reconhub / outbreaker2
Disease outbreak reconstruction from epidemiological and genetic data
☆31Updated 4 months ago
Alternatives and similar repositories for outbreaker2:
Users that are interested in outbreaker2 are comparing it to the libraries listed below
- ☆19Updated 2 weeks ago
- Molecular Epidemiology of Viruses in R☆19Updated 9 years ago
- Basic Tools for the Analysis of Disease Outbreaks☆12Updated 5 years ago
- An Amazing Shiny App☆17Updated 3 years ago
- R package to run BEAST2☆11Updated this week
- Metagenomics calibration R package☆18Updated 2 years ago
- Coalescent simulation and likelihood for phylodynamic inference☆13Updated last month
- Analysis of Phylogenetics and Evolution☆58Updated last month
- R package to generate the same BEAST2 XML parameter files as generated by BEAUti 2☆13Updated this week
- Racmacs R package for performing antigenic cartography☆20Updated 7 months ago
- ☆11Updated last year
- A Toolbox for Manipulating Biological Sequences in R☆22Updated 2 years ago
- STAMPS 2018 course☆16Updated 6 years ago
- A model-based visualization method for microbiome data☆16Updated last year
- A Tidy Tool for Phylogenetic Tree Data Manipulation☆54Updated 6 months ago
- Growthcurver is an R package that fits growth curve data to a standard form of the logistic equation common in ecology and evolution whos…☆44Updated 3 years ago
- A manuscript exploring the effects of taxonomic bias on microbiome differential-abundance analysis.☆12Updated last year
- This repo contains the R microshades package, which contains a color blind accessible color palette with 30 unique colors and functions f…☆54Updated 7 months ago
- Snakemake template for building reusable and scalable machine learning pipelines with mikropml☆12Updated last year
- babette is an R package to work with BEAST2☆44Updated this week
- ☆10Updated 9 months ago
- phylogenetic networks using ggplot2 and ggtree☆11Updated 2 years ago
- Species richness with high diversity☆68Updated last year
- gcplyr is an R package that facilitates wrangling and analysis of microbial growth curve data☆30Updated 2 weeks ago
- ☆19Updated last year
- Tool for visualising viral lineages in space and time. As seen on covid19.sanger.ac.uk and covglobe.org.☆10Updated 2 years ago
- A DRAFT, early stage book on snakemake.☆18Updated last year
- R package to access the genomics and epidemiology data and Research Library metadata compiled and standardized on outbreak.info.☆20Updated last year
- Source files for online resources of Bioinformatics of Infectious Diseases course☆21Updated 4 years ago
- ☆17Updated 3 years ago