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GRAPE
View on CRAN: Click
here
Download and install GRAPE package within the R console
Install from CRAN:
install.packages("GRAPE")
Install from Github:
library("remotes")
install_github("cran/GRAPE")
Install by package version:
library("remotes")
install_version("GRAPE", "0.1.1")
Attach the package and use:
library("GRAPE")
Maintained by
Michael Klein
[Scholar Profile | Author Map]
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2016-08-25
Latest Update: 2019-05-07
Description:
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.
Users of GRAPE should use the following citation:
Klein MI, Stern DF, and Zhao H. GRAPE: A pathway template method to characterize
tissue-specific functionality from gene expression profiles.
BMC Bioinformatics, 18:317 (June 2017).
How to cite:
Michael Klein (2016). GRAPE: Gene-Ranking Analysis of Pathway Expression. R package version 0.1.1, https://cran.r-project.org/web/packages/GRAPE
Previous versions and publish date:
0.1.0 (2016-08-25 09:59)
Other packages that cited GRAPE R package
View GRAPE citation profile
Other R packages that GRAPE depends,
imports, suggests or enhances
Functions, R codes and Examples using
the GRAPE R package
Some associated functions: getPathwayScores . makeBinaryTemplateAndProbabilityTemplate . makeGRAPE_psMat . makePairwiseOrder . makePairwiseOrderNames . predictClassDIRAC . predictClassGRAPE . predictClassPC . w_quad .
Some associated R codes: GRAPE_Basic_Functions.R . GRAPE_Classification_Functions.R . GRAPE_Pathway_Score_Functions.R . Full GRAPE package functions and examples
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