myExperiment.org - Tags

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Creator:

Jiten Bhagat

Everything You Need To Know About myExperiment...

Created: 02/07/08 @ 22:31:12 | Updated: 02/07/08 @ 23:11:22

... but were afraid to ask. This is the pack to go to for all information about myExperiment and the people involved in this project!

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Groups (3)

Administrator:

Carole Goble

myGrid

Unique name: myGrid Created: Friday 30 November 2007 @ 12:19:26 (GMT)

People working or contributing to the myGrid project, including the Taverna developers

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Administrator:

Alan Williams

Taverna workflow workbench examples

Unique name: tavernaExamples Created: Wednesday 05 March 2008 @ 13:45:09 (GMT)

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

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Stian Soiland-Reyes

Taverna 2 beta tester programme

Unique name: t2beta Created: Tuesday 05 August 2008 @ 10:51:32 (BST)

Members of this groups are the participants of the Taverna 2 beta tester programme. If you want to be a beta tester and are not already a member of the group, use the request membership of the group link above.

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Files (4)

Uploader: Franck Tanoh	Taverna tutorial Created: 03/03/08 @ 11:15:00 \| Updated: 03/03/08 @ 11:16:11 Credits: Franck Tanoh Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 License A step by step guide on how to build workflows in Taverna. Biology oriented but should be ok with other background with a 'tiny' Biology knowledge. I welcome your comments and suggestions. File type: application/vnd.ms-powerpoint Rating: 4.0 / 5 (1 rating) \| Comments: 0 \| Viewed: 267 times \| Downloaded: 304 times Tags: taverna \| tutorial	View Download
Uploader: Franck Tanoh	Taverna tutorial Created: 03/03/08 @ 11:05:24 \| Updated: 03/03/08 @ 11:20:45 Credits: Franck Tanoh Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 License A step by step guide on how to build workflows in Taverna. This tutorial is designed for any background. i welcome your comments and suggestions. File type: application/vnd.ms-powerpoint Rating: 4.0 / 5 (2 ratings) \| Comments: 3 \| Viewed: 365 times \| Downloaded: 448 times Tags: taverna \| tutorial	View Download
Uploader: Katy Wolstencroft	The Data Playground: An Intuitive Workflow Specification Environment Created: 02/06/08 @ 14:46:40 \| Updated: 02/06/08 @ 14:46:40 Credits: Katy Wolstencroft Andrew Gibson License: Creative Commons Attribution-Share Alike 3.0 License This is a copy of the paper we wrote for the 3rd International Conference on e-Science and Grid Computing 2007 (http://www.escience2007.org/index.asp). It won the Best Paper award! File type: application/pdf Rating: 4.0 / 5 (1 rating) \| Comments: 0 \| Viewed: 137 times \| Downloaded: 139 times Tags: biomoby \| publication \| semantic discovery \| taverna \| workflow environment	View Download
Uploader: Katy Wolstencroft	An Introduction to Taverna Tutorial Created: 17/06/08 @ 14:17:20 \| Updated: 17/06/08 @ 14:17:20 Credits: Katy Wolstencroft License: Creative Commons Attribution-Share Alike 3.0 License No description File type: application/vnd.ms-powerpoint Rating: 0.0 / 5 (0 ratings) \| Comments: 0 \| Viewed: 126 times \| Downloaded: 175 times Tags: taverna \| tutorial	View Download

Workflows (11)

Uploader:

Alan Williams

Example of a conditional execution workflow (v1)

Created: 05/03/08 @ 13:55:45 | Updated: 25/03/08 @ 14:46:12

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

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.

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Uploader:

Alan Williams

BiomartAndEMBOSSAnalysis (v2)

Created: 05/03/08 @ 14:01:16 | Updated: 27/03/08 @ 12:14:09

License: Creative Commons Attribution 3.0 License

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.

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Alan Williams

A workflow version of the EMBOSS tutorial (v1)

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

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

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.

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Alan Williams

Fetch today's xkcd comic (v1)

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

Credits: Tomoinn Stian Soiland-Reyes

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License: Creative Commons Attribution 3.0 License

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

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Alan Williams

Fetch Dragon images from BioMoby (v2)

Created: 05/03/08 @ 14:09:35 | Updated: 25/03/08 @ 14:41:59

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

Fetch images and annotations of snapdragons

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Alan Williams

Demonstration of configurable iteration (v1)

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

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

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

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Alan Williams

Retrieve sequence in EMBL format (v2)

Created: 05/03/08 @ 14:11:18 | Updated: 31/03/08 @ 15:19:06

Credits: Franck Tanoh Tomoinn

License: Creative Commons Attribution 3.0 License

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

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Alan Williams

Retrieve SNPs from regions around known genes (v1)

Created: 05/03/08 @ 14:12:32 | Updated: 29/07/08 @ 15:18:38

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

Given a list of Gene IDs this workflow will query against the Ensembl human genome data to fetch the genomic region for each gene, extend that region by 1000bp in each direction and use this set of ranges, one per gene, to build a query against dbSNP to return the SNP identifier and location information (chromosome name, strand and position)

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Alan Williams

Fetch PDB flatfile from RCSB server (v1)

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

Credits: Tomoinn

License: Creative Commons Attribution 3.0 License

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

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Alan Williams

GBSeq test (v2)

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

Credits: Franck Tanoh

License: Creative Commons Attribution 3.0 License

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

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Uploader:

Stian Soiland-Reyes

Staged iteration strategy (v1)

Created: 07/05/08 @ 12:10:27 | Updated: 07/05/08 @ 12:32:36

Credits: Stian Soiland-Reyes

License: Creative Commons Attribution-Share Alike 3.0 License

Consider two lists A and B, of equal size 3. A[1] corresponds to B[1], A[2] to B[2], etc, for instance A are image scans from 2007 and B from 2008, and the index indicates the patient number. A = [a0, a1, a2] B = [b0, b1, b2] There's then two lists of possible parameters P and Q, of different lengths, P has 2 and Q has 4 items. P = [p0, p1] Q = [q0, q1, q2, q3] Each of the A items should be processed in ap using each of the P parameters, and each of the B items ...

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Items tagged with "taverna" (19)