ATGC: PhyML

PhyML 3.0: new algorithms, methods and utilities

Please cite:
"A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood."

Guindon S., Gascuel O.

Systematic Biology, 52(5):696-704, 2003.

PhyML data sets

These data sets were used to test the speed of the algorithm and its accuracy.

Simulated data sets:

5000 data sets comprising the true 40-taxon trees and the corresponding 500-bp homologous sequences.
30 data sets comprising the true 100-taxon trees and the corresponding 500-bp homologous sequences.
30 data sets comprising the true 40-taxon trees and the corresponding 500-bp homologous sequences.

Two real data sets:

RDPII data set (218 taxa, 4182 bp).
rbcL data set (500 taxa, 1428 bp).