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InviteWorkflow Entry: EBI_ClustalW2_phylogentic_tree
| Citations (0) | Version History | Reviews (1) | Comments (1) |
 Version 2 (latest)
(of 2)
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Version created on:
07/04/09 @ 20:09:32
by:
Hamish McWilliam
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Revision comments 
Title: EBI_ClustalW2_phylogentic_tree
Type: Taverna 1
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Description
Create a Neighbor-joining phylogenetic tree, with Kimura distance corrections, from a sequence alignment using the EBI's WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2).
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Earliest Version:
[1] - EBI_ClustalW2_phylogentic_tree
Latest Version:
[2] - EBI_ClustalW2_phylogentic_tree
Reviews
(1)
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Rating: 4 out of 5 Created: 08/04/10 @ 17:22:26 | Updated: 08/04/10 @ 17:22:26
It works but how do I display the tree?
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Other workflows that use similar services
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Original Uploader |
Created: 07/04/09 @ 20:06:03 | Last updated: 06/12/10 @ 11:00:19
Credits:
License: Creative Commons Attribution 3.0 Unported License
Perform a ClustalW multiple sequence alignment using the EBI’s WSClustalW2 service (see http://www.ebi.ac.uk/Tools/webservices/services/clustalw2). The set of sequences to align are the input, the other parameters for the search (see Job_params) are allowed to default.
Note: the WSClustalW2 service used by this workflow is deprecated as of 21st September 2010 and should not be used in any new development. This service is will be retired during 2011. EBI's replacement ClustalW2 servi...
Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 508 times | Downloaded: 240 times Tags (7): |
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Original Uploader |
Created: 07/04/09 @ 20:13:19
Credits:
Attributions:
License: Creative Commons Attribution 3.0 Unported License
An implmentation of the classical sequence analysis workflow:
Find homologues (sequence similarity search)
Fetch homologues
Align homologues (multiple sequence alignment)
Produce phylogenetic tree
In this implementation the EBI webservices are used:
WU-BLAST (WSWUBlast) blastp vs. UniProtKB
dbfetch (WSDbfetch)
ClustalW (WSClustalW2)
ClustalW (WSClustalW2)
Note: this version does not add the inital query sequence to the alignment, and so is most useful when used with the identifers...
Rating: 0.0 / 5 (0 ratings) | Versions: 2 | Reviews: 0 | Comments: 0 | Citations: 0 Viewed: 419 times | Downloaded: 140 times Tags (15): |
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Linked Data
Non-Information Resource URI: http://www.myexperiment.org/workflows/206
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Copyright © 2007 - 2011 The University of Manchester and University of Southampton
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The tree can be viewed using any tool which understands the Newick tree format. There are various tools in PHYLIP (http://evolution.genetics.washington.edu/phylip.html) which can be used to manipulate the tree and create images from it. Many of the PHYLIP tools are included in the Soaplab services (via the PHYLIPNEW EMBASSY package). Many interactive tools are also available, see http://evolution.gs.washington.edu/phylip/software.html#Interactive.