build_coexp_GEOID: Builds a coexpression network given a GEO ID

Description Usage Arguments Value

View source: R/build_coexp_GEOID.R

Description

The function generates a dense coexpression network from expression data stored in GEO. The expression data is downloaded from GEO. Correlation coefficicents are used as to weight the edges of the nodes (genes). Calls get_expression_matrix_from_GEO and build_coexp_network.

Usage

1
build_coexp_GEOID(gseid, gene.list, method = "spearman", flag = "rank")

Arguments

gseid

string GEO ID of expression experiment

gene.list

array of gene labels

method

correlation method to use, default Spearman's rho

flag

string to indicate if the network should be ranked

Value

net Matrix symmetric


EGAD documentation built on May 31, 2017, 10:52 a.m.