reduce.gene.data {metaseqR} | R Documentation

## Reduce the gene annotation in case of not all chromosomes present in counts

### Description

This function reduces the gene annotation in case of exon reads and when the data to be analyzed do not contain all the standard chromosomes of the genome under investigation. This can greatly reduce processing time in these cases.

### Usage

        reduce.gene.data(exon.data, gene.data)

### Arguments

`exon.data` | the exon annotation already reduced to the size of the input exon counts table.
`gene.data` | an annotation data frame from the same organism as `exon.counts` (such the ones produced by `get.annotation`).

### Value

The `gene.data` annotation, reduced to have the same chromosomes as in `exon.data`, or the original `gene.data` if `exon.data` do contain the standard chromosomes.

### Author(s)

Panagiotis Moulos

### Examples

    data("hg19.exon.data",package="metaseqR")
    gene.data <- get.annotation("hg19","gene","ensembl")
    reduced.gene.data <- reduce.gene.data(hg19.exon.counts,
        gene.data)

[Package metaseqR version 1.28.0 Index]