Select common components in two data blocks

Description

This function applies a Simultaneous Component Analysis (SCA). The idea is that the scores for both blocks should have a similar behaviour if the components are in the common mode. Evaluation is by the ratios between the explained variances (SSQ) of each block and the estimator. The highest component count with 0.8 < ratio < 1.5 is selected.

Usage

selectCommonComps(X, Y, Rmax)

Arguments

Value

A list with components:

common

Optimal number of common components

ssqs

Matrix of SSQ for each block and estimator

pssq

ggplot object showing SSQ for each block and estimator

pratios

ggplot object showing SSQ ratios between each block and estimator

Author(s)

Patricia Sebastian-Leon

Examples

data(STATegRa_S3)
cc <- selectCommonComps(X=Block1.PCA, Y=Block2.PCA, Rmax=3)
cc$common
cc$pssq
cc$pratios

Results

R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(STATegRa)
Warning message:
replacing previous import 'Biobase::combine' by 'gridExtra::combine' when loading 'STATegRa' 
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/STATegRa/selectCommonComps.Rd_%03d_medium.png", width=480, height=480)
> ### Name: selectCommonComps
> ### Title: Select common components in two data blocks
> ### Aliases: selectCommonComps
> ###   selectCommonComps,matrix,matrix,numeric-method
> 
> ### ** Examples
> 
> data(STATegRa_S3)
> cc <- selectCommonComps(X=Block1.PCA, Y=Block2.PCA, Rmax=3)
> cc$common
[1] 2
> cc$pssq
> cc$pratios
> 
> 
> 
> 
> 
> dev.off()
null device 
          1 
>