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Posted to commits@taverna.apache.org by br...@apache.org on 2015/02/03 11:59:28 UTC
svn commit: r1656677 -
/incubator/taverna/site/trunk/content/introduction/taverna-in-use.md
Author: brenninc
Date: Tue Feb 3 10:59:28 2015
New Revision: 1656677
URL: http://svn.apache.org/r1656677
Log:
bioinformatics
Modified:
incubator/taverna/site/trunk/content/introduction/taverna-in-use.md
Modified: incubator/taverna/site/trunk/content/introduction/taverna-in-use.md
URL: http://svn.apache.org/viewvc/incubator/taverna/site/trunk/content/introduction/taverna-in-use.md?rev=1656677&r1=1656676&r2=1656677&view=diff
==============================================================================
--- incubator/taverna/site/trunk/content/introduction/taverna-in-use.md (original)
+++ incubator/taverna/site/trunk/content/introduction/taverna-in-use.md Tue Feb 3 10:59:28 2015
@@ -19,7 +19,7 @@ Notice: Licensed to the Apache Softwa
More than 350 organizations around the world, both academic and commercial, are known to use Taverna.
It is employed in a significant number of differing domains to facilitate novel research or to accelerate,
formalise or share existing research.
-See the [domains][1]</a> where Taverna is in use or has been used.
+See the [domains][1] where Taverna is in use or has been used.
Taverna applications have been implemented or deployed in several domains using a variety of platforms and technologies:<span id="more-91"></span></p>
- Standalone Workbench (used by the majority of projects)
@@ -278,9 +278,10 @@ View by [chronological][7] order of depl
<th class="spec2">Other</th>
<td>-</td>
<td>-</td>
- <td><a href="/introduction/taverna-in-use.html#moteur">MOTEUR</a><br />
- <a href="http://www.mygrid.org.uk/outreach/collaboration/collaboration-with-nbic/" target="_blank">NBIC</a><br />
- <a href="/introduction/taverna-in-use.html#simdat">SIMDAT</a>NGS</td>
+ <td><a href="/introduction/taverna-in-use.html#moteur">MOTEUR</a><br/>
+ <a href="http://www.mygrid.org.uk/outreach/collaboration/collaboration-with-nbic/" target="_blank">NBIC</a><br/>
+ <a href="/introduction/taverna-in-use.html#simdat">SIMDAT</a><br/>
+ NGS</td>
<td>-</td>
<td>-</td>
<td><a href="http://www.omii.ac.uk/wiki/SoftwareOverview" target="_blank">OMII</a><br />
@@ -289,11 +290,437 @@ View by [chronological][7] order of depl
</tbody>
</table>
+<a name="server" </a>
+##As a server##
+
+Taverna has been used as a service and deployed using [Taverna Server][8] by several projects:
+
+ - [BioVel][9] - establishing an international e-Laboratory to enable scientists to work in
+ biodiversity sciences
+ - VPH-DARE@IT - using Taverna in research to fight dementia
+ - [VPH-SHARE][10] - online environment for the development, construction and storage of biomedical workflows
+ - [Shared Genomics][11]</a> - using Taverna Server to run genetic data workflows
+ - [HELIO][12] - using Taverna Server to run heliophysics workflows
+ - [caGrid][13] - submit Taverna workflows using caGrid's analytic and data services for execution to a
+ Remote Workflow Execution Service on caGrid
+ - [NeISS][14] - runnig social science workflows deployed on a Taverna server from a portal
+
+<a name="grid" </a>
+##On a grid##
+Various projects and institutions use mechanisms to run Taverna workflows on a [grid][15]
+ or allow them to access services on a grid:
+
+ - [TavernaPBS][16] â next generation sequencing analysis using a computational cluster that uses a PBS queuing
+ system and Taverna 2 Workbench
+ - [caGrid][17] â the use of Taverna 2 workflows to link together resources provided by the open source grid
+ software infrastructure developed by the US NCI caBIG aimed at enabling multi-institutional cancer data
+ sharing and analysis in the US</li>
+ - Europeâs leading grid computing project [EGEE][18], piloted Taverna over EGEE gLite services
+ - [European Model for Bioinformatics Research And Community Education][19] (EMBRACE)
+ - [Know-how Sharing Technology Based on ARC Services and Open Standards][20] (KnowARC) developed prototype to
