roar-package:
Identify differential APA usage from RNA-seq alignments
Description
Identify preferential usage of APA sites,
comparing two biological conditions, starting from known alternative sites and
alignments obtained from standard RNA-seq experiments.
Details
The codeRoarDataset class exposes methods to perform the whole analysis, in order to
identify genes with preferential expression of long/short isoforms in a condition with respect to
another one. The needed input data are alignments deriving from RNA-seq experiments of the
two conditions and a set of coordinates of APA sites for genes with an alternative APA site
proximal to the one used ``normally''.