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Introduction
MimicrEE (Mimicing Experimental Evolution) is a tool for forward simulations of entire genomes. It basically allowes to simulate adaptation from standing genetic variation, thus no 'de novo' mutations are supported. It has been tested with 8,000 individulas having 2,000,000 million SNPs.
Download
As Google Code deprecated the download section (....) all files can be obtained here:
https://drive.google.com/folderview?id=0BweZxn-dqeZDa3AzdnpMbGVtWTA&usp=sharing
Documentation
Partner projects
PoPoolation: A pipeline for analyzing pooled next generation sequencing data for single populations. Currently PoPoolation allows to calculate Tajima’s Pi, Watterson’s Theta and Tajima’s D for reference sequences using a sliding window approach
PoPoolation2: Allows analyzing the population frequencies of SNPs from two or more populations. It may be used to identify differentiation between populations or to analyze data from genome wide association studies.
PoPoolation TE: A quick and simple pipeline for the analysis of transposable element insertion frequencies in populations from pooled next generation sequencing data. PoPoolation TE identifies TE insertions that are present in the reference genome as well as novel TE insertions and estimates their population frequencies. This also allows for an comparision of TE insertion frequencies between different populations
PoPoolation DB: A user-friendly web-based database for the retrieval of natural variation in Drosophila melanogaster
Gowinda: unbiased analysis of gene set enrichement (e.g: Gene Ontology) for Genome Wide Association Studies. Gowinda may thus be used for biological interpretation of the results of PoPoolation and PoPoolation2:
