topPathways {paxtoolsr}R Documentation

Retrieve top pathways

Description

This command returns all "top" pathways.

Usage

topPathways(q = NULL, datasource = NULL, organism = NULL,
  verbose = FALSE)

Arguments

q

[Optional] a keyword, name, external identifier, or a Lucene query string, like in 'search', but the default is '*' (match all).

datasource

filter by data source (same as for 'search').

organism

organism filter (same as for 'search').

verbose

a boolean, display the command used to query Pathway Commons

Details

Pathways that are neither 'controlled' nor 'pathwayComponent' of another process.

Value

a data.frame with the following columns:

Examples

#results <- topPathways(q="TP53", datasource="panther")


[Package paxtoolsr version 1.16.0 Index]