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Bioinformatics Vol. 16 no. 3 2000
Pages 294-295
© 2000 Oxford University Press

EDIBLE: experimental design and information calculations in phylogenetics

T. Massingham 1,2,* and N. Goldman 1,3,*

1 Department of Genetics, Downing Street, Cambridge CB2 3EH, UK
2 Girton College, Cambridge CB3 0JG, UK
3 Isaac Newton Institute for the Mathematical Sciences, 20 Clarkson Road, Cambridge CB3 0EH, UK

Received on July 20, 1999 ; revised on September 20, 1999 ; accepted on September 22, 1999

Summary: Although evolutionary inference from molecular sequences is a statistical problem, little attention has been paid to questions of experimental design. A computer program, EDIBLE, has been developed to perform likelihood calculations based on Markov process models of nucleotide substitution allied with phylogenetic trees, and from these to compute Fisher information measures under different experimental designs. These calculations can be used to answer questions of optimal experimental design in molecular phylogenetics.

Availability: Source code (ANSI C), executables and documentation for EDIBLE are available from http://ng-dec1.gen.cam.ac.uk/info/index.htmland ‘downstream’ Web pages.

Contact: N.Goldman{at}gen.cam.ac.uk

*Present address: University Museum of Zoology, Department of Zoology, Downing Street, Cambridge CB2 3EJ, UK.


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