The RAte Shift EstimatoR


RASER is a likelihood based method for testing and detecting site-specific evolutionary rate shifts.
Given a multiple sequence alignment (MSA) and a phylogenetic tree, the program determines:
(a) Whether or not site-specific rate shifts characterize the evolution of a protein, and
(b) If so, points to the specific sites and lineages in which these shifts have most likely occurred.


(Current version is 2.0)


Penn O, Stern A, Rubinstein ND, Dutheil J, Bacharach E, Galtier N., Pupko T. 2008.
Evolutionary Modeling of Rate Shifts Reveals Specificity Determinants in HIV-1 Subtypes.
PLoS Computational Biology 4(11): e1000214. Full text


For any questions or suggestions please contact Osnat Penn or Adi Stern.