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Antimicrobial Resistance Python Packages

Python packages with the GitHub topic antimicrobial-resistance. Sorted by relevance, with stars and monthly downloads.
EttoreRocchi
maldiamrkit

Comprehensive toolkit for MALDI-TOF mass spectrometry data preprocessing for antimicrobial resistance (AMR) prediction purposes

3K 3 1
phac-nml
staramr

Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.

2K 201 31
EttoreRocchi
respredai

Antimicrobial Resistance predictions via AI models

1K 5 0
oxfordmmm
gnomonicus

Python code to integrate results of tb-pipeline and provide an antibiogram, mutations and variants

1K 6 1
EttoreRocchi
maldideepkit

Catalog of sklearn-compatible deep learning classifiers for MALDI-TOF binned spectra

919 0 0
EttoreRocchi
maldibatchkit

Batch-effect correction methods for MALDI-TOF spectra in clinical AMR prediction workflows

903 1 0
pha4ge
hamronization

Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure

782 179 35
EttoreRocchi
maldisuite

MaldiSuite - a Python ecosystem for MALDI-TOF spectral processing and analysis in antimicrobial resistance research

469 0 0
bbeckley-hub
staphscope-typing-tool

StaphScope is a comprehensive bioinformatics tool for Staphylococcus aureus genomic analysis including MLST typing, spa typing, SCCmec analysis, antimicrobial resistance detection, virulence factors, plasmid profiling, and lineage prediction from whole genome sequencing data. Designed specifically for MRSA research

1 26 0
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