“…We show, using public, simulated time-course data sets from the DREAM4 Challenge, that our algorithm outperforms non-clustering methods in many cases (7 out of 25) with fewer samples, rarely underperforming (1 out of 25), and often selects a non-clustering model if it better describes the data. Source code (GNU Octave) for BAyesian Clustering Over Networks (BACON) and sample data are available at: http://code.google.com/p/bacon-for-genetic-networks.…”
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“…We propose that this may be taught by running the course on GNU/Linux running on inexpensive Raspberry Pi computer hardware, for which students may be granted full administrator access. …”
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“…PhagoSight is openly available as MATLAB® m-files under the GNU General Public License. Synthetic data sets and a comprehensive user manual are available from http://www.phagosight.org.…”
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“…Infernal is freely licensed under the GNU GPLv3 and should be portable to any POSIX-compliant operating system, including Linux and Mac OS/X. …”
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“…Source code and documentation is freely available at http://code.google.com/p/biopax-pattern under Lesser GNU Public License. Contact: patternsearch@cbio.mskcc.org Supplementary information: Supplementary data are available at Bioinformatics online.…”
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“…The code is implemented in Python, relies on open software, and is available under the GNU General Public License. CONCLUSIONS: GraTeLPy can be used by researchers to test large biochemical mechanisms with mass action kinetics for their capacity for multistability, oscillations and Turing instability.…”
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“…Availability and implementation: AliView is released as open-source software under the GNU General Public License, version 3.0 (GPLv3), and is available at GitHub (www.github.com/AliView). …”
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“…The program is tested and validated on GNU/Linux systems. The program facilitates multiple input formats including BAM and imputed beagle genotype probability files. …”
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“…Availability and implementation: HTSeq is released as an open-source software under the GNU General Public Licence and available from http://www-huber.embl.de/HTSeq or from the Python Package Index at https://pypi.python.org/pypi/HTSeq. …”
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“…The OmicABEL software described in this manuscript is available under the GNU GPL v. 3 license as part of the GenABEL project for statistical genomics at http: //www.genabel.org/packages/OmicABEL.…”
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“…Lemon-Tree is available from http://lemon-tree.googlecode.com under the GNU General Public License version 2.0.…”
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“…CoMeta is available at https://github.com/jkawulok/cometa under a free GNU GPL 2 license.…”
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“…The source code is distributed under the terms of GNU General Public License. The program and the source code are available for download at http://www.cmbl.uga.edu/downloads/programs/Tn_seq_Explorer/ and https://github.com/sina-cb/Tn-seqExplorer.…”
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“…CONCLUSIONS: SpeckTackle is released under GNU LGPL to encourage uptake and reuse within the community. …”
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“…Availability and implementation: All the tools and data used in this study, including QSLiMFinder and the SLiMBench benchmarking software, are freely available under a GNU license as part of SLiMSuite, at: http://bioware.soton.ac.uk. …”
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“…Availability and implementation: The code is available under GNU GPL at https://github.com/stamatak/ExaML. Contact: Alexandros.Stamatakis@h-its.org Supplementary information: Supplementary data are available at Bioinformatics online.…”
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“…The source code is distributed under the GNU GPL v3 license and can be obtained from the following GitHub repository: https://github.com/mad-lab/transit…”
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“…The software is distributed under the GNU General Public License (version 3 or later). …”
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“…Availability and implementation: MOCCASIN is available under the terms of the LGPL 2.1 license (http://www.gnu.org/licenses/lgpl-2.1.html). Source code, binaries and test cases can be freely obtained from https://github.com/sbmlteam/moccasin. …”
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“…Sources are freely available under the GNU General Public License from http://github.com/evolbioinf/hotspot/ Contact: haubold@evolbio.mpg.de Supplementary information: Supplementary data are available at Bioinformatics online.…”
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