⛔️ DEPRECATED Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology
☆44Mar 27, 2026Updated 2 months ago
Alternatives and similar repositories for irida
Users that are interested in irida are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- The MLST pipeline developed by the PathOGiST research group☆37Nov 29, 2023Updated 2 years ago
- Contains a set of Galaxy Tools mostly written by the Bioinformatics core at NML☆16May 1, 2026Updated last month
- IRIDA Next☆14Updated this week
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated this week
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Efficient and comprehensive metadata acquisition from the NCBI databases (includes SRA).☆54May 25, 2022Updated 4 years ago
- The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information req…☆25Jun 4, 2026Updated last week
- (Obsolete) NCBI Prokaryotic Genome Annotation Pipeline. New site:☆16Sep 7, 2018Updated 7 years ago
- ProkEvo - an automated, reproducible, and scalable framework for high-throughput bacterial population genomics analyses.☆19Aug 16, 2021Updated 4 years ago
- Intra-species bacterial contamination detection☆25Apr 13, 2026Updated 2 months ago
- Predict plasmids from uncorrected long read data☆41Feb 27, 2026Updated 3 months ago
- Classify sequencing reads using MinHash.☆48Apr 6, 2020Updated 6 years ago
- A Python package to update the MLST database for the mlst tool.☆27May 27, 2026Updated 2 weeks ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Managed hosting for WordPress and PHP on Cloudways • AdManaged hosting for WordPress, Magento, Laravel, or PHP apps, on multiple cloud providers. Deploy in minutes on Cloudways by DigitalOcean.
- Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.☆199Updated this week
- PlasmidID is a mapping-based, assembly-assisted plasmid identification tool that analyzes and gives graphic solution for plasmid identifi…☆44Jul 23, 2021Updated 4 years ago
- Histosketching Using Little Kmers☆57May 25, 2023Updated 3 years ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆21Oct 8, 2025Updated 8 months ago
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆39Feb 20, 2026Updated 3 months ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Dec 11, 2020Updated 5 years ago
- Tree Health and Plant Biosecurity Initiative - Phytophthora ITS1 Classifier Tool☆10Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Updated this week
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Updated 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.
- ASMNGS18 - 2018 Conference Details☆12Oct 3, 2018Updated 7 years ago
- MOB-suite: Software tools for clustering, reconstruction and typing of plasmids from draft assemblies☆176Apr 16, 2025Updated last year
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- A public repository for collective curation of antimicrobial resistance (AMR) genes and mutations. Submit, discuss, and resolve AMR curat…☆64Sep 23, 2025Updated 8 months ago
- Awesome resources related to Galaxy project☆11Nov 23, 2024Updated last year
- taxonomic classifier based on the kraken2 algorithms and more☆46Dec 12, 2025Updated 6 months ago
- Pan gGnome Viewer☆10Jul 10, 2025Updated 11 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆35Apr 24, 2025Updated last year
- Cluster informed Shigella and EIEC serotyping tool from Illumina reads and assemblies☆13Jun 30, 2023Updated 2 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.
- A tool easily taken advantage of for in silico serogrouping of Pseudomonas aeruginosa isolates☆14Aug 26, 2024Updated last year
- ☆14Apr 4, 2023Updated 3 years ago
- REcombination BARcode detector.☆16Apr 2, 2024Updated 2 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆40Sep 22, 2022Updated 3 years ago
- A curated database of completed assemblies with taxonomy IDs☆53Jun 7, 2026Updated last week
- Assembly and intrahost / low-frequency variant calling for viral samples☆15Feb 12, 2020Updated 6 years ago
- BSR-Based Allele Calling Algorithm☆150Jun 3, 2026Updated last week