SB.OS / Systems Biology Operational Software

changelog_german

2010-09-02T16:17:34+02:00

0.4.7 in Arbeit 02.09.2010 * arcadia 1.0r2, vmd 1.8.7 hinzugefügt 0.4.6 * systems biology workbench Version 2.8.1, STSE funktioniert wieder aus dem Menü heraus, Kernelupdate. 0.4.5 ist fertig! * Softwarestand siehe 0.4-beta4 oder auch * Nur kleine Bugfixes: z.B. wird bei der Installation das SB.OS-Repo nicht mehr vergessen * Ist hier auf 4 Rechnern im Einsatz; Einschränkung bei nachträglicher “Umwandlung” ist nur das Feh…

contribute

2010-08-14T17:48:24+02:00

This page is way broken - maybe we should be logged in to edit it. tj1X0z ”>gsbatswipqws, [url=]asfexdusubul[/url], [link=]llkjtpqexzdq[/link],

link_collection

2010-05-07T10:18:07+02:00

The collected links will be included as browser bookmarks in future versions of SB.OS. General Systems Biology Graphical Notation (SBGN) Templates (use this to standardize your graphical network models) Wikipedia

logo

2009-06-03T13:39:05+02:00

sb.os.svg

menu1

2009-05-27T11:00:13+02:00

home news download contribute internal

menu2

2010-08-24T14:43:44+02:00

* Software * Included (v 0.4.6) * Pending * Excluded * About SB.OS * Documentation (v 0.4.3) * SB.OS Team * Logo * Changelog (german) * Links * SBML * BioLinux * Klipp group TBP * Link collection * Wiki * Editing Syntax * Statistics

news

2010-08-24T12:50:04+02:00

24.08.2010 added this newspage to the website :-) So it might be easier to follow our work

sbos_team

2009-06-26T12:53:00+02:00

SB.OS is compiled and maintained by Ivo Maintz, Wolfram Liebermeister, Falko Krause, Marvin Schulz, and Jannis Uhlendorf at Edda Klipp's Theoretical Biophysics group, Humboldt University Berlin.

screenshots

2010-03-18T11:32:03+02:00

software_exclude

2009-09-10T11:06:45+02:00

We will not and can not include commercial software. To make it clear we will not include * Matlab, or any Matlab packages (???, uses xppaut) cannot be compiled anymore

software_included

2009-07-08T15:22:28+02:00

* CellDesigner 4.0.1 (including plugin SBMLsqueezer 1.1) * COPASI 4.4.29 * semanticSBML 1.0.8 * Xppaut 5.98 * TiDE * Cytoscape 2.6.2 (including plugin BiNoM) * SBMLeditor * SBML2LaTeX * OpenAlea * libSBML 3.3.2 * BioModels Database * Yeast consensus model version 2.0

software_included0.3.3

2009-07-09T09:54:42+02:00

* CellDesigner 4.0.1 * COPASI 4.4.29 * semanticSBML 1.0.7 * Xppaut 5.98 * TiDE * libSBML 3.3.2 * BioModels Database Convenience Tools * gtk-recordMyDesktop * XML Copy Editor 1.2.0.2 Python * epydoc * NumArray * NumPy * Python 2.5, IPython * PyX * Soappy * SciPy

software_included0.3.4

2009-07-09T09:42:23+02:00

software_included0.3.5

2009-11-13T11:30:04+02:00

* CellDesigner 4.0.1 (including plugin SBMLsqueezer 1.1) * COPASI 4.4.29 * semanticSBML 1.0.8 * Xppaut 5.98 * TiDE * Cytoscape 2.6.2 (including plugin BiNoM) * SBMLeditor * SBML2LaTeX * OpenAlea * libSBML 3.3.2 * R 2.8 * Taverna 2.1 beta 2 * ISA-Tools: ISAcreator ... * SBGN: EPE Edinburgh Pathway Editor SBGN * SBGN: Arcadia

software_included0.4.3

2010-06-22T15:12:33+02:00

* CellDesigner 4.0.1 (including plugin SBMLsqueezer 1.3) * COPASI 4.5.30 * Cytoscape 2.6.3 (including plugin BiNoM) * Edinburgh Pathway Editor 1.3.0 * ISATools 1.1 * libSBML 3.4.1 * modelMage 1.0beta * OpenAlea * SBML2LaTeX 0.9.8 * SBML-PET 2.3.5 * SBMLeditor 1.3.4 * SystemsBiologyWorkbench 2.7.10 * semanticSBML 1.0.11 * STSE * Taverna 2.1 * vanted 1.8 * TiDE 1.2.1 * Xppaut 6.0

software_included0.4.6

2010-08-24T14:50:25+02:00

* BioNetGen 2.1.5 * CellDesigner 4.1beta (including plugin SBMLsqueezer 1.3) * COPASI 4.5.30 with java and python bindings * Cytoscape 2.6.3 (including plugin BiNoM 1) * Edinburgh Pathway Editor 1.3.0 * Ekee 2.0.2 * ISATools 1.2 * JSim 1.6.95 * libSBML 3.4.1 (with java, python, matlab bindings) * modelMage 1.0beta * OpenAlea 0.8 (?) * Protege 4.1-alpha-102 * RuleBuilder 1.51 * SBML2LaTeX 0.9.8 * SBML-PET 2.3.5 * SBMLeditor 1.3.4 * SystemsBiologyWorkbench 2.8.1 *…

software_pending

2010-07-01T15:05:21+02:00

* SBRML lib (.NET based needs Mono) * SBGN: Arcadia (completly untested ) * Javasim () ??? * E-cell System * SBML ODE Solver (Christoph Flamm University of Vienna, Austria www die haben auch iher eigene LiveCD gemacht, Debian based, mit tutorials, emial kontakt aufnehmen) # funktioniert aber nur mit _alten_ Bibliotheken (libsbml u. sundials); trotzdem int…

start

2010-07-01T15:03:53+02:00

[SB.OS logo] SB.OS is a live DVD based on Ubuntu Linux that comes with a comprehensive list of Systems Biology Software. Text and video documentation material, as well as an offline copy of the BioModels.net database, are included. Screenshots You will find a screenshot here.

stats

2009-05-29T11:35:12+02:00

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