User: Helen Hulme

Name: Helen Hulme

Joined: Monday 09 January 2012 09:20:31 (UTC)

Last seen: Monday 29 October 2012 12:17:19 (UTC)

Email (public): hhulme [at] cs.man.ac.uk

Website: Not specified

Location: Manchester, United Kingdom

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I am based in the myGrid team, at Manchester University.

I'm working on the CA4LS (Cloud Analytics for Life Sciences) project.

I'm writing taverna workflows for the analysis of SNP data.

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Not specified

Interests:

Bioinformatics.
NGS data.

Field/Industry: Bioinformatics

Occupation/Role(s): Bioinformatician

Organisation(s):

MyGrid
Cloud Analytics for Life Science (CA4LS)

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Agenda of Bonn tutorial

Created: 2012-09-14 09:51:22

Credits: Helen Hulme Katy Wolstencroft

License: Creative Commons Attribution-Share Alike 3.0 Unported License

This is the list of presentations and workshop items from the Bonn tutorial 2012. The presentations (and many of the workflows and datafiles) for this are in the pack: "Pack for Bonn2012" http://www.myexperiment.org/packs/330

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Helen Hulme

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Assignment Data - suggested SNPs

Created: 2012-09-05 07:20:29 | Last updated: 2012-09-05 07:22:16

Credits: Helen Hulme

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Here are some SNPs you can use for the assignment on day 3 of the Bonn 2012 Taverna course. The assignment is about SNP annotation and analysis If you would prefer to use some others that you are working with, fine. This data is a column of dbSNP identifiers

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Bonn Taverna Presentation - Case Studies

Created: 2012-09-04 10:17:41 | Last updated: 2012-09-04 13:45:55

Credits: Helen Hulme Katy Wolstencroft Paul Fisher Shoaib Sufi Mcornell Robert Haines

License: Creative Commons Attribution-Share Alike 3.0 Unported License

Presentation comparing and contrasting Taverna workbench use on two case studies: 1. African Sleeping Sickness (Trypanosomiasis) Wellcome Trust Project 2. NHS / TSB SNP annotation pipeline

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Taverna 2

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Helen Hulme

Genome variant to Protein change (1)

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Reports protein change, given a genomic variant, using mutalyzer

Created: 2012-07-27 | Last updated: 2012-10-29

Credits: Helen Hulme

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Taverna 2

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Helen Hulme

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

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