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getInchIfromMassBankPeaklist_ChemSpider_wo... (2)

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uses InChI's retrieved from a MassBank peaklist query to get compound information about those compounds via querying ChemSpider for information and displaying those results with image

Created: 2008-06-05 | Last updated: 2008-06-16

Credits: Michael Gerlich

EBI_TCoffee (1)

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Perform a multiple sequence alignment using T-Coffee (see http://www.tcoffee.org/). The EBI's WSTCoffee web service (see http://www.ebi.ac.uk/Tools/webservices/services/tcoffee) is used. Note: the WSTCoffee service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement T-COFFEE services (REST or SOAP) should be used instead.  

Created: 2008-06-03 | Last updated: 2010-12-06

Credits: Hamish McWilliam

EBI_MUSCLE (1)

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Perform a multiple sequence alignment using the MUSCLE tool (see http://www.drive5.com/muscle/). The EBI's WSMuscle web service (see http://www.ebi.ac.uk/Tools/webservices/services/muscle) is used. Note: the WSMuscle service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement MUSCLE services (REST or SOAP) should be used instead.  

Created: 2008-06-03 | Last updated: 2010-12-06

Credits: Hamish McWilliam

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Taverna tutorial

Created: 2008-03-03 11:05:24 | Last updated: 2008-03-03 11:20:45

Credits: Franck Tanoh Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint presentation

Comments: 4 | Viewed: 495 times | Downloaded: 682 times

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Smiles Search of ChemSpider

Created: 2008-02-27 16:21:30 | Last updated: 2012-01-12 21:12:15

Credits: Paul Dobson

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: XML

Comments: 0 | Viewed: 533 times | Downloaded: 242 times

GeneIlluminator_GetGraph (2)

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Example workflow demonstrating how to use GeneIlluminator_GetGraph, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service uses GeneIlluminator to create clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. GeneIlluminator provides also aliases associated to the input gene symbol. Finally, a graphical overview of the clusters and gene symbols is created in SVG format and returned to ...

Created: 2008-02-27 | Last updated: 2008-03-03

Credits: Pieter Neerincx Alako

GeneIlluminator_GetClusters (2)

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Example workflow demonstrating how to use GeneIlluminator_GetClusters, a synchronous BioMOBY service for gene symbol disambiguation. If a gene symbol is ambiguous this service provides GI_Clusters describing which different genes, sharing the same symbol, exist in different parts of the tree of life. Provides also gene symbol aliases associated to the input gene symbol. (Use GeneIlluminator_GetGraph for a graphical representation of the clusters or GeneIlluminator_Disambiguate to get the mos...

Created: 2008-02-27 | Last updated: 2008-03-03

Credits: Pieter Neerincx Alako

Get cities by country name (1)

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Get all the cities supported by the 'Get Weather info' workflow.... just enter your country name as input.

Created: 2008-02-15

Credits: Franck Tanoh

Get weather information (1)

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Get the weather forcast of the day for you city. Info display: wind, visibility, temperature, sky conditions and pressure. The default value is my home town. To find out any supported city run the 'Get cities by country name' workflow

Created: 2008-02-15 | Last updated: 2008-02-15

Credits: Franck Tanoh

Demo_DiseaseDiscovery_byHumanUniprot_scaffold (1)

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This workflow finds disease relevant to the query string via the following steps: A user query: a list of terms or boolean query - look at the Apache Lucene project for all details. E.g.: (EZH2 OR "Enhancer of Zeste" +(mutation chromatin) -clinical); consider adding 'ProteinSynonymsToQuery' in front of the input if your query is a protein. Retrieve documents: finds 'maximumNumberOfHits' relevant documents (abstract+title) based on query (the AIDA service inside is based on Apache's Lucene)...

Created: 2007-12-10

Credits: Marco Roos AID

Retrieve_documents_MR1 (1)

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This workflow applies the search web service from the AIDA toolbox. Comments: This search service is based on lucene defaults; it may be necessary to optimize the querystring to adopt the behaviour to what is most relevant in a particular domain (e.g. for medline prioritizing based on publication date is useful). Lucene favours shorter sentences, which may be bad for subsequent information extraction.

Created: 2007-12-10

Credits: Marco Roos Edgar AID

Lucene_bioquery_optimizer_MR1 (1)

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This workflow does four things: it retrieves documents relevant for the query string it discovers entities in those documents, these are considered relevant entities it filters proteins from those entities (on the tag protein_molecule) it removes all terms from the list produced by 3 (query terms temporarily considered proteins) ToDo Replace step 4 by the following procedure: 1. remove the query terms from the output of NER (probably by a regexp matching on what is inside the tag, ...

Created: 2007-12-10

Credits: Marco Roos AID

TestIteratorStrategy_withNesting (1)

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Implementation of the iteration workaround by Tom Oin conform the Q&A below. The nested workflow 'NestedProcessor' is called that to conform to Tom's explanation. For an alternative solution using a java beanshell to clone list items see 'TestIteratorStrategy_withCloning. This workflow implements the following Q&A: Marco Roos wrote: > Dear Taverna user, > > Issue 1: Complex iteration > > I would like to perform an iteration including a dot product between > a list and a list of li...

Created: 2007-11-29

Credits: Marco Roos Tomoinn

TestIterator (1)

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Workflow to experiment with list iteration strategies. Look at metadata of nested workflow 'Concatenate' to see the current iteration strategy.

Created: 2007-11-28

Credits: Marco Roos

ChEBI-get_synonyms (2)

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This workflow takes a list of entity names separated by a newline and queries the ChEBI database for synonyms. Thanks to Paul Fisher for resolving the problems with the XML Splitter by using an XPath statement to retrieve synonyms.

Created: 2007-11-19 | Last updated: 2007-11-19

Credits: Sirisha Gollapudi

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Viking boat

Created: 2007-11-07 11:46:06 | Last updated: 2008-02-06 12:02:05

Credits: Don Cruickshank

License: Creative Commons Attribution-No Derivative Works 3.0 Unported License

File type: Progressive JPEG image

Comments: 0 | Viewed: 261 times | Downloaded: 1 time

Picture of me (2)

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If you enter http://www.cs.man.ac.uk/~goderisa as input I smile back at you as output.

Created: 2007-10-03

TreeVisualizationItol (11)

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robust interaction

Created: 2013-12-11 | Last updated: 2014-11-27

SelectingEvolutionaryModelWithPartFinder (19)

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BioVeL – Biodiversity Virtual e-Laboratory Workflow Documentation Name:Perform Short Bayesian Phylogenetic Inference Capacities Programme of Framework 7: EC e-Infrastructure Programme – e-Science Environments - INFRA-2011-1.2.1 Grant Agreement No: 283359 Project Co-ordinator: Mr Alex Hardisty Project Homepage: [http://www.biovel.eu][1] [1]: http://www.biovel.eu ## 1 Description The Pack contain 3 workflows that perform and validate bayesian phylogenetic i...

Created: 2013-12-11 | Last updated: 2014-12-01