calcTGIF: Function for connecting cellular patterns and functional...

In rikenbit/scTGIF: Cell type annotation for unannotated single-cell RNA-Seq data

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")

rikenbit/scTGIF documentation built on Jan. 14, 2023, 4:18 a.m.