DEICODE is a tool box for running Robust Aitchison PCA on sparse compositional omics datasets, linking specific features to beta-diversity ordination.
To install the most up to date version of deicode, run the following command
# pip (only supported for Qiime >= 2018.8)
pip install deicode
# conda (only supported for Qiime >= 2019.1)
conda install -c conda-forge deicode
Note: that deicode is not compatible with python 2, and is compatible with Python 3.4 or later. deicode is currently in alpha. We are actively developing it, and backward-incompatible interface changes may arise.
Note: the official plugin docs and tutorial can be found here.
- The code for OptSpace was translated to python from a MATLAB package maintained by Sewoong Oh (UIUC).
- Transforms and PCoA : Scikit-bio
- Data For Examples : Qiita