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
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
plotMatchPos            Plot Motif Match Positions
simMultiMotifs          Simulate sequences with multiple motifs
simSeq                  Simulate sequences using optional TFBMs
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
