An Archive of Videos of myGrid demos (2001 - 2003)

-- CaroleGoble - 17 Jun 2003

Please note most of these are encoded in TSCC format this is available from ftp://ftp.techsmith.com/pub/products/camtasiastudio/tscc.exe

Pre-prototype (April 2002)

• biofetch3-v3.avi: Biofetch

• start-go-vis.avi: GO visualisation

• viewer.avi: Viewer

Talisman (February 2003)

• talisman_soaplab_emboss.avi: Talisman using soaplab wrapped around EMBOSS

• talisman_wfee_soaplab_emboss.avi: Talisman using the workflow enactment engine

• wp5_emboss_talisman.avi: Emboss and Talisman

Portal (February 2003)

• portaldemo.avi: portal using a find service

Prototype pre-first release (June 2003)

Browse the Workbench and mIR

• overview1.avi: Browsing the workbench and mIR

Note: Talisman workflow viewer throws a java exception error

View over mIR

Set up a filter over a user's workflows

• filter.avi: Workflow filter view over mIR

These workflows are based on the GravesDisease Scenario

NucleotideSeqAnnotationPipelineWithGoTerms

This annotation pipeline workflow retrieves the EMBL accession number, Medline Ids, OMIM Id and, GO Ids and GO terms from the molecular function ontology for a given Affymetrix probe set Id. Workflow available from http://cvs.mygrid.org.uk/scufl/NucleotideSeqAnnotationPipelineWithGoTerms/

• 1160-at-nuc-annot-broken-ambit.avi: Affymetrix probe set Id annotation with GO terms

Note: AMBIT at the end of the video fails. The provenance record is premature; it includes services still running and not the final provenance record. This is because of a refresh mistiming between the workbench and the workflow enactor. The final provenance record from the mIR.

AffyIdToEmblAndSnps

(AffyIdToEmbl&Snps gives problems to Twiki table of contents)

This workflow retrieves the EMBL record and HGVBASE records associated with a given Affymetrix probe set Id. The SNP location, SNP nucleotide and the HGVBASE database reference is extracted from the HGVBASE record and inserted into the EMBL record as a variation feature. Workflow available from http://cvs.mygrid.org.uk/scufl/AffyIdToEmbl&Snps

• 1160-at-affy-to-snp.avi: workflow 2 AffyId^? to EMBL and SNP

Note: Talisman workflow viewer throws a java exception error. The provenance record is premature; it includes services still running and not the final provenance record. This is because of a refresh mistiming between the workbench and the workflow enactor. The final provenance record from the mIR.

• 1160-at-affy-to-snp-no-service-discovery.avi: workflow 2 AffyId^? to EMBL and SNP.

Note: This version doesn't have the exception and provenance record problems of the previous one, but doesn't include the workflow discovery; instead it lists all the workflows in the registry view. (The final provenance record from the mIR.)

• 31957-affy-to-snp-no-svcdir.avi: Affyid to SNP & EMBL record, user inputs test data

Note: This version is the same as above but the data is input into the mIR by the user and annotated with a concept. (The final provenance record from the mIR.)

HgvbaseIdToEmblWithPrimersRecord

This workflow takes a SNP Id, in the form of a HGBASE entry Id, and generates a set of 5 primer pairs for use in amplifying the region of the DNA sequence of the candidate gene containing the SNP. The primers are generated using the Eprimer3 Emboss application in Soaplab. The results of this workflow is an EMBL record containing a variation feature describing a SNP in terms of its SNP nucleotide, SNP database (HGVBASE) cross-reference and SNP location. Both the forward and reverse primers are embedded within the EMBL record as 'features' in their own right. Workflow available from http://cvs.mygrid.org.uk/scufl/HgvbaseIdToEmblWithPrimersRecord/

• 31957-to-snp5066-primers-no-svcdir.avi: A SNPid to generate a set of 5 primer pairs

Note: This version doesn't include the workflow discovery; instead it lists all the workflows in the registry view.

HgvbaseIdToEmblWithCompareRestrictResult

This workflow selects the restriction enzymes which can be used in genotype assays for detecting the presence of a given SNP. The restriction enzymes created or deleted by the presence of the SNP are put into the EMBL record of the reference EMBL sequence which the SNP belongs to as 'features' in their own right along with information about the SNP. Workflow available from http://cvs.mygrid.org.uk/scufl/HgvbaseIdToEmblWithCompareRestrictResult

• snp5066-comparerestrict-no-svcdir.avi:

ISMB 2003 Videos

• Step1-BrowsingMIR.avi: Step 1 - Browsing MIR

• Step2-Notification.avi: Step 2 - Notification

• Step3-WorkflowWizard.avi: Step 3 - Workflow Wizard

• Step4-Provenance.avi: Step 4 - Provenance

• Step5-Results.avi: Step 5 - Results

• Step6-Filter.avi: Step 6 - Filter

• Step1-BrowsingMIR-dixv.avi: Step 1 - Browsing MIR (divx)

• Step2-Notification-dixv.avi: Step 2 - Notification (divx)

• Step3-WorkflowWizard-dixv.avi: Step 3 - Workflow Wizard (divx)

• Step4-Provenance-dixv.avi: Step 4 - Provenance (divx)

• Step5-Results-dixv.avi: Step 5 - Results (divx)

• Step6-Filter-dixv.avi: Step 6 - Filter (divx)

Taverna Scufl Workbench Videos

There are additional videos about the Taverna Scufl Workbench at http://taverna.sourceforge.net/

• scuflworkbench.avi: Creating a simple workflow using Taverna

• DQP_workflow_using_Scufl_workbench.avi: DQP workflow enacted from Scufl workbench

• portaldemo.avi: portal using a find service

EPSRC Pilot Projects Meeting 2004 (NeSC, 25-26 Mar 2004)

• EPSRC-Pilots-2004-workflowA.avi: Find and enact a workflow; view results via LSIDs

See also EpsrcWorkshop2004 for posters etc.

myGrid Tutorial Videos (Link Up Meeting, Edinburgh, May 2004)

• See NeSCmyGridTutorial

Haystack Demonstration Videos

• haystack-files.avi: Shows Haystack used to browse files

• haystack-collections-and-resources.avi: Shows Haystack used to organise resources and display them according to ontological type

• haystack-provenance-graph.avi: Shows Haystack used to navigate provenance graph

• haystack-split-script.doc: Script for Haystack videos