README.md

Run BigQUIC Graphical LASSO (GLASSO) solver in Python

1. Install R.
2. Run this command within R.

install.packages('BigQuic', repos='http://cran.us.r-project.org')

3. Install rpy2 to call R from python (from the command line). (Also pip install sklearn and numpy if you don't already have them.)

pip install rpy2

4. Run python py_bigquic.py to test.
5. An example usage is below.

import numpy as np
import py_bigquic as pbq

data_array = np.random.random((10,20))  # A test data array with 10 samples, 20 variables
alpha = 0.5  # The sparsity hyper parameter
prec = pbq.bigquic(data_array, alpha)  # Returns the precision matrix

I implemented this to do large-scale comparisons on high-dimensional, under-sampled covariance estimation with Linear CorEx. If you are interested in this type of application, I strongly recommend checking Linear CorEx out, as it outperforms GLASSO in many scenarios! Results will be added to this paper: Low Complexity Gaussian Latent Factor Models and a Blessing of Dimensionality.