[BioPython] psyco reference in bioinformatics article

[Andrew Dalke]

Does anyone know of a bioinformatics reference that mentions using  
psyco for improving performance of a Python program, and which  
mentions numbers?


I know of one for medical informatics that mentions numbers
http://www.biomedcentral.com/1472-6947/2/9/
Preparation of name and address data for record linkage using hidden  
Markov models
Tim Churches, Peter Christen, Kim Lim, and Justin Xi Zhu
BMC Medical Informatics and Decision Making 2002, 2:9doi: 
10.1186/1472-6947-2-9

> one million address records on the PC platform took 14,061 seconds  
> (234 minutes), or 5832 seconds (97 minutes) with the Psyco just-in- 
> time Python compiler enabled
>


and an Entrez search finds one for bioinformatics which doesn't  
mention numbers

http://www.pubmedcentral.nih.gov/articlerender.fcgi? 
tool=pmcentrez&artid=1635261
Nucleic Acids Res. 2006 November; 34(20): 5730–5739.  doi: 10.1093/ 
nar/gkl585.

A graph-based motif detection algorithm models complex nucleotide  
dependencies in transcription factor binding sites
Brian T. Naughton, Eugene Fratkin, Serafim Batzoglou, and Douglas L.  
Brutlag

>  MotifScan will use psyco (http://psyco.sourceforge.net) for a  
> performance
>  gain, if it is installed.





				Andrew
				dalke at dalkescientific.com