Discover tamuri/tdg09 Open Source project by Asif Tamuri (@tamuri)

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Java
Created about 12 years ago
Updated about 4 years ago

tamuri

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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

treesub

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.

Java

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

tdg12

This program is no longer being updated.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

Java

dng

Archschema: graphs of related Pfam domain architectures ("domain network graphs")

Java

tamuri/tdg09

tamuri

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