9 projects
pastml
Ancestral character reconstruction and visualisation for rooted phylogenetic trees.
treesimulator
Simulation of rooted phylogenetic trees under a given Multitype Birth–Death model.
pybdei
Fast and accurate epidemiological parameter estimation from phylogenetic trees with the Birth-Death Exposed-Infectious (BDEI) model.
phylodeep
Phylodynamic paramater and model inference using pretrained deep neural networks.
jphmm-tools
Tools for extracting information from jpHMM (http://jphmm.gobics.de) output.
cytopast
Visualisation of PastML trees.
sbml_vis
SBML zoomable visualization utilities.
mod_sbml
Utilities for working with metabolic models in SBML format.
sbml_generalization
Knowledge-based generalization for metabolic models in SBML format.