Some Papers and Preprints
Genome papers
Steven Salzberg and James A Yorke
Beware of Mis-assembled Genomes
Editorial – Bioinformatics in press
Michael Roberts, Wayne Hayes, Brian R. Hunt, Stephen M. Mount, James A. Yorke,
Reducing storage requirements for
biological sequence comparison [Minimizers],
Bioinformatics, Dec 2004; 20: 3363 - 3369.
Michael Roberts, Brian R. Hunt, and James A. Yorke, Randall
Bolanos, and Art Delcher,
A
Preprocessor for Shotgun Assembly of Large Genomes,
J Comput
Biol. 2004; 11(4), 734-752
Cevat Ustun, Wayne Hayes, Brian Hunt, Michael Roberts, James Yorke, Aleksey V. Zimin and Paul Havlak.
Improving Sequence Assembly of the Rat Genome Using Reliable Overlaps and Extended Reads,
preprint
Fluids papers
John Harlim, Mike Oczkowski, James A. Yorke, Eugenia Kalnay, and Brian R. Hunt,
Convex Error Growth Patterns in a Global Weather Model,
PRL (accepted 5/05)
Joseph D. Skufca, James A. Yorke, and Bruno Eckhardt,
The edge of chaos
in a parallel shear flow,
preprint.
Meteorology
Epidemiology
H.
W. Hethcote and J. A. Yorke,
Gonorrhea Transmission Dynamics and Control,
Springer-Verlag Lecture Notes in Biomathematics #56, 1984.
(Out of print; copyright now retained by the authors)
Brandy L. Rapatski, Frederick Suppe, and James A. Yorke,
HIV Epidemics Driven by Late Disease-Stage Transmission,
J. AIDS, 38, 2005, 241-253.
Chaos papers
H. E. Nusse and J. A. Yorke,
Characterizing the basins with the most entangled boundaries,
Ergodic Theory and Dyn. Sys., 2003 23 895-906.
William Ott and J. A. Yorke,
Bull. Amer. Math. Soc. 42, 2005, 263-290.
Joshua A. Tempkin & J. A.Yorke,
Spurious Lyapunov Exponents Computed from Data,
preprint
G.-C.
Yuan, J.A. Yorke, T.L. Caroll,
Testing
whether two chaotic one dimensional processes are
dynamically identical,
Phys. Rev. Lett 85, 2000, 4265-4268.