A Flexible Python Module for Simulating Sequences along Phylogenies Long Description (required)
Pyvolve is an open-source Python module for simulating sequences along a phylogenetic tree according to continuous-time Markov models of sequence evolution. https://github.com/sjspielman/pyvolve
Step 1: Use the attribute tree to add new attributes or remove pre-selected attributes to describe the simulator.
Every sub-attribute is selected Not all sub-attributes are selectedFill Clear Expand Collapse Reset
Summary of Proposed Changes Step 2: Review list of proposed attribute addition(s) and subtraction(s).
Can't Find the Attribute You Are Looking For? If you would like to propose an attribute that you cannot find in the tree above, or if you would like to add a clarification to one or more attributes for this simulator (e.g. a specific file format for attribute /Output/File Format/Other), please list them in the Additional Comment box of the Submit tab .
Summary of Proposed Changes Current Citations/Applications
[Pubmed ID: 26397960 ],
Spielman SJ, Wilke CO ,
Pyvolve: A Flexible Python Module for Simulating Sequences along Phylogenies. ,
PLoS One ,
09-23-2015 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=26397960, Primary Citation
[Pubmed ID: 35984849 ],
Guo F, Carbone I, Rasmussen DA ,
Recombination-aware phylogeographic inference using the structured coalescent with ancestral recombination. ,
PLoS Comput Biol ,
08-19-2022 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=35984849, , Application
[Pubmed ID: 36608056 ],
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 ,
https://www.ncbi.nlm.nih.gov/pubmed/?term=36608056, , Application