getReactomeMatchInfo {ENVISIONQuery}R Documentation

Retrieve Reactome pathway match info from the 'Entry' node of the Enfin xml document.

Description

Retrieve Reactome pathway match info from the 'Entry' node of the Enfin xml document.

Usage

getReactomeMatchInfo(entry, positiveResultIDs)

Arguments

entry

The 'Entry' node of the Enfin xml document.

positiveResultIDs

Set of 'ID' nodes of the Enfin xml document which contain the pair match information.

Value

The array with at least three columns, the first containing the source ID set, the second containing the pathway description and the third containing the link to Reactome web page for a given pathway. If 'enfin-reactome-add-coverage' option is set to 'true' then two extra columns are added: the first for pathway coverage number, and the second for the total protein count per pathway.

Author(s)

Alex Lisovich, Roger Day


[Package ENVISIONQuery version 1.42.0 Index]