If you use bioNMF 2.0, please cite the following work:
E. Mejía-Roa, P. Carmona-Saez, R. Nogales, C. Vicente, M. Vázquez, X. Y. Yang, C. García, F. Tirado and A. Pascual-Montano. bioNMF: a web-based tool for nonnegative matrix factorization in biology. Nucl. Acids Res. 2008, 36 (suppl 2, Web Server issue): W523-W528. doi:10.1093/nar/gkn335 [http://bionmf.cnb.csic.es] [http://nar.oxfordjournals.org/cgi/content/full/36/suppl_2/W523]

New: NMF-mGPU: Non-negative Matrix Factorization on multi-GPU Systems.
It is an efficient implementation of the NMF algorithm for one or more GPU devices.
Freely downloadable at: http://bioinfo-cnb.github.io/bionmf-gpu/

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