Group: Taverna 1.7.1 workflow workbench examples

The workflows visible from this group correspond to the examples from the Taverna 1.7.1 workflow workbench

Created at: Wednesday 05 March 2008 @ 13:45:09 (GMT)

Unique name: tavernaExamples


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Workflow

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Workflow Example of a conditional execution workflow (v1)

Created: 05/03/08 @ 13:55:45 | Last updated: 23/05/12 @ 11:18:50

Credits: User Tomoinn

License: Creative Commons Attribution 3.0 Unported License

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If the input is true then the string 'foo' is emited, if false then 'bar'. Just a simple example to show how the monster works, so to speak. Note that this type of workflow is not suitable for Taverna 2. An alternative mechanism is recommended.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 1 | Citations: 0

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Workflow

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Workflow BiomartAndEMBOSSAnalysis (v4)

Created: 15/09/09 @ 15:11:11

License: Creative Commons Attribution 3.0 Unported License

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Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned.

Rating: 0.0 / 5 (0 ratings) | Versions: 4 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 1157 times | Downloaded: 391 times

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Workflow

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Workflow A workflow version of the EMBOSS tutorial (v1)

Created: 05/03/08 @ 14:05:20 | Last updated: 25/03/08 @ 14:43:35

Credits: User Tomoinn

License: Creative Commons Attribution 3.0 Unported License

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Designed to show the use of EMBOSS based Soaplab services from Taverna, this workflow has no inputs as all initial values are specified as string constants. A sequence set is fetched using the seqret tool, then simultaneously scanned for predicted transmembrane regions and subjected to a multiple alignment using emma. This alignment is then plotted to a set of PNG images and also used to build a profile using the prophecy and prophet tools.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 393 times | Downloaded: 136 times

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Workflow

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Workflow Fetch today's xkcd comic (v1)

Created: 05/03/08 @ 14:08:52 | Last updated: 07/04/08 @ 13:54:04

Credits: User Tomoinn User Stian Soiland-Reyes

Attributions:

License: Creative Commons Attribution 3.0 Unported License

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Use the local java plugins and some filtering operations to fetch the comic strip image from http://xkcd.com/ Based on the FetchDailyDilbert workflow.

Rating: 4.5 / 5 (2 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 488 times | Downloaded: 179 times

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Workflow

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Workflow Fetch Dragon images from BioMoby (v3)

Created: 05/03/08 @ 14:09:35 | Last updated: 14/07/10 @ 16:46:37

Credits: User Tomoinn

License: Creative Commons Attribution 3.0 Unported License

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Fetch images and annotations of snapdragons

Rating: 0.0 / 5 (0 ratings) | Versions: 3 | Reviews: 0 | Comments: 0 | Citations: 0

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Workflow

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Workflow Demonstration of configurable iteration (v1)

Created: 05/03/08 @ 14:10:51 | Last updated: 25/03/08 @ 14:40:27

Credits: User Tomoinn

License: Creative Commons Attribution 3.0 Unported License

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This workflow shows the use of the iteration strategy editor to ensure that only relevant combinations of inputs are used during an implicit iteration.

Rating: 4.0 / 5 (1 rating) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 276 times | Downloaded: 153 times

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Workflow

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Workflow Retrieve sequence in EMBL format (v3)

Created: 17/06/09 @ 16:51:32

Credits: User Franck Tanoh User Tomoinn User Stuart Owen

License: Creative Commons Attribution 3.0 Unported License

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

Rating: 0.0 / 5 (0 ratings) | Versions: 3 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 307 times | Downloaded: 100 times

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Workflow

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Workflow Fetch PDB flatfile from RCSB server (v1)

Created: 05/03/08 @ 14:13:24 | Last updated: 31/03/08 @ 16:01:41

Credits: User Tomoinn

License: Creative Commons Attribution 3.0 Unported License

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Given an identifier such as '1crn' fetches the PDB format flatfile and returns the corresponding 3D image of the protein.

