methods.regression: Regression methods to estimate a single row in A with fixed...

Description Usage Arguments Value Author(s)

Description

Regression methods to estimate a single row in a gene interaction network (A) with perturbations (P) fixed. These methods differ at the regression criterions: the objective function of geo is the geometric mean, sum of square for sse and maximum likelihood for ml, see vignette for the details.

Usage

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method.geo(index.vars, X, pert)
method.sse(index.vars, X, pert)
method.ml(index.vars, X, pert, noiseLevel)

Arguments

index.vars

A vector to select the rows in X on which regression will be used. It sets a group of combination of rows in X.

X

Gene expression data, a matrix with genes as rows and perturbations as columns.

pert

A vector of row r in P.

noiseLevel

Indicate the noise level in each perturbed experiment.

Value

sol

A vector of regression result

error

The result of the objective function.

Author(s)

Wei Xiao, Yin Jin, Darong Lai, Xinyi Yang,Yuanhua Liu, Christine Nardini


NTW documentation built on Oct. 31, 2019, 5:30 a.m.