getPvaluesByContrast: Cassette exon/intron retention event ranking by contrast

In harshsharma-cb/FASE: Analysis of RNA-Sequencing data using FASE (Finding Alternative Splicing Events).

Cassette exon/intron retention event ranking by contrast

Description

Takes the annotated and fitted object of EPrnaseq/iPrnaseq and the name or number of contrast as given in contrast matrix as input and finds differentially alternatively spliced cassette exon/intron retention events for that contrast.

Usage

getPvaluesByContrast(fit, contrast = NULL)

Arguments

fit	output of addAnnotationRnaSeq function.
contrast	contrast whose ranking is required, for example, 'NormalvsTumor' (as used in contrast matrix).

Value

Data frame that contains ranking of cassette exon/intron retention events in the given contrast or comparision with their annotation. The output can be saved as csv/xlsx file.

harshsharma-cb/FASE documentation built on Aug. 6, 2023, 1:37 a.m.