Workflows

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Tag: benchmarks
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Workflow blast_simplifier.xml (1)

Created: 12/07/08 @ 09:17:40 | Last updated: 12/07/08 @ 20:20:20

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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

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Workflow Make 28 CPUh load on the Grid (1)

Created: 25/11/08 @ 14:13:43 | Last updated: 17/12/08 @ 14:25:59

Credits: User Andreas Hoheisel

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow makes 28 CPU hours load on a Grid. Therefore it calls 100 times (represented by 100 input tokens) the program "makeload", which makes 1000 Seconds load each. The processing is done recurrent, so you can use this workflow to benchmark the speedup of your Grid environment, or just to heat up your computer center... This workflow also serves as an example of a typical parameter study modeled with GWorkflowDL. Of cause this workflow can only be invoked with a X509 certif...

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Viewed: 91 times | Downloaded: 40 times

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Workflow metabolic_pathway.xml (1)

Created: 12/07/08 @ 10:13:37 | Last updated: 12/07/08 @ 10:13:50

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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A list of Kegg entires are supplied to the Kegg database which then retrieves the associated metabolic pathways for each entry supplied. e.g. Ids takes in a value of 351, whilst abbr takes in a value of hsa. Thus hsa:351 corresponds to neurodegenerative disorders and alzheimers disease pathways. [fisherp@cs.man.ac.uk]

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Viewed: 64 times | Downloaded: 35 times

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Workflow BlastComparer.xml (1)

Created: 12/07/08 @ 10:30:46 | Last updated: 12/07/08 @ 10:32:11

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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Perform a blastp search on protein sequence and extract information based on the user input, e.g. a list of GI numbers. N.B. this workflow does not function correctly as it is designed for use with NCBI blast scripts. Some errors may occur. Please use two blast text file inputs for a secure result output.

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Viewed: 55 times | Downloaded: 33 times

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Workflow interpro_url.xml (1)

Created: 12/07/08 @ 10:03:35 | Last updated: 12/07/08 @ 20:19:04

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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An example of how a more complex workflow can federate multiple resources to perform data mining. In this case a single input data item in the form of a probe set identifier is cross referenced to data sets in multiple locations to answer a kind of 'show me everything about this data' question.

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Viewed: 37 times | Downloaded: 48 times

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Workflow gene_ontology_diagram.xml (1)

Created: 12/07/08 @ 10:39:09 | Last updated: 12/07/08 @ 10:39:32

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow builds up a subgraph of the Gene Ontology (http://www.geneontology.org) to show the context for a supplied term or terms. It shows this context by colouring all ancestors of the term, all children and all siblings. By default, ancestors of the supplied term or terms are coloured orange, siblings purple and direct children teal. Other terms appear in the default wheat colour.

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

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Workflow linking3.xml (1)

Created: 12/07/08 @ 10:53:12 | Last updated: 12/07/08 @ 10:53:27

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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This workflow links between a specified EMBL accesion number to corresponding identifiers in the MEDLINE database.

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Viewed: 40 times | Downloaded: 30 times

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Workflow metabolic.xml (1)

Created: 12/07/08 @ 10:42:42 | Last updated: 12/07/08 @ 10:42:56

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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An example of how a more complex workflow can federate multiple resources to perform data mining. In this case a single input data item in the form of a probe set identifier is cross referenced to data sets in multiple locations to answer a kind of 'show me everything about this data' question.

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

Viewed: 46 times | Downloaded: 38 times

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Workflow extract_uniprot_embl_gi.xml (1)

Created: 12/07/08 @ 09:38:57 | Last updated: 12/07/08 @ 09:39:12

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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

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Workflow Gi_to_pathway.xml (1)

Created: 12/07/08 @ 09:20:04 | Last updated: 12/07/08 @ 20:07:57

Credits: User Paul Fisher

License: Creative Commons Attribution-Share Alike 3.0 Unported License

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

Viewed: 101 times | Downloaded: 47 times

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