importAnnotationHub {TSRchitect} | R Documentation

## importAnnotationHub

### Description

imports an annotation directly from AnnotationHub and attaches it to the tssObject

### Usage

    importAnnotationHub(experimentName, provider, annotType, species, annotID)

      ## S4 method for signature 'tssObject,character,character,character,character'
    importAnnotationHub(experimentName,
      provider, annotType, species, annotID)

### Arguments

`experimentName` | - an S4 object of class tssObject that contains information about the experiment
`provider` | - 'character' the source of the annotation in AnnotationHub (e.g. 'gencode')
`annotType` | - 'character' the format of the annotationHub annotation to be imported. Using 'gff' will find annotations in both gff or gff3 formats
`species` | - 'character' the species identifier in AnnotationHub (e.g. 'human')
`annotID` | - 'character' the AnnotationHub identifier to be retrieved

### Value

fills the slot @annotation in the returned tssObject with an AnnotationHub record. The record retrieved must be an object of class GRanges.

### Note

An example similar to the one provided can be found in the vignette (/inst/doc/TSRchitect.Rmd)

Please consult the available records in AnnotationHub beforehand using `AnnotationHub-class`

[Package TSRchitect version 1.8.9 Index]