Elementwise Sparse Group Factor Analysis

The source code below implements the Bayesian Group Factor Analysis with element wise prior inducing sparsity. The zip-package contains both, the code for learning the model and running on a toy dataset.

Source Code

Download: Release version. Development versions: GFAsparse.zip (R Implementation, Version 0.1, December 2013) GFAsparse02.zip (R Implementation, Version 0.2, October 2015)
Dependencies: R package compiler
Example: The package v0.1 contains a example script demo.R that runs on toy data and v0.2 test2wayGFA.R.
License: Licensed under the FreeBSD open source license.

Publications

• Suleiman A. Khan, Seppo Virtanen, Olli P. Kallioniemi, Krister Wennerberg, Antti Poso, and Samuel Kaski. Identification of structural features in chemicals associated with cancer drug response: A systematic data-driven analysis, Bioinformatics 30 (17), 2014, ECCB. PDF
• Kerstin Bunte, Eemeli Leppäaho, Inka Saarinen, and Samuel Kaski. Sparse group factor analysis for bicluster detection in multiple input sources, submitted to a journal.

Contact/Feedback

Suleiman Ali Khan: khan.suleiman@gmail.com Eemeli Leppäaho: eemeli.leppaaho@aalto.fi
Authors: Suleiman A. Khan, Eemeli Leppäaho