createTfDf: Pull all FIMO Motifs for a Given TF

In PriceLab/FPML: Footprint Machine Learning

Description

Given a particular TF, pull all FIMO data for the motifs that map to that TF

Usage

createTfDf(TF, TFs.to.motifs, chipseq.regions, chipseq.hits,
  fimoHost = "localhost", fimoPort = "5432", verbose = FALSE)

Arguments

TF	A transcription factor of interest
TFs.to.motifs	A list where each entry is a character vector of motifs and the name of each entry is a transcription factor
chipseq.regions	A table of ChIPseq regions
chipseq.hits	A table of ChIPseq hits
fimoHost	A string indicating the host for the FIMO database (default = "localhost")
fimoPort	A string indicating the port for the FIMO database (default = "5432")
verbose	A Boolean flag indicating whether the function should print output (default = FALSE)

Value

The data frame containing all FIMO motifs that correspond to the supplied TF

PriceLab/FPML documentation built on May 28, 2019, 2:25 p.m.