class:Motif | Motif objects |
ctcf.motifs | CTCF motifs predicted by motifRG |
findMotif | De-novo discovery of distriminative motifs |
findMotifFasta | Wrapper function for findMotif using fasta input |
findMotifFgBg | Wrapper function for findMotif using two sequence datasets |
getSequence | Fetch genomic sequences from GRanges Object |
Motif-class | Motif objects |
motifHtmlTable | create of table of motifs |
motifLatexTable | create of table of motifs |
plotMotif | plot motif sequence matches |
refinePWMMotif | create a PWM (Position Weight Model) model given a initial set of motif matches and input sequences |
refinePWMMotifExtend | create an extended PWM (Position Weight Model) model given a initial set of motif matches and input sequences |
summaryMotif | summarize a list of motifs |
YY1.control | Background for YY1 ChIP-Seq peaks in HepG2 |
YY1.peak | YY1 ChIP-Seq peaks in HepG2 |