FindClassBasedOnMC: FindClassBasedOnMC

In carter-allen/IRISFGM: Comprehensive Analysis of Gene Interactivity Networks Based on Single-Cell RNA-Seq

Description

This function is for performing Markov chain clustering regarding generated co-expression gene modules. This clustering method is working for relative small dataset. If you have a large dataset, We recommend you should use Seurat clustering wrapped in this IRISFGM package. See details RunLTMG, RunDimensionReduction, and RunClassification.

Usage

FindClassBasedOnMC(object, ...)

.final(object = NULL, method = "MCL", K = 5)

## S4 method for signature 'IRISFGM'
FindClassBasedOnMC(object = NULL, method = "MCL", K = 5)

Arguments

object	input IRIS-FGM object
...	other arguments passed to methods
method	using MCL(Markov Cluster) algorithm to predict clusters. There is alternative option which is 'SC.' ( Unnormalized spectral clustering function. Uses Partitioning Around Medoids clustering instead of K-means.)
K	expected number of predicted clusters when you are using 'SC' method for cell clustering and this parameter does not work for 'MCL'

Examples

## Not run: 
object <- FindClassBasedOnMC(object)

## End(Not run)

carter-allen/IRISFGM documentation built on Dec. 31, 2020, 9:54 p.m.