cMapPathBuilder {AnnBuilder} | R Documentation |
NCICB Pathway Interaction Database provides two data files molecule interaction data for BioCarta and KEGG pathways. The functions described here use the two files and build a data package containing the data
cMapPathBuilder(cartaName, keggName, pkgName = "cMAP", pkgPath, version = "1.1.0", author = list(author = "anonymous", maintainer = "anonymous@email.com"), lazyLoad = TRUE) cMAPParser(sourceFile)
cartaName |
cartaName a character string for the name of
the XML file containing data for BioCarta pathways |
keggName |
keggName a character string for the name of
the XML file containing data for BioCarta pathways |
pkgName |
pkgName a character string for the name of the
package to be built |
pkgPath |
pkgPath a character string for the path to the
directory where the new package to built will reside |
version |
version a character string for the version
number of package to be built |
author |
author a list with an author and maintainer
element for the name and email address of the author of the pacakge |
sourceFile |
sourceFile a character string for the name of
the source data for BioCarta or KEGG |
lazyLoad |
lazyLoad a boolean indicating whether a lazy
load database will be created |
cMAP currently does not support ftp downloading of the source data file. The files to be used have to be downloaded through a web browser and the name (with full path) of the downloaded file will be used.
cMapPathBuilder returns a list with three elements:
molecule |
a list of vectors/lists containing molecule data |
interaction |
a list of vectors/lists containing molecule interaction data |
pathway |
a list of vectors containing pathway component data |
Jianhua Zhang
## No example is provided