output_predicted_genes: Predict disease genes from a seed gene list

In jeinson/PhenolyzerR: PhenolyzerR

Description

This function utlizes the structure of the Gene Ontology resource to predict unreported disease genes from a list of seed genes. It accomplishes this task by finding the most granular GO term that a particular gene belongs to, and collecting all other genes belonging to that term. It scores predicted genes based on their frequencies in the related GO terms.

Usage

output_predicted_genes(seed_gene_list, n_seeds = 10)

Arguments

seed_gene_list	The tibble outputted by 'output_gene_prioritization'
n_seeds	The number of seed genes to use to extend genes. Defaults to 10

Details

By default, only 10 seed genes are used to predict new genes. This can be changed, but increasing this parameter will increase runtime exponentially

Value

A tibble

Examples

autism_seed_genes <- output_gene_prioritization("autism")
output_predicted_genes(autism_seed_genes)

jeinson/PhenolyzerR documentation built on Feb. 19, 2020, 11:36 p.m.