To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("CancerMutationAnalysis")
In most cases, you don't need to download the package archive at all.
This package is for version 3.3 of Bioconductor; for the stable, up-to-date release version, see CancerMutationAnalysis.
Bioconductor version: 3.3
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 (from within R,
enter citation("CancerMutationAnalysis")
):
To install this package, start R and enter:
## try http:// if https:// URLs are not supported source("https://bioconductor.org/biocLite.R") biocLite("CancerMutationAnalysis")
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("CancerMutationAnalysis")
R Script | CancerMutationAnalysisTutorial | |
Reference Manual | ||
Text | NEWS | |
Text | LICENSE |
biocViews | Genetics, Software |
Version | 1.14.0 |
In Bioconductor since | BioC 2.10 (R-2.15) (4.5 years) |
License | GPL (>= 2) + file LICENSE |
Depends | R (>= 2.10.0), qvalue |
Imports | AnnotationDbi, limma, methods, stats |
LinkingTo | |
Suggests | KEGG.db |
SystemRequirements | |
Enhances | |
URL | |
Depends On Me | |
Imports Me | |
Suggests Me | |
Build Report |
Follow Installation instructions to use this package in your R session.
Package Source | CancerMutationAnalysis_1.14.0.tar.gz |
Windows Binary | CancerMutationAnalysis_1.14.0.zip (32- & 64-bit) |
Mac OS X 10.9 (Mavericks) | CancerMutationAnalysis_1.14.0.tgz |
Subversion source | (username/password: readonly) |
Git source | https://github.com/Bioconductor-mirror/CancerMutationAnalysis/tree/release-3.3 |
Package Short Url | http://bioconductor.org/packages/CancerMutationAnalysis/ |
Package Downloads Report | Download Stats |
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