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About: The CTBN-RLE is a C++ package of executables and libraries for inference and learning algorithms for continuous time Bayesian networks (CTBNs).

Changes:

compilation problems fixed


Logo JMLR LPmade 1.2.2

by rlichten - April 2, 2012, 17:11:59 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 16250 views, 6560 downloads, 1 subscription

About: Link Prediction Made Easy

Changes:

v1.2.2

  • Fixed MAJOR issue related to github migration several months ago. The original github commit neglected to import empty folders. This caused parts of the project compilation procedure to fail. Any users of LPmade who downloaded the most recent version from github over the last several months would have encountered this build error and should download the most recent version. This change updates the network library makefile to create the empty folders and gets around the issue. Very sorry to anybody that this may have inconvenienced, but thanks for hanging in there if you diagnosed and solved it yourself.

  • Fixed issue with auroc on 32-bit architectures that caused integer wraparounds that produced incorrect results.


Logo JMLR libDAI 0.3.1

by jorism - September 17, 2012, 14:17:03 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 33147 views, 6210 downloads, 2 subscriptions

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About: libDAI provides free & open source implementations of various (approximate) inference methods for graphical models with discrete variables, including Bayesian networks and Markov Random Fields.

Changes:

Release 0.3.1 fixes various bugs. The issues on 64-bit Windows platforms have been fixed and libDAI now offers full 64-bit support on all supported platforms (Linux, Mac OSX, Windows).


Logo JMLR MLPACK 1.0.9

by rcurtin - July 28, 2014, 20:52:10 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 30803 views, 6195 downloads, 6 subscriptions

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About: A scalable, fast C++ machine learning library, with emphasis on usability.

Changes:
  • GMM initialization is now safer and provides a working GMM when constructed with only the dimensionality and number of Gaussians (#314).
  • Check for division by 0 in Forward-Backward Algorithm in HMMs (#314).
  • Fix MaxVarianceNewCluster (used when re-initializing clusters for k-means) (#314).
  • Fixed implementation of Viterbi algorithm in HMM::Predict() (#316).
  • Significant speedups for dual-tree algorithms using the cover tree (#243, #329) including a faster implementation of FastMKS.
  • Fix for LRSDP optimizer so that it compiles and can be used (#325).
  • CF (collaborative filtering) now expects users and items to be zero-indexed, not one-indexed (#324).
  • CF::GetRecommendations() API change: now requires the number of recommendations as the first parameter. The number of users in the local neighborhood should be specified with CF::NumUsersForSimilarity().
  • Removed incorrect PeriodicHRectBound (#30).
  • Refactor LRSDP into LRSDP class and standalone function to be optimized (#318).
  • Fix for centering in kernel PCA (#355).
  • Added simulated annealing (SA) optimizer, contributed by Zhihao Lou.
  • HMMs now support initial state probabilities; these can be set in the constructor, trained, or set manually with HMM::Initial() (#315).
  • Added Nyström method for kernel matrix approximation by Marcus Edel.
  • Kernel PCA now supports using Nyström method for approximation.
  • Ball trees now work with dual-tree algorithms, via the BallBound<> bound structure (#320); fixed by Yash Vadalia.
  • The NMF class is now AMF<>, and supports far more types of factorizations, by Sumedh Ghaisas.
  • A QUIC-SVD implementation has returned, written by Siddharth Agrawal and based on older code from Mudit Gupta.
  • Added perceptron and decision stump by Udit Saxena (these are weak learners for an eventual AdaBoost class).
  • Sparse autoencoder added by Siddharth Agrawal.

Logo NaN toolbox 2.5.2

by schloegl - February 10, 2012, 11:45:52 CET [ Project Homepage BibTeX Download ] 28240 views, 5756 downloads, 1 subscription

About: NaN-toolbox is a statistics and machine learning toolbox for handling data with and without missing values.

Changes:

Changes in v.2.5.2 - faster version of quantile if multiple quantiles are requested - removes the dependency on ZLIB and thus - fixes "pkg install nan" for Octave on Windows - a number of minor improvements

For details see the CHANGELOG at http://pub.ist.ac.at/~schloegl/matlab/NaN/CHANGELOG


Logo JMLR Mulan 1.4.0

by lefman - August 1, 2012, 09:49:21 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 13383 views, 5711 downloads, 1 subscription

About: Mulan is an open-source Java library for learning from multi-label datasets. Multi-label datasets consist of training examples of a target function that has multiple binary target variables. This means that each item of a multi-label dataset can be a member of multiple categories or annotated by many labels (classes). This is actually the nature of many real world problems such as semantic annotation of images and video, web page categorization, direct marketing, functional genomics and music categorization into genres and emotions.

Changes:

Learners

  • BinaryRelevance.java: improved data handling that avoids copying the entire input space, leading to important speedups in case of large datasets and very large number of labels.
  • RAkEL.java: updated technical information, added a check for the case where the number of labels is less or equal than the size of the subset.
  • MultiLabelKNN.java: now checks whether the number of instances is less than the number of requested nearest neighbors.
  • Addition of AdaBoostMH.java, an explicit implementation of AdaBoost.MH as combination of AdaBoostM1 and IncludeLabelsClassifier.
  • Addition of MLPTO.java, the Multi Label Probabilistic Threshold Optimizer (MLTPTO) thresholding technique.
  • Addition of ApproximateExampleBasedFMeasureOptimizer.java, an approximate method for the maximization of example-based F-measure.

