load_mart: Establish connection to biomaRt database

In peterblattmann/SWATH2stats: Transform and Filter SWATH Data for Statistical Packages

Establish connection to biomaRt database

Description

This function establishes a connection to a biomart database.

Usage

load_mart(species, ensembl.path = "www.ensembl.org", mart, verbose = FALSE)

Arguments

species	The species of the protein identifiers in the term used by biomaRt (e.g. "hsapiens_gene_ensembl", "mmusculus_gene_ensembl", "drerio_gene_ensembl", etc.)
ensembl.path	Ensembl host to connect to. Default: www.ensembl.org
mart	The type of mart (e.g. "ENSEMBL_MART_ENSEMBL", etc.)
verbose	print a summary of the ensembl connection.

Value

Connection for performing biomart queries.

Author(s)

Peter Blattmann

Examples

{
 data_table <- data.frame(Protein = c("Q01581", "P49327", "2/P63261/P60709"),
                          Abundance = c(100, 3390, 43423))
 mart <- convert_protein_ids(data_table)
 }

peterblattmann/SWATH2stats documentation built on July 2, 2023, 9:42 p.m.