Cancer mutation analysis

Bioconductor version: Release (2.11)

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 <simina.boca at>

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PDF CancerMutationAnalysisTutorial
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biocViews Bioinformatics, Genetics, Software
Version 1.2.1
In Bioconductor since BioC 2.10 (R-2.15)
License GPL (>= 2) + file LICENSE
Depends R (>= 2.10.0), qvalue
Imports AnnotationDbi, limma, methods, stats
Suggests KEGG.db
System Requirements
Depends On Me
Imports Me
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Package Source CancerMutationAnalysis_1.2.1.tar.gz
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MacOS 10.5 (Leopard) CancerMutationAnalysis_1.2.1.tgz
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