Cluster by path (analysis)

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Analysis title
Molecular-networks-Cluster-by-path-icon.png Cluster by path
Provider
geneXplain GmbH
Class
AllPathClustering
Plugin
biouml.plugins.keynodes (Master regulator node analysis plugin)

Description

This analysis allows you to make a cluster of genes/molecules upstream or downstream or both by taking reactions and all intermediate molecules using all paths from a specified search collection

Parameters:

  • Molecules collection – Input the collection of molecules/genes
  • Input size (expert) – Size of input list
  • Search direction – Direction to perform search in (either upstream, downstream reactions or both directions)
  • Max radius – Maximal search radius
  • Search collection – Collection containing reactions
  • Species – Species to which analysis should be confined
  • Output name – Output name.
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