Evolutionary simulations

Evolutionary simulations on biowiki.org.

Tools for simulating multiple alignments

• Simulation Tools
  • GSIMULATOR, Sim Gram, Sim Genome
• Evol Sayer
  • The Handel Package has a TKF91 simulator, tkfemit, that is effectively subsumed by Evol Sayer
• Phylo Composer has a simulator

Movies of sequence evolution on phylogenies

• Phylo Film has a number of animations visualizing simulation and ancestral-inference algorithms

Educational tools

• The Broken Telephone Tree is a simulation of the Telephone game (Wikipedia) on a phylogeny, using a dictionary file
  • You are the director of a secret police agency, pitted against an imaginary organization using the nefarious tactic of a phone tree. You decide how much information to share with other secret police agencies in reconstructing the structure of the network...

-- IanHolmes - 10 Dec 2008