get_enrichment: get_enrichment

In STRINGdb: STRINGdb (Search Tool for the Retrieval of Interacting proteins database)

Description

Returns the enrichment in pathways of the vector of STRING proteins that is given in input.

Usage

## S4 method for signature 'STRINGdb'
get_enrichment(string_ids, category = "Process", methodMT = "fdr", iea = TRUE, minScore=NULL)

Arguments

string_ids	a vector of STRING identifiers.
category	category for which to compute the enrichment (i.e. "Process", "Component", "Function", "KEGG", "Pfam", "InterPro"). The default category is "Process".
methodMT	method to be used for the multiple testing correction. (i.e. "fdr", "bonferroni"). The default is "fdr".
iea	specify whether you also want to use electronic inference annotations
minScore	with Tissue and Disease categories is possible to filter the annotations having an annotation score higher than this threshold (from 0 to 5)

Value

Data frame containing the enrichment in pathways of the vector of STRING proteins that is given in input.

Author(s)

Andrea Franceschini

STRINGdb documentation built on March 10, 2021, 2 a.m.