+ use Taverna as direct interface to Grid resources running ARC
+ - [MOTEUR][21] - running Taverna 1 workflows on EGEE grid
+ - [Netherlands BioInformatics Centre][22] (NBIC)
+ - [Grids for Industrial Product Development][23] (SIMDAT)
+ - [JSDL plugin for Taverna 1.7.x][24] that allows you to submit services within a workflow to a grid using
+ GridSAM
+ - Taverna and myExperiment on NGS
+
+Learn more about how [Taverna workï¬ows can â©operate â©over a grid infrastructure][25]
+
+<a name="cloud" </a>
+##On a cloud##
+
+Taverna has been used as a service deployed on a cloud by several projects:
+
+ - [TSB grant][26] - to address NHS requirements for accessing and comparing large amounts of information and
+ find common genetic links when testing new treatments (in partnership with Eagle Genomics)
+ - [Next generation sequencing][27] - using Taverna for the genome Single Nucleotide Polymorphism (SNP)
+ analysis on the Amazon cloud
+ - [SCAPE][28]</a> - large scale and computation intense automated digital preservation and quality assurance
+ workflows on a cloud infrastructure
+ - National Biomedical Computation Resource ([NBCR][29])'s [Opal toolkit][30] - a mechanism to wrap up
+ existing scientific applications rapidly as Web services on a cloud
+ - [e-Science Central][31] - allows e-Science Central workflows to be included as services within a Taverna
+ workflow
+ - Cloud-based Taverna workflows for [NMR-based metabolomics data analysis][32]
+ - The [BioVeL][33] project uses the [Taverna Server][34] within the Amazon Cloud by employing
+ a [Taverna Server Amazon Machine Image (AMI)][35]
+ - The [VPH-Share][36] project does rapid deployment of Taverna Server in their Cloud platform to execute
+ workflows for clinical physiology.
+ These workflows then use [further Cloud instances to run applications][37] that are displayed back to users
+ within [the VPH-Share portal][38] the resource and data management are all handled by the workflow inside
+ the Taverna Server instance.
+
+<a name="portal" </a>
+##Behind a portal##
+Various projects and tools use portals to allow users to perform actions that run Taverna workflows
+ âbehind the scenesâ.
+These projects include:
+
+ - [Automatic Functional Annotation in a distributed Web Service Environment][39] (AFAWE) -
+ a tool for the automatic functional annotation of new genes in plants and other organisms making use
+ of Taverna workflows
+ - [Bioinformatics Workflow Enactment Portal][40] (BioWEP) – running pre-selected Taverna workflows
+ from the BioWEP portal
+ - [PLANET (A Network of European Plant Databases)][41]âs BioFloWeb - using Tavenra workfows for the retrieval
+ of information about Arabidopsis genes from several European databases
+ - [ProDom][42] - using Taverna workflowa to perform searches and comparisons on the content of the ProDom
+ database
+ - [MetWare][43] - provides applications, databases and workflows for metabolomics
+ - [NeISS][44] â runnig social simulations workflows deployed on a Taverna 2 Server in a social simulations
+ platform with a portal front-end</li>
+</ul>
+
+<a name="bundled-with-products" </a>
+##Bundled with products##
+Several packages include Taverna as part of their distribution:
+
+ - [BioLinux][45] - a version of Ubuntu Linux that includes distributions of many bioinformatics programs and
+ Taverna
+ - [OMII-UK][46] - included with the OMII-UK's open-source software developed to enable a sustained future for
+ the UK e-Research community
+ - [Systems Biology Operational Software (SB.OS)][47] - Systems Biology Software based on Ubuntu Linux
+ containing the distribution of Taverna
+ - [CalcTav][48] (bundled with OpenCalc) - a plugin to OpenOffice Calc with the aim of allowing calling
+ bioinformatics services as spreadsheet functions
+
+
+<a name="by-domain" </a>
+##By domain##
+Various domains where scientists have used Taverna so far include:
+
+<a name="annotation"></a>
+###Annotations###
+Taverna is used by various tools and projects for the association of metadata with data (annotation).
