Discover tamuri/treesub Open Source project by Asif Tamuri (@tamuri)

Stars
18
Rank 1,208,065 (Top 24 %)
Language
Java
License
Apache License 2.0
Created almost 12 years ago
Updated almost 10 years ago

tamuri

There are no reviews yet. Be the first to send feedback to the community and the maintainers!

A small program that glues together other programs allowing a user to input a codon alignment in FASTA format and produce an annotated phylogenetic tree showing which substitutions occurred on a given branch. Originally written for colleagues at the MRC NIMR.

swmutsel

Implementation of the site-wise mutation-selection model (swMutSel) described in Tamuri et al. (2012, 2014) , and Tamuri and dos Reis (2022)

Java

pal

Mirror of Drummond, A., & Strimmer, K. (2001). PAL: an object-oriented programming library for molecular evolution and phylogenetics.

Java

tdg09

Software and data used in Tamuri AU, dos Reis M, Hay AJ, Goldstein RA (2009) Identifying Changes in Selective Constraints: Host Shifts in Influenza. PLoS Comput Biol 5(11): e1000564 doi:10.1371/journal.pcbi.1000564

Java

tdg12

This program is no longer being updated. Please use the implementation at https://github.com/tamuri/swmutsel

Java