knitr::opts_chunk$set(echo = TRUE)
MAPA is a Shiny application designed for analyzing and visualizing biological data, especially in the context of pathways and networks. This tutorial will walk you through the steps of using MAPA for data upload, enrichment, merging, visualization, interpretation, and reporting.
This tutorial provides a step-by-step guide to using the MAPA Shiny app for biological data analysis. Each tab in the app is dedicated to a specific aspect of the analysis, ensuring a structured and comprehensive approach to data processing and visualization. Remember to explore various options and parameters to tailor the analysis to your specific needs.
fileInput
to upload your data in CSV or Excel format. You can also check "Use example" to work with preloaded data.Select the type of ID your data contains (ENSEMBL, UniProt, or EntrezID).
ID Mapping:
clusterProfiler
and org.Hs.eg.db
packages.Set parameters like organism, P-value cutoff, adjustment method, and gene set size.
Run Enrichment:
Adjust parameters like P-adjust cutoff, gene count cutoff, similarity cutoff, and similarity method for each database.
Merge and Visualize:
View and download the merged module results.
Visualize Merged Modules:
View the report in the app or download it.
Code Access:
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.