ICodPack: a package for information-based
analysis of codon usage The software package that can be
downloaded below provides a means for analysis of codon usage distribution
among different gene sets and biological networks, and also for prediction of
protein-protein interactions and gene function based on codon usage. You are granted a royalty-free non-transferable right
to use the software and accompanying documentation included in this
downloadable package strictly for academic research and education purposes.
If you intend to use the software for any other purpose, please contact Dr. Reza Salavati. Windows Download the ICodPack from here: ICodPack.zip (38,431 KB). This package
contains: MIvRSCU: An application for information-based
analysis of codon usage distribution among different gene sets. MIvCont: A general-purpose application for information-based
analysis of distribution of any continuous-type data among different gene
sets. NOTE (Jan 30, 2010): We have come to realize that the algorithm
used in MIvCont is very similar in concept to the algorithm of the recently
published iPAGE
by Goodarzi
et al. The two algorithms have
been however developed independently. As iPAGE provides a more rigorous
statistical analysis particularly for identification of deregulated gene
sets, and provides many additional features that were never meant to be implemented
in MIvCont, we suggest that you use iPAGE. MIvDisc: A general-purpose application for
information-based analysis of distribution of any discrete-type data among
different gene sets. PI-RSCU: An application for analysis of the
correlation between similarity of codon usage and likelihood of interaction
in a biological network. PI-RSCU also creates and validates a Bayesian
network that can predict interactions among genes based on their codon
usages. Please also see our note about analysis of
codon usage using DICE. PCoBClust: An application for prediction of gene
function (or any other discrete gene feature) based on codon usage. ICodPack.zip also contains precompiled
datasets for human and Trypanosoma
brucei, located in the “data” folder. Linux Not available. Last updated on 7/27/2010 2:58:48 AM |
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