andersen-lab / avian-influenzaLinks
Consensus sequences for U.S. H5N1 clade 2.3.4.4b
☆36Updated last week
Alternatives and similar repositories for avian-influenza
Users that are interested in avian-influenza are comparing it to the libraries listed below
Sorting:
- Influenza data pipeline to automate genotyping assignment☆38Updated 2 months ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆20Updated 3 months ago
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆32Updated last month
- Utility to alias and dealias pango lineages☆23Updated 2 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Updated 6 months ago
- ☆20Updated 9 months ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 3 months ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆60Updated 2 weeks ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆40Updated 2 weeks ago
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated 3 weeks ago
- ☆36Updated 8 months ago
- Reconstruction of transmission trees using genomic data☆69Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- ☆21Updated 3 weeks ago
- Nextstrain build for avian influenza viruses☆27Updated last week
- INSaFLU-TELEVIR: an free web-based (but also locally installable) bioinformatics suite for virus metagenomic detection and routine genomi…☆40Updated 2 weeks ago
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., submitted)☆37Updated 3 weeks ago
- SC2 variant detection and composition pipeline☆17Updated 2 years ago
- Viral (meta)-genome assembly pipeline.☆17Updated 2 weeks ago
- ☆25Updated last year
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Updated 3 months ago
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆47Updated last week
- Interpretative standards for AMR genotypes☆26Updated 3 weeks ago
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Updated 9 months ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆68Updated 3 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆50Updated last year
- Metagenomic Analysis in Real Time☆29Updated last month
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Updated 3 years ago
- ☆56Updated 3 weeks ago
- Predict plasmids from uncorrected long read data☆41Updated 2 months ago