Reference

The pcaExplorer package Main functions and info on the pcaExplorer package
pcaExplorer-package pcaExplorer-pkg	pcaExplorer: analyzing time-lapse microscopy imaging, from detection to tracking
pcaExplorer()	Explore a dataset from a PCA perspective
Working with Principal Components Functions for working efficiently with Principal Components
pcaplot()	Sample PCA plot for transformed data
pcaplot3d()	Sample PCA plot for transformed data
pcascree()	Scree plot of the PCA on the samples
correlatePCs()	Principal components (cor)relation with experimental covariates
genespca()	Principal components analysis on the genes
hi_loadings()	Extract genes with highest loadings
plotPCcorrs()	Plot significance of (cor)relations of covariates VS principal components
Annotation and Functional interpretation Functions for annotating and performing functional interpretation
get_annotation()	Get an annotation data frame from biomaRt
get_annotation_orgdb()	Get an annotation data frame from org db packages
topGOtable()	Extract functional terms enriched in the DE genes, based on topGO
pca2go()	Functional interpretation of the principal components
limmaquickpca2go()	Functional interpretation of the principal components, based on simple overrepresentation analysis
Expression data exploration
pair_corr()	Pairwise scatter and correlation plot of counts
distro_expr()	Plot distribution of expression values
geneprofiler()	Extract and plot the expression profile of genes
makeExampleDESeqDataSet_multifac()	Make a simulated DESeqDataSet for two or more experimental factors
Deprecated functions in pcaExplorer
deprecated	Deprecated functions in pcaExplorer