Rating: 3.0 / 5 (1 rating) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 288 times | Downloaded: 109 times

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Workflow

Original Uploader

Workflow GBSeq test (v2)

Created: 05/03/08 @ 14:15:35 | Last updated: 31/03/08 @ 15:55:09

Credits: User Franck Tanoh

License: Creative Commons Attribution 3.0 Unported License

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This workflow retrieves nucleotide and protein sequences with the literature and references associated to them given a protein and a nucleotide id.

Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 241 times | Downloaded: 90 times

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Pack

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Pack Taverna 1.7 starter pack

Created: 17/07/08 @ 21:06:12 | Last updated: 05/03/12 @ 11:32:10

Everything to get started with Taverna 1.7 - latest version is 1.7.2

16 items in this pack

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File

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Blob Example Genbank data

Created: 25/09/08 @ 15:00:28

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example file containing GenBank data so that it can be used for example Taverna workflows

File type: Plain text

Rating: 0.0 / 5 (0 ratings) | Comments: 0 | Viewed: 31 times | Downloaded: 36 times

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Blob Example SwissProt Data

Created: 25/09/08 @ 15:09:03

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Example SwissProt data to be used for Taverna examples.

File type: Plain text

Rating: 0.0 / 5 (0 ratings) | Comments: 0 | Viewed: 24 times | Downloaded: 29 times

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Blob Example XML file

Created: 26/09/08 @ 12:12:41

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

XML file to be used for example workflows

File type: XML

Rating: 0.0 / 5 (0 ratings) | Comments: 0 | Viewed: 79 times | Downloaded: 246 times

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Blob Example XSLT file

Created: 26/09/08 @ 12:13:31

Credits: User Alan Williams

License: Creative Commons Attribution-Share Alike 3.0 Unported License

XSLT file to be used for example workflows

File type: Binary data

Rating: 0.0 / 5 (0 ratings) | Comments: 0 | Viewed: 56 times | Downloaded: 165 times

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Pack

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Pack Example workflows for annotated web services

Created: 29/09/08 @ 11:57:45 | Last updated: 29/09/08 @ 13:34:14

The pack contains a number of test workflows i built when i'm annotating web services. The workflows (one or two services) have all example parameters. Cool, now you can test some web services before add them to your workflows. Do you have any workflows you built to test a service? please add them to the pack. List of myGrid annotated web services:  http://www.mygrid.org.uk/feta/mygrid/descriptions/  

1 item in this pack

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Pack Example workflow for KEGG web service

Created: 29/09/08 @ 13:28:02 | Last updated: 08/10/08 @ 16:37:49

 The pack contains a number of test workflows for kegg web service (and operations)

14 items in this pack

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Workflow

Original Uploader

Workflow BioMart and Emboss Analysis (T2) (v1)

Created: 15/09/09 @ 15:05:11

Credits: User Katy Wolstencroft User Alan Williams

Attributions: Workflow BiomartAndEMBOSSAnalysis

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This is the Taverna 2 version of the Biomart and Emboss Analysis workflow http://www.myexperiment.org/workflows/158   Using Biomart and EMBOSS soaplab services, This workflow retrieves a number of sequences from 3 species: mouse, human, rat; align them, and returns a plot of the alignment result. Corresponding sequence ids are also returned. Previous versions of this workflow only returned sequences with an ID mapped to a MIM_morbid_accession. This was primarily to reduce the numbe...

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 292 times | Downloaded: 85 times

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Workflow

Original Uploader

Workflow Example of a conditional execution workflow (v1)

Created: 04/08/11 @ 14:18:09

Credits: Network-member Taverna 1.7.1 workflow workbench examples

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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If the input is true then the string 'foo' is emited, if false then 'bar'. Just a simple example to show how the monster works, so to speak.

Rating: 0.0 / 5 (0 ratings) | Versions: 1 | Reviews: 0 | Comments: 0 | Citations: 0

Viewed: 21 times | Downloaded: 5 times

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