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» Learning Complex Population-Coded Sequences
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JMLR
2008
230views more  JMLR 2008»
13 years 7 months ago
Exponentiated Gradient Algorithms for Conditional Random Fields and Max-Margin Markov Networks
Log-linear and maximum-margin models are two commonly-used methods in supervised machine learning, and are frequently used in structured prediction problems. Efficient learning of...
Michael Collins, Amir Globerson, Terry Koo, Xavier...
BMCBI
2006
166views more  BMCBI 2006»
13 years 8 months ago
bioNMF: a versatile tool for non-negative matrix factorization in biology
Background: In the Bioinformatics field, a great deal of interest has been given to Non-negative matrix factorization technique (NMF), due to its capability of providing new insig...
Alberto D. Pascual-Montano, Pedro Carmona-Saez, Mo...
MSR
2006
ACM
14 years 1 months ago
MAPO: mining API usages from open source repositories
To improve software productivity, when constructing new software systems, developers often reuse existing class libraries or frameworks by invoking their APIs. Those APIs, however...
Tao Xie, Jian Pei
BMCBI
2007
145views more  BMCBI 2007»
13 years 7 months ago
Improved benchmarks for computational motif discovery
Background: An important step in annotation of sequenced genomes is the identification of transcription factor binding sites. More than a hundred different computational methods h...
Geir Kjetil Sandve, Osman Abul, Vegard Walseng, Fi...
JCB
2008
159views more  JCB 2008»
13 years 7 months ago
BayesMD: Flexible Biological Modeling for Motif Discovery
We present BayesMD, a Bayesian Motif Discovery model with several new features. Three different types of biological a priori knowledge are built into the framework in a modular fa...
Man-Hung Eric Tang, Anders Krogh, Ole Winther