arseq.ensembl2genename: Gene ID converter

In ajitjohnson/arseq: Automated RNA Sequencing Analysis Pipeline

Description

Convert ensembl id's to hugo gene names. The function also reduces multiple transcripts into a single gene by taking the sum of all transcripts.

Usage

arseq.ensembl2genename(data, ensemblmirror, species)

Arguments

data	Expression matrix with ensemble id's as the first column
species	Only applies to converting ENSEMBL IDs to Gene names (not to enrichment analysis). Species you want to use. To see the different datasets available you can use do: library(biomaRt); followed by mart = useEnsembl('ENSEMBL_MART_ENSEMBL'); followed by listDatasets(mart). Default: 'hsapiens_gene_ensembl'.

Value

Expression matrix with gene names as the first column

Examples

## Not run: 
data <- arseq.ensembl2genename (example_data)

## End(Not run)

ajitjohnson/arseq documentation built on Oct. 28, 2021, 3:53 a.m.