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1241“…Furthermore, a brief case study suggests that the weighted average features are powerful for identifying DNA-binding residues and are promising for further study of protein structure-function relationship. The source code and datasets are available upon request.…”
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1242“…A web-based service as well the source code are provided freely at http://srvgen.upct.es/efficiency.html under the GPL v2 license.…”
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1243por Kerrien, Samuel, Aranda, Bruno, Breuza, Lionel, Bridge, Alan, Broackes-Carter, Fiona, Chen, Carol, Duesbury, Margaret, Dumousseau, Marine, Feuermann, Marc, Hinz, Ursula, Jandrasits, Christine, Jimenez, Rafael C., Khadake, Jyoti, Mahadevan, Usha, Masson, Patrick, Pedruzzi, Ivo, Pfeiffenberger, Eric, Porras, Pablo, Raghunath, Arathi, Roechert, Bernd, Orchard, Sandra, Hermjakob, Henning“…IntAct is an active contributor to the IMEx consortium (http://www.imexconsortium.org). IntAct source code and data are freely available at http://www.ebi.ac.uk/intact.…”
Publicado 2012
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1244por Renfro, Daniel P., McIntosh, Brenley K., Venkatraman, Anand, Siegele, Deborah A., Hu, James C.“…GONUTS can be accessed at http://gowiki.tamu.edu. The source code for generating the content of GONUTS is available upon request.…”
Publicado 2012
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1245por Sun, Yin Xue, Huang, Yan Xin, Li, Feng Li, Wang, Hong Yan, Fan, Cong, Bao, Yong Li, Sun, Lu Guo, Ma, Zhi Qiang, Kong, Jun, Li, Yu Xin“…IVSPlat 1.0 is an open framework that allows the integration of extra software to extend its functionality and modified versions can be freely distributed. The open source code and documentation are available at http://kyc.nenu.edu.cn/IVSPlat/.…”
Publicado 2012
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1246“…Binaries are freely available for Linux, Windows, and Mac OS X at http://www.seqan.de/projects/stellar. The source code is freely distributed with the SeqAn C++ library version 1.3 and later at http://www.seqan.de.…”
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1247por González, Santi, Montserrat-Sentís, Bàrbara, Sánchez, Friman, Puiggròs, Montserrat, Blanco, Enrique, Ramirez, Alex, Torrents, David“…ReLA's performance shows specificities of 81 and 50% when tested on experimentally validated proximal regulatory regions and enhancers, respectively. Availability: The source code of ReLA's is freely available and can be remotely used through our web server under http://www.bsc.es/cg/rela. …”
Publicado 2012
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1248por Arends, Danny, van der Velde, K. Joeri, Prins, Pjotr, Broman, Karl W., Möller, Steffen, Jansen, Ritsert C., Swertz, Morris A.“…An online demo system, installation guide, tutorials, software and source code are available under the LGPL3 license from http://www.xqtl.org. …”
Publicado 2012
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1249“…Availability and implementation: Source code is available at: http://bmi.bmt.tue.nl/sysbio/software/pua.html Contact: j.vanlier@tue.nl; N.A.W.v.Riel@tue.nl Supplementary information: Supplementary data are available at Bioinformatics online.…”
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1250“…Availability: http://logic.sysbiol.cam.ac.uk/grip, program and source code Contact: n.r.zabet@gen.cam.ac.uk Supplementary information: Supplementary data are available at Bioinformatics online.…”
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1251SAS-Pro: Simultaneous Residue Assignment and Structure Superposition for Protein Structure Alignment“…For non-sequential alignment problems, SAS-Pro leads to alignments with high degree of similarity with known reference alignments. The source code of SAS-Pro is available for download at http://eudoxus.cheme.cmu.edu/saspro/SAS-Pro.html.…”
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1252“…CONCLUSIONS: Experimental results on RNA-Seq data generated from blood cell tissue of three Hapmap individuals show that our methods yield increased accuracy compared to several widely used methods. The open source code implementing our methods, released under the GNU General Public License, is available at http://dna.engr.uconn.edu/software/NGSTools/.…”
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1253por van Iersel, Martijn P., Villéger, Alice C., Czauderna, Tobias, Boyd, Sarah E., Bergmann, Frank T., Luna, Augustin, Demir, Emek, Sorokin, Anatoly, Dogrusoz, Ugur, Matsuoka, Yukiko, Funahashi, Akira, Aladjem, Mirit I., Mi, Huaiyu, Moodie, Stuart L., Kitano, Hiroaki, Le Novère, Nicolas, Schreiber, Falk“…Availability and implementation: Milestone 2 was released in December 2011. Source code, example files and binaries are freely available under the terms of either the LGPL v2.1+ or Apache v2.0 open source licenses from http://libsbgn.sourceforge.net. …”
Publicado 2012
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1254por Ng, Sam, Collisson, Eric A., Sokolov, Artem, Goldstein, Theodore, Gonzalez-Perez, Abel, Lopez-Bigas, Nuria, Benz, Christopher, Haussler, David, Stuart, Joshua M.“…Application to the Cancer Genome Atlas glioblastoma, ovarian and lung squamous cancer datasets revealed several novel mutations with predicted high impact including several genes mutated at low frequency suggesting the approach will be complementary to current approaches that rely on the prevalence of events to reach statistical significance. Availability: All source code is available at the github repository http:github.org/paradigmshift. …”
Publicado 2012
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1255por Grosse-Kunstleve, Ralf W, Terwilliger, Thomas C, Sauter, Nicholas K, Adams, Paul DEnlace del recurso
Publicado 2012
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1256“…It is written in the Python programming language and was developed as a tool for interfacing with other Python based applications such as the CCPN software suite (for NMR data analysis) and ARIA (for structure calculations from NMR data). ACPYPE is open source code, under GNU GPL v3, and is available as a stand-alone application at http://www.ccpn.ac.uk/acpype and as a web portal application at http://webapps.ccpn.ac.uk/acpype. …”
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1257“…ArtificialFastqGenerator was released in January 2012. Source code, example files and binaries are freely available under the terms of the GNU General Public License v3.0. from https://sourceforge.net/projects/artfastqgen/.…”
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1258“…Online chemical databases that offer a shape-based similarity method might also find advantage in using USRCAT due to its accuracy and performance. The source code is freely available and can easily be modified to fit specific needs.…”
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1259“…Given its accuracy, speed, and simplicity, TreeFix should be applicable to a wide range of analyses and have many important implications for future investigations of gene evolution. The source code and a sample data set are available at http://compbio.mit.edu/treefix.…”
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1260“…Using the parallel version of our open-source code, we successfully identified rogue taxa in a set of 100 trees with 116 334 taxa each. …”
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