Unraveling Keystone Taxa: Interactions Within Microbial Networks and Environmental Dynamics in Lake Mendota

Folder Structure

The detailed instruction of setting up and running the codes are provided in the README files of each of the following folder.

Folder	Description
data	This directory contains all the raw data used in the project. It's crucial not to modify these files directly to ensure the reproducibility of the analysis.
code	All scripts and other code files for the project are stored here. These files include data cleaning, analysis, and visualization scripts.
output	This directory contains the output figures generated by two specific scripts in the code directory: Car-figures.R and lake-microbiome-figures.py. It holds visual representations such as figures, which summarize the findings and results of the analyses conducted by these scripts.

Issues and questions

Issues and questions are encouraged through the GitHub issue tracker. For bugs or errors, please make sure to provide enough details for us to reproduce the error on our end.

Citation

We kindly ask that you cite the following paper:

@article{Yang2024,
  doi = {/10.1101/2024.11.11.623027}, 
  url = {[https://doi.org/10.21105/joss.05448](https://www.biorxiv.org/content/10.1101/2024.11.11.623027v1.full.pdf)},
  author = {Qiyao Yang, Rosa Aghdam, Patricia Q. Tran, Karthik Anantharaman, and Claudia Solis-Lemus},
  title = {Unraveling Keystone Taxa: Interactions Within Microbial Networks and Environmental Dynamics in Lake Mendota},
  journal = {bioRxiv. 2024:2024-11} 
}