Pipeline for creating comprehensive viral reference sets.
☆12Oct 28, 2026Updated last week
Alternatives and similar repositories for epitome
Users that are interested in epitome are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Bacterial surveillance pipeline.☆30Sep 30, 2026Updated last month
- Viral (meta)-genome assembly pipeline.☆24Sep 8, 2026Updated last month
- Nextflow workflows to assign Salmonella serotype based on Genome similarity using MASH, SOURMASH and KMA.☆15Sep 29, 2026Updated last month
- TaxTriage is a Nextflow workflow designed to agnostically identify and give confidences of microbial organisms within short- or long-read…☆85Updated this week
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Oct 27, 2026Updated last week
- 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.
- In silico Penicillin Binding Protein (PBP) typer for Streptococcus pneumoniae assemblies☆10Aug 6, 2024Updated 2 years ago
- ☆13May 29, 2026Updated 5 months ago
- Dryad is a Nextflow pipeline for examining prokaryote relatedness. Dryad can perform a reference free analysis and/or SNP analysis.☆21Oct 27, 2026Updated last week
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆36Oct 6, 2026Updated last month
- ☆28Aug 2, 2023Updated 3 years ago
- Scripts and reference files to type Group A Streptococcus☆11Aug 31, 2026Updated 2 months ago
- Rapid identification of Staphylococcus aureus agr locus type and agr operon variants.☆14Jan 6, 2023Updated 3 years ago
- emm Automatic Isolate Labeller☆16Mar 25, 2025Updated last year
- Assembly of Nanopore Sequencing☆17Oct 9, 2026Updated 3 weeks 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.
- Reference-based consensus creation☆61Updated this week
- NCBI Pathogen Detection Portal toolkit☆11Sep 6, 2023Updated 3 years ago
- Wastewater-Based Epidemiology using Phylogenetic Placements☆20Oct 15, 2026Updated 3 weeks ago
- A simple nextflow pipeline for running kraken2 and bracken in a docker container☆22Oct 8, 2025Updated last year
- A pipeline for bioinformatics analysis of bacterial genomes☆33Oct 5, 2026Updated last month
- Plasmid and antimicrobial resistance pipeline☆16Sep 28, 2026Updated last month
- Databases for wg/cgMLST analysis with the PN2.0 software☆10May 7, 2026Updated 5 months ago
- A user-friendly tool to screen antimicrobial resistance in fungal genomes☆21May 8, 2026Updated 5 months ago
- Python package to access and download data from the ATCC Genome Portal (https://genomes.atcc.org/)☆12Dec 23, 2025Updated 10 months ago
- Serverless GPU API endpoints on Runpod - Get Bonus Credits • AdSkip the infrastructure headaches. Auto-scaling, pay-as-you-go, no-ops approach lets you focus on innovating your application.
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Oct 20, 2026Updated 2 weeks ago
- Workflow for whole genome sequencing based phylogeny of Illumina and ONT R9/R10 data.☆11Oct 7, 2026Updated 3 weeks ago
- Use tbl2asn forever by pretending that it's still 2019☆12Jan 24, 2020Updated 6 years ago
- mytax is a tool for building custom taxonomies, useful for nucleotide sequence classification☆14Oct 9, 2026Updated 3 weeks ago
- JUNIPER: Large-Scale Outbreak Reconstruction☆14Mar 26, 2025Updated last year
- StxTyper uses a standardized algorithm to accurately type both known and unknown Shiga toxin operons from assembled genomic sequence.☆19Aug 28, 2026Updated 2 months ago
- CFSAN Shigella Typing Pipeline☆15Jun 11, 2026Updated 4 months ago
- ☆16Mar 12, 2026Updated 7 months ago
- A simple pipeline for bacterial assembly and quality control☆17Oct 22, 2026Updated 2 weeks ago
- Managed Kubernetes at scale on DigitalOcean • AdDigitalOcean Kubernetes includes the control plane, bandwidth allowance, container registry, automatic updates, and more for free.
- A Python package for working with Bactopia☆12Aug 5, 2026Updated 3 months ago
- UPHL's Reference Free Pipeline☆29Updated this week
- ☆10Apr 16, 2025Updated last year
- Nextflow pipeline for species-specific typing of bacteria☆11Oct 13, 2026Updated 3 weeks ago
- Development has moved to GitLab: https://gitlab.com/cgps/tools/speccheck. A bioinformatics software focused on quality control based on s…☆15Updated this week
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Aug 15, 2024Updated 2 years ago
- Generate basic stats for an assembly.☆13Feb 12, 2023Updated 3 years ago