DRaWR: Discriminative Random Walk with Restart

We present DRaWR, a network-based method for ranking genes or properties related to a given gene set. Such related genes or properties are identified from among the nodes of a large, heterogeneous network of biological information. Our method involves a random walk with restarts, performed on an initial network with multiple node and edge types, preserving more of the original, specific property information than current methods that operate on homogeneous networks. In this first stage of our algorithm, we find the properties that are the most relevant to the given gene set and extract a subnetwork of the original network, comprising only the relevant properties. We then rerank genes by their similarity to the given gene set, based on a second random walk with restarts, performed on the above subnetwork.

Install the latest version of this package by entering the following in R:
install.packages("DRaWR")
AuthorCharles Blatti [aut, cre]
Date of publication2016-02-05 00:55:30
MaintainerCharles Blatti <blatti@illinois.edu>
LicenseGPL-2
Version1.0.1

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Files

inst
inst/extdata
inst/extdata/sample.setlist
inst/extdata/sample.uni
inst/extdata/output_sample.uni.sample.undir.weight.type.50.1e-04.1.1.0.7.sample.query.1.rwr
inst/extdata/sample.query
inst/extdata/output_sample.uni.sample.undir.weight.type.50.1e-04.0.7.base
inst/extdata/output_sample.uni.sample.undir.weight.type.50.1e-04.1.1.0.7.sample.setlist.stats
inst/extdata/sample.edge
NAMESPACE
data
data/transmat.RData
R
R/DRaWR.R
MD5
DESCRIPTION
man
man/RWR.Rd man/threeCol2listMat.Rd man/transmat.Rd man/threeCol2MaxMat.Rd man/DRaWR.Rd

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