otter

The otter Framework combines community network analysis using Co-Occurrence networks, Louvain Clustering and Convergent Cross Mapping networks.

Projects:

• BeyondBlooms2024 A novel time series analysis framework predicts seasonal keystone species and sheds light on ecosystem stability. (https://www.biorxiv.org/content/10.1101/2024.03.11.583746v3) Raw metabarcoding reads will be accessible under https://www.ebi.ac.uk/ena/browser/view/PRJEB43905.

• FramPhages2024 (In preparation)

Installation

Python version 3.10

pip install -r requirements.txt

Pytest

pytest

Convergent Cross Mapping:

The CCM modul is based on https://github.com/PrinceJavier/causal_ccm.

Energy Landscape Analysis:

The Energy Landscape Analysis is based on: https://github.com/kecosz/rELA

Acknowledgements

Thanks to Kenta Suzuki for supporting us in adapting rELA to our needs. Thanks to Prince Joseph Erneszer Javier for developing CCM package in python.