add_regulation_type: Add regulation type for each gene pair

In jiang-junyao/IReNA: IReNA

Add regulation type for each gene pair

Description

This function calculate the Spearman's correlation for each gene pair as the regulation types. Correlation > 0 is positive regulation, Correlation < 0 is negative regulation. Then, this function add the module and gene Symbol for Kmeans_result to each gene in the gene pairs.

Usage

add_regulation_type(Kmeans_result, potential_regulation, start_column = 4)

Arguments

Kmeans_result	Kmeans result data.frame, row names should be ENSEMBEL ID, and the first column should be gene Symbol ID, the second column should be KmeansGroup
potential_regulation	First column is source gene, second column is target gene, third column is weight. Several methods are recommended to generate potential regulation: Genin3, PIDC, GRNBOOST2
start_column	numeric, indicating the start column of expression value, defalut is 3

jiang-junyao/IReNA documentation built on Nov. 15, 2024, 1:51 a.m.