calcTGIF {scTGIF}R Documentation

Function for connecting cellular patterns and functional patterns using jNMF

Description

calcTGIF function calculates what kind of cellular patterns and functional patterns are contained in single-cell RNA-seq data and reportTGIF function generates report of analytic result.

Usage

calcTGIF(sce, ndim, verbose=FALSE, droplet=TRUE)

Arguments

sce

A object generated by instantization of SingleCellExperiment-class.

ndim

The number of low-dimension of joint NMF algorithm.

verbose

The verbose parameter for nnTensor::jNMF (Default: FALSE).

droplet

Whether Droplet-based single-cell RNA-Seq or not (Default: TRUE).

Value

The result is saved to metadata slot of SingleCellExperiment object.

Author(s)

NA

Examples

showMethods("calcTGIF")

[Package scTGIF version 1.4.0 Index]