+These include:
+ - [Automatic Functional Annotation in a distributed Web service Environment][49](AFAWE) -
+ annotation of plant genes with their functionality
+ - [Interactive genome annotation pipeline][50]</a> - automatic and manual annotation of genes
+ - [TaWeka][51] - associating biological data with calculated functionality
+
+In addition, Taverna makes use of the semantic annotation that has been specified for the services provided by
+ the [MOBY consortium][52].
+
+Taverna has also been used for the identification of mismatches and possible annotations in workflows by the
+ [iSPIDER][53] project.
+
+<a name="afawe"></a>
+####AFAWE####
+
+The [Max Planck Institute for Plant Breeding Research][54] in Cologne, Germany have developed the
+ Automatic Functional Annotation in a distributed Web Service Environment ([AFAWE][55]).
+AFAWE is a tool for the automatic functional annotation of new genes in plants and other organisms.
+The annotation involves the running of several Web services, and also the execution of a Taverna [workflow][56].
+
+The annotation workflow is [available][57] on [myExperiment][58].
+
+#####Publications#####
+The [paper][59] *Protein function prediction and annotation in an integrated environment powered by web services
+ (AFAWE)* by Joecker et al describes the concepts and implementation of AFAWE.
+
+<a name="annotation-of-genomes"></a>
+###Annotation of genomes###
+A collaboration between [Tom Oinn][60] from the myGrid team and Anders Lanzen, Svenn Helge Grindhaug and
+ Pal Puntervoll from the [University of Bergen][61], Norway, has produced an interactive genome annotation
+ pipeline.
+
+Sequencing, characterising and annotating a genome are the first steps to understanding its function.
+Important stages in this include gene prediction, comparative genomics and function prediction of genes and
+ gene products.
+With workflows all of these stages can be automate, requiring little human interaction.
+However, manual inspection can be required at certain points in the process.
+
+####Publications####
+[Articles and papers][62] about the success of Taverna for genome annotation are available on-line.
+
+<a name="taweka"></a>
+####TaWeka####
+[Luna De Ferrari][63] from the Computational Systems Biology &
+ [Bioinformatics group at the University of Edinburgh][64] has developed [TaWeka][65],
+
+> a rapid prototyping tool for biological classifiers.
+
+TaWeka uses Taverna workflows to store data retrieved from webservices, e.g. queries of biological data,
+ into a database.
+[Weka][66] is then used to run machine learning experiments on the data in order to evaluate and improve
+ biological classification functions.
+
+#####Publications#####
+A poster [*TaWeka: from biological web services to data mining*][67] by De Ferrara and Goryanin describes the
+ purpose and implementation of TaWeka.
+
+<a name="adoption-by-moby"></a>
+####Adoption by the Moby consortium####
+The [Moby][68] project develops a system for interoperability between biological data hosts and
+ analytical services.
+Their relationship with Taverna is multiple:
+
+ - The Moby team actively collaborate with myGrid in the development of the ontologies used to describe their
+ services.
+ Service descriptions are then used by Taverna to find services to use in workflows.
+ - The services published on Moby are a large proportion of the services often used in Taverna workflows
+ - People wishing to combine Moby services commonly use Taverna Workbench as a platform
+ - Specific support for Moby services is available within Taverna.
+
+#####Publications#####
+The [paper][69] *Interoperability with Moby 1.0âItâs better than sharing your toothbrush!* by the
+ Moby consortium gives an overview of Moby and their activities.
+
+<a name="arts"></a>
+###Arts###
+Taverna has been used for the [composition of music][70] using Web services for synthesis.
+
+<a name="composition-of-music"></a>
+####Composition of music####
+[John Ffitch][71] and others at the University of Bath have developed a service-oriented composition environment
+ for music.
+The environment consists of three main components:
+ - A suite of synthesis Web services that incorporate a selection of the basic atomic components required for
+ sound creation and processing</li>
+ - A tool that gives a description of music in terms of the construction of the instruments
+ (parameters, connections) and the score they will play on>
+ - An âenvironment of useâ that allows the connection and enactment of the synthesis services
+
+Both [Triana][72] and Taverna have been tested as the environment of use.
