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BMCBI
2010
142views more  BMCBI 2010»
14 years 9 months ago
pplacer: linear time maximum-likelihood and Bayesian phylogenetic placement of sequences onto a fixed reference tree
Background: Likelihood-based phylogenetic inference is generally considered to be the most reliable classification method for unknown sequences. However, traditional likelihood-ba...
Frederick A. Matsen III, Robin B. Kodner, E. Virgi...
BMCBI
2010
124views more  BMCBI 2010»
14 years 9 months ago
Estimating time since infection in early homogeneous HIV-1 samples using a poisson model
Background: The occurrence of a genetic bottleneck in HIV sexual or mother-to-infant transmission has been well documented. This results in a majority of new infections being homo...
Elena E. Giorgi, Bob Funkhouser, Gayathri Athreya,...
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BMCBI
2008
104views more  BMCBI 2008»
14 years 9 months ago
Comparison of methods for estimating the nucleotide substitution matrix
Background: The nucleotide substitution rate matrix is a key parameter of molecular evolution. Several methods for inferring this parameter have been proposed, with different math...
Maribeth Oscamou, Daniel McDonald, Von Bing Yap, G...
CANDC
2008
ACM
14 years 9 months ago
'Genome order index' should not be used for defining compositional constraints in nucleotide sequences
Background: The Z-curve is a three dimensional representation of DNA sequences proposed over a decade ago and has been extensively applied to sequence segmentation, horizontal gen...
Eran Elhaik, Dan Graur, Kresimir Josic
CAD
2006
Springer
14 years 9 months ago
On visual similarity based 2D drawing retrieval
A large amount of 2D drawings have been produced in engineering fields. To reuse and share the available drawings efficiently, we propose two methods in this paper, namely 2.5D sp...
Jiantao Pu, Karthik Ramani