faseqInfer: Functional association inference

In fchen365/surf: Statistical Utility for RBP (RNA binding protein) Functions

Description

Inference the functionality of individual location features, where the RBP is likely to interact and regulate the corresponding ATR event. A location feature is inferred as function associated if (i) it is included in FAT, and (ii) the corresponding FAT is significant (padj < cut.off), and (iii) it has strong binding signal (featureSignal > cut.off).

Usage

faseqInfer(event, fdr.cutoff = 0.05, signal.cutoff = 20)

Arguments

event	a surf object from faseq or faseqFit.
fdr.cutoff	numeric, significance cutoff for the adjusted p-values.
signal.cutoff	numeric, threshold cut-off for the eCLIP signals, default to 20. Set this to 0 if don't want to filter those location with low eCLIP signals of the RBP.

Value

a surf object, with one added inferredFeature column (inclusion/exclusion/none).

fchen365/surf documentation built on June 18, 2021, 12:02 p.m.