getSeq {Biostrings} | R Documentation

## getSeq

### Description

A generic function for extracting a set of sequences (or subsequences) from a sequence container like a BSgenome object or other.

### Usage

    getSeq(x, ...)

### Arguments

`x` | A BSgenome object or any other supported object. Do `showMethods("getSeq")` to get the list of all supported types for `x`.
`...` | Any additional arguments needed by the specialized methods.

### Value

An XString object or an XStringSet object or a character vector containing the extracted sequence(s).

See man pages of individual methods for the details e.g. with `?`getSeq,BSgenome-method`` to access the man page of the method for BSgenome objects (make sure the BSgenome package is loaded first).

### See Also

getSeq,BSgenome-method, XString-class, XStringSet-class

### Examples

    ## Note that you need to load the package(s) defining the specialized
    ## methods to have showMethods() display them and to be able to access
    ## their man pages:
    library(BSgenome)
    showMethods("getSeq")

[Package Biostrings version 2.48.0 Index]