Pinned Repositories
BIOL0033
Practicals for BIOL0033 Molecular Evolution
dng
Archschema: graphs of related Pfam domain architectures ("domain network graphs")
figtree
Automatically exported from code.google.com/p/figtree
imagejfx
ImageJ FX is new user inferface for ImageJ
pal
Mirror of Drummond, A., & Strimmer, K. (2001). PAL: an object-oriented programming library for molecular evolution and phylogenetics.
swmutsel
Implementation of the site-wise mutation-selection model (swMutSel) described in Tamuri et al. (2012, 2014) , and Tamuri and dos Reis (2022)
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
tdg12
This program is no longer being updated. Please use the implementation at https://github.com/tamuri/swmutsel
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.
tamuri's Repositories
tamuri/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.
tamuri/swmutsel
Implementation of the site-wise mutation-selection model (swMutSel) described in Tamuri et al. (2012, 2014) , and Tamuri and dos Reis (2022)
tamuri/pal
Mirror of Drummond, A., & Strimmer, K. (2001). PAL: an object-oriented programming library for molecular evolution and phylogenetics.
tamuri/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
tamuri/dng
Archschema: graphs of related Pfam domain architectures ("domain network graphs")
tamuri/tdg12
This program is no longer being updated. Please use the implementation at https://github.com/tamuri/swmutsel
tamuri/BIOL0033
Practicals for BIOL0033 Molecular Evolution
tamuri/figtree
Automatically exported from code.google.com/p/figtree
tamuri/imagejfx
ImageJ FX is new user inferface for ImageJ
tamuri/lbfgsb_wrapper
Java wrapper for the Fortran L-BFGS-B algorithm
tamuri/LMSgrowth2
tamuri/prezto
The configuration framework for Zsh
tamuri/SLR
Sitewise Likelihood Ratio technique for detecting non-neutral selection
tamuri/sympy
A computer algebra system written in pure Python
tamuri/TLOmodel
Epidemiology modelling framework for the Thanzi la Onse project