GSoC/GCI Archive
Google Summer of Code 2014 R Project for Statistical Computing

PhyloVS: phylogeny-constrained regularization and variable selection

by lichenbiostat86 for R Project for Statistical Computing

Many diseases have been shown to be associated with the disorder of the human microbiome using next generation sequencing. Human microbiome biomarker discovery has attracted increasing attention. We propose to use sparse regression model to achieve variable selection while accounting for the phylogenetic relationship among microbial taxa. Our 'PhyloVS' package aims at providing a fast and scalable toolkit to facilitate microbiome biomarker discovery.