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» Fixed-Parameter Algorithms in Phylogenetics
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SODA
2001
ACM
79views Algorithms» more  SODA 2001»
14 years 7 days ago
Performance study of phylogenetic methods: (unweighted) quartet methods and neighbor-joining
Katherine St. John, Tandy Warnow, Bernard M. E. Mo...
ALMOB
2008
85views more  ALMOB 2008»
13 years 11 months ago
Noisy: Identification of problematic columns in multiple sequence alignments
Motivation: Sequence-based methods for phylogenetic reconstruction from (nucleic acid) sequence data are notoriously plagued by two effects: homoplasies and alignment errors. Larg...
Andreas W. M. Dress, Christoph Flamm, Guido Fritzs...
BMCBI
2006
108views more  BMCBI 2006»
13 years 11 months ago
RibAlign: a software tool and database for eubacterial phylogeny based on concatenated ribosomal protein subunits
Background: Until today, analysis of 16S ribosomal RNA (rRNA) sequences has been the de-facto gold standard for the assessment of phylogenetic relationships among prokaryotes. How...
Hanno Teeling, Frank Oliver Glöckner
RECOMB
2010
Springer
14 years 5 months ago
Alignment-Free Phylogenetic Reconstruction
We introduce the first polynomial-time phylogenetic reconstruction algorithm under a model of sequence evolution allowing insertions and deletions—or indels. Given appropriate ...
Constantinos Daskalakis, Sébastien Roch
TCBB
2008
101views more  TCBB 2008»
13 years 10 months ago
Improved Layout of Phylogenetic Networks
Split networks are increasingly being used in phylogenetic analysis. Usually, a simple equal-angle algorithm is used to draw such networks, producing layouts that leave much room f...
Philippe Gambette, Daniel H. Huson