estimatelog2FoldChanges {DEXSeq} | R Documentation |
This function calculates the fold changes (on log2 scale) between the different conditions. It calculates them from the coefficients of a GLM that fits the read counts to a variable of the experimental design specified by the user (see below, parameter "fitExpToVar").
estimatelog2FoldChanges(ecs, fitExpToVar="condition", nCores=1, quiet=FALSE, file="")
ecs |
An ExonCountSet object. |
fitExpToVar |
A variable contained in |
nCores |
Number of CPU cores to be used to estimate the dispersions.
The |
quiet |
If TRUE, no progress report is shown. In case the session is not an interactive and progress report is wanted, add a file name below. |
file |
A file name to write the progress reports. If file="", output will be written to the standard output connection. |
## Not run: data("pasillaExons", package="pasilla") pasillaExons <- estimateSizeFactors( pasillaExons ) pasillaExons <- estimateDispersions( pasillaExons ) pasillaExons <- fitDispersionFunction( pasillaExons ) pasillaExons <- estimatelog2FoldChanges( pasillaExons ) ## End(Not run)