Consensus sequences for U.S. H5N1 clade 2.3.4.4b
☆38Jul 26, 2026Updated this week
Alternatives and similar repositories for avian-influenza
Users that are interested in avian-influenza are comparing it to the libraries listed below. We may earn a commission when you buy through links labeled 'Ad' on this page.
Sorting:
- Nextstrain build for avian influenza viruses☆29Updated this week
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆23Sep 29, 2025Updated 9 months ago
- Influenza data pipeline to automate genotyping assignment☆44Mar 19, 2026Updated 4 months ago
- Utility to alias and dealias pango lineages☆23Dec 18, 2023Updated 2 years ago
- A Nextflow pipeline for viral genomics (Influenza/RSV) supporting Illumina and Nanopore sequencing of clinical and wastewater samples.☆10Jun 9, 2026Updated last month
- 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.
- ☆25Jun 25, 2024Updated 2 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆78Updated this week
- Main development repository for SpreadGL☆23Jun 18, 2026Updated last month
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆29Mar 10, 2026Updated 4 months ago
- Data associated with the timeline of events during the 2024 H5N1 outbreak in the United States☆27Jul 17, 2024Updated 2 years ago
- A tool for exploring large trees in the browser☆133Updated this week
- US Health and Human Services scientific funding visualizations☆17Updated this week
- The R package 'phylosamp' implements novel tools that estimate the probability of transmission between two cases given phylogenetic linka…☆14May 23, 2023Updated 3 years ago
- Viral (meta)-genome assembly pipeline.☆23Updated this week
- 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.
- Influenza genome analysis Nextflow workflow☆33Sep 15, 2025Updated 10 months ago
- Prepares a SARS-CoV-2 submission for GISAID, NCBI or ENA. Can read GISAID or NCBI files, or plain fasta+tsv/csv/xls. Finds files in input…☆36May 1, 2022Updated 4 years ago
- ☆10Apr 16, 2025Updated last year
- The Zika bioinformatics pipeline☆37Mar 29, 2020Updated 6 years ago
- FluMut is a command-line tool to find markers of interest in H5N1 avian influenza viruses.☆15Updated this week
- R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2☆13Dec 8, 2025Updated 7 months ago
- SARS-CoV-2: detecting recombinations in viruses using large data sets with high sequence similarity☆13Aug 14, 2023Updated 2 years ago
- UPHL's Reference Free Pipeline☆29Jul 17, 2026Updated last week
- Estimating time trees from very large phylogenies☆27Jul 21, 2024Updated 2 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.
- Prediction fitness of leaves on a genealogical tree☆12May 7, 2015Updated 11 years ago
- ☆11Mar 10, 2024Updated 2 years ago
- Script that labels phylogenetic clades based on the clade of the nearest neighbor using patristic distances determined from the tree.☆15Dec 11, 2024Updated last year
- Full-length de novo viral haplotype reconstruction from noisy long reads☆21Nov 6, 2023Updated 2 years ago
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆93Updated this week
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆58Updated this week
- MAPLE - a new approximate approach for maximum likelihood phylogenetics at short divergence.☆65Mar 15, 2026Updated 4 months ago
- Viral genome alignment, mutation calling, clade assignment, quality checks and phylogenetic placement☆260Updated this week
- Automated Pipeline to Generate FTP Files and Manage Submission of Sequence Data to Public Repositories☆40Feb 20, 2026Updated 5 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.
- Cython API for the Mutation Annotated Tree (MAT) Online Phylogenetics Toolkit☆14May 28, 2025Updated last year
- Optimised estimates of reproduction numbers over time, which extract more information from an incidence curve than many conventional appr…☆23Dec 9, 2023Updated 2 years ago
- A pipeline that ingests SARS-CoV-2 (i.e. nCoV) data from GISAID and Genbank, transforms it, stores it on S3, and triggers Nextstrain nCoV…☆37Updated this week
- snipit: summarise snps relative to your reference sequence☆178Jan 13, 2026Updated 6 months ago
- A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.☆35Jul 11, 2026Updated 2 weeks ago
- Spriggan is a pipeline used for assembly of bacterial whole genome sequence data and identification of antibiotic resistance genes.☆16Jul 9, 2026Updated 2 weeks ago
- Ultrafast Sample Placement on Existing Trees☆140Jun 1, 2026Updated last month