phylogeography / SpreaD3Links
Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3
☆16Updated 2 years ago
Alternatives and similar repositories for SpreaD3
Users that are interested in SpreaD3 are comparing it to the libraries listed below
Sorting:
- Reconstruction of transmission trees using genomic data☆63Updated last year
- R package for studying phylogenetically-informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al., in prep.)☆34Updated last week
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Speedy versions of phyloseq functions☆48Updated last year
- Scalable relaxed clock phylogenetic dating☆25Updated 3 weeks ago
- A set of R scripts for the analysis of microbial profiles☆41Updated 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 5 months ago
- The Microbiome Explorer provides methods to analyze and visualize microbial community sequencing data either from the R command line or t…☆72Updated 2 years ago
- diversity estimation under ecological networks☆84Updated 3 weeks ago
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆68Updated last year
- Tools for extracting individual genomes from metagenomes☆17Updated last year
- Various functions for analysis of microbial community data☆45Updated 2 years ago
- Miscellaneous functions for metagenomic analysis.☆51Updated this week
- functions for analyzing phyloseq data☆28Updated 6 months ago
- ☆21Updated 2 years ago
- A synthesis of bacterial and archaeal phenotypic trait data☆35Updated last year
- Sydney Phylogenetics Workshop☆66Updated last month
- Functions for compositional analysis of high throughput sequencing☆29Updated last year
- power estimation for microbiome studies analyzed with pairwise distances and PERMANOVA☆38Updated 9 years ago
- Utilities for community ecology analysis☆19Updated 4 years ago
- Sequence Taxonomic Assignment by Massive Pairwise Alignments☆14Updated 2 years ago
- creating reference databases for amplicon sequencing☆40Updated last week
- An R package for analysis of microbiome relative abundance data using zero inflated beta GAMLSS and meta-analysis across microbiome studi…☆34Updated 4 years ago
- Parse NCBI taxonomy and accessions to find taxonomic assignments☆77Updated last month
- Tools for visualising microbial community amplicon data☆67Updated last week
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆65Updated 2 years ago
- TaxonTableTools - A comprehensive, platform-independent graphical user interface software to explore and visualise DNA metabarcoding data☆23Updated last month
- A web app for environmental DNA metabarcoding analysis☆10Updated 3 years ago
- ☆76Updated last year