+#####Publications#####
+This work is described in the [paper][73] *Composition with Sound Web Services and Workflows* by Ffitch et al.
+
+<a name="astronomy"></a>
+###Astronomy###
+Taverna and [myExperiment][74] are being used for astronomy research by several projects:
+
+ - [AstroGrid][75] - plugin to allow AstroGrid utilities within Taverna 1.x
+ - [HELIO][76] - workflows including heliophysical services
+ - [SAMPO][77] - development of a workflow system based upon Taverna
+
+<a name="astrogrid"></a>
+####AstroGrid####
+The UKâs [AstroGrid][78] is a ~£14M (over the period 2001-2009) project aimed at building a data-grid for UK
+ astronomy, which will form the UK contribution to a global VirtualObservatory.</p>
+
+A [Taverna 1.x processor][79] has been written to enable client-site AstroGrid utilities to be included within
+ Taverna workflows.
+
+#####Publications#####
+A book chapter "AstroGrid and the Virtual Observatory", Walton, N. A., Gonzalez-Solareson, E., Springer,
+ Lecture Notes in Physic, vol. 791, pp. 81-113, 2009.
+[http://www.springerlink.com/content/yk36404544k778g8][80]
+
+AstroGrid: Taverna in the Virtual Observatory, Benson, K. M., Walton, N. A., Memorie della Società Astronomica
+ Italiana, vol. 80, p.574, 2009
+[http://adsabs.harvard.edu/abs/2009MmSAI..80..574B][81]
+
+Taverna and Workflows in the Virtual Observatory, Walton, N. A.; Witherwick, D. K.; Oinn, T.; Benson, K. M.,
+ Proceedings of the Astronomical Data Analysis Software and Systems ASP Conference Series, London, UK.
+Edited by Robert W. Argyle, Peter S. Bunclark, and James R. Lewis., p.309, 2008.
+[http://adsabs.harvard.edu/abs/2008ASPC..394..309W][82]
+
+<a name="sampo"></a>
+####SAMPO####
+The SAMPO [project][83] was part of the ongoing Finnish contribution to the [European Southern Observatory][84].
+
+Based upon Taverna, the SAMPO project developed the Recipe Flexible Execution workflow system [ESO Reflex][85].
+ESO Refex allows users to connect together C programs that reduce the raw data produced by ESO instruments.
+
+#####Publications#####
+The [paper][86] *ESO Reflex: A Graphical Workflow Engine for Running Recipes* by Hook et al, describes the
+ ESO Reflex workbench.
+
+<a name="biodiversity"></a>
+###Biodiversity###
+[BioVel][87] - establishing an international e-Laboratory to allow biodiversity scientists to jointly tackle
+ diverse research challenges using Taverna, myExperiment and BioCatalogue
+
+<a name="bioinformatics"></a>
+###Bioinformatics###
+<p>Taverna can connect to a wide variety of bioinformatics resources and has been successfully applied to a number of bioinformatics problems, listed below according to their sub-domains.<span id="more-2073"></span></p>
+<p style="text-align: center;"><img class="aligncenter" title="Bioinformatics services and resources" src="/pages/wp-content/uploads/2011/03/BioinformaticsResources.png" alt="Bioinformatics services and resources" width="676" height="441" /></p>
+<p>Bioinformatics systems/tools using Taverna:</p>
+<ul>
+<li><a href="/introduction/taverna-in-use/bioinformatics/biowep/">BioWEP</a> – bioinformatics workflow enactment portal</li>
+<li><a href="/introduction/taverna-in-use/bioinformatics/biolinux/">BioLinux</a> – Ubuntu Linux distribution that includes Taverna and many other bioinformatics programs</li>
+</ul>
+<h3>Biodiversity</h3>
+<ul>
+<li><a href="/introduction/related-projects/biovel">BioVeL</a></li>
+</ul>
