Content from the Sage Bionetworks group

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Showing 9 results. Use the filters on the left and the search box below to refine the results.
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Workflow Sage bionetwork demo workflow (1)

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This workflow performs key driver analysis and displays the results in Cytoscape.

Created: 2010-03-22

Credits: User Peter Li

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Workflow Invocation of Gene Pattern modules using R (1)

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 A workflow to invoke a Gene Pattern module using an R script. Note that a FTP URL for the data to be analysed is required, not the data itself!

Created: 2010-03-19 | Last updated: 2010-03-19

Credits: User Peter Li

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Workflow Visualise KDA output data with Cytoscape (2)

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This workflow retrieves a data file on a web server directory and launches Cytoscape to visualise it.

Created: 2010-03-18 | Last updated: 2010-03-18

Credits: User Peter Li

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Workflow Log out from Alitora system (1)

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A nested workflow to be used for logging out of Alitora

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

Credits: User Peter Li

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Workflow Log into Alitora system (1)

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A nested workflow to be used for logging into Alitora

Created: 2010-03-17

Credits: User Peter Li

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Workflow Quality control processing of GEO datasets (2)

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The workflow performs a quality control process on gene expression data sets stored in the Gene Expression Omnibus database. The QC process is performed using Bioconductor R packages. A variety of statistics are produced by the workflow including a diagnostic plot from snm normalisation and nucleotide composition bias.

Created: 2011-04-06 | Last updated: 2011-04-11

Credits: User Peter Li User Bhmecham

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Workflow AlitoraKDAInputModule test workflow (1)

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 This workflow calls the AlitoraKDAInputModule service from the test GenePattern server.

Created: 2010-07-07 | Last updated: 2010-07-07

Credits: User Peter Li

Workflow Entrez Gene to KEGG Pathway (2)

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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: User Paul Fisher

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Workflow Test workflow for logging into Alitora and... (1)

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Created: 2010-03-17

Credits: User Peter Li

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