What it does
This calls the command line Effective T3 v1.0.1 tool for prediction of bacterial effector proteins.
The input is a FASTA file of protein sequences, and the output is tabular with four columns (one row per protein):
| Column | Description |
| 1 | Sequence identifier |
| 2 | Sequence description (from the FASTA file) |
| 3 | Score (between 0 and 1, or negative for an error such as a very short peptide) |
| 4 | Predicted effector (true/false) |
References
If you use this Galaxy tool in work leading to a scientific publication please cite the following papers:
Peter J.A. Cock, Björn A. Grüning, Konrad Paszkiewicz and Leighton Pritchard (2013). Galaxy tools and workflows for sequence analysis with applications in molecular plant pathology. PeerJ 1:e167 https://doi.org/10.7717/peerj.167
Jehl, Arnold and Rattei (2011). Effective - a database of predicted secreted bacterial proteins Nucleic Acids Research, 39(Database issue), D591-5. https://doi.org/10.1093/nar/gkq1154
Arnold, Brandmaier, Kleine, Tischler, Heinz, Behrens, Niinikoski, Mewes, Horn and Rattei (2009). Sequence-based prediction of type III secreted proteins. PLoS Pathog. 5(4):e1000376. https://doi.org/10.1371/journal.ppat.1000376
See also http://effectors.org/
This wrapper is available to install into other Galaxy Instances via the Galaxy Tool Shed at http://toolshed.g2.bx.psu.edu/view/peterjc/effectivet3