readBiopax

file

logical. Output messages about how parsing
  is going and so on.

verbose

This function reads in a Biopax .owl file and generates the
internal data.frame format used in this package. This
function can take a while with really big Biopax files like
NCIs Pathway Interaction Database or Reactome. In almost
every case this is your starting point. Returns a biopax
model, which is a list with named elements: <dl>
<dt>df</dt><dd>The data.frame representing the biopax in R</dd><dt>ns_rdf</dt><dd>RDF Namespace</dd>
 <dt>ns_owl</dt><dd>OWL Namespace</dd><dt>ns_bp</dt><dd>Biopax Namespace</dd>
 <dt>file</dt><dd>File name</dd>
 </dl>

Parses BioPAX files and represents them in R, at the moment BioPAX level 2 and level 3 are supported.

Frank Kramer

rBiopaxParser

Parses BioPax files and represents them in R

readBiopax function

This function reads in a Biopax .owl file and generates the
internal data.frame format used in this package. This
function can take a while with really big Biopax files like
NCIs Pathway Interaction Database or Reactome. In almost
every case this is your starting point. Returns a biopax
model, which is a list with named elements: [object Object],[object Object],[object Object],[object Object],[object Object]

readBiopax: This function reads in a Biopax .owl file

Description

Usage

Arguments

Value

Examples