clustal_phylogeny

Created: 2013-01-28 09:02:03      Last updated: 2013-03-11 15:26:43

This workflow accepts a ClustalW protein sequence alignment and produces a phylogenetic tree, using the EBI clustalw_phylogeny web service, which implements phylip.

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  • Monday 11 March 2013 15:29:15 (UTC)

    Very nice and clearly documented workflow. I managed to generate a tree in Phylip. However, the MEGA format converter requires more information I think. Perhaps it would also be possible to draw the tree directly in the workflow, for instance using R-Phylo (http://www.r-phylo.org/wiki/Main_Page) in an Rshell component?




Workflow Other workflows that use similar services (1)

Workflow Find compounds pharmacology and align agai... (1)

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Look up concept URI from freetext, e.g. "aspirin", find compound pharmacology and their target info. For each target, blast+tree on its sequence - if any. Uses the Open PHACTs API https://dev.openphacts.org/docs/alpha and the myExperiment workflow 3369 "Blast_Align_and_Tree" http://www.myexperiment.org/workflows/3369. Notice that in tihs workflow, most concepts won't have compounds, and most compounds won't have targets, and most targets won't have a sequence - Open PHACT API wise this mean...

Created: 2013-10-16

Credits: User Stian Soiland-Reyes User Katy Wolstencroft

Attributions: Workflow Blast_Align_and_Tree