pathwayFit-class: Class "pathwayFit" for storing the results of the function...

In sigaR: Statistics for Integrative Genomics Analyses in R

Description

The class pathwayFit is the output of a call to pathway1sample and pathway2sample. It stores results from fitting a simultaneous-equations model from DNA copy number and gene expression data.

Slots

Cis:

Object of class "numeric". Vector of estimated cis-effect.

Trans:

Object of class "matrix". Matrix containing the trans-effects (one-sample only).

Trans1:

Object of class "matrix". Matrix containing the trans-effects of the first sample (two-sample only).

Trans2:

Object of class "matrix". Matrix containing the trans-effects of the second sample (two-sample only).

Sigma:

Object of class "numeric". Vector of estimated residual variances.

lambda1:

Object of class "matrix". Lasso parameter(s) employed.

lambdaF:

Object of class "matrix". Fused lasso parameter(s) employed.

constr:

Object of class "logical". Indicator for parameter constraints on cis-effect.

epsilon:

Object of class "numeric". Constant used for the stabilization of estimation in a high-dimensional context.

method:

Object of class "character". Indicator for method used in model fitting.

Methods

pathwayPlot

signature(object = "pathwayFit"): Plots the pathwayFit-object.

Author(s)

Wessel N. van Wieringen: [e-mail]

See Also

See also pathway1sample and pathway2sample.

Examples

showClass("pathwayFit")

sigaR documentation built on April 28, 2020, 6:05 p.m.