Definition of 'scPred' class

An S4 class to containing features, dimensionality reduction information, and trained models

Slots

pvar

Column name from metadata to use as the variable to predict using

metadata

A data frame to store metadata including prediction variable (pvar)

features

A data frame with the following information:

• feature: Eigenvector (e.g. principal component)

• pValue: Significance value from a wilcoxon test

• pValueAdj: Adjusted p-value for multiple testing

loadings

Gene loadings

scaling

Means and standard deviation to center and standardize data

reduction

Dimensionality reduction name

reduction_key

Dimensionality reduction name key

train

A list with all trained models using the caret package. Each model correspond to a cell type

mist

A list to store extra information and for developing testing