====== GreenSim: a genetic regulatory network simulator (PRG-RR-08-07) ======
**NOTE: This technical report has been superseded by the publication available [[pubs:ictai2010|here]]; this technical report is still available as a practical guide to using ''GreenSim''.**
**Abstract:** Inference of complete genetic regulatory networks is a central problem in modern bioinformatics. However, because good biological data is still relatively rare, it is hard to evaluate new machine learning techniques for network inference. In this report we describe ''GreenSim'', a modular, customisable and extensible genetic regulatory network simulator. It accurately models motifs, non-linear regulatory functions and can generate networks ranging in size from //N// = 100 to //N// = 104 genes. Code is released under the GPL and available online {{pubs:files:greensim.1.2.tar.gz|here}}. Bibtex entry:
@TechTeport{fogelbergVasile2008b,
author = {Christopher Fogelberg and Vasile Palade},
title = {{GreenSim}: A Genetic Regulatory Network Simulator},
institution = {Computing Laboratory, Oxford University},
year = 2008,
number = {PRG-RR-08-07},
address = {Wolfson Building, Parks Road, Oxford, OX1-3QD},
month = {May},
url = {http://syntilect.com/cgf/pubs:greensimtr}
}
The technical report is available {{pubs:files:rr-08-07.pdf|here}} and [[http://www.comlab.ox.ac.uk/techreports/cs/2008.html|here]].