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.
☆25Jul 11, 2026Updated last month
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:
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆30Jul 18, 2025Updated last year
- A simple pipeline for bacterial assembly and quality control☆17Updated this week
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Aug 17, 2026Updated 2 weeks ago
- Experiments with using BIGSI data structure for metagenomic and QC applications☆19Aug 12, 2024Updated 2 years ago
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆13Jul 2, 2026Updated 2 months ago
- GPU virtual machines on DigitalOcean Gradient AI • AdGet to production fast with high-performance AMD and NVIDIA GPUs you can spin up in seconds. The definition of operational simplicity.
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated 2 months ago
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆26Aug 26, 2024Updated 2 years ago
- rapid serotyping of Vibrio parahaemolyticus from whole genome sequencing data using serogroup-specific genes☆10Sep 2, 2021Updated 5 years ago
- A taxonomic classifier of plasmids☆29Jul 7, 2021Updated 5 years ago
- Repository for Apollo-SV ontology. Versioning Apollo-SV independently of the software was made easiest by having it as a separate reposi…☆10Aug 15, 2026Updated 2 weeks ago
- In silico prediction of E. coli serotype, pathotype and shiga toxin subtyping☆66Jun 5, 2025Updated last year
- Predict MLST directly from uncorrected long reads☆27Oct 31, 2025Updated 10 months ago
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 2 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 3 years 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.
- Bacterial surveillance pipeline.☆28Updated this week
- Vaccine Ontology☆17Jun 12, 2026Updated 2 months ago
- Import script needed to build FluPRINT database from source☆11May 23, 2019Updated 7 years ago
- 2025 RAD microbes boot camp☆17Apr 9, 2026Updated 4 months ago
- Static website for the PH4AGE alliance☆14Oct 27, 2023Updated 2 years ago
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Updated this week
- Hierarchical clustering of cgMLST☆13Nov 20, 2023Updated 2 years ago
- Ultrafast sequence typing and gene detection from NGS raw reads☆20Apr 15, 2021Updated 5 years ago
- serious constellations of reoccurring phylogenetically-independent origin☆39Feb 13, 2026Updated 6 months ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- Finding regions of similarity between plasmids☆17Jul 15, 2026Updated last month
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆42Apr 6, 2026Updated 4 months 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
- Posterior Analysis of Coalescent Trees☆14Aug 6, 2015Updated 11 years ago
- whole genome MLST analysis☆55Jun 17, 2026Updated 2 months ago
- Collection template and associated materials for SARS-CoV-2 metadata☆37Oct 27, 2023Updated 2 years ago
- 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
- Pipeline to generate NGS reads from a phylogeny☆39Sep 13, 2022Updated 3 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.
- Intra-species bacterial contamination detection☆26Jul 10, 2026Updated last month
- Freelance bioinformaticians directory☆10Feb 10, 2023Updated 3 years ago
- Tool for exploring sequence alignment algorithms☆14Aug 30, 2024Updated 2 years ago
- ☆22Jun 1, 2026Updated 3 months ago
- VIGOR4☆23Aug 15, 2025Updated last year
- Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)☆62Mar 23, 2023Updated 3 years ago
- Output FASTQ summary statistics in JSON format☆29Oct 30, 2022Updated 3 years ago