Canonically pronouced nice

gneiss is a compositional statistics and visualization toolbox.

Note that gneiss is not compatible with python 2, and is compatible with Python 3.4 or later. gneiss is currently in alpha. We are actively developing it, and backward-incompatible interface changes may arise.

To install this package, it is recommended to use conda. An environment can installed as follows

conda create -n gneiss_env python=3

gneiss then can be installed as follows

source activate gneiss_env
conda install pyqt
pip install gneiss

gneiss can also be installed through conda

conda install -c biocore gneiss

To run through the tutorials, you'll need a few more packages, namely seaborn, biom-format and h5py. These packages can be installed with conda as follows

conda install seaborn h5py
pip install biom-format

IPython notebooks demonstrating some of the modules in gneiss can be found as follows

• What are balances
• Linear regression on balances in the 88 soils
• Linear mixed effects models on balances in a CF study