scanstatistics / treescanLinks
Software for the Tree-Based Scan Statistic
☆11Updated last month
Alternatives and similar repositories for treescan
Users that are interested in treescan are comparing it to the libraries listed below
Sorting:
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago
- Interpretative standards for AMR genotypes☆25Updated 2 weeks ago
- Scalable relaxed clock phylogenetic dating☆27Updated 2 months ago
- Fast, scalable, accurate and accessible Bayesian phylogenetics☆40Updated 3 weeks ago
- GraphSNP: Using graph approach to investigate outbreak cluster and transmission in a web browser☆11Updated 3 weeks ago
- Reconstruction of transmission trees using genomic data☆63Updated 2 years ago
- ☆20Updated 7 months ago
- Organism-specific interpretation of AMR genotypes☆14Updated last year
- 🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission☆28Updated last month
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3☆16Updated 2 years ago
- Working with the outputs of sourmash in R☆27Updated last year
- ☆11Updated 8 months ago
- Consensus sequences for U.S. H5N1 clade 2.3.4.4b☆36Updated this week
- Phylodynamic inference☆19Updated 5 years ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆21Updated 6 months ago
- ☆18Updated 7 months ago
- ☆18Updated last year
- Viral (meta)-genome assembly pipeline.☆17Updated 2 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated last year
- Course materials for an introduction to SARS-CoV-2 sequencing data analysis☆14Updated last year
- A functional profiler for metagenomes using FracMinHash☆20Updated 3 months ago
- Protologgger is a tool for the description of novel taxa by providing taxonomic, functional and ecological insights☆13Updated 2 weeks ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆40Updated last month
- Utility to alias and dealias pango lineages☆23Updated last year
- REcombination BARcode detector.☆16Updated last year
- Estimating time trees from very large phylogenies☆28Updated last year
- ☆18Updated last month
- Tools for extracting individual genomes from metagenomes☆16Updated last year
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., in prep.)☆36Updated 3 weeks ago