get_biclustering: Get bicuster information

In espors/idepGolem: Integrated Differential Expression and Pathway Analysis

Get bicuster information

Description

Utilize the biclust package to run biclustering on the processed data for a selected number of genes.

Usage

get_biclustering(data, n_genes, biclust_method)

Arguments

data	Matrix of gene data that has been through the pre_process()
n_genes	Number of most variable genes to include in the analysis
biclust_method	String indicating the method of biclustering to perform. Should be one of "biclust::BCCC()", "QUBIC::BCQU()", "runibic::BCUnibic()", "biclust::BCXmotifs()", "biclust::BCPlaid()", "biclust::BCSpectral()", "biclust::BCBimax()", "biclust::BCQuest()"

Value

A list containing two object. data is the submatrix from the processed data with the biclust function discetize performed on it. For information on this function visit https://rdrr.io/cran/biclust/man/discretize.html. res is the return from using the biclust function with the selected method. For information on this function visit https://www.rdocumentation.org/packages/biclust/versions/2.0.3/topics/biclust.

See Also

• BCCC(), BCXmotifs(), BCPlaid(), BCXmotifs(), BCPlaid(), BCSpectral(), BCBimax(), BCquest() for specific function documentation from the biclust package

• BCQU(), BCQU() for specific function documentation from the QUBIC package

• BCUnibic(), BCUnibic() for specific function documentation from the runibic package

Other bicluster functions: bicluster_summary_message(), get_biclust_table_data()

espors/idepGolem documentation built on April 23, 2024, 1:11 p.m.