Perform key tests for binding motifs in sequence data

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Documentation for package ‘motifTestR’ version 1.2.1

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

ar_er_peaks	A set of peaks with AR and ER detected
ar_er_seq	Sequences from peaks with AR and ER detected
clusterMotifs	Assign each motif to a cluster
countClusterMatches	Find matches from a PWM cluster within an XStringSet
countPwmMatches	Count the matches to a PWM within an XStringSet
ex_pfm	Example Position Frequency Matrices
getClusterMatches	Find matches from a PWM cluster within an XStringSet
getPwmMatches	Find all PWM matches within an XStringSet
hg19_mask	Regions from hg19 with high N content
makeRMRanges	Form a set of random, matching ranges for bootstrapping or permuting
makeRMRanges-method	Form a set of random, matching ranges for bootstrapping or permuting
plotMatchPos	Plot Motif Match Positions
testClusterEnrich	Test enrichment across a cluster of motifs using a background set of sequences
testClusterPos	Test positional bias motifs within a cluster
testMotifEnrich	Test motif enrichment using a background set of sequences
testMotifPos	Test for a Uniform Distribution across a set of best matches
zr75_enh	Candidate Enhancer Regions from ZR-75-1 Cells