phylogeography / SpreaD3
Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3
☆15Updated last year
Alternatives and similar repositories for SpreaD3:
Users that are interested in SpreaD3 are comparing it to the libraries listed below
- R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al.…☆33Updated 2 weeks ago
- Reconstruction of transmission trees using genomic data☆62Updated last year
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆20Updated 3 years ago
- Scalable relaxed clock phylogenetic dating☆24Updated last year
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆62Updated 2 years ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆12Updated last week
- Sydney Phylogenetics Workshop☆62Updated 3 months ago
- R We There Yet?☆30Updated 3 weeks ago
- This repository provides source code for several pipelines dedicated to the alignment of nucleotide coding sequences that are based on MA…☆34Updated last year
- ☆26Updated 4 years ago
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆87Updated last week
- Modification of BayesAss 3.0.4 to allow handling of large SNP datasets☆16Updated 3 years ago
- Simple scripts for concatenate alignments and rename terminals for phylogenetics☆21Updated 2 years ago
- ☆17Updated last week
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- A package for population structure inference from RAD-seq data☆31Updated 3 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆48Updated 6 months ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Updated 6 years ago
- ☆20Updated 2 years ago
- R package for microbial pangenomics☆23Updated 3 years ago
- Metagenomic Analysis in Real Time☆24Updated 2 weeks ago
- ☆17Updated 7 years ago
- Performing highly efficient genome scans for local adaptation with R package pcadapt v4☆40Updated 6 months ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Assign taxonomy with blast, can be used for qiime☆22Updated 3 weeks ago
- ASMNGS20 - 2020 Conference Details☆15Updated 2 years ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 7 years ago
- Phylogenetic penalized likelihood☆47Updated 9 months ago
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago