A pipeline for for large-scale analysis of antimicrobial resistance genes and their flanking regions in metagenomic datasets
☆31Nov 9, 2025Updated 4 months ago
Alternatives and similar repositories for ARGprofiler
Users that are interested in ARGprofiler are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- ☆37Nov 5, 2025Updated 4 months ago
- Processing support for Greengenes2☆14Jul 31, 2023Updated 2 years ago
- Target / Integrative Genetic Element Retriever: precisely maps IGEs (a defined type of genomic island) in bacterial and archaeal genomes;…☆19Sep 2, 2025Updated 6 months ago
- A machine learning framework to predict antibiotic resistance traits and yet unknown genes underlying resistance to specific antibiotics …☆15Oct 6, 2022Updated 3 years ago
- An R interface to the omixer-rpm for turning metagenomic functional profiles into pathway/module profiles☆13Dec 16, 2022Updated 3 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting with the flexibility to host WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Cloudways by DigitalOcean.
- BRICK creates a BRIG-like interactive data visualisation for bacterial genome annotations and comparisons☆21Dec 9, 2025Updated 3 months ago
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆72Mar 16, 2025Updated last year
- Automated processing of Sanger sequencing data, taxonomic profiling, and generation of microbial strain libraries☆12Jan 4, 2026Updated 2 months ago
- Altered version of PathoFact to work more conveniently with SLURM and large input files☆14Nov 7, 2024Updated last year
- ARGpore2☆13Sep 12, 2024Updated last year
- metagenome population recombination rate estimation pipeline☆12Nov 23, 2025Updated 4 months ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆106Jan 22, 2026Updated 2 months ago
- Ley Lab MetaGenome Profiler DataBase generator☆49Nov 9, 2022Updated 3 years ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆52Aug 16, 2021Updated 4 years ago
- End-to-end encrypted cloud storage - Proton Drive • AdSpecial offer: 40% Off Yearly / 80% Off First Month. Protect your most important files, photos, and documents from prying eyes.
- The gview wiki migrated to GitHub.☆11Sep 3, 2020Updated 5 years ago
- Antibiotic resistance genes (ARGs) have accelerated microbial threats to human health during the last decade. Here we determined the risk…☆19Apr 8, 2022Updated 3 years ago
- Interpretative standards for AMR genotypes☆29Updated this week
- Set of utilities on sequences and BAM files☆27Oct 27, 2021Updated 4 years ago
- ☆33Apr 15, 2024Updated last year
- ☆12Oct 3, 2023Updated 2 years ago
- Tools for analyzing trees☆13Apr 16, 2025Updated 11 months ago
- A post-processing tool to reclassify Kraken 2 output based on the confidence score and/or minimum minimizer hit groups.☆10Nov 10, 2025Updated 4 months ago
- methylR: a single shiny solution from sequencer data to pathway analysis☆12Oct 30, 2024Updated last year
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- A deep learning based approach to predict Antibiotic Resistance Genes (ARGs) from metagenomes. It provides two models,deepARG-SS and deep…☆55Nov 15, 2023Updated 2 years ago
- AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…☆49Updated this week
- Genomewide Epistasis Analysis on Bacteria☆15May 13, 2025Updated 10 months ago
- ARG normalization by mapping to the ARO ontology.☆63Jul 30, 2025Updated 8 months ago
- CGView is a Java package for generating high-quality, zoomable maps of circular genomes.☆52Mar 2, 2026Updated 3 weeks ago
- ☆86Updated this week
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- Leviathan: A fast, memory-efficient, and scalable taxonomic and pathway profiler for (pan)genome-resolved metagenomics and metatranscript…☆18Mar 12, 2026Updated 2 weeks ago
- A toolkit for quality control & adjustment of nucleotide redundancy in bacterial pan-genome analyses☆21Feb 12, 2026Updated last month
- DigitalOcean Gradient AI Platform • AdBuild production-ready AI agents using customizable tools or access multiple LLMs through a single endpoint. Create custom knowledge bases or connect external data.
- A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs☆35Dec 4, 2025Updated 3 months ago
- Gene-flank analysis tool☆37Dec 18, 2024Updated last year
- A nextflow pipeline with a GMS touch for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbio…☆10Jan 23, 2026Updated 2 months ago
- Code for paper "ToxIBTL: prediction of peptide toxicity based on information bottleneck and transfer learning"☆13Jan 24, 2022Updated 4 years ago
- Software used to develop the TCMA database associated with 10.1016/j.chom.2020.12.001.☆14Nov 26, 2023Updated 2 years ago
- PanTax: Strain-level metagenomic profiling using pangenome graphs☆49Mar 2, 2026Updated 3 weeks ago
- Utility to analyse a group of closely related MAgs/Genomes/bins/SUBs of more or less dubious origin☆15Sep 24, 2024Updated last year