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About: Kernel-Based Analysis of Biological Sequences Changes:
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About: Encog is a Machine Learning framework for Java, C#, Javascript and C/C++ that supports SVM's, Genetic Programming, Bayesian Networks, Hidden Markov Models and other algorithms. Changes:Changes for Encog 3.2: Issue #53: Fix Out Of Range Bug In BasicMLSequenceSet. Issue #52: Unhandled exception in Encog.Util.File.ResourceLoader.CreateStream (ResourceLoader.cs) Issue #50: Concurrency bugs in PruneIncremental Issue #48: Unit Tests Failing - TestHessian Issue #46: Couple of small fixes - Temporal DataSet and SCG training Issue #45: Fixed EndMinutesStrategy to correctly evaluate ShouldStop after the specified number of minutes have elapsed. Issue #44: Encog.ML.Data.Basic.BasicMLDataPairCentroid.Add() & .Remove() Issue #43: Unit Tests Failing - Matrix not full rank Issue #42: Nuget - NuSpec Issue #36: Load Examples easier
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About: The EnsembleSVM library offers functionality to perform ensemble learning using Support Vector Machine (SVM) base models. In particular, we offer routines for binary ensemble models using SVM base classifiers. Experimental results have shown the predictive performance to be comparable with standard SVM models but with drastically reduced training time. Ensemble learning with SVM models is particularly useful for semi-supervised tasks. Changes:The library has been updated and features a variety of new functionality as well as more efficient implementations of original features. The following key improvements have been made:
The API and ABI have undergone significant changes, many of which are due to the transition to C++11.
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About: The Rchemcpp package implements the marginalized graph kernel and extensions, Tanimoto kernels, graph kernels, pharmacophore and 3D kernels suggested for measuring the similarity of molecules. Changes:Moved from CRAN to Bioconductor. Improved handling of molecules, visualization and examples.
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About: Support Vectors Machine library in .net with CUDA support. Library includes GPU SVM solver for kernels linear,RBF,Chi-Square and Exp Chi-Square which use NVIDIA CUDA technology. It allows for classification of feature rich sparse datasets through utilization of sparse matrix formats CSR, Ellpack-R or Sliced EllR-T Changes:Initial Announcement on mloss.org.
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About: svm-struct-matlab is a MATLAB wrapper of T. Joachims' SVM^struct solver for structured output support vector machines. Changes:Adds support for Xcode 4.0 and Mac OS X 10.7 and greater.
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About: This package is a set of Matlab scripts that implements the algorithms described in the submitted paper: "Lp-Lq Sparse Linear and Sparse Multiple Kernel MultiTask Learning". Changes:Initial Announcement on mloss.org.
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About: Matlab SVM toolbox for learning large margin filters in signal or images. Changes:Initial Announcement on mloss.org.
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About: BACKGROUND:Over the last decade several prediction methods have been developed for determining the structural and functional properties of individual protein residues using sequence and sequence-derived information. Most of these methods are based on support vector machines as they provide accurate and generalizable prediction models. RESULTS:We present a general purpose protein residue annotation toolkit (svmPRAT) to allow biologists to formulate residue-wise prediction problems. svmPRAT formulates the annotation problem as a classification or regression problem using support vector machines. One of the key features of svmPRAT is its ease of use in incorporating any user-provided information in the form of feature matrices. For every residue svmPRAT captures local information around the reside to create fixed length feature vectors. svmPRAT implements accurate and fast kernel functions, and also introduces a flexible window-based encoding scheme that accurately captures signals and pattern for training eective predictive models. CONCLUSIONS:In this work we evaluate svmPRAT on several classification and regression problems including disorder prediction, residue-wise contact order estimation, DNA-binding site prediction, and local structure alphabet prediction. svmPRAT has also been used for the development of state-of-the-art transmembrane helix prediction method called TOPTMH, and secondary structure prediction method called YASSPP. This toolkit developed provides practitioners an efficient and easy-to-use tool for a wide variety of annotation problems. Availability: http://www.cs.gmu.edu/~mlbio/svmprat/ Changes:Initial Announcement on mloss.org.
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About: Elefant is an open source software platform for the Machine Learning community licensed under the Mozilla Public License (MPL) and developed using Python, C, and C++. We aim to make it the platform [...] Changes:This release contains the Stream module as a first step in the direction of providing C++ library support. Stream aims to be a software framework for the implementation of large scale online learning algorithms. Large scale, in this context, should be understood as something that does not fit in the memory of a standard desktop computer. Added Bundle Methods for Regularized Risk Minimization (BMRM) allowing to choose from a list of loss functions and solvers (linear and quadratic). Added the following loss classes: BinaryClassificationLoss, HingeLoss, SquaredHingeLoss, ExponentialLoss, LogisticLoss, NoveltyLoss, LeastMeanSquareLoss, LeastAbsoluteDeviationLoss, QuantileRegressionLoss, EpsilonInsensitiveLoss, HuberRobustLoss, PoissonRegressionLoss, MultiClassLoss, WinnerTakesAllMultiClassLoss, ScaledSoftMarginMultiClassLoss, SoftmaxMultiClassLoss, MultivariateRegressionLoss Graphical User Interface provides now extensive documentation for each component explaining state variables and port descriptions. Changed saving and loading of experiments to XML (thereby avoiding storage of large input data structures). Unified automatic input checking via new static typing extending Python properties. Full support for recursive composition of larger components containing arbitrary statically typed state variables.
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About: Reference implementation of the LASVM online and active SVM algorithms as described in the JMLR paper. The interesting bit is a small C library that implements the LASVM process and reprocess [...] Changes:Minor bug fix
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About: SVQP1 and SVQP2 are QP solvers for training SVM. Changes:Initial Announcement on mloss.org.
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About: For modern biology, precise genome annotations are of prime importance as they allow the accurate definition of genic regions. We employ state of the art machine learning methods to assay and [...] Changes:Initial Announcement on mloss.org.
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About: Code for automatically selecting the kernel parameters of an SVM. It is based on a gradient descent minimization of either the radius/margin bound, the leave-one-out error, a validation error or the [...] Changes:Initial Announcement on mloss.org.
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