Provides a means of running the Avida-ED educational software that guards against premature bit-rot.
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Updated
May 5, 2023 - Dockerfile
Provides a means of running the Avida-ED educational software that guards against premature bit-rot.
This directory contains code for the paper A phylogenomic framework for pelagiarian fishes (Acanthomorpha: Percomorpha) highlights mosaic radiation in the open ocean. If you want to run this code, I recommend downloading this code and the data directory from Data Dryad.
Breitman Lab website
Working on my deliverables et al. for the Species & Speciation module in my Honours year (run by A/Prof Muthama Muasya)
Leo Blondel, Savandara Besse, Cassandra Extavour (2021)
R codes for simulating and detecting punctuated evolution in any clades, from dinosaurs to viruses
ColabSeq: The one-stop shop for all of your multiple sequence analysis needs.
Rcpp extension of eigvaldisp
R package for average evolvability measures
B+ A database of Positively Selected Sites discovered with ADOPS
Simulating evolution of behavioral traits with Python
My slides for my lecture on biodiversity, evolution and taxonomy for a short course for high school biology teachers, organised by the University of Cape Town's Schools Development Unit
Pipeline for comparative transcriptomics across species
Easy-to-use C++ library for the live tracking of lineage and coalescence trees in individual-based forward-in-time simulations.
R package for statistics of eigenvalue dispersion indices
The aim is to create an interactive simulation that can be used by a biologist who has little to no background in computation/programming to simulate all combinations of evolutionary factors while allowing her to control as many parameters as practical.
GEne-functional Evolutionary model using SufficiEncy
The files in this repository reproduce all the simulations and graphs in the paper, Fofana & Hurford 2022, Parasite-induced shifts in host movement may explain the transient coexistence of high- and low-pathogenic disease strains, J Evol Biol.
A numerical study on the phenomenon of sympatric speciation in both sexual and asexual species, within a static habitat with intra-species competition.
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