dot-searchMotif: Search motif PFM and beta score matrix (if source is...

In benoukraflab/TFregulomeR: TFregulomeR reveals transcription factors’ context-specific features and functions

Search motif PFM and beta score matrix (if source is MethMotif) for a given TFregulomeR ID in TFregulomeR

Description

This function allows you to obtain motif PFM matrix and beta score matrix (if source is MethMotif) for a given TFregulomeR ID in TFregulomeR

Usage

.searchMotif(id, motif_format = "MEME", api_object)

Arguments

id	Required. TFregulomeR ID.
motif_format	Motif PFM format, either in MEME by default or TRANSFAC.
api_object	s4 object for interacting with the TFregulome database

Value

MethMotif class object

Examples

K562_CEBPB <- searchMotif(id = "MM1_HSA_K562_CEBPB")
K562_CEBPB_transfac <- searchMotif(id = "MM1_HSA_K562_CEBPB",
                                   motif_format = "TRANSFAC")

benoukraflab/TFregulomeR documentation built on April 17, 2024, 7:57 p.m.