Egon Willighagen's Workflows

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Showing 42 results. Use the filters on the left and the search box below to refine the results.

Workflow Extracts metabolites from a GPML pathway d... (1)

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This Groovy scripts starts with a WikiPathways identifier, downloads the GPML, and uses the Groovy XmlParser to extract metabolites for which it reports the label, and if available, database and identifier.

Created: 2013-08-11 | Last updated: 2013-08-11

Credits: User Egon Willighagen

Workflow Find isotopes with a certain exact match (1)

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This script lists all isotopes matching a certain exact mass (given a certain error) and outputs the symbol, atomic number, and exact match of the search hits.

Created: 2013-07-30 | Last updated: 2013-07-31

Credits: User Egon Willighagen

Workflow List all human metabolites in Wikipathways (1)

 List all human metabolites in Wikipathways, using the SPARQL end point.

Created: 2013-03-08

Credits: User Egon Willighagen

Workflow List all Kegg identifiers used for metabol... (1)

 List all Kegg identifiers used for metabolites in Wikipathways, using the SPARQL end point.

Created: 2013-03-08

Credits: User Egon Willighagen

Workflow List all sources from which metabolite ide... (1)

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 List all sources from which metabolite identifiers are used, sorted by use.

Created: 2013-03-08

Credits: User Egon Willighagen

Workflow List all Metabolites in WikiPathways (1)

 Looks up all metabolites in WikiPathways using its SPARQL end point.

Created: 2013-03-08 | Last updated: 2013-03-08

Credits: User Egon Willighagen

Workflow Map a Entrez Gene ID to a Gene Ontology ID (1)

 BSL Groovy script that uses BridgeDB to convert a Entrez Gene identifier into a Gene ontology identifier.

Created: 2012-01-07

Credits: User Egon Willighagen

Workflow Download the ONS solubility data from Goog... (1)

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 Use the Bioclipse scripting langauge to authenticate with Google Docs, and download the Open Notebook Science solubility data into a local data structure.

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

Credits: User Egon Willighagen

Workflow Authenticate with the OpenTox network (1)

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 Bioclipse script commands log authenticate with the OpenTox network.

Created: 2011-05-25 | Last updated: 2011-05-25

Credits: User Egon Willighagen

Workflow Create a molecules table from a list of IU... (1)

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 Scripts that uses OPSIN to convert IUPAC names into chemical structures, which are saved as SD file and openend in the Bioclipse molecules table.

Created: 2011-05-25 | Last updated: 2011-05-25

Credits: User Egon Willighagen

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