classify: Motif Soft Classification into Topologically-associating...

In NElnour/3dannotator: Classification of genome motifs or features to TADs

Description

Classifies motifs by location into hierarchically clustered chromatin loops. It assumes that each base position has an equal chance of occurring in a chromatin loop.

Usage

classify(motifs, chromLoops)

Arguments

motifs	A dataframe of matched motifs with at least the following attributes: motif_id: a string array containing the motifs' names start: an integer array cotaining the starting coordinates of matched motif stop: an integer array containing the end coordinate of matched motif
chromLoops	A dataframe of hierarchically clustered chromatin loops with at least the following attributes: #' start: an integer array containing the starting coordinates of the predicted chromatin loops stop: an integer array containing the end coordinates of the predicted chromatin loops

Value

A dataframe of classified of motifs, their membership scores, and locations

Examples

data("A549ChromLoops")
data("matchedMotifs")
classify(matchedMotifs, A549ChromLoops)

NElnour/3dannotator documentation built on Dec. 12, 2019, 12:55 a.m.