geneRegionBiomart

start

strand

biomart

<code>chrFunction</code> A function which takes
    <code>chr</code> 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.

chrFunction

<code>strandFunction</code> Analagous to chrFunction,
    but for strand. The internal representation of strand is -1,0,1
    whereas biomaRt has different species dependent representations.

strandFunction


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


hplot

Genomic data analyses requires integrated visualization of known genomic information and new experimental data.  GenomeGraphs uses the biomaRt package to perform live annotation queries to Ensembl and translates this to e.g. gene/transcript structures in viewports of the grid graphics package. This results in genomic information plotted together with your data.  Another strength of GenomeGraphs is to plot different data types such as array CGH, gene expression, sequencing and other data, together in one plot using the same genome coordinate system.

Steffen Durinck

GenomeGraphs

Plotting genomic information from Ensembl

geneRegionBiomart function

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

geneRegionBiomart: Construct an AnnotationTrack object from biomaRt.

Description

Usage

Arguments

Value