phylogeography / SpreaD3
Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3
☆13Updated last year
Alternatives and similar repositories for SpreaD3:
Users that are interested in SpreaD3 are comparing it to the libraries listed below
- Scalable relaxed clock phylogenetic dating☆24Updated 10 months ago
- R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.…☆30Updated last week
- Reconstruction of transmission trees using genomic data☆61Updated last year
- R We There Yet?☆30Updated 2 years ago
- ☆17Updated 8 months ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Updated 6 years ago
- BEAST 2 package which provides support for multi-type trees: phylogenetic trees on structured populations.☆21Updated last year
- Analysis of global migration patterns of seasonal influenza viruses☆22Updated 5 years ago
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆59Updated 2 years ago
- A versatile simulation engine for stochastic population dynamics models.☆22Updated 2 years ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆12Updated 3 months ago
- R code for writing Beast2 XML (especially morphology/tip-dating)☆11Updated 7 months ago
- Speedy versions of phyloseq functions☆46Updated 9 months ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆21Updated 2 years ago
- Sydney Phylogenetics Workshop☆63Updated 3 weeks ago
- ☆20Updated last year
- R package for microbial pangenomics☆21Updated 2 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…☆33Updated last year
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Cluster Investigation & Virus Epidemiology Tool☆50Updated 2 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆48Updated 3 months ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆85Updated 3 months ago
- Look Up Guild Information for Fungi in R☆19Updated last year
- Phylodynamic inference☆18Updated 4 years ago
- ☆67Updated 8 years ago
- Metabarcoding analyses pipeline - metaBarcoding and Environmental DNA Analysis Tool☆19Updated 5 years ago
- PHYLOgenomic analysis pipeline for HERBarium specimens☆17Updated last year
- Informatic Sequence Classification Trees☆14Updated 3 years ago