Difference between revisions of "BioUML wiki"
From BioUML platform
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| − | Welcome to BioUML wiki! | + | Welcome to BioUML wiki! Now it is the main web site for BioUML platform. |
| − | BioUML is an | + | BioUML - Biological Universal Modelling Language - is an integrated Java platform for biomedical research. It spans a comprehensive range of capabilities, including access to databases with experimental data, tools for formalized description of biological systems structure and functioning, as well as tools for their visualization, simulation, parameters fitting and analyses. Due to scripts (R, JavaScript) and workflow support it provides powerful possibilities for analyses of high-throughput data. The plug-in based architecture (OSGI) allows to add new functionality using plug-ins. |
Currently we have '''[[:Special:Statistics|{{NUMBEROFARTICLES}} articles]]'''. | Currently we have '''[[:Special:Statistics|{{NUMBEROFARTICLES}} articles]]'''. | ||
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* [[BioUML user interface]] | * [[BioUML user interface]] | ||
| + | |||
| + | * [[Databases]] | ||
* Modelling | * Modelling | ||
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** [[Modular modeling]] | ** [[Modular modeling]] | ||
| − | * | + | * Analyses & workflows |
| − | ** [[ | + | ** [[Project]]s |
| − | + | ||
** [[:Category:Analyses|Analyses]] | ** [[:Category:Analyses|Analyses]] | ||
| + | ** [[Workflows]] | ||
| + | ** [[Using Galaxy in BioUML|Galaxy]] | ||
| + | ** [[Using R in BioUML|R]] | ||
| + | ** [[Using JavaScript in BioUML|JavaScript]] | ||
** [[:Category:File formats|File formats]] | ** [[:Category:File formats|File formats]] | ||
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* [[BioUML installation]] | * [[BioUML installation]] | ||
* [[BioUML Development Kit]] | * [[BioUML Development Kit]] | ||
| + | * [[:Category:Plugins|Plugins]] | ||
* [[:Category:Extension points|Extension points]] | * [[:Category:Extension points|Extension points]] | ||
* [[Creating Galaxy tool]] | * [[Creating Galaxy tool]] | ||
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=== Try BioUML web edition === | === Try BioUML web edition === | ||
| − | * http://ie.biouml.org/bioumlweb (free) | + | * Test server (free) http://ie.biouml.org/bioumlweb/ |
| − | + | * Commercial server (free and licensed) http://platform.genexplain.com/bioumlweb/ | |
| − | + | * '''Server for Colon cancer project''' http://ge.mimomics.it/bioumlweb/ | |
| + | (Colon Cancer Public datasets) | ||
| + | (SysCol project) | ||
===Miscellaneous=== | ===Miscellaneous=== | ||
* [[Tests]] | * [[Tests]] | ||
* [[Presentations]] | * [[Presentations]] | ||
| + | * [http://www.biouml.net/vc/agenda.shtml Presentations] (video, slides) | ||
| + | from workshop "From virtual cell to virtual human and virtual patient" | ||
|valign="top" width="33%"| | |valign="top" width="33%"| | ||
== Community == | == Community == | ||
| − | |||
* [http://forum.biouml.org/ Forum] | * [http://forum.biouml.org/ Forum] | ||
* [[BioStore]] | * [[BioStore]] | ||
* [[Contributors]] | * [[Contributors]] | ||
| − | ** [[ | + | ** [[BioUML team]] |
** [[geneXplain]] | ** [[geneXplain]] | ||
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* [//www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ] | * [//www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ] | ||
* [https://toolserver.org/~diberri/cgi-bin/html2wiki/index.cgi HTML-to-wiki converter] | * [https://toolserver.org/~diberri/cgi-bin/html2wiki/index.cgi HTML-to-wiki converter] | ||
| + | |||
| + | === Examples === | ||
| + | * [[Metabolic control analysis]] | ||
| + | * [[Quasi-steady-state approximation]] | ||
| + | * [[Sensitivity analysis]] | ||
| + | * [[Flux balance analysis]] | ||
| + | |||
|} | |} | ||
| + | |||
| + | |||
<p align="center">[[Acknowledgements]]</p> | <p align="center">[[Acknowledgements]]</p> | ||
Revision as of 21:47, 3 April 2017
Welcome to BioUML wiki! Now it is the main web site for BioUML platform.
BioUML - Biological Universal Modelling Language - is an integrated Java platform for biomedical research. It spans a comprehensive range of capabilities, including access to databases with experimental data, tools for formalized description of biological systems structure and functioning, as well as tools for their visualization, simulation, parameters fitting and analyses. Due to scripts (R, JavaScript) and workflow support it provides powerful possibilities for analyses of high-throughput data. The plug-in based architecture (OSGI) allows to add new functionality using plug-ins.
Currently we have 1,022 articles.
For BioUML users
|
For administrators/developers
Try BioUML web edition
(Colon Cancer Public datasets) (SysCol project) Miscellaneous
from workshop "From virtual cell to virtual human and virtual patient" |
Community
Editing this wikiTo edit this wiki you have to register in BioStore. Consult the User's Guide for information on using the wiki software. Examples |
