DiscoverMotif: DNA Methylation Motif Discovery
In GEizaguirre/DMMD: DNA Methylation Motif Discovery (DMMD)

Description Usage Arguments Details Value Note Author(s)

View source: R/DiscoverMotif.R

DNA Methylation Motif finding algorithm

DiscoverMotif(Species, Growing.Mode = "Central", Clust.Metric = "Cosine", InputDataFileName = "ffipsc1911", Num.CPU = 10, Prone.Threshold = 0.95, Resistant.Threshold = 0.15, Min.MotifLength = 6, Max.MotifLength = 15, SeqRepetition.Frequency = 5, CG.Displacement = 0, Coord.Displacement = 1, DrawLogo = TRUE, AssignGenes = TRUE, FullInputDataFile, PathReferenceSequence, PathOutput = NA, ThrFDR = NA)

`Species`	Species Parameter
`Growing.Mode`	Growing Mode
`Clust.Metric`	Clust Metric
`InputDataFileName`	InputDataFileName Parameter
`Num.CPU`	Num CPU
`Prone.Threshold`	Prone Threshold
`Resistant.Threshold`	Resistant Threshold
`Min.MotifLength`	Min MotifLength
`Max.MotifLength`	Max MotifLength
`SeqRepetition.Frequency`	SeqRepetition Frequency
`CG.Displacement`	CG Displacement
`Coord.Displacement`	Coord Displacement
`DrawLogo`	Draw Logo
`AssignGenes`	Assign Genes
`FullInputDataFile`	FullInputDataFile Parameter
`PathReferenceSequence`	PathReferenceSequence Parameter
`PathOutput`	PathOutput Parameter
`ThrFDR`	FDR Threshold