Extract a Named List of Entrez IDs Annotated to Each Pathway in PANTHER.db

Share:

Description

This is a function that invokes the PANTHER.db Bioconductor library to extract a list of pathway mappings to be used in gene set enrichment tests. Specifically, the function returns a named list of pathways, where each element contains Entrez IDs. Users should not generally call this function directly as it is invoked internally by the higher-level ct.PantherPathwayEnrichment() function.

Usage

1
ct.getPanther(species = c("human", "mouse"))

Arguments

species

The species of the cells used in the screen. Currently only 'human' or 'mouse' are supported.

Value

A named list of pathways from PANTHER.db.

Author(s)

Russell Bainer, Steve Lianoglou.

Want to suggest features or report bugs for rdrr.io? Use the GitHub issue tracker.