subset {MotifDb} | R Documentation

## subset

### Description

An analog of the base package subset method, this version will return all the matrices whose metadata match the (possibly intricate) logical expression in the "subset" argument.

Note: just as with the base subset method, this method is unreliable except when used interactively. Batch, script or other programmatic use of this function is to be avoided.

### Usage

    ## S4 method for signature 'MotifList'
    subset(x, subset, select, drop=FALSE, ...)

### Arguments

`x` | a `MotifList` object.
`subset` | a `logical` expression whose terms are predicates on the column names of the metadata table
`select, drop, ...` | these are ignored, appearing here only in fidelity to the generic definition of the method.

### Value

A list of the matrices whose metadata satisfies the supplied subset

### Author(s)

Paul Shannon

### See Also

MotifDb, query, export, flyFactorSurvey, hPDI, jaspar, ScerTF, uniprobe

### Examples

      mdb <- MotifDb
      if (interactive ()) {
        matrices <- subset (mdb, dataSource=='UniPROBE')
        egr1.matrices <- subset (mdb, geneSymbol=='Egr1')
        jaspar.egr1.matrices <- subset (mdb, geneSymbol=='Egr1' &
                                             dataSource == 'JASPAR_CORE')
          # one of the mouse egr1 matrices has a geneSymbol 'Zif268', but
          # has the proper entrez geneId.
        all.egr1.matrices <- subset (mdb, geneId=='13653')
        }

[Package MotifDb version 1.24.1 Index]