Association analysis of CNV data


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Documentation for package ‘CNVassoc’ version 1.2

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A112 Copy Number Variant intensity data (from CNVtools)
anova.CNVassoc Association analysis between a CNV and phenotype
cases Case-control data with SNPTEST format
cnv CNV object
CNVassoc Association analysis between a CNV and phenotype
cnvBatches CNV object
cnvDefault CNV object
CNVtest Testing association between a CNV and phenotype
controls Case-control data with SNPTEST format
dataMLPA MLPA data
getProbs Get posterior probabilities from an object of class 'cnv' or 'CGHcall'
getProbs.cghCall Get posterior probabilities from an object of class 'cnv' or 'CGHcall'
getProbs.cnv Get posterior probabilities from an object of class 'cnv' or 'CGHcall'
getProbsRegions Get posterior probabilities for blocks/regions
getPvalBH Corrected p values using Benjamini & Hochberg approach
getQualityScore Computes a quality score for a CNV fit
getQualityScore.cnv Computes a quality score for a CNV fit
getQualityScore.default Computes a quality score for a CNV fit
is.cnv CNV object
logLik.CNVassoc Association analysis between a CNV and phenotype
multiCNVassoc Association between several CNVs and disease
NeveCalled Breast Cancer aCGH data with CGHcall
NeveData Breast Cancer aCGH data
NeveRegions Breast Cancer aCGH data with CGHcall
plot.cnv CNV object
plotSignal plots the intensities of a CNV univariate signal data
print.anova.CNVassoc Association analysis between a CNV and phenotype
print.cnv CNV object
print.CNVassoc Association analysis between a CNV and phenotype
print.CNVtest Testing association between a CNV and phenotype
print.QualityScore Computes a quality score for a CNV fit
print.summary.CNVassoc Association analysis between a CNV and phenotype
simCNVdataBinary Simulation of CNV and discrete traits
simCNVdataCaseCon Simulation of CNV in a case-control study design
simCNVdataNorm Simulation of CNV and quantitative traits
simCNVdataPois Simulate Poisson data
simCNVdataWeibull Simulate of CNV and a right censored Weibull distributed trait
SNPTEST Case-control data with SNPTEST format
summary.CNVassoc Association analysis between a CNV and phenotype