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A Random Forest based Pathway association analysis tool
The TRF-pathway package implements the powerful two-stage random forest based pathway analysis. The manuscript discussing the method is currently under revision at PLoS One.
RF++ is a Random Forest-based classifier. It can classify cluster-correlated non-independent data in a statistically valid fashion. RF++ also identifies important variables (biomarkers) in datasets with large numbers of variables and few subjects.
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Xipe-Totec is a companion program to the paper
"An application of statistics to comparative metagenomics"
by Beltran Rodriguez-Brito, Forest Rohwer and Robert Edwards
BMC Bioinformatics 2006, 7:162
doi:10.1186/1471-2105-7-162