SVAPLSseq-An R package to estimate the hidden factors of unwanted variability and adjust for them to enable a more powerful and accurate differential expression analysis based on RNAseq data

[Up] [Top]

Documentation for package ‘SVAPLSseq’ version 1.6.0

Help Pages

SVAPLSseq-package SVAPLSseq: An R package to adjust for the hidden factors of variability in differential gene expression studies based on RNAseq data.
prop.vars Accessor for the 'prop.vars' slot of a 'svplsSurr' object
prop.vars-method Accessor for the 'prop.vars' slot of a 'svplsSurr' object
pvars.svplsSurr Accessor for the 'prop.vars' slot of a 'svplsSurr' object
pvs.adj Accessor for the 'pvs.adj' slot of a 'svplsTest' object
pvs.adj-method Accessor for the 'pvs.adj' slot of a 'svplsTest' object
pvs.adj.svplsTest Accessor for the 'pvs.adj' slot of a 'svplsTest' object
pvs.unadj Accessor for the 'pvs.unadj' slot of a 'svplsTest' object
pvs.unadj-method Accessor for the 'pvs.unadj' slot of a 'svplsTest' object
pvs.unadj.svplsTest Accessor for the 'pvs.unadj' slot of a 'svplsTest' object
sig.features Accessor for the 'sig.features' slot of a 'svplsTest' object
sig.features-method Accessor for the 'sig.features' slot of a 'svplsTest' object
sig.features.svplsTest Accessor for the 'sig.features' slot of a 'svplsTest' object
sim.dat A simulated RNAseq gene expression count data affected by multiple hidden variables.
surr Accessor for the 'surr' slot of a 'svplsSurr' object
surr-method Accessor for the 'surr' slot of a 'svplsSurr' object
surr.svplsSurr Accessor for the 'surr' slot of a 'svplsSurr' object
SVAPLSseq SVAPLSseq: An R package to adjust for the hidden factors of variability in differential gene expression studies based on RNAseq data.
svplsSurr svplsSurr
svplsSurr-class svplsSurr
svplsTest svplsTest
svplsTest-class svplsTest