read_gene_sets: Read pathway gene sets

View source: R/fct_database.R

read_gene_setsR Documentation

Read pathway gene sets

Description

Use the IDs from the converted database to find the gene sets for all the pathways in the database. Returns a list with each entry a vector of IDs corresponding to a description of a pathway in the database.

Usage

read_gene_sets(converted, all_gene_names, go, select_org, idep_data, my_range)

Arguments

converted

List of converted gene information from convert_id()

all_gene_names

Data frame of gene names from get_all_gene_names()

go

String designating the section of the database to query for pathway analysis. See gmt_category() for choices.

select_org

String designating with organism is being analyzed

idep_data

List of data returned from get_idep_data()

my_range

Vector of the (min_set_size, max_set_size)

Value

A list with each entry a list of gene IDs that correspond to a pathway.


espors/idepGolem documentation built on Oct. 27, 2024, 4:56 a.m.