The AMRgen package provides tools for interpreting antimicrobial resistance (AMR) genes, integrating genomic data with phenotypic antimicrobial susceptibility testing (AST) data, and calculating genotype-phenotype associations.
☆21Jul 30, 2026Updated 2 months ago
Alternatives and similar repositories for AMRgen
Users that are interested in AMRgen are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆22Sep 9, 2026Updated last month
- Interpretative standards for AMR genotypes☆32Updated this week
- Analysing the genomic context of mobile genes☆11Jul 21, 2025Updated last year
- PlasMAAG is a tool to recover plasmids and organisms from metagenomic samples☆32Sep 1, 2026Updated last month
- This is the webpage of the ESGEM-AMR Working Group☆16Sep 29, 2026Updated last week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆187Apr 16, 2025Updated last year
- PopPUNK 👨🎤 (POPulation Partitioning Using Nucleotide Kmers)☆112Jun 2, 2026Updated 4 months ago
- Inferring global and local strict molecular clocks using root-to-tip regression☆20Jun 30, 2026Updated 3 months ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆27Aug 8, 2022Updated 4 years ago
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes. It provides two models,deepARG-SS and deep…☆60Apr 30, 2026Updated 5 months ago
- A tool for generating consensus long-read assemblies for bacterial genomes☆240Oct 2, 2026Updated last week
- PLSDB pipeline to collect bacterial plasmids from NCBI☆40Oct 23, 2024Updated last year
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆59Updated this week
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- Identify Variants of Concern from metagenomic samples of SARS-CoV-2☆13Sep 9, 2021Updated 5 years ago
- ☆11Feb 14, 2023Updated 3 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆51Sep 25, 2026Updated 2 weeks ago
- Functions to simplify and standardise antimicrobial resistance (AMR) data analysis and to work with microbial and antimicrobial propertie…☆114Updated this week
- RCandy: an R package for visualising homologous recombination events in bacterial genomes☆25Jun 17, 2022Updated 4 years ago
- Repository for the T2D/obesity experiments run in the Metapheno paper☆15Feb 6, 2019Updated 7 years ago
- A genome diagram generator for microbes and organelles☆155Updated this week
- nf-test utility functions☆13Sep 29, 2026Updated last week
- An open-source software package to power microbial genomic databases☆74Updated this week
- Wordpress hosting with auto-scaling - Free Trial Offer • AdFully Managed hosting for WordPress and WooCommerce businesses that need reliable, auto-scalable performance. Cloudways SafeUpdates now available.
- R shiny app for interactive microbiome analysis☆55Sep 18, 2026Updated 3 weeks ago
- BItsliced Genomic Signature Index - Efficient indexing and search in very large collections of WGS data☆10Jun 13, 2023Updated 3 years ago
- From metagenomes to epitopes and beyond☆12Sep 1, 2026Updated last month
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆91Sep 9, 2026Updated last month
- SPANDx - Comparative genomics for next-generation haploid sequence data☆22Aug 5, 2026Updated 2 months ago
- ☆11Jun 29, 2023Updated 3 years ago
- Mycobacterium tuberculosis complex lineage typing☆10Jun 22, 2025Updated last year
- Search text files for DNA sequences and their reverse complements☆13Mar 2, 2017Updated 9 years ago
- ☆16Jun 30, 2021Updated 5 years ago
- Deploy to Railway using AI coding agents - Free Credits Offer • AdUse Claude Code, Codex, OpenCode, and more. Autonomous software development now has the infrastructure to match with Railway.
- High-quality Nanopore-only genome polisher☆71Aug 16, 2024Updated 2 years ago
- Mycobacterial pipeline☆11Sep 11, 2025Updated last year
- ☆19Dec 6, 2022Updated 3 years ago
- pyRforest: A comprehensive R package for genomic data analysis featuring scikit-learn Random Forests in R☆13Aug 20, 2024Updated 2 years ago
- All The Bacteria CLI — query 3.2M bacterial genomes (AMR, MLST, assemblies, metadata) from the terminal☆37Sep 2, 2026Updated last month
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆19Aug 28, 2026Updated last month
- A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets☆32Nov 9, 2025Updated 11 months ago