in hAMRonization
#67
fmaguire
closed
2 years ago
0
hamronize summarize - local variable 'parsed_report' reference before assignment
#66
cimendes
closed
2 years ago
3
Genetic_variation_type
#65
jodyphelan
closed
2 years ago
1
add tb tests
#64
jodyphelan
closed
2 years ago
6
specify protein or nt variant
#63
jodyphelan
closed
2 years ago
0
TB-Profiler IO
#62
jodyphelan
closed
2 years ago
0
Fix issue of very similar runs falsely combining results in summary
#61
fmaguire
opened
3 years ago
0
Update AMR Gene Detection Scheme
#60
cimendes
closed
2 years ago
1
RgiIO.py: Typo in line 79
#59
SvetlanaUP
closed
2 years ago
1
ORF_ID missing once RGI report hAMRonized
#58
SvetlanaUP
closed
2 years ago
1
help understanding resfinder run
#57
ewissel
closed
3 years ago
1
Implementing logging and debug flag to simplify exception messages
#56
fmaguire
opened
3 years ago
2
Update README.md
#55
thanhleviet
closed
3 years ago
0
staramr issue
#54
ewissel
closed
3 years ago
1
Wrong Docker link
#53
iaconogi
closed
3 years ago
2
Flag to filter report for genomic/non-genomic audience
#52
fmaguire
opened
3 years ago
3
Update installation via conda in README.md
#51
thanhleviet
closed
3 years ago
1
Update to master
#50
cimendes
closed
3 years ago
0
Galaxy implementation
#49
fmaguire
closed
3 years ago
1
The length reported is amino acid rather than nucleotide
#48
antunderwood
closed
3 years ago
1
Ariba gene_symbol correction
#47
antunderwood
closed
3 years ago
1
Add Resfinder4 parsing
#46
antunderwood
closed
3 years ago
0
Add Resfinder 4 parsing for the ResFinder_results_tab.txt output
#45
antunderwood
closed
3 years ago
0
add support for resfinder v4 output
#44
fmaguire
closed
3 years ago
0
Update scheme
#43
fmaguire
closed
3 years ago
0
AMRfinder aminoacid reference lenght being saved in gene lenght field
#42
cimendes
closed
3 years ago
2
Update to latest version of master
#41
cimendes
closed
3 years ago
0
Add sanity testing for hAMRonization
#40
cimendes
closed
3 years ago
0
Input file format and structure validation
#39
cimendes
closed
3 years ago
3
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