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Licence: by-sa Group: Wf4Ever

Pack AstroTaverna Starter Pack


Created: 2013-04-12 16:10:31 | Last updated: 2013-11-27 16:54:39

This is a set of small snippets using AstroTaverna plugin, developed in the Wf4Ever project. The purpose of this pack is to make the design and development of astronomy Virtual Observatory workflows easier, learning by the example.AstroTaverna may be installed on Taverna 2.4 Workbenchhttp://wf4ever.github.io/astrotaverna/

29 items in this pack

Comments: 1 | Viewed: 127 times | Downloaded: 11 times

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Workflow 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: User Kristina Hettne User Reinout van Schouwen User Marco Roos User Martijn Schuemie Network-member BioSemantics

Workflow SNPs to Concept Set through Concept Profil... (6)

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Purpose: Currently, this workflow takes one SNP and a concept set as input, calculates the matching score between these, finds co-occuring documents between the query concept and the match concept, finds the concept that contributes the most to the match, and the documents that support this finding. Author comments: The workflow is in Beta stage. It runs, but needs more testing with different parameter settings. This workflow can be used together with other workflows in this pack: http://www...

Created: 2012-06-26 | Last updated: 2013-02-05

Credits: User Kristina Hettne User Eleni User Harish Dharuri User Reinout van Schouwen User Marco Roos User Martijn Schuemie Network-member BioSemantics

Attributions: Workflow Find Supporting Documents Workflow SNP_ID2EntrezGene_ID Workflow DatabaseID to ConceptID Workflow Match gene lists based on information in literature Workflow Match concept profiles Workflow Explain concept scores

Workflow Find Supporting Documents (6)

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This workflow finds documents that serve as evidence for the association between two concepts. Results: Document titles Document identifiers There seems to be a bug at the moment, since it returns empty values.

Created: 2012-06-26 | Last updated: 2014-07-14

Credits: User Kristina Hettne User Marco Roos User Reinout van Schouwen User Martijn Schuemie Network-member BioSemantics

Workflow CSV to VOTable importer (2)

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This module provides a VOTable representation of the CSV file being pointed by the csv_file_path, either as a POSIX local file path, or a URL.

Created: 2013-07-29 | Last updated: 2013-07-29

Credits: User Juandesant Network-member AMIGA Network-member Wf4Ever

Workflow Annotate a gene list with disease concepts (1)

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Purpose: Currently, this workflow takes a list of genes and a concept set as input, calculates the matching score between these and finds the concept that contributes the most to the match. Author comments: The workflow is in Beta stage. It runs, but needs more testing with different parameter settings. This workflow can be used together with other workflows in this pack: http://www.myexperiment.org/packs/368 for functional gene annotation and knowledge discovery.

Created: 2013-02-06

Credits: User Kristina Hettne User Reinout van Schouwen User Marco Roos Network-member BioSemantics

Attributions: Workflow SNPs to Concept Set through Concept Profile Matching v2

Workflow Mining the Kegg pathway database with the ... (1)

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Genome-Wide Association studies (GWAS) with metabolomic phenotypes yield several statistically significant SNP-metabolite associations. To understand the biological basis of the association, scientists typically dwell on identifying genes in the vicinity of the SNP and the possible pathways that the gene participates in. The information needed to arrive at an understanding of the mechanistic basis of the association requires integration of disparate data sources. The purpose of this workflow ...

Created: 2013-01-30

Credits: User Marco Roos

Blob Calculation of Luminosity Profiles for a Sample of G...

Created: 2013-01-05 16:57:08

Credits: User Jose Enrique Ruiz

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This document describes the "Luminosity Profiles" Research Object

File type: Adobe PDF

Comments: 0 | Viewed: 25 times | Downloaded: 90 times

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Blob Extraction of Properties from a Sample of Galaxies

Created: 2013-01-05 16:54:48 | Last updated: 2013-01-05 16:57:46

Credits: User Jose Enrique Ruiz

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This document describes the "Galaxies Sample Selection" Research Object

File type: Adobe PDF

Comments: 0 | Viewed: 23 times | Downloaded: 15 times

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Blob D5.3v2 Calculation of Luminosity Profiles for a Samp...

Created: 2013-01-05 16:45:48 | Last updated: 2013-01-05 16:48:45

Credits: User Jose Enrique Ruiz

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This document describes the development of the second Golden Exemplar proposed in Work Package 5: Workflow Astronomy Preservation, and provides discussion about user-driven issues risen in this process and related with general objectives of the Wf4Ever project. The document pertains to the assembly of two Research Objects (RO) packing the digital experiment undertaken for the extraction of a sample of galaxies based on environmental criteria and the calculation of luminosi...

File type: Adobe PDF

Comments: 0 | Viewed: 43 times | Downloaded: 209 times

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