geneRegionBiomart {GenomeGraphs} | R Documentation

## Construct an AnnotationTrack object from biomaRt.

### Description

This function constructs an AnnotationTrack object from Biomart. It is a convenience function.

### Usage

    geneRegionBiomart(chr, start, end, strand, biomart, dp = NULL, chrFunction = function(x) x, strandFunction = function(x) x)

### Arguments

`chr` | `chr` An integer
`start` | `start` The start location
`end` | `end` The end location
`strand` | `strand` An integer -1, 0, 1
`biomart` | `biomart` A mart
`dp` | `dp` DisplayPars object
`chrFunction` | `chrFunction` A function which takes `chr` and converts it into the correct representation for biomaRt. For instance yeast likes to have chromosomes as roman numerals so you can use as.roman here.
`strandFunction` | `strandFunction` Analagous to chrFunction, but for strand. The internal representation of strand is -1,0,1 whereas biomaRt has different species dependent representations.

### Value

An AnnotationTrack object.

### Author(s)

James Bullard

[Package GenomeGraphs version 1.4.1 Index]