GRAPE: Gene-Ranking Analysis of Pathway Expression

Gene-Ranking Analysis of Pathway Expression (GRAPE) is a tool for summarizing the consensus behavior of biological pathways in the form of a template, and for quantifying the extent to which individual samples deviate from the template. GRAPE templates are based only on the relative rankings of the genes within the pathway and can be used for classification of tissue types or disease subtypes. GRAPE can be used to represent gene-expression samples as vectors of pathway scores, where each pathway score indicates the departure from a given collection of reference samples. The resulting pathway- space representation can be used as the feature set for various applications, including survival analysis and drug-response prediction. ———————————————————————————————- GRAPE is a generalization and extension of DIRAC, originally implemented in: Eddy, J.A., et al. (2010) <doi:10.1371/journal.pcbi.1000792>. As a result, some of the software below may have been previously published in Matlab by the DIRAC authors and can be found at: https://price.systemsbiology.org/pricelab-resources/software/.

Version: 0.1.0
Imports: stats
Published: 2016-08-25
Author: Michael Klein
Maintainer: Michael Klein <michael.klein at yale.edu>
License: GPL-2
NeedsCompilation: no
CRAN checks: GRAPE results

Downloads:

Reference manual: GRAPE.pdf
Package source: GRAPE_0.1.0.tar.gz
Windows binaries: r-devel: GRAPE_0.1.0.zip, r-release: GRAPE_0.1.0.zip, r-oldrel: GRAPE_0.1.0.zip
OS X El Capitan binaries: r-release: GRAPE_0.1.0.tgz
OS X Mavericks binaries: r-oldrel: GRAPE_0.1.0.tgz

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