+<h3>Gene and genome expression</h3>
+<ul>
+<li><a href="/introduction/taverna-in-use/genome-and-gene-expression/next-generation-sequencing">Next Generation Sequencing</a> using Taverna 2 Server on Amazon cloud</li>
+<li><a href="/introduction/taverna-in-use/genome-and-gene-expression/tavernapbs/">TavernaPBS</a> – next generation sequencing analysis using a computational cluster that uses a PBS queuing system and Taverna 2 Workbench</li>
+<li><a href="/introduction/taverna-in-use/genome-and-gene-expression/casimir/">Coordination and Sustainability of International Mouse Informatics Resources</a> (CASIMIR) – workflows to associate mouse genome and phenome</li>
+<li><a href="/introduction/taverna-in-use/genome-and-gene-expression/dgemap/">Developmental Gene Expression Map</a> (DGEMap)- analysis of human gene expression during development</li>
+<li><a href="/introduction/taverna-in-use/disease-research/graves-disease/">Graves disease</a> – identification of genes responsible</li>
+<li><a href="/introduction/taverna-in-use/bioinformatics/gene-expression-from-microarray/">Examination of gene expression from MicroArray data using R</a> – statistical analysis of gene expression</li>
+<li><a href="/introduction/taverna-in-use/genome-and-gene-expression/sigenae/">SIGENAE</a> – development of workflows to analyse breeding animal data</li>
+<li><a href="/introduction/taverna-in-use/disease-research/trypanosomiasis/">Trypanosomiasis</a> – identification of genes responsible for sleeping sickness</li>
+<li><a href="/introduction/taverna-in-use/disease-research/williams-beuren-syndrome/">Williams-Beuren syndrome</a> – automation and confirmation of gene characterization</li>
+<li><a href="/introduction/taverna-in-use/biology/planet/">PLANET</a> – integration of plant genome resources</li>
+<li><a href="/introduction/taverna-in-use/annotation/annotation-of-genomes/">Annotation of genomes</a></li>
+<li><a href="/introduction/related-projects/shared-genomics/">Shared Genomics</a></li>
+<li><a href="http://img.cs.man.ac.uk/efungi/" target="_blank">e-Fungi</a> – functional genomics in fungal species</li>
+</ul>
+<h3>Protein and proteomics</h3>
+<ul>
+<li><a href="/introduction/taverna-in-use/bioinformatics/lumc/">Analysis of mass spectrometry data in proteomics</a></li>
+<li><a href="/introduction/taverna-in-use/disease-research/analysis-of-anthrax-bacterium/">Anthrax analysis</a> – identification of proteins secreted by bacteria</li>
+<li><a href="/introduction/taverna-in-use/databases/efamily/">eFamily</a> – integrating data from different databases</li>
+<li><a href="http://www.mygrid.org.uk/mygrid-in-use/adoption-by-embrace/">European Model for Bioinformatics Research And Community Education</a> (EMBRACE) – calling services on a grid; recovering a database</li>
+<li><a href="/introduction/related-projects/ispider/">iSpider</a> – querying multiple data sources</li>
+<li><a href="/introduction/taverna-in-use/protein-and-proteomics/prodom/">ProDom</a> – running of Taverna workflows behind a portal to search a protein database</li>
+</ul>
+<h3>Biology and systems biology</h3>
+<ul>
+<li><a href="/introduction/taverna-in-use/biology/enfin/">ENFIN â Enabling Systems Biology</a> â calling of wrapped tools within workflows</li>
+<li><a href="/introduction/taverna-in-use/biology/manchester-centre-for-integrative-systems-biology/">Manchester Centre for Integrative Systems Biology</a> (MCISB) â modelling metabolomic pathways</li>
