AirBiome Project: Microbial Association Network Analysis Summary

This repository contains a summary of the main results for the microbial association networks from the AirBiome project. The reports were generated using VueGen, a tool to automate the creation of scientific reports.

Online Reports

The reports generated for this project are available online:

Run the Reports locally

Streamlit Report

To run the Streamlit report, ensure you have the required dependencies installed, then navigate to the streamlit_report directory and run the main script.

cd streamlit_report
pip install -r requirements.txt
streamlit run sections/report_manager.py

Quarto Reports

The HTML and Reveal.js reports in the quarto_report directory can be viewed directly in a web browser.

Scripts, Data and Raw Outputs

The scripts, data, and raw outputs used to generate these reports are available in this repository.

Project Structure

The repository is organized as follows:

Folder	Description
AirBiome_microbial_association_networks_summary/	Contains all the data and raw outputs from the analysis.
streamlit_report/	Contains the scripts for a Streamlit report. This interactive report allows for dynamic exploration of the output.
quarto_report/	Includes HTML and Reveal.js reports.
airbiome_microbial_association_networks_summary_config.yaml	Configuration file for the VueGen report generation, which can be extended with additional information.
Network_visualizations_cytoscape/	Holds Cytoscape session files for detailed network visualizations of adjacency and association networks.