Difference between revisions of "BioUML wiki"
From BioUML platform
Tagir Valeev (Talk | contribs) |
|||
| (71 intermediate revisions by 7 users not shown) | |||
| Line 1: | Line 1: | ||
__NOTOC__ | __NOTOC__ | ||
| − | + | 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 '''[[:Special:Statistics|{{NUMBEROFARTICLES}} articles]]'''. | ||
{|width="100%" | {|width="100%" | ||
|- | |- | ||
|valign="top" width="33%"| | |valign="top" width="33%"| | ||
| + | |||
== For BioUML users == | == For BioUML users == | ||
| − | * [[BioUML]] | + | * [[BioUML|BioUML overview]] |
** [[BioUML workbench]] | ** [[BioUML workbench]] | ||
** [[BioUML web edition]] | ** [[BioUML web edition]] | ||
| − | * [[ | + | * [[Features|Main features]] |
| − | * [[:Category:Analyses|Analyses]] | + | * [[Download]] |
| − | * [[ | + | |
| − | * [[ | + | * [[BioUML user interface]] |
| − | * [[ | + | |
| + | * [[Databases]] | ||
| + | |||
| + | * Modelling | ||
| + | ** [[Simulation]] | ||
| + | ** [[Modular modeling]] | ||
| + | |||
| + | * Analyses & workflows | ||
| + | ** [[Project]]s | ||
| + | ** [[:Category:Analyses|Analyses]] | ||
| + | ** [[Workflows]] | ||
| + | ** [[Using Galaxy in BioUML|Galaxy]] | ||
| + | ** [[Using R in BioUML|R]] | ||
| + | ** [[Using JavaScript in BioUML|JavaScript]] | ||
| + | ** [[:Category:File formats|File formats]] | ||
|valign="top" width="33%"| | |valign="top" width="33%"| | ||
| + | |||
== For administrators/developers == | == For administrators/developers == | ||
* [[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]] | ||
| + | * [[BioUML_development_roadmap|Roadmap]] | ||
| + | * [[BioUML_development_history|History]] | ||
| + | |||
| + | |||
| + | === Try BioUML web edition === | ||
| + | * Main web server (free) http://ict.biouml.org | ||
| + | * Commercial server (free and licensed) http://platform.genexplain.com/bioumlweb/ | ||
| + | |||
| + | ===Miscellaneous=== | ||
| + | * [[Tests]] | ||
| + | * [[Presentations]] | ||
| + | * [http://www.biouml.org/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%"| | ||
| − | == Editing this wiki == | + | == Community == |
| + | * [http://forum.biouml.org/ Forum] | ||
| + | * [[BioStore]] | ||
| + | * [[Contributors]] | ||
| + | ** [[BioUML team]] | ||
| + | ** [[geneXplain]] | ||
| + | |||
| + | |||
| + | === Editing this wiki === | ||
To edit this wiki you have to register in [https://bio-store.org/ BioStore]. | To edit this wiki you have to register in [https://bio-store.org/ BioStore]. | ||
| Line 31: | Line 72: | ||
* [//www.mediawiki.org/wiki/Manual:Configuration_settings Configuration settings list] | * [//www.mediawiki.org/wiki/Manual:Configuration_settings Configuration settings list] | ||
* [//www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ] | * [//www.mediawiki.org/wiki/Manual:FAQ MediaWiki FAQ] | ||
| − | * [https:// | + | * [https://toolserver.org/~diberri/cgi-bin/html2wiki/index.cgi HTML-to-wiki converter] |
| + | |||
| + | === Examples === | ||
| + | * [[DAE Models examples]] | ||
| + | * [[Optimization examples]] | ||
| + | * [[Population models examples]] | ||
| + | * [[SBGN examples]] | ||
| + | * [[SedML examples]] | ||
|} | |} | ||
| + | |||
| + | |||
| + | |||
| + | <p align="center">[[Acknowledgements]]</p> | ||
Latest revision as of 17:25, 5 August 2020
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.
[edit] For BioUML users
|
[edit] For administrators/developers
[edit] Try BioUML web edition
[edit] Miscellaneous
from workshop "From virtual cell to virtual human and virtual patient" |
[edit] Community
[edit] Editing this wikiTo edit this wiki you have to register in BioStore. Consult the User's Guide for information on using the wiki software. [edit] Examples |
