process_database: Process database

In AhmedMehdiLab/E.PAGE: Environmental Pathways Affecting Gene Expression

Process database

Description

Choose database category and organism for use in analysis.

Usage

process_database(data, categories = FALSE, organisms = FALSE, gs_filter = "")

Arguments

data	output of import_database
categories	optional: categories to include; default all
organisms	optional: organisms to include; default all
gs_filter	optional: filter for gene set names

Value

gs_genes list: names: gene set names vector: genes

gs_info tibble: gene set information

genes vector: list of genes

Examples

## Not run: 
data_path <- system.file("extdata", "ex_data.csv", package = "E.PAGE")
data <- import_database(data_path, ",", FALSE, c(2, 4), 0)

data_proc <- process_database(data, "Not assigned", "Not assigned")

## End(Not run)

AhmedMehdiLab/E.PAGE documentation built on Aug. 21, 2022, 4:37 p.m.