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WABI
2005
Springer
14 years 27 days ago
Computing the Quartet Distance Between Trees of Arbitrary Degree
Abstract. We present two algorithms for computing the quartet distance between trees of arbitrary degree. The quartet distance between two unrooted evolutionary trees is the number...
Chris Christiansen, Thomas Mailund, Christian N. S...
WABI
2005
Springer
117views Bioinformatics» more  WABI 2005»
14 years 27 days ago
Pattern Identification in Biogeography
—Identifying common patterns among area cladograms that arise in historical biogeography is an important tool for biogeographical inference. We develop the first rigorous formali...
Ganeshkumar Ganapathy, Barbara Goodson, Robert K. ...
WABI
2005
Springer
120views Bioinformatics» more  WABI 2005»
14 years 27 days ago
A Compressed Format for Collections of Phylogenetic Trees and Improved Consensus Performance
Phylogenetic tree searching algorithms often produce thousands of trees which biologists save in Newick format in order to perform further analysis. Unfortunately, Newick is neithe...
Robert S. Boyer, Warren A. Hunt Jr., Serita M. Nel...
WABI
2005
Springer
14 years 27 days ago
Rotamer-Pair Energy Calculations Using a Trie Data Structure
Abstract. Protein design software places amino acid side chains by precomputing rotamer-pair energies and optimizing rotamer placement. If the software optimizes by rapid stochasti...
Andrew Leaver-Fay, Brian Kuhlman, Jack Snoeyink
WABI
2005
Springer
14 years 27 days ago
Minimum Recombination Histories by Branch and Bound
Recombination plays an important role in creating genetic diversity within species, and inferring past recombination events is central to many problems in genetics. Given a set M o...
Rune B. Lyngsø, Yun S. Song, Jotun Hein