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Retrieve all data for all instruments for ... (3)

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This workflow looks up all instruments known to have worked during the requested periode of time (ICS), restructures results to make them fit instruments.xsd and requests data for this periode from DPAS. Result: VOTable with list of URLs to data.

Created: 2010-04-15 | Last updated: 2010-08-09

Credits: Anja Le Blanc

Attributions: Extracting data from VOTable format by using XPath query

Available instruments through DPAS (5)

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This workflow uses a DPAS servlet to obtain all available intrument keys in the DPAS (Data Provider Access Service) and formats the return as VOTable.

Created: 2010-04-15 | Last updated: 2012-03-16

Entrez Gene to KEGG Pathway (2)

This workflow takes in Entrez gene ids then adds the string "ncbi-geneid:" to the start of each gene id. These gene ids are then cross-referenced to KEGG gene ids. Each KEGG gene id is then sent to the KEGG pathway database and its relevant pathways returned.

Created: 2010-04-15 | Last updated: 2010-04-15

Credits: Paul Fisher

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A Survey of Identifiers and Labels in OWL Ontologies

Created: 2010-04-14 22:56:38 | Last updated: 2010-06-15 11:11:40

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Presentation - Semantic Grid and Sensor Grid: Insigh...

Created: 2010-04-14 10:22:06 | Last updated: 2010-05-01 09:34:31

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Affymetrix Permutation-based Probe Level E... (1)

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Affymetrix Permutation-based Probe Level Estimation (APPLE). Goal: Because of its cost, microarray experiments are frequently designed using a relatively small number of biological or technical replicates. This can result in low statistical power when the number of differentially expressed genes is inferred. This worklfow investigates whether the statistical power of Affymetrix experiments can be increased, without the need to increase the number of hybridizat...

Created: 2010-04-13 | Last updated: 2010-04-14

Find/show Taverna's home directory (1)

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Find Taverna's home directory and open that folder using Explorer/Finder/Gnome. This is the folder that is typically something like C:\Users\stain\AppData\Roaming\taverna-2.1.2, C:\Documents and settings\stain\taverna-2.1.2, /home/stain/.taverna-2.1.2 or /Users/stain/Library/Application support/taverna-2.1.2 This workflow should work on both Taverna 1 and Taverna 2. For Taverna 2 the beanshell script uses reflection to try to call ApplicationRuntime.getInstance().getApplicationHome() ...

Created: 2010-04-12 | Last updated: 2010-04-12

Credits: Stian Soiland-Reyes

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Bioclipse script to Split SDfile

Created: 2010-04-09 14:52:02

Credits: De maas

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: JavaScript

Comments: 0 | Viewed: 38 times | Downloaded: 28 times

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David Spence's NeuroHub Presentation

Created: 2010-04-08 03:32:04

Credits: David R Newman

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: PowerPoint presentation

Comments: 0 | Viewed: 73 times | Downloaded: 52 times

Download all data sets from a OpenTox API ... (3)

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 Uses the OpenTox API (REST+RDF) to query all data sets, downloads them as MDL SD file, and opens the results in the Bioclipse molecules table.

Created: 2010-04-01 | Last updated: 2010-11-13

Credits:

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EDBT Provenance paper presentation - March, 2010

Created: 2010-03-26 14:05:34 | Last updated: 2010-03-26 14:05:52

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Compare two genomes for similarity (4)

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This workflow takes the file path to two genome nucleotide files in fasta format and requests a minimum similarity required from the user.  The genomes are aligned according to the M-GCAT algorithm (http://alggen.lsi.upc.es/recerca/align/mgcat/intro-mgcat.html) and the genome similarity parsed out of the resultant log file.  Output is either 0 (genome similarity less than required similarity) or 1 (genome similarity equal to or greater than the required similarity). NB - The file p...

Created: 2010-03-17 | Last updated: 2010-03-17

Credits: Gregg Iceton

Calculate molecular mass for entries in a ... (1)

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Created: 2010-03-08

Credits:

Transciption (DNA into RNA) (1)

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This workflow allows a user to transcibe DNA into RNA.

Created: 2010-03-05 | Last updated: 2010-03-05

CaliBayes_Client (1)

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A workflow for consuming CaliBayes web services. CaliBayes: www.calibayes.ncl.ac.uk

Created: 2010-02-03 | Last updated: 2010-02-03

SBML shorthand to SBML converter (1)

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converts SBML shorthand to SBML document via BASIS web services BASIS: www.basis.ncl.ac.uk:81/Basis SBML shorthand: http://www.staff.ncl.ac.uk/d.j.wilkinson/software/sbml-sh/

Created: 2010-02-03 | Last updated: 2010-02-03

SBML to SBML shortand converter (1)

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converts SBML document to SBML shorthand via BASIS web services BASIS: www.basis.ncl.ac.uk:81/Basis SBML shorthand: http://www.staff.ncl.ac.uk/d.j.wilkinson/software/sbml-sh/

Created: 2010-02-03 | Last updated: 2010-02-03

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biobanking conference

Created: 2010-01-05 14:23:37

Credits: Izja

License: Creative Commons Attribution-Share Alike 3.0 Unported License

File type: Chemistry Plan

Comments: 0 | Viewed: 19 times | Downloaded: 15 times

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Convert a SMILES string into a connection ... (1)

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Created: 2009-12-16

Credits:

EBI_InterProScan_T2 (1)

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Perform an InterProScan analysis of a protein sequence using the EBI’s WSInterProScan service (see http://www.ebi.ac.uk/Tools/webservices/services/interproscan). The input sequence to use and the user e-mail address are inputs, the other parameters for the analysis (see Job_params) are allowed to default. InterProScan searches a protein sequence against the protein family and domain signature databases integrated into InterPro (see http://www.ebi.ac.uk/interpro/). A set of matches to the s...

Created: 2009-12-15

Credits: Alan Williams