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\name{pca_screeplot}
\Rdversion{1.1}
\alias{pca_screeplot}
\title{
Creates PCA screeplot
}
\description{
Given a PCA structure (result of the \code{\link{centered_pca}} function), creates a screeplot of the positive eigen values
}
\usage{
pca_screeplot(pca_struct, filepathroot)
}
\arguments{
\item{pca_struct}{
An object created by the \code{\link{centered_pca}} function
}
\item{filepathroot}{
The root of the full path name for the output file. If NULL, a "EIGEN.png" file will be created in tempdir(). If not NULL, the filepathroot will have the "_EIGEN.png" extension.
}
}
\value{
A screeplot of positive eigen values
}
\author{
Antoine GARNIER
}
\examples{
#File path for output files
out <- tempdir()
file <- file.path(out,"test_seq3")
#Importing MSA file
msf <- system.file("msa/toy_align.msf", package = "Bios2cor")
align <- import.msf(msf)
#Creating OMES correlation object
omes <- omes(align, gap_ratio = 0.2)
#Selecting correlation matrix
omes <-omes$Zscore
#Creating PCA object for selected correlation matrix and saving eigen values
pca <- centered_pca(omes, filepathroot= file, pc= NULL, dec_val= 5, filter = NULL)
#Plotting scree plot
pca_screeplot(pca, file)
}
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