+<li><a href="/introduction/taverna-in-use/biology/sb-os/">Systems Biology Operational Software</a> (SB.OS) – a live DVD based on Ubuntu Linux that comes with a comprehensive list of Systems Biology Software (including Taverna)</li>
+<li><span><a href="/introduction/taverna-in-use/biology/tav4sb/">Tav4SB</a> -</span> Taverna workflows for systems biology, in particular for analysis of the kinetic models of biological systems</li>
+<li><a href="/introduction/taverna-in-use/bioinformatics/measuring-enzyme-characteristics-of-yeast/">Measuring of enzyme characteristics of yeast</a></li>
+<li><a href="/introduction/taverna-in-use/annotation/afawe/">Automatic Functional Annotation in a distributed Web Service Environment</a> (AFAWE) â protein prediction and annotation by a tool that calls workflows</li>
+<li><a href="/introduction/taverna-in-use/biology/planet/">PLANET (A Network of European Plant Databases)</a> â calling of workflows from a portal</li>
+</ul>
+<h3>Biomedicine and disease-related research</h3>
+<ul>
+<li><a href="/introduction/taverna-in-use/disease-research/vph-dareit/">Fighting dementia</a> (VP-DARE@IT and VPH-SHARE)</li>
+<li><a href="/introduction/taverna-in-use/disease-research/analysis-of-anthrax-bacterium/">Analysis of the anthrax bacterium</a></li>
+<li><a href="/introduction/taverna-in-use/trypanosomiasis/">Study of resistance into trypanosomiasis</a> (sleeping sickness)</li>
+<li><a href="/introduction/taverna-in-use/disease-research/graves-disease/">Identification of genes linked to Graves disease</a></li>
+<li><a href="/introduction/taverna-in-use/disease-research/williams-beuren-syndrome/">Characterisation of genes associated with Williams-Beuren syndrome</a></li>
+<li><a href="/introduction/related-projects/cagrid/">caGrid</a> – research into predicting limphoma cancer</li>
+<li><a href="/introduction/taverna-in-use/medicine/eu-adr/">EU-ADR</a> – detecting adverse drug reactions through the exploitation of clinical data from electronic healthcare records</li>
+</ul>
+
+
+<a name="chemistry"></a>
+###Chemistry###
+
+<a name="data-and-text-mining"></a>
+###Data and text mining###
+
+<a name="databases"></a>
+###Databases###
+
+<a name="document-analysis"></a>
+###Document and image analysis (digital preservation)###
+
+<a name="education"></a>
+###Education###
+
+<a name="engineering"></a>
+###Engineering###
+
+<a name="geoinformatics"></a>
+###Geoinformatics###
+
+<a name="information-quality"></a>
+###Information quality###
+
+<a name="multimedia"></a>
+###Multimedia###
+
+<a name="natural-language-processing"></a>
+###Natural language processing</a></li>
+
+<a name="service-provision"></a>
+###Service provision###
+
+<a name="service-testing"></a>
+###Service testing###
+
+<a name="social-sciences"></a>
+###Social sciences###
+
+
+==
+
+<a name="chronology"<a/>
+
[1]: #by-domain
- [2]: /introduction/taverna-in-use.html#server
- [3]: /introduction/taverna-in-use.html#grid
- [4]: /introduction/taverna-in-use.html#cloud
- [5]: /introduction/taverna-in-use.html#portal
- [6]: /introduction/taverna-in-use.html#bundled-with-products
- [7]: /introduction/taverna-in-use.html#chronology
\ No newline at end of file
+ [2]: #server
+ [3]: #grid
+ [4]: #cloud
+ [5]: #portal
+ [6]: #bundled-with-products
+ [7]: #chronology
+ [8]: /download/taverna-server
+ [9]: /introduction/related-projects.html#biovel
+ [10]: http://www.vph-share.eu/
