getTranscripts {transcriptR} | R Documentation

## getTranscripts

### Description

Retrieve transcripts information from the `TranscriptionDataSet` object.

### Usage

    getTranscripts(object, min.length, min.fpkm, min.coverage)

    ## S4 method for signature 'TranscriptionDataSet'
    getTranscripts(object, min.length, min.fpkm,
      min.coverage)

### Arguments

`object` | A `TranscriptionDataSet` object.
`min.length` | `Numeric`. A minimum length (in bp) of the reported transcripts.
`min.fpkm` | `Numeric`. A minimum FPKM of the reported transcripts.
`min.coverage` | `Numeric`. A minimum coverage of the reported transcripts.

### Details

The coverage is a measure of how densely the transcript is covered by the sequencing fragments. Modestly/highly expressed transcripts will have a value close to 1, whereas lowly expressed transcripts will have a value close to 0, indicating the sparse distribution of sequencing fragments along the transcript body.

### Value

A `GRanges` object.

### Author(s)

Armen R. Karapetyan

### See Also

`detectTranscripts`

### Examples

    ### Load TranscriptionDataSet object
    data(tds)

    ### View detected transcripts
    getTranscripts(tds)

[Package transcriptR version 1.12.0 Index]