Phase4: Automatic evaluation of database search methods
Mentor at the International NRW Graduate School in Bioinformatics and Genome Researchat Bielefeld University. His interests include the development of protein database search methods.
Marc Rehmsmeier, Universität Bielefeld, International NRW Graduate School in Bioinformatics and Genome Research, Postfach 10 01 31, 33501 Bielefeld, Germany Tel: +49 (0) 521 106 29 04 Fax: +49 (0) 521 106 64 11 E-mail: marc{at}techfak.unibielefeld.de
It has become standard to evaluate newly devised database search methods in terms of sensitivity and selectivity and to compare them with existing methods. This involves the construction of a suitable evaluation scenario, the execution of the methods, the assessment of their performances, and the presentation of the results. Each of these four phases and their smooth connection usually imposes formidable work. To relieve the evaluator of this burden, a system has beendesigned with which evaluations can be effected rapidly. It is implemented in the programming language Python whose object-oriented features are used to offer a great flexibility in changingthe evaluation design. A graphical user interface is provided which offers the usual amenities such as radio- and checkbuttons or file browsing facilities.
Keywords: SCOP, equivalence numbers, false positive counts, ROC, performance figure, coverage versus error plot
CiteULike 
Connotea 
Del.icio.us What's this?
This article has been cited by other articles:
|
|
 |
|
  C. R. Johnston and D. C. Shields A sequence sub-sampling algorithm increases the power to detect distant homologues Nucleic Acids Res., July 8, 2005; 33(12): 3772 - 3778. [Abstract] [Full Text] [PDF]
|
|
|
|
 |
|
 I. Alam, A. Dress, M. Rehmsmeier, and G. Fuellen Comparative homology agreement search: An effective combination of homology-search methods PNAS, September 21, 2004; 101(38): 13814 - 13819. [Abstract] [Full Text] [PDF]
|
|