# Partial LeAst Squares for Multiomic Analysis

## Documentation for package ‘plasma’ version 1.1.3

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

assemble | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
barplot-method | Class '"plasma"'
combineAllWeights | Class '"CombinedWeights"'
CombinedWeights | Class '"CombinedWeights"'
CombinedWeights-class | Class '"CombinedWeights"'
Contribution | Class '"Contribution"'
Contribution-class | Class '"Contribution"'
fitCoxModels | Class '"MultiplePLSCoxModels"'
fitSingleModel | Class '"SingleModel"'
getAllWeights | Class '"Contribution"'
getCompositeWeights | Class '"Contribution"'
getFinalWeights | Class '"Contribution"'
getSizes | Class '"MultiplePLSCoxModels"'
getTop | Class '"Contribution"'
heat | Class '"Contribution"'
heat-method | Class '"Contribution"'
image-method | Class '"Contribution"'
image-method | Class '"CombinedWeights"'
interpret | Class '"CombinedWeights"'
loadESCAdata | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
loadLUSCdata | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
m450info | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
meanModeImputer | Imputation
mirESCA | ESCA type data
MultiOmics | Class '"MultiOmics"'
MultiOmics-class | Class '"MultiOmics"'
MultiplePLSCoxModels | Class '"MultiplePLSCoxModels"'
MultiplePLSCoxModels-class | Class '"MultiplePLSCoxModels"'
Outcome | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
pickSignificant | Class '"Contribution"'
plasma | Class '"plasma"'
plasma-class | Class '"plasma"'
plasmaEnv | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
plasmaPredictions | Class '"plasmaPredictions"'
plasmaPredictions-class | Class '"plasmaPredictions"'
plot-method | Class '"MultiOmics"'
plot-method | Class '"SingleModel"'
plot-method | Class '"MultiplePLSCoxModels"'
plot-method | Class '"plasma"'
plot-method | Class '"plasmaPredictions"'
predict-method | Class '"SingleModel"'
predict-method | Class '"MultiplePLSCoxModels"'
predict-method | Class '"plasma"'
prepareMultiOmics | Class '"MultiOmics"'
samplingImputer | Imputation
SingleModel-class | Class '"SingleModel"'
stdize | Class '"CombinedWeights"'
summary-method | Class '"MultiOmics"'
summary-method | Class '"SingleModel"'
summary-method | Class '"MultiplePLSCoxModels"'
summary-method | Class '"plasma"'
summary-method | Class '"Contribution"'
summary-method | Class '"CombinedWeights"'
TCGA-ESCA | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
TCGA-LUSC | Esophageal carcinoma (ESCA) data or lung squamous cell carcinoma (LUSC) data from The Cancer Genome Atlas (TCGA).
tfESCA | ESCA type data
validMultiOmics | Class '"MultiOmics"'
validMultipleCoxModels | Class '"MultiplePLSCoxModels"'
[-method | Class '"MultiOmics"'
[-method | Class '"MultiplePLSCoxModels"'
[-method | Class '"Contribution"'