andersen-lab / avian-influenzaLinks
Consensus sequences for U.S. H5N1 clade 2.3.4.4b
☆37Updated 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☆39Updated 3 months ago
- Utility to alias and dealias pango lineages☆23Updated 2 years ago
- Interpretative standards for AMR genotypes☆26Updated this week
- ☆20Updated 9 months ago
- SC2 variant detection and composition pipeline☆18Updated 2 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 4 months ago
- Cluster Investigation & Virus Epidemiology Tool☆50Updated 7 months ago
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Updated 3 years ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆61Updated this week
- Reconstruction of transmission trees using genomic data☆71Updated 2 years ago
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., submitted)☆37Updated 3 weeks ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆32Updated last week
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆20Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆32Updated this week
- Bacterial surveillance pipeline.☆26Updated 3 weeks ago
- ☆37Updated last week
- LYVE-SET, a method of using hqSNPs to create a phylogeny, especially for outbreak investigations☆27Updated last year
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Updated 4 months ago
- ☆21Updated last month
- UPHL's Reference Free Pipeline☆27Updated 2 months ago
- Viral (meta)-genome assembly pipeline.☆17Updated last week
- Metagenomic Analysis in Real Time☆29Updated 2 months ago
- Intra-species bacterial contamination detection☆25Updated 11 months ago
- MIRA: Portable, Interactive Application for High-Quality Influenza, SARS-CoV-2 and RSV Genome Assembly, Annotation, and Curation☆22Updated 3 months ago
- An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.☆48Updated this week
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆47Updated 3 months ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆40Updated last month
- 🐻⇔🐨 Calculate distance matrix from ChewBBACA cgMLST allele call tables☆29Updated 3 weeks ago
- Nextstrain build for avian influenza viruses☆27Updated 3 weeks ago