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.
☆24Mar 20, 2026Updated this week
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.☆18Mar 18, 2026Updated last week
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆29Jul 18, 2025Updated 8 months ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Dec 24, 2025Updated 3 months ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Feb 27, 2026Updated 3 weeks ago
- End-to-end encrypted email - Proton Mail • AdSpecial offer: 40% Off Yearly / 80% Off First Month. All Proton services are open source and independently audited for security.
- 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☆29Jul 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 last month
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆65Jun 5, 2025Updated 9 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 4 months ago
- Virtual machines for every use case on DigitalOcean • AdGet dependable uptime with 99.99% SLA, simple security tools, and predictable monthly pricing with DigitalOcean's virtual machines, called Droplets.
- 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…☆11Mar 16, 2026Updated last week
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- 2025 RAD microbes boot camp☆15Apr 30, 2025Updated 10 months ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated last month
- Ultrafast sequence typing and gene detection from NGS raw reads☆20Apr 15, 2021Updated 4 years ago
- Vaccine Ontology☆18Mar 6, 2026Updated 2 weeks ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 2 weeks ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆38Jan 22, 2026Updated 2 months ago
- 1-Click AI Models by DigitalOcean Gradient • AdDeploy popular AI models on DigitalOcean Gradient GPU virtual machines with just a single click and start building anything your business needs.
- Finding regions of similarity between plasmids☆17Nov 2, 2022Updated 3 years ago
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Bacterial surveillance pipeline.☆27Dec 30, 2025Updated 2 months ago
- Posterior Analysis of Coalescent Trees☆14Aug 6, 2015Updated 10 years ago
- Hierarchical clustering of cgMLST☆13Nov 20, 2023Updated 2 years ago
- Canada’s Integrated Rapid Infectious Disease Analysis Platform for Genomic Epidemiology☆43Apr 7, 2025Updated 11 months ago
- Collection template and associated materials for SARS-CoV-2 metadata☆37Oct 27, 2023Updated 2 years ago
- whole genome MLST analysis☆51Mar 13, 2026Updated last week
- Proton VPN Special Offer - Get 70% off • AdSpecial partner offer. Trusted by over 100 million users worldwide. Tested, Approved and Recommended by Experts.
- 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
- 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☆25Feb 5, 2026Updated last month
- Tool for exploring sequence alignment algorithms☆14Aug 30, 2024Updated last year
- VIGOR4☆21Aug 15, 2025Updated 7 months ago
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago