ChromosomeArmModels-class | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
ChromosomeModels-class | Class "ChromosomeModels" |
dependency score plotting | Dependency score plotting |
DependencyModel-class | Class "DependencyModel" |
findModel | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
findModel-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
findModel-method | Class "ChromosomeModels" |
findModel-method | Class "GenomeModels" |
fit.byname | Fit dependency model around one gene between two data sets. |
fit.cgh.mir.byname | Fit dependency model around one gene between two data sets. |
fit.cgh.mrna.byname | Fit dependency model around one gene between two data sets. |
fit.dependency.model | Fit dependency model between two data sets. |
fixed.window | Form data with a selected window size for the model fitting |
geneCopyNum | Gene copy number data in chromosome 17 |
geneExp | Gene expression data in chromosome 17 |
GenomeModels-class | Class "GenomeModels" |
getArm | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getArm-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getArm-method | Class "DependencyModel" |
getChromosome | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getChromosome-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getChromosome-method | Class "ChromosomeModels" |
getChromosome-method | Class "DependencyModel" |
getGeneName | Class "DependencyModel" |
getGeneName-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getGeneName-method | Class "DependencyModel" |
getLoc | Class "DependencyModel" |
getLoc-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getLoc-method | Class "DependencyModel" |
getModelMethod | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getModelMethod-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getModelMethod-method | Class "ChromosomeModels" |
getModelMethod-method | Class "DependencyModel" |
getModelMethod-method | Class "GenomeModels" |
getModelNumbers | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getModelNumbers-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getParams | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getParams-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getParams-method | Class "ChromosomeModels" |
getParams-method | Class "DependencyModel" |
getParams-method | Class "GenomeModels" |
getPArm | Class "ChromosomeModels" |
getPArm-method | Class "ChromosomeModels" |
getPhi | Class "DependencyModel" |
getPhi-method | Class "DependencyModel" |
getQArm | Class "ChromosomeModels" |
getQArm-method | Class "ChromosomeModels" |
getScore | Class "DependencyModel" |
getScore-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getScore-method | Class "DependencyModel" |
getW | Class "DependencyModel" |
getW-method | Class "DependencyModel" |
getWindowSize | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getWindowSize-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
getWindowSize-method | Class "ChromosomeModels" |
getWindowSize-method | Class "DependencyModel" |
getWindowSize-method | Class "GenomeModels" |
isEmpty | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
isEmpty-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
isEmpty-method | Class "ChromosomeModels" |
iterative.window | Form data with a selected window size for the model fitting |
orderGenes | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
orderGenes-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
orderGenes-method | Class "ChromosomeModels" |
orderGenes-method | Class "GenomeModels" |
pcca | Fit dependency model between two data sets. |
pcca.isotropic | Fit dependency model between two data sets. |
pfa | Fit dependency model between two data sets. |
pint.data | Forms a data set and pairs samples in two data sets. |
pint.match | Forms a data set and pairs samples in two data sets. |
plot.ChromosomeArmModels | Dependency score plotting |
plot.ChromosomeModels | Dependency score plotting |
plot.DependencyModel | Dependency score plotting |
plot.GenomeModels | Dependency score plotting |
ppca | Fit dependency model between two data sets. |
screen.cgh.mir | Fits dependency models to chromosomal arm, chromosome or the whole genome. |
screen.cgh.mrna | Fits dependency models to chromosomal arm, chromosome or the whole genome. |
setArm<- | Class "DependencyModel" |
setArm<--method | Class "DependencyModel" |
setChromosome<- | Class "DependencyModel" |
setChromosome<--method | Class "DependencyModel" |
setGeneName<- | Class "DependencyModel" |
setGeneName<--method | Class "DependencyModel" |
setLoc<- | Class "DependencyModel" |
setLoc<--method | Class "DependencyModel" |
sparse.window | Form data with a selected window size for the model fitting |
topGenes | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
topGenes-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
topGenes-method | Class "ChromosomeModels" |
topGenes-method | Class "GenomeModels" |
topModels | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
topModels-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
topModels-method | Class "ChromosomeModels" |
topModels-method | Class "GenomeModels" |
W.effects | The model parameters z and W |
z.effects | The model parameters z and W |
z.expectation | The model parameters z and W |
[[ | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
[[-method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
[[-method | Class "GenomeModels" |
[[<- | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
[[<--method | Class "ChromosomeArmModels", for dependency models in chromosomal arm |
[[<--method | Class "GenomeModels" |