sdellicour / seraphim
R package for studying environmental rasters and phylogenetic informed movements (Dellicour et al. 2016, Bioinformatics; Dellicour et al. 2016, BMC Bioinf.)
☆33Updated last week
Alternatives and similar repositories for seraphim:
Users that are interested in seraphim are comparing it to the libraries listed below
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3☆15Updated last year
- Reconstruction of transmission trees using genomic data☆62Updated last year
- Sydney Phylogenetics Workshop☆62Updated 3 months ago
- ☆20Updated 2 years ago
- R We There Yet?☆30Updated 3 weeks ago
- Phylodynamic inference☆18Updated 4 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆48Updated 6 months ago
- Virus reassortment inference software. Infers both recent and ancestral reassortment and uses flexible molecular clock constraints.☆12Updated this week
- Bayesian inference of ancestral dates on bacterial phylogenetic trees☆87Updated last week
- Amplicon sequence processing workflow using QIIME 2 and Snakemake☆45Updated last month
- Scalable relaxed clock phylogenetic dating☆24Updated last year
- r package for post-clustering curation of amplicon next generation sequencing data (metabarcoding)☆65Updated last year
- Influenza data pipeline to automate genotyping assignment☆31Updated 2 months ago
- ☆26Updated 4 years ago
- diversity estimation under ecological networks☆83Updated last year
- Estimating time trees from very large phylogenies☆26Updated 8 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆48Updated 2 years ago
- Tutorial on Bayesian phylogenetic analysis☆46Updated 7 years ago
- A set of R scripts for the analysis of microbial profiles☆41Updated 10 months ago
- Code for the paper "Learning the fitness dynamics of pathogens from phylogenies"☆16Updated this week
- AMPtk: Amplicon ToolKit for NGS data (formally UFITS)☆38Updated last year
- Cluster Investigation & Virus Epidemiology Tool☆50Updated 2 years ago
- functions for analyzing phyloseq data☆27Updated 2 months ago
- ☆16Updated 2 weeks ago
- ☆17Updated this week
- A fast approximation to a Dirichlet Process Mixture model (DPM) for clustering genetic data☆62Updated 2 years ago
- Species richness with high diversity☆68Updated last year
- Various functions for analysis of microbial community data☆43Updated 2 years ago
- Various customs functions written to enhance the base functions of phyloseq. Most of them are used in the formation "Métagénomique 16S" p…☆33Updated last month
- A robust and fast clustering method for amplicon-based studies☆31Updated 2 years ago