Rcpp_SlalomModel: The "Slalom Model" (Rcpp_SlalomModel) class

In slalom: Factorial Latent Variable Modeling of Single-Cell RNA-Seq Data

Description

S4 class and the main class used by slalom to hold model data and results. SingleCellExperiment extends the Bioconductor SummarizedExperiment class.

Details

This class is initialized from a matrix of expression values and a collection of genesets in a GeneSetCollection object from the GSEABase package.

Methods that operate on SingleCellExperiment objects constitute the basic scater workflow.

Methods

train()

void train() docstring : Train the SlalomModel

update()

void update() docstring : Update the SlalomModel

updateAlpha(...)

void updateAlpha(int) docstring : Update alpha

updateEpsilon()

void updateEpsilon() docstring : Update Epsilon

updatePi(...)

void updatePi(int) docstring : Update Pi

updateW(...)

void updateW(int) docstring : Update W

updateX(...)

void updateX(int) docstring : Update X

Slots

.xData:

Environment enabling access to the C++-level SlalomModel object.

slalom documentation built on Nov. 8, 2020, 5:24 p.m.