+ [11]: /introduction/related-projects/shared-genomics/
+ [12]: /introduction/related-projects/helio/
+ [13]: /introduction/related-projects/cagrid/
+ [14]: /introduction/related-projects/neiss/
+ [15]: http://en.wikipedia.org/wiki/Grid_computing
+ [16]: #tavernapbs
+ [17]: #cagrid
+ [18]: http://webcache.googleusercontent.com/search?q=cache:SO2-xLmcod4J:www.eu-egee.org/+&cd=1&hl=en&ct=clnk&gl=uk
+ [19]: #embrace
+ [20]: knowarc
+ [21]: #moteur
+ [22]: http://www.mygrid.org.uk/outreach/collaboration/collaboration-with-nbic/
+ [23]: #simdat
+ [24]: http://www.mygrid.org.uk/dev/wiki/display/plugins/Submitting+HPC+jobs+from+Taverna+using+GridSAM
+ [25]: http://dev.mygrid.org.uk/wiki/display/taverna/Taverna%2C+Grids+and+Clouds
+ [26]: /introduction/related-projects.html#tsb
+ [27]: #next-generation-sequencing
+ [28]: /introduction/related-projects.html#scape
+ [29]: http://www.nbcr.net/
+ [30]: /documentation/taverna-plugins.html#opal
+ [31]: /documentation/taverna-plugins.html#esc
+ [32]: http://knoesis.wright.edu/library/resource.php?id=835
+ [33]: /introduction/related-projects.html#biovel
+ [34]: https://wiki.biovel.eu/display/doc/Taverna+Server
+ [35]: https://wiki.biovel.eu/display/doc/Taverna+Server+AMI
+ [36]: http://www.vph-share.eu
+ [37]: https://vph.cyfronet.pl/tutorial/doku.php?id=as_instantiation
+ [38]: https://portal.vph-share.eu
+ [39]: #afawe
+ [40]: #biowep
+ [41]: #planet
+ [42]: #prodom
+ [43]: #metware
+ [44]: #neiss
+ [45]: #biolinux
+ [46]: http://www.omii.ac.uk/wiki/SoftwareOverview
+ [47]: #sb-os
+ [48]: http://code.google.com/p/calctav/
+ [49]: #afawe
+ [50]: #annotation-of-genomes
+ [51]: #taweka
+ [52]: #adoption-by-moby
+ [53]: /introduction/related-projects.html#ispider
+ [54]: http://www.mpiz-koeln.mpg.de/2169/en
+ [55]: http://bioinfo.mpiz-koeln.mpg.de/afawe/
+ [56]: http://bioinfo.mpiz-koeln.mpg.de/afawe/help/Tools.html#SIFTER
+ [57]: http://www.myexperiment.org/workflows/95
+ [58]: http://www.myexperiment.org/
+ [59]: http://dx.doi.org/10.1093/bioinformatics/btn394
+ [60]: http://www.mygrid.org.uk/about-us/people/previous-members/thomas-oinn/
+ [61]: http://www.uib.no/en
+ [62]: http://www.mygrid.org.uk/bibsearch-results/?bibliography_subject=genome-annotation
+ [63]: http://homepages.inf.ed.ac.uk/ldeferra/
+ [64]: http://www.bioinformatics.ed.ac.uk/
+ [65]: http://mook.inf.ed.ac.uk/twiki/bin/view.cgi/PublicCSB/TaWeka
+ [66]: http://www.cs.waikato.ac.nz/ml/weka/
+ [67]: http://mook.inf.ed.ac.uk/twiki/pub/PublicCSB/TaWekaPosters/colourA4_16.pdf
+ [68]: http://biomoby.open-bio.org/
+ [69]: http://dx.doi.org/10.1093/bib/bbn003
+ [70]: #composition-of-music
+ [71]: http://en.wikipedia.org/wiki/John_ffitch
+ [72]: http://www.trianacode.org/
+ [73]: http://opus.bath.ac.uk/5290/
+ [74]: http://www.myexperiment.org
+ [75]: #astrogrid
+ [76]: /introduction/related-projects.html#helio
+ [77]: #sampo
+ [78]: http://www.astrogrid.org/
+ [79]: http://wiki.astrogrid.org/bin/view/Astrogrid/VoWorkflowsWithTaverna
+ [80]: http://www.springerlink.com/content/yk36404544k778g8
+ [81]: http://adsabs.harvard.edu/abs/2009MmSAI..80..574B
+ [82]: http://adsabs.harvard.edu/abs/2008ASPC..394..309W
+ [83]: http://www.eso.org/sci/data-processing/software/sampo/
+ [84]: http://www.eso.org/
+ [85]: http://www.eso.org/sci/data-processing/software/sampo/reflex/
+ [86]: http://www.springerlink.com/content/p67480k2w7311315/
+ [87]: /introduction/related-projects.html#biovel
\ No newline at end of file