GSR: Simulator - Pyvolve
Attribute | Value |
---|---|
Title | Pyvolve |
Short Description | A Flexible Python Module for Simulating Sequences along Phylogenies |
Long Description | Pyvolve is an open-source Python module for simulating sequences along a phylogenetic tree according to continuous-time Markov models of sequence evolution. |
Version | 1.0.3 |
Project Started | 2009 |
Last Release | 3 years, 3 months ago |
Homepage | https://github.com/sjspielman/pyvolve |
Citations | Spielman SJ, Wilke CO, Pyvolve: A Flexible Python Module for Simulating Sequences along Phylogenies., PLoS One, 09-23-2015 [ Abstract, cited in PMC ] |
GSR Certification | ✔ Accessibility |
Last evaluated | 06-10-2021 (1016 days ago) |
Author verification | The basic description provided was derived from a website or publications by the GSR team and has not yet been verified by the simulation author. To modify this entry or add more information, propose changes to this simulator. |
Attribute Category | Attribute |
---|---|
Target | |
Type of Simulated Data | |
Variations | |
Simulation Method | |
Input | |
Data Type | |
File format | |
Output | |
Data Type | |
Sequencing Reads | |
File Format | |
Sample Type | |
Phenotype | |
Trait Type | |
Determinants | |
Evolutionary Features | |
Demographic | |
Population Size Changes | |
Gene Flow | |
Spatiality | |
Life Cycle | |
Mating System | |
Fecundity | |
Natural Selection | |
Determinant | |
Models | |
Recombination | |
Mutation Models | |
Events Allowed | |
Other | |
Interface | |
Development | |
Tested Platforms | |
Language | |
License | |
GSR Certification | Accessibility, Documentation, Application, Support, |
Number of Primary Citations: 1
Number of Non-Primary Citations: 2
The following 2 publications are selected examples of applications that used Pyvolve.
2023
Zhai H, Fukuyama J, A convenient correspondence between k-mer-based metagenomic distances and phylogenetically-informed β-diversity measures., PLoS Comput Biol, 01-06-2023 [Abstract]
2022
Guo F, Carbone I, Rasmussen DA, Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination., PLoS Comput Biol, 08-19-2022 [Abstract]