AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and protein sequence.

(Meta-)genome screening for functional and natural product gene sequences

ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Database

A resistome profiler for Graphing Resistance Out Of meTagenomes

ARG normalization by mapping to the ARO ontology.

Plascad is a computationally efficient tool designed for plasmids classification, antibiotic resistance genes (ARGs) annotation and plasmid visualization.

No description provided.

Ecosystem of numerical methods for microbial kinetics data analysis, from preprocessing to result interpretation.

Desktop tool for microbial genome annotation and gene detection

Argo: species-resolved profiling of antibiotic resistance genes in complex metagenomes through long-read overlapping

Curation of Antibiotic Resistance Genes by using crowdsourcing

Python package to interact with the PATRIC database (https://www.patricbrc.org)

AcinetoScope: A Unified Pipeline for Comprehensive Acinobacter baumannii & Species Complex Genotyping & Epidemiology

Antibiotic discovery using graph deep learning, with Chemprop.

PRAWNS: A fast and scalable bioinformatics tool that generates an efficient pan-genome representation of closely related whole genomes to provide a concise list of genomic features

Antibiotic Resistant Target Seeker (ARTS)

Extract discriminatory ARGs from metagenomics samples

Visualise your isolate's antibiotic resistance profile

Early prediction of Antimicrobial Resistance (AMR) using Machine Learning

Interpretable genotype-to-phenotype models with rule-based classifiers

Active surveillance of newly-admitted nursing home patients for colonization of antibiotic-resistant bacteria reveals that multiple lineages have spread across southeast Michigan healthcare networks.

A tool for AMR gene family prediction, simple and ML-based

This Github repository contains the files used to perform a master thesis about antibiotic resistance genes in wastewater.

Screen plasmids for carbapenemase resistance genes, and classify using MOB Suite

A simple package for simulations of microbial growth experiments with realistic sources of error.

2306. SENAITE extension profile for labs at Republic of Palau

Code for ML-based detection of unstable antibiotic heteroresistance in E. coli genomic data

Pure Python port and interface to ABRicate, a tool for mass screening of contigs for antimicrobial resistance or virulence genes.

Interaction networks between antibiotic exposure, microbial factors and clinical features in nursing home patients influence the risk of catheter-associated urinary tract infection.

Identifying gut microbiome features associated with the risk of acquiring an enteric drug-resistant organism (e.g. vancomycin-resistant Enterococcus and resistant gram-negative bacteria) in patients recently discharged from acute-care hospital and admitted into nursing homes.