nem_Tar_greedy: Inferring the signaling network from (epi)genetic aberrations...

In CityUHK-CompBio/nemTar: A method for singlaing network inference from (epi)genetic aberration profiles

Description

Inferring the signaling network from (epi)genetic aberrations and effect reporter gene profiles based on greedy hill climbing methods

Usage

nem_Tar_greedy(D, Sgenes, S_pattern, initial = NULL, control, verbose = TRUE)

Arguments

D	an E-gene observation matrix with the dimension of p(number of samples) × n(number of effect reporter genes)
Sgenes	a character vector of S-genes
S_pattern	a binary matrix showing the state of whether signaling components(S-genes)are perturbed, with the dimension of m × m
initial	the initial state of the S-gene graph
control	a list contains necessary parameters for implementing the methods,the details could be referred to nem
verbose	a logic to whether present the execution process

Value

a list contains the network inference results, please also refer to nem

See Also

nem_Tar_triples nem

CityUHK-CompBio/nemTar documentation built on March 11, 2021, 6:03 p.m.