Open Sourcde Software Packages:
J.M.G. Vilar and L. Saiz (2024), Combined Molecular and Perceptual Machine Learning Approach for Odor Mixture Discrimination, https://www.synapse.org/#!Synapse:syn61416538.
J.M.G. Vilar and L. Saiz (2023), Dynamics-informed deconvolutional neural networks for super-resolution identification of regime changes in epidemiological time series, GitHub repository: https://github.com/DIDNN/NPIs; Zenodo: doi:10.5281/zenodo.7737141.
J.M.G. Vilar and L. Saiz (2019), Scaling and Regression over Nearest Neighbors for Single-Cell Signaling Prediction in Breast Cancer, https://www.synapse.org/#!Synapse:syn21188145.
J.M.G. Vilar and L. Saiz (2015), Combined ridge, support-vector, and random-forest regression approach for odor prediction, https://www.synapse.org/#!Synapse:syn3794504.
December 28th, 2013: Q. Mei and L. Saiz (2013), “AutReconsTGFb” contains the scripts (Scripts S1 file) for the paper Q. Mei and L. Saiz, “Literature-based automated reconstruction, expansion, and refinement of the TGF-β superfamily ligand-receptor network”, J. Membr. Biol., 247, 381-386 (2014). Software can be downloaded at http://sourceforge.net/projects/autreconstgfb.
December 25th, 2013: D. Nicklas and L. Saiz (2013), “TherapySim” is a Python software package to predict potential therapeutic targets in signaling networks. Software can be downloaded at http://sourceforge.net/projects/therapysim together with the Python implementation tutorials [check it out].
December 12th, 2012: J.M.G. Vilar and L. Saiz (2012), “CplexA” is now available for Mathematica, Python, and Matlab. CplexA and the corresponding Mathematica, Matlab, and Python implementation tutorials are available at http://cplexa.sourceforge.net/. Software can be downloaded at http://cplexa.sourceforge.net/ tutorials are available at http://sourceforge.net/projects/cplexa/. See our SOFTWARE/CplexA site for more information on how to use and cite CplexA.
April 19th, 2010: J.M.G. Vilar and L. Saiz (2010), “CplexA” is a Mathematica package to compute the needed quantities to study macromolecular assembly and its effects in gene regulation. CplexA and the tutorial are available at http://sourceforge.net/projects/cplexa/. See our SOFTWARE/CplexA site for more information on how to use and cite CplexA.