write.sequences {cobindR} | R Documentation

## writes the sequences of a cobindr-object into a fasta file.

### Description

writes the sequences of a cobindr-object into a fasta file.

### Usage

    ## S4 method for signature 'cobindr'
    write.sequences(x, slotname = "sequences", file = NULL)

### Arguments

`x` | an object of the class "cobindr", which will hold all necessary information about the sequences.
`slotname` | string, describing whether to use foreground sequences (default) or background sequences
`file` | path to file. If filename is 'NULL' a filename is generated based on the name of the object of class "cobindr".

### Author(s)

Stefan Kroeger <kroeger@informatik.hu-berlin.de>

### See Also

`write.bindingsites.table`, `write.bindingsites`, `write.pairs`, `write`

### Examples

    cfg <- cobindRConfiguration()
    sequence_type(cfg) <- 'fasta'
    sequence_source(cfg) <- system.file('extdata/example.fasta', package='cobindR')
    # avoid complaint of validation mechanism
    pfm_path(cfg) <- system.file('extdata/pfms',package='cobindR')
    pairs(cfg) <- ''
    runObj <- cobindr(cfg)
    write.sequences(runObj, file = file.path(tempfile("example.txt",tempdir())) )

[Package cobindR version 1.25.0 Index]