motifEcdf {PWMEnrich} | R Documentation

## Calculate the empirical distribution score distribution for a set of motifs

### Description

Calculate the empirical distribution score distribution for a set of motifs

### Usage

    motifEcdf(
      motifs,
      organism = NULL,
      bg.seq = NULL,
      quick = FALSE,
      pseudo.count = 1
    )

### Arguments

`motifs` | a set of motifs, either a list of frequency matrices, or a list of PWM objects. If frequency matrices are given, the background distribution is fitted from bg.seq.
`organism` | either a name of the organisms for which the background should be compiled (supported names are "dm3", "mm9" and "hg19"), or a `BSgenome` object (see `BSgenome` package).
`bg.seq` | a set of background sequence (either this or organism needs to be specified!). Can be a DNAString or DNAStringSet object.
`quick` | if to do the fitting only on a small subset of the data (only in combination with `organism`). Useful only for code testing!
`pseudo.count` | the pseudo count which is shared between nucleotides when frequency matrices are given

### Value

a list of `ecdf` objects (see help page for `ecdf` for usage).

[Package PWMEnrich version 4.30.0 Index]