Pfam Based Ortholog Filter

Created: 2009-08-19 16:26:55

This workflow filters an Ondex graph based on the occurrence of Pfam orthologs within the graph. The result is a new Ondex graph. The parameters that can be used with this service are as follows:

graphId - the ID of the input Graph. outputGraphId - the ID of the output Graph (Optional). If no output graph is specified filtered items will be removed from the input graph. ConfidenceThreshold - Threshold value for inparanoid confidence. Default value is 100. AnnotationScoreThreshold - Threshold value for GO annotation score. Default value is 0.75. PfamSetIntersectionThreshold - Minimal number of matching protein families for a valid orthology relation. Default value is 2. TermDepthCutoff - Maximal distance between GO terms to be considered similar. Default value is 4. GoDataDirectory - Data directory of go file.

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Information Workflow Type

Taverna 1

Information Uploader

Paul Fisher

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Information Version 1 (of 1)

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Paul Fisher

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Information Tags (10)

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annotation
|
filter
|
graph
|
ondex
|
orthologue
|
ovtk
|
oxl
|
pfam
|
protein
|
terms

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SabrOndexProject

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Pfam Based Ortholog Filter

Created by Paul Fisher on Wednesday 19 August 2009 16:26:56 (UTC)

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Created: 2009-08-19

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Created: 2009-08-19

Credits: Paul Fisher