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CancerMutationAnalysis
This package is for version 3.8 of Bioconductor. This package has been removed from Bioconductor. For the last stable, up-to-date release version, see CancerMutationAnalysis.
Cancer mutation analysis
Bioconductor version: 3.8
This package implements gene and gene-set level analysis methods for somatic mutation studies of cancer. The gene-level methods distinguish between driver genes (which play an active role in tumorigenesis) and passenger genes (which are mutated in tumor samples, but have no role in tumorigenesis) and incorporate a two-stage study design. The gene-set methods implement a patient-oriented approach, which calculates gene-set scores for each sample, then combines them across samples; a gene-oriented approach which uses the Wilcoxon test is also provided for comparison.
Author: Giovanni Parmigiani, Simina M. Boca
Maintainer: Simina M. Boca <smb310 at georgetown.edu>
citation("CancerMutationAnalysis")):
Installation
To install this package, start R (version "3.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("CancerMutationAnalysis")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CancerMutationAnalysis")
Details
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Package Archives
Follow Installation instructions to use this package in your R session.