TreeTime¶
TreeTime can be used for ancestral sequence reconstruction and inference of molecular-clock phylogenies. The bundle packages version 0.11.4.
Usage example¶
The following command can be executed in the terminal to load the bundle:
The module makes the treetime command available. The treetime_shell command
can be used to access a shell in the bundle.
Run pet list -t treetime for a list of examples.
Performance notes¶
No performance notes available
Recommended resources per session¶
TreeTime should be run on a system with at least 8 GB of RAM and 2 threads.
Benchmarks¶
No benchmarks available.
Community guides and tutorials¶
- No community guides available.
Official site and documentation¶
Licensing information¶
TreeTime is licensed under the MIT license.
Primary citation¶
TreeTime: Maximum-likelihood phylodynamic analysis. Pavel Sagulenko, Vadim Puller, Richard A Neher Virus Evolution, Volume 4, Issue 1 doi
External guides and resources¶
- If you know of a guide/tutorial that you have found useful, please help us share it by contacting the HPC staff at hpc@ufs.ac.za