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.
☆25Jun 4, 2026Updated 3 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☆16Jun 18, 2026Updated 2 weeks ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆20Mar 25, 2026Updated 3 months ago
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated 11 months ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 3 weeks ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- 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☆40Feb 20, 2026Updated 4 months ago
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆66Jun 5, 2025Updated last year
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 3 weeks 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 8 months ago
- Simple, predictable pricing with DigitalOcean hosting • AdAlways know what you'll pay with monthly caps and flat pricing. Enterprise-grade infrastructure trusted by 600k+ customers.
- Import script needed to build FluPRINT database from source☆11May 23, 2019Updated 7 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 2 months ago
- Static website for the PH4AGE alliance☆13Oct 27, 2023Updated 2 years ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 4 months ago
- Ultrafast sequence typing and gene detection from NGS raw reads☆20Apr 15, 2021Updated 5 years ago
- Vaccine Ontology☆17Jun 12, 2026Updated 3 weeks ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 3 months ago
- Finding regions of similarity between plasmids☆17Updated this week
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆40Apr 6, 2026Updated 2 months ago
- Managed Database hosting by DigitalOcean • AdPostgreSQL, MySQL, MongoDB, Kafka, Valkey, and OpenSearch available. Automatically scale up storage and focus on building your apps.
- interactive barplot for amplicon sequencing☆13Dec 5, 2024Updated last year
- 2025 RAD microbes boot camp☆16Apr 9, 2026Updated 2 months ago
- Genomic neighbor typing of bacterial pathogens using MinHash☆42Jan 10, 2023Updated 3 years ago
- Bacterial surveillance pipeline.☆28Updated this 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☆44Mar 27, 2026Updated 3 months ago
- Collection template and associated materials for SARS-CoV-2 metadata☆37Oct 27, 2023Updated 2 years ago
- whole genome MLST analysis☆53Jun 17, 2026Updated 2 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.
- 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☆25Apr 13, 2026Updated 2 months ago
- Tool for exploring sequence alignment algorithms☆14Aug 30, 2024Updated last year
- VIGOR4☆22Aug 15, 2025Updated 10 months ago
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago