Yu Wang, 2018

staNMF

Python 3 implementation of Siqi Wu et al.'s 2016 stability NMF (staNMF)

Package Contents

main.py

Contains the major classes.

Demo/01_Drosophila.ipynb

Example of staNMF demonstrated on Wu et al.'s 2016 drosophila spatial expression data between K=15 and K=30; Generates sample factorizations, calculates instability index, and plots instability against K

Demo/WuExampleExpression.csv

sample dataset (also available for download here)

Installation

$ pip install -e .

Acknowledgements

based on the implimentation by Amy Campbell from green lab (https://github.com/greenelab/staNMF) but with several important changes.