Workflows

VOTables from NED Web Services (1)

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Extraction of a sample of VOTables from all the NED Web Services present in paper 2007ASPC..382..165M Web-based Tools - NED VO Services (Mazzarella, J. M.; NED Team). The National Virtual Observatory: Tools and Techniques for Astronomical Research. ASP Conference Series, Vol. 382. Edited by M.J. Graham, M.J. Fitzpatrick, and T.A. McGlynn. San Francisco: Astronomical Society of the Pacific, 2007., p.165

Created: 2012-06-28 | Last updated: 2013-04-12

Credits: Jose Enrique Ruiz

Simple executable plan example (1)

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A simple executable plan containing a migration action component and a QA component. The migration action uses imagemagick convert. The QA component consists of two characterisation components (fits) and another QA components (imagemagick compare).

Created: 2012-06-29

Credits: Markus Plangg

Astronomical object name to equatorial coo... (1)

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 Resolve equatorial coordinates of a list of objects (names) with AstroTaverna plugin

Created: 2012-06-30 | Last updated: 2012-07-01

Credits: Jose Enrique Ruiz

VOTable of NED Images from a List of Objects (1)

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Extraction of metadata using NED Image Virtual Observatory Service into a single VOTable, providing a list of objects and the width for each field in arcmin. Among the most relevant metadata are the URL link to the FITS images. This Wf makes use of a Tool developed as an internal pyhton script file.

Created: 2012-07-01 | Last updated: 2012-07-01

Credits: Jose Enrique Ruiz

Attributions: Astronomical object name to equatorial coordinates Resolver

Get all applications available on the HPS (1)

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This workflow requests all available applications on the HPS which do not require authentication to run. No inputs. Outputs contain all information to execute the application on the HPS such as the ID of the application and the names of all parameters.

Created: 2012-07-03

Credits: Anja Le Blanc

Task Data Pattern (BeanShell) (1)

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This is a sample implementation of "Task Data" pattern intoduced workflowPatterns.com It defines a variable inside a Beanshell and uses the passed value through the processors input. Details: http://www.workflowpatterns.com/patterns/data/visibility/wdp1.php

Created: 2012-07-06

Get Concept IDs (5)

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Purpose: The workflow retrieves the concepts within a concept set. The Web service/workflow currently returns no values (bug).

Created: 2012-07-06 | Last updated: 2014-07-14

Credits: Kristina Hettne Reinout van Schouwen Martijn Schuemie Marco Roos BioSemantics

Get concept information (5)

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The workflow takes a (list of) concept ID(s) as input and returns the profile, ID, definition and name of the concept.

Created: 2012-07-06 | Last updated: 2014-07-14

Credits: Kristina Hettne Reinout van Schouwen Marco Roos Martijn Schuemie BioSemantics

List Concept Sets (3)

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Pupose: The workflow returns a list of all Concept Set IDs currently available in the database. The Concept Sets have an hierarchical structure that can be inferred by referring to the parent Concept Set ID.

Created: 2012-07-06 | Last updated: 2014-07-14

Credits: Kristina Hettne Marco Roos Reinout van Schouwen Martijn Schuemie BioSemantics

Gene to Pathways (1)

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This is a Taverna workflow that given a gene ID fetches the corespondondings pathways. To do so, the workflow make use of two KEGG web services.

Created: 2012-07-09 | Last updated: 2012-07-10

Credits: Khalid Belhajjame

Find co-occurring documents (6)

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Purpose: This workflow search an indexed literature database for documents mentioning both of the input concepts. Author comments: Currently, PubMed is the underlying data source.

Created: 2012-07-13 | Last updated: 2014-07-14

Credits: Kristina Hettne Reinout van Schouwen Marco Roos Martijn Schuemie BioSemantics

Example of how to use Sesame service and V... (1)

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This workflow needs as input a list of names of galaxies. Then it queries Sesame services to get the coordinates of this galaxies, and finally with this coordinates queries a Virtual Observatory Services (a cone service).

Created: 2012-07-14

Example of Execute_SQL_Query with parameters (1)

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This workflow connects to a mysql on localhost, queries the "world" database which is one of the test databases on MySQL 5.5, queries it about which countries have Dutch as a language, and emits answers in both Lists and in xml. This workflow is intended as an example to help you see the syntax for the various inputs to this local service beanshell. see: http://www.mygrid.org.uk/dev/wiki/display/taverna/Execute+SQL+Query for instructions on jars, dependencies etc. The jar used he...

Created: 2012-03-16 | Last updated: 2012-03-16

Credits: Helen Hulme

Available instruments through DPAS which a... (1)

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This workflow uses a DPAS servlet to obtain all available intrument keys in the DPAS (Data Provider Access Service) and formats the return as VOTable.

Created: 2012-03-16 | Last updated: 2012-03-16

Credits: Anja Le Blanc

Attributions: Available instruments through DPAS Split VOTable into its values

(Updated)Retrieve sequence in EMBL format. (1)

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This workflow retrieves a sequence associated with its features in embl format.

Created: 2012-03-19 | Last updated: 2012-04-02

Credits: Ankit upadhyay

DemoWorkflow (1)

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 Demo Workflow

Created: 2012-03-22 | Last updated: 2012-03-22

Credits: Jribault

Get Pathway-Genes and gene description by ... (2)

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Given a specific entrez gene id, returns the pathways that this gene participates in and for each of those pathways which genes (including their description) are associated with.

Created: 2012-03-27 | Last updated: 2012-04-03

Credits: Eleni

BiomartAndEMBOSSMouseRat (1)

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This workflow retrieves all genes on human chromosome 22 that are associated with a disease and aligns the upstream regions of the mouse and rat homologues. The alignments are plotted and corresponding sequence ids are also returned.

Created: 2012-04-05

Credits: Katy Wolstencroft

BiomartAndEMBOSSMouseRat (1)

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This workflow retrieves all genes on human chromosome 22 that are associated with a disease and aligns the upstream regions of the mouse and rat homologues. The alignments are plotted and corresponding sequence ids are also returned.

Created: 2012-04-05

Credits: Alan Williams

BioMoby tutorial workflow (1)

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A workflow from part of the BioMoby tutorial

Created: 2012-04-05 | Last updated: 2012-04-05

Credits: Alan Williams