Resistance Gene Identifier (RGI). Software to predict resistomes from protein or nucleotide data, including metagenomics data, based on homology and SNP models.
☆402Jan 12, 2026Updated last month
Alternatives and similar repositories for rgi
Users that are interested in rgi are comparing it to the libraries listed below
Sorting:
- AMRFinderPlus - Identify AMR genes and point mutations, and virulence and stress resistance genes in assembled bacterial nucleotide and p…☆351Feb 24, 2026Updated last week
- Mass screening of contigs for antimicrobial and virulence genes☆481Jan 31, 2026Updated last month
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆186Feb 24, 2026Updated last week
- geNomad: Identification of mobile genetic elements☆291Nov 10, 2025Updated 3 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆607Feb 18, 2026Updated 2 weeks ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆168Apr 16, 2025Updated 10 months ago
- Parse multiple Antimicrobial Resistance Analysis Reports into a common data structure☆173Updated this week
- Antimicrobial Resistance Identification By Assembly☆184Oct 12, 2023Updated 2 years ago
- An updated pipeline for pangenome investigation☆345Jan 15, 2026Updated last month
- A flexible pipeline for complete analysis of bacterial genomes☆500Dec 19, 2025Updated 2 months ago
- Build a partitioned pangenome graph from microbial genomes☆294Feb 25, 2026Updated last week
- Rapid comparison and dereplication of genomes☆327Nov 10, 2025Updated 3 months ago
- Identification & characterization of bacterial plasmid-borne contigs from short-read draft assemblies.☆122Jan 22, 2025Updated last year
- ⚡♠️ Assemble bacterial isolate genomes from Illumina paired-end reads☆255Dec 13, 2025Updated 2 months ago
- KrakenTools provides individual scripts to analyze Kraken/Kraken2/Bracken/KrakenUniq output files☆367Aug 1, 2025Updated 7 months ago
- GTDB-Tk: a toolkit for assigning objective taxonomic classifications to bacterial and archaeal genomes.☆582Feb 21, 2026Updated last week
- ATLAS - Three commands to start analyzing your metagenome data☆402Nov 28, 2025Updated 3 months ago
- Fast Whole-Genome Similarity (ANI) Estimation☆447Dec 16, 2025Updated 2 months ago
- Gene cluster comparison figure generator☆636Dec 22, 2025Updated 2 months ago
- Assess the quality of microbial genomes recovered from isolates, single cells, and metagenomes☆403Jun 12, 2025Updated 8 months ago
- Rapid large-scale prokaryote pan genome analysis☆371Nov 3, 2025Updated 4 months ago
- customizable pipeline to identify viral sequences from (meta)genomic data☆281Nov 28, 2024Updated last year
- Read alignment statistics for metagenomics☆390Jan 16, 2026Updated last month
- Precise phylogenetic analysis of microbial isolates and genomes from metagenomes☆161Feb 13, 2026Updated 2 weeks ago
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆294Feb 3, 2026Updated last month
- Rapid prokaryotic genome annotation☆957Jan 6, 2026Updated last month
- Antibiotic resistance prediction in minutes☆113Nov 24, 2024Updated last year
- A complete pipeline for metagenomic analysis☆440Updated this week
- hybrid assembly pipeline for bacterial genomes☆634Jul 25, 2024Updated last year
- MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis☆460Jul 28, 2023Updated 2 years ago
- Generic but comprehensive pipeline for prokaryotic genome annotation and interrogation with interactive reports and shiny app.☆105Jan 22, 2026Updated last month
- Parsnp was designed to align the core genome of hundreds to thousands of bacterial genomes within a few minutes to few hours. Input can b…☆152Oct 2, 2025Updated 5 months ago
- CAMISIM: Simulating metagenomes and microbial communities☆222Feb 18, 2026Updated 2 weeks ago
- 🌈 Interactive analysis of metagenomics data☆443Sep 17, 2025Updated 5 months ago
- The second version of the Kraken taxonomic sequence classification system☆873Feb 19, 2026Updated last week
- MetaPhlAn is a computational tool for profiling the composition of microbial communities from metagenomic shotgun sequencing data☆393Dec 13, 2025Updated 2 months ago
- NCBI Prokaryotic Genome Annotation Pipeline☆369Feb 9, 2026Updated 3 weeks ago
- Rapid haploid variant calling and core genome alignment☆567Dec 12, 2025Updated 2 months ago
- Bracken (Bayesian Reestimation of Abundance with KrakEN) is a highly accurate statistical method that computes the abundance of species i…☆338Feb 26, 2025Updated last year