The Genomic Epidemiology Application Ontology describes the genomics, laboratory, clinical and epidemiological contextual information required to support data sharing and integration for foodborne infectious disease surveillance and outbreak investigations.
☆24Apr 17, 2026Updated 2 weeks ago
Alternatives and similar repositories for genepio
Users that are interested in genepio are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- A simple pipeline for bacterial assembly and quality control☆16Updated this week
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆19Mar 25, 2026Updated last month
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆29Jul 18, 2025Updated 9 months ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 4 months ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 2 months 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.
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated last year
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 4 years ago
- A taxonomic classifier of plasmids☆28Jul 7, 2021Updated 4 years ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated last year
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆39Feb 20, 2026Updated 2 months ago
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆65Jun 5, 2025Updated 10 months ago
- CFSAN Shigella Typing Pipeline☆15Jul 6, 2023Updated 2 years ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 6 months ago
- Bare Metal GPUs on DigitalOcean Gradient AI • AdPurpose-built for serious AI teams training foundational models, running large-scale inference, and pushing the boundaries of what's possible.
- Import script needed to build FluPRINT database from source☆11May 23, 2019Updated 6 years ago
- Repository for Apollo-SV ontology. Versioning Apollo-SV independently of the software was made easiest by having it as a separate reposi…☆11Apr 9, 2026Updated 3 weeks ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 2 months ago
- Vaccine Ontology☆17Mar 6, 2026Updated last month
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated last month
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆39Apr 6, 2026Updated 3 weeks ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Deploy on Railway without the complexity - Free Credits Offer • AdConnect your repo and Railway handles the rest with instant previews. Quickly provision container image services, databases, and storage volumes.
- 2025 RAD microbes boot camp☆16Apr 9, 2026Updated 3 weeks ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Bacterial surveillance pipeline.☆27Apr 28, 2026Updated last week
- Posterior Analysis of Coalescent Trees☆14Aug 6, 2015Updated 10 years ago
- Hierarchical clustering of cgMLST☆13Nov 20, 2023Updated 2 years ago
- ⛔️ DEPRECATED Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology☆43Mar 27, 2026Updated last month
- Collection template and associated materials for SARS-CoV-2 metadata☆37Oct 27, 2023Updated 2 years ago
- whole genome MLST analysis☆51Mar 27, 2026Updated last month
- Ampseer examines reads in fastq format and identifies which multiplex PCR primer set was used to generate the SARS-CoV-2 sequencing libra…☆15Feb 27, 2024Updated 2 years ago
- 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.
- Freelance bioinformaticians directory☆10Feb 10, 2023Updated 3 years ago
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 years ago
- Intra-species bacterial contamination detection☆25Apr 13, 2026Updated 3 weeks ago
- Tool for exploring sequence alignment algorithms☆14Aug 30, 2024Updated last year
- VIGOR4☆22Aug 15, 2025Updated 8 months ago
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Dec 2, 2024Updated last year