Gb User: Stian Soiland-Reyes Admin_badge

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Name: Stian Soiland-Reyes

Joined: Friday 20 July 2007 16:58:17 (UTC)

Last seen: Thursday 10 August 2017 15:27:25 (UTC)

Email (public): soiland-reyes [at] cs.manchester.ac.uk

Website: http://orcid.org/0000-0001-9842-9718

Location: Manchester, United Kingdom

Stian Soiland-Reyes has been credited 64 times

Stian Soiland-Reyes has an average rating of:

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I am one of the myGrid developers working in University of Manchester, mainly working on Taverna, but also involved in myExperiment development. Most of the workflows I will publish here on myExperiment are either test workflows (that highlight bugs in Taverna!), technique workflows (like how to do iteration or XML parsing) or other people's workflows that again break Taverna in one way or another. ORCID: http://orcid.org/0000-0001-9842-9718


Other contact details:

Not specified

Interests:

Taverna, Java, Python, REST, open source, web services

Field/Industry: Education

Occupation/Role(s): Technical Architect

Organisation(s):

myGrid
University of Manchester

 

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Workflow

Uploader

Workflow Lymphoma type prediction based on microar... (7)

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Scientific value Using gene-expression patterns associated with DLBCL and FL to predict the lymphoma type of an unknown sample. Using SVM (Support Vector Machine) to classify data, and predicting the tumor types of unknown examples. Steps Querying training data from experiments stored in caArray. Preprocessing, or normalize the microarray data. Adding training and testing data into SVM service to get classification result.

Created: 2010-05-11 | Last updated: 2010-05-11

Credits: User Wei Tan User Ravi User Stian Soiland-Reyes

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Workflow

Workflow BioAID_ProteinDiscovery (8)

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The workflow extracts protein names from documents retrieved from MedLine based on a user Query (cf Apache Lucene syntax). The protein names are filtered by checking if there exists a valid UniProt ID for the given protein name.

Created: 2010-05-10 | Last updated: 2013-08-16

Credits: User Marco Roos Network-member AID

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Workflow

Workflow Pathways and Gene annotations for QTL region (7)

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This workflow searches for genes which reside in a QTL (Quantitative Trait Loci) region in the mouse, Mus musculus. The workflow requires an input of: a chromosome name or number; a QTL start base pair position; QTL end base pair position. Data is then extracted from BioMart to annotate each of the genes found in this region. The Entrez and UniProt identifiers are then sent to KEGG to obtain KEGG gene identifiers. The KEGG gene identifiers are then used to searcg for pathways in the KEGG path...

Created: 2009-11-19 | Last updated: 2012-09-07

Credits: User Paul Fisher

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Workflow

Workflow NCBI Gi to Kegg Pathway Descriptions (5)

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This workflow accepts a list of NCBI gene identifiers and returns descriptions of gene functions and a list of all pathways each gene is involved in (plus pathway image) from the KEGG database. This workflow replaces the earlier SOAP version with the new KEGG REST services

Created: 2012-01-12 | Last updated: 2013-01-30

Credits: User Katy Wolstencroft

Attributions: Workflow NCBI Gi to Kegg Pathways

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File

Uploader

Blob Example Genbank data

Created: 2008-09-25 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

Comments: 0 | Viewed: 52 times | Downloaded: 54 times

This File has no tags!

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Pack

Creator

Pack Taverna 1.7 starter pack


Created: 2008-07-17 21:06:12 | Last updated: 2017-01-02 21:11:15

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

16 items in this pack

Comments: 0 | Viewed: 665 times | Downloaded: 242 times

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Workflow

Workflow Pathways and Gene annotations for QTL Phen... (1)

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No description

Created: 2007-10-30 | Last updated: 2007-12-04

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