# network_protocol

**Repository Path**: chiliubio/network_protocol

## Basic Information

- **Project Name**: network_protocol
- **Description**: A protocol for microbial co-occurrence network analysis and comparisons
- **Primary Language**: R
- **License**: GPL-3.0
- **Default Branch**: main
- **Homepage**: https://gitee.com/chiliubio/network_protocol
- **GVP Project**: No

## Statistics

- **Stars**: 0
- **Forks**: 0
- **Created**: 2022-10-11
- **Last Updated**: 2022-10-11

## Categories & Tags

**Categories**: Uncategorized

**Tags**: None

## README

A protocol for comparing microbial co-occurrence networks

## Details

**soil_amp.RData**: 16S rDNA amplicon sequencing dataet of Chinese wetland soils.  

**soil_measure_diversity.RData**: the abiotic factor and diversity data for Figure6.  

**stool_met.RData**: generated by **stool_met_prepare_dataset.R**. The metagenomic taxonomic abundance dataset of stool samples.  

**stool_met_network.RData**: generated by **stool_met_generate_network.R**. A list storing all the trans_network objects for stool_met.  

**edge_node_distance_examples.R**: R script for showing other distance matrix analysis.  

**edge_node_metabolite_example.R**: R script for generating the proportions of edges with specific metabolite exchange between species in stool_met.