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CellNOpt · CellNOpt DocumentationCellNOpt software.
http://www.cellnopt.org/
CellNOpt software.
http://www.cellnopt.org/
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CellNOpt · CellNOpt Documentation | cellnopt.org Reviews
https://cellnopt.org
CellNOpt software.
cellnopt.org
CellNOpt software — CellNOpt Developers
http://www.cellnopt.org/developers.html
Return to www.cellnopt.org. List of present and past CellNOpt Developers. Thomas Cokelaer (EBI): . Federica Eduati (EBI/Padova): . Emanuel Goncalves (EBI): . David Henriques (CSIC): . Aidan MacNamara (EBI): . Julio Saez-Rodriguez (EBI): . Camille Terfve (EBI): . Alexandra Vatsiou (EBI): . If you want your name to be added, please edit developers.txt in the cnoweb directory of CellNOpt SVN. Return to www.cellnopt.org.
CellNOpt software — CellNOpt Developer portal
http://www.cellnopt.org/development.html
Return to www.cellnopt.org. For Developers GIT, guidelines, . All packages and implementation are now under github repositories. Please see github. List of past or present CellNOptR developers. A bug report web interface is available: github issues. CNODocs (CNO Documents Center) gather some information for developers and also format that are being used. CNODocs main page. For bug report and new feature requests, please see github website as well. Return to www.cellnopt.org.
CNODocs — CellNOpt Documentation Center (CNODocs) (0.1.6)
http://www.cellnopt.org/doc/cnodocs/index.html
CellNOpt Documentation Center (CNODocs) (0.1.6). CNODocs contains miscellaneous information that could be useful for users and developers of CellNOpt Software. It is not exhaustive. Other sources of information are contained in the Manuals of each of the packages. Please See www.cellnopt.org. Section author: Thomas Cokelaer. 11 Manipulating MIDAS file. 12 Manipulating PKN (prior knowledge network). 13 Boolean logic (one steady state). 14 Boolean logic (two steady state). 41 R code conventions.
CellNOpt software — Downloads
http://www.cellnopt.org/downloads.html
Return to www.cellnopt.org. 1 Latest version of CellNOpt and related software. Note 17 June 2015: New version will not be provided anymore since cellnopt source code is now publicly available on github at. Note for Windows users: to ease the installation of .tar.gz files, you can use the R packages called Rtools. Latest version: CellNOptR 1.11.3 svn4783.tar.gz. Latest version: CNORdt 1.9.1 2bfcf6920c.tar.gz. Latest version: CNORfeeder 1.3.0 svn4261.tar.gz. MATLAB version of CNO. CNO 21 tar ball. CellNOpt...
CellNOpt software — CellNOpt publications
http://www.cellnopt.org/literature.html
Return to www.cellnopt.org. Articles describing CellNOpt and list of publications where CellNOpt was used. Please contact us at if you have used CellNOpt in a paper. Thanks! The following articles describe the methodology behind CellNOpt. Main reference describing CellNOpt, which can be used to cite it:. BMC Systems Biol, 2012, 6. An overview of the different model formalisms available in CellNOpt:. 9 045003, 2012. Reprint. For the core workflow implemented for Boolean modeling:. M K Morris, J. Saez-...
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Thomas Cokelaer Homepage
http://www.thomas-cokelaer.info/software.html
Bioservices is a Python package that provides access to many Bioinformatices Web Services (e.g., UniProt) and a framework to easily implement Web Services wrappers (based on WSDL/SOAP or REST protocols). The source code is available on PyPi. Together with an online documentation. I re-engineered this work using Python so as to get rapidly a more robust code with a full set of documentation and tests. LAL/LALAPPS: Ligo ALgorithms Library.
cellnopt.wrapper 1.0.5 : Python Package Index
https://pypi.python.org/pypi/cellnopt.wrapper
RSS (latest 40 updates). RSS (newest 40 packages). Cellnopt.wrapper 1.0.5. Cellnopt.wrapper-1.0.5.tar.gz. CellNOpt R packages wrapper and utilities. The package cellnopt.wrapper. Provides a wrapper to the CellNOpt R packages using rpy2. It allows to easily access to CellNOptR. For instance, to access all CellNOptR functionalities, type:. From cellnopt.wrapper import *. For a full documentation, see the sphinx documentation in the ./doc directory. Please visit also www.cellnopt.org. Cellnopt.wrapper-1...
BioModels Database (Caltech mirror)
http://biomodels.caltech.edu/path2models
Path2Models is a branch of BioModels Database dedicated to hosting models automatically generated from pathway resources, such as KEGG. Models from this branch are classified in 3 distinct categories:. Whole genome metabolism models. One can also browse those models by organism:. List of all organisms. The following search will only look for models coming from the path2models project:. Help about the search. Will be used to combine them. Double quotes ( ". The colon character ( :. Archives of all models.
BioModels Database (Caltech mirror)
http://quantitative.caltech.edu/path2models
Path2Models is a branch of BioModels Database dedicated to hosting models automatically generated from pathway resources, such as KEGG. Models from this branch are classified in 3 distinct categories:. Whole genome metabolism models. One can also browse those models by organism:. List of all organisms. The following search will only look for models coming from the path2models project:. Help about the search. Will be used to combine them. Double quotes ( ". The colon character ( :. Archives of all models.
bioinformatics.oxfordjournals.org
Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming
http://bioinformatics.oxfordjournals.org/content/29/18/2320.long
View Current Issue (Volume 32 Issue 16 August 15, 2016). Exhaustively characterizing feasible logic models of a signaling network using Answer Set Programming. École Centrale de Nantes, IRCCyN UMR CNRS 6597, 44321, Nantes, France,. CNRS, UMR 6074 IRISA, Campus de Beaulieu, 35042 Rennes, France,. INRIA, Dyliss project, Campus de Beaulieu, 35042 Rennes, France,. Universität Potsdam, Institut für Informatik, D-14482 Potsdam, Germany and. To whom correspondence should be addressed. March 20, 2013. This train...
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CellNOpt · CellNOpt Documentation
Identification of signaling models based on perturbation data and prior knowledge. Currently v1.4.0. CellNOpt is maintained by the saezlab. Style adapted from BlackDoc. CellNOpt is freely available under GPL license in R and Matlab languages. It can be also accessed through a python wrapper, and a Cytoscape plugin called CytoCopter. Provides a graphical user interface. Please use this reference to cite CellNOpt:. Article{terfve2012cellnoptr, title={CellNOptR: a flexible toolkit to train protein signaling...
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