MurrellGroup / lineagesLinks
Results from a model of global SARS-CoV-2 lineage competition
☆39Updated last month
Alternatives and similar repositories for lineages
Users that are interested in lineages are comparing it to the libraries listed below
Sorting:
- Nextstrain build for mpox virus☆50Updated this week
- Utility to alias and dealias pango lineages☆23Updated 2 years ago
- ☆20Updated 10 months ago
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆37Updated this week
- serious constellations of reoccurring phylogenetically-independent origin☆39Updated 2 years ago
- ☆74Updated 2 years ago
- A tool for exploring large trees in the browser☆119Updated 2 weeks ago
- Variant abundance estimation for SARS-CoV-2 in wastewater using RNA-Seq quantification☆15Updated 2 years ago
- Repository for storing latest model, protobuf, designation hash and alias files for pangolin assignments☆32Updated 3 weeks ago
- Reference-guided multiple sequence alignment of viral genomes☆70Updated 3 months ago
- Consensus sequences for each Pango lineage☆23Updated 7 months ago
- Rapid analysis and visualization of coronavirus genome variation☆48Updated 2 weeks ago
- Influenza data pipeline to automate genotyping assignment☆39Updated 3 months ago
- Efficient and fast querying and parsing of GTDB's data☆29Updated 5 months ago
- ☆26Updated 7 months ago
- Clustering the NCBI nr database with mmseq2 (90% length, 90% identity). Inspired by the NCBI's experimental ClusteredNR database.☆23Updated 3 months ago
- SARS-Cov-2 Recombinant Finder for fasta sequences☆50Updated 3 years ago
- Universal and efficient structure-based core gene phylogeny with Foldseek and ProstT5☆82Updated 2 months ago
- TaxTriage is a Nextflow workflow designed to agnostically identify and classify microbial organisms within short- or long-read metagenomi…☆61Updated this week
- Influenza genome analysis Nextflow workflow☆31Updated 4 months ago
- Detection of incorrectly labeled sequences across kingdoms☆88Updated 3 years ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆40Updated last month
- A versatile simulation engine for stochastic population dynamics models.☆23Updated 3 years ago
- Nail is an Alignment Inference tooL☆55Updated last week
- This RAPT repository has been retired as of December 2024. NCBI's Read assembly and Annotation Pipeline Tool (RAPT) was a pilot service.☆58Updated 10 months ago
- Programmatically interact with the GISAID database.☆80Updated 6 months ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆21Updated 4 months ago
- Global phylogenies of SARS-CoV-2 sequences☆85Updated 2 years ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated 4 months ago
- FastTree 2: Approximately-Maximum-Likelihood Trees for Large Alignments☆32Updated 8 months ago