PCADSC

Development version of the R package PCADSC. The last stable version of the package can be installed from CRAN using:

install.packages('PCADSC')

To install the development version of PCADSC, run the following commands from within R:

library(devtools)
# install_github('annennenne/PCADSC')
install.packages("PCADSC", repos = c('https://annennenne.r-universe.dev', 'https://cloud.r-project.org'))

The PCADSC methods are described in our article manuscript.

The basic functionality of the package can be inspected using the following lines of code:

library(PCADSC)

#Load iris data
data(iris)

#Define grouping variable, grouping the observations by whether their species is
#Setosa or not
iris$group <- "setosa"
iris$group[iris$Species != "setosa"] <- "non-setosa"

#Make a PCADSC object, splitting the data by "group"
irisPCADSC <-PCADSC(iris, "group", var=setdiff(names(iris), c("group", "Species")),
                    doCE = TRUE, doAngle = TRUE, doChroma = TRUE)
                         
#Make a cumulative eigenvalue (CE) plot
CEPlot(irisPCADSC)

#Make an angle plot 
anglePlot(irisPCADSC)

#Make a chroma plot
chromaPlot(irisPCADSC)

Our current to-do list for the package is posted below. If you have any further suggestions for added functionality, or have a bug to report, please open an issue and let us know.

To do