exportBindSequence {ChIPseqR} | R Documentation

## Export sequence of predicted binding sites

### Description

Extracts sequence of predicted binding sites from reference genome and exports them in FASTA format.

### Usage

    exportBindSequence(prediction, reference, bind, overlap = FALSE, file = "")

### Arguments

`prediction` | Object of class `BindScore`.
`reference` | Reference genome sequence (as `XStringSet` object).
`bind` | Length of binding site to assume for sequence extraction. This may be missing in which case the value is derived from `'prediction'`.
`overlap` | Logical indicating whether overlapping predictions should be allowed.
`file` | Name of output file.

### Value

An `XStringViews` object containing the sequences. If a file name is provided this is returned invisibly.

### Author(s)

Peter Humburg

### References

Package `Biostrings`

### See Also

`XStringViews`, `XStringSet`, `BindScore`

[Package ChIPseqR version 1.44.0 Index]