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Tag: benchmarks

Workflow blast_simplifier.xml (1)

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Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

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Pack Paul Fisher workflows for benchmarks PR and CA2


Created: 2008-07-12 20:26:49 | Last updated: 2008-07-13 09:21:55

Please note that the workflows in this pack are not being maintained. For updated workflows check out http://www.myexperiment.org/users/43

77 items in this pack

Comments: 0 | Viewed: 315 times | Downloaded: 57 times

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Workflow Make 28 CPUh load on the Grid (1)

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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...

Created: 2008-11-25 | Last updated: 2008-12-17

Credits: User Andreas Hoheisel

Workflow metabolic_pathway.xml (1)

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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]

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

Creator

Pack Peter Li workflows for benchmarks PR and CA2


Created: 2008-07-13 20:32:39 | Last updated: 2008-07-13 20:47:19

Please note that the workflows in this pack are not being maintained. For updated workflows check out http://www.myexperiment.org/users/221

66 items in this pack

Comments: 0 | Viewed: 149 times | Downloaded: 22 times

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Pack Workflow discovery benchmarks


Created: 2008-07-12 11:20:23 | Last updated: 2008-10-09 16:41:46

This pack contains benchmarks that measure how bioinformaticians discover Taverna workflows. Several subpacks are available: Collection of workflows by Paul Fisher, used in benchmarks PR2 and CA2 Collection of workflows by Peter Li, used in benchmarks PR2 and CA2  

7 items in this pack

Comments: 0 | Viewed: 143 times | Downloaded: 47 times

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Workflow linking3.xml (1)

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

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

Workflow metabolic.xml (1)

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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.

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

Workflow gene_ontology_diagram.xml (1)

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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.

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

Workflow BlastComparer.xml (1)

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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.

Created: 2008-07-12 | Last updated: 2008-07-12

Credits: User Paul Fisher

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