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» Phylogenetic Comparative Assembly
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BMCBI
2010
154views more  BMCBI 2010»
14 years 9 months ago
An algorithm for automated closure during assembly
Background: Finishing is the process of improving the quality and utility of draft genome sequences generated by shotgun sequencing and computational assembly. Finishing can invol...
Sergey Koren, Jason R. Miller, Brian Walenz, Grang...
118
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ICPP
2009
IEEE
15 years 4 months ago
Fine-grain Parallelism Using Multi-core, Cell/BE, and GPU Systems: Accelerating the Phylogenetic Likelihood Function
We are currently faced with the situation where applications have increasing computational demands and there is a wide selection of parallel processor systems. In this paper we fo...
Frederico Pratas, Pedro Trancoso, Alexandros Stama...
ISMB
2001
14 years 10 months ago
Designing fast converging phylogenetic methods
Abstract: Absolute fast converging phylogenetic reconstruction methods are provably guaranteed to recover the true tree with high probability from sequences that grow only polynomi...
Luay Nakhleh, Usman Roshan, Katherine St. John, Je...
CORR
2004
Springer
119views Education» more  CORR 2004»
14 years 9 months ago
The Largest Compatible Subset Problem for Phylogenetic Data
Abstract. The phylogenetic tree construction is to infer the evolutionary relationship between species from the experimental data. However, the experimental data are often imperfec...
Andy Auyeung, Ajith Abraham
BMCBI
2008
130views more  BMCBI 2008»
14 years 9 months ago
A database of phylogenetically atypical genes in archaeal and bacterial genomes, identified using the DarkHorse algorithm
Background: The process of horizontal gene transfer (HGT) is believed to be widespread in Bacteria and Archaea, but little comparative data is available addressing its occurrence ...
Sheila Podell, Terry Gaasterland, Eric E. Allen