visualize_report: Visualize a HiPathia report

In hipathia: HiPathia: High-throughput Pathway Analysis

Description

Visualize a HiPathia report

Usage

visualize_report(output_folder, port = 4000)

Arguments

output_folder	Folder in which results to visualize are stored
port	Port to use

Value

The instructions to visualize a HiPathia report in a web browser

Examples

data(comp)
pathways <- load_pathways(species = "hsa", pathways_list = c("hsa03320",
"hsa04012"))
report <- create_report(comp, pathways, "save_results")
visualize_report(report)

## Not run: 
data(results)
data(brca)
sample_group <- colData(brca)[,1]
colors_de <- node_color_per_de(results, pathways,
sample_group, "Tumor", "Normal")
report <- create_report(comp, pathways, "save_results",
node_colors = colors_de)
visualize_report(report)
visualize_report(report, port = 5000)

## End(Not run)

hipathia documentation built on Nov. 8, 2020, 7:52 p.m.