Measures/Evaluation

  • Addition of Specificity measure (example-based, micro/macro label-based)
  • Addition of Mean Average Interpolated Precision (MAiP), Geometric Mean Average Precision (GMAP), Geometric Mean Average Interpolated Precision (GMAiP).
  • New methods for stratified multi-label evaluation.
  • Added support for outputting per label results for all measures that implement the MacroAverageMeasure interface.
  • Simplifying the "strictness" issue of information retrieval measures, by adopting specific assumptions (outlined in the new class InformationRetrievalMeasures.java) to handle special cases, instead of the less clear and useful solution of outputting NaN and the less realistic solution or ignoring special cases.

Bug fixes

  • Bug fix in LabelsBuilder.java.
  • Bug fix in Ranker.java.
  • Bug-fix in ThresholdPrediction.java.
  • Fix for bug occurring when loading the XSD for mulan data outside the command-line environment (e.g. web applications).
  • Javadoc comment updates.

API changes

  • Upgrade to Java 1.6
  • Upgrade to JUnit 4.10
  • Upgrade to Weka 3.7.6.

Miscellaneous

  • Meaningful messages are now shown when a DataLoadException is thrown.
  • PT6(PT6Transformation.java): renamed to IncludeLabelsTransformation.java.
  • MultiLabelInstances now support serialization, as needed by the improved binary relevance transformation.
  • BinaryRelevanceAttributeEvaluator.java: updated according to latest BR improvements.

Logo JMLR Darwin 1.7

by sgould - January 10, 2014, 01:33:01 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 25976 views, 5519 downloads, 2 subscriptions

About: A platform-independent C++ framework for machine learning, graphical models, and computer vision research and development.

Changes:

Version 1.7:

  • Log file now shows the command line
  • Utility application added for viewing multi-class segmentation legend
  • Added LBP filter response features to multi-class segmentation model
  • Added drwnColourHistogram class
  • Added k-means segmentation method for creating superpixels
  • Application visualizeSuperpixels and mex routines for loading and saving superpixels
  • Improved mex parsing of Matlab objects to support more matrix types
  • Bug fix in drwnOptimizer (thanks to Subarna Tripathi)
  • Updated copyright notice to 2007-2014
  • Other bug fixes and performance improvements

Version 1.6.1:

  • Maximum size of drwnShowDebuggingImage can be set from command line
  • Windows MSVC projects updated to link against OpenCV 2.4.6
  • Fixes for gcc 4.7 (thanks to Sarma Tangirala)
  • Bug fixes and performance improvements

Version 1.6:

  • Changed vision code from OpenCV 1.x C API to OpenCV 2.x C++ API
  • Added drwnHistogram class by Jason Corso
  • Added separate EPSG, EPSF and EPSX parameters to drwnOptimizer and changed signature of solve function
  • Added "-outUnary" option to inferPixelLabels for writing out unary potentials
  • Improved Matlab mex interfaces
  • Added drwnFeatureTransformFactory and improved drwnFactory class
  • Added drwnLinearTransform class
  • Bug fixes and performance improvements

Logo WEKA 3.7.11

by mhall - April 24, 2014, 10:13:12 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 38279 views, 5505 downloads, 2 subscriptions

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About: The Weka workbench contains a collection of visualization tools and algorithms for data analysis and predictive modelling, together with graphical user interfaces for easy access to this [...]

Changes:

In core weka:

  • Bagging and RandomForest are now faster if the base learner is a WeightedInstancesHandler
  • Speed-ups for REPTree and other classes that use entropy calculations
  • Many other code improvements and speed-ups
  • Additional statistics available in the output of LinearRegression and SimpleLinearRegression. Contributed by Chris Meyer
  • Reduced memory consumption in BayesNet
  • Improvements to the package manager: load status of individual packages can now be toggled to prevent a package from loading; "Available" button now displays the latest version of all available packages that are compatible with the base version of Weka
  • RandomizableFilteredClassifier
  • Canopy clusterer
  • ImageViewer KnowledgeFlow component
  • PMML export support for Logistic. Infrastructure and changes contributed by David Person
  • Extensive tool-tips now displayed in the Explorer's scheme selector tree lists
  • Join KnowledgeFlow component for performing an inner join on two incoming streams/data sets

In packages:

  • IWSSembeded package, contributed by Pablo Bermejo
  • CVAttributeEval package, contributed by Justin Liang
  • distributedWeka package for Hadoop
  • Improvements to multiLayerPerceptrons and addtion of MLPAutoencoder
  • Code clean-up in many packages

Logo PyMVPA Multivariate Pattern Analysis in Python 2.0.0

by yarikoptic - December 22, 2011, 01:36:32 CET [ Project Homepage BibTeX BibTeX for corresponding Paper Download ] 28836 views, 5318 downloads, 1 subscription

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About: Python module to ease pattern classification analyses of large datasets. It provides high-level abstraction of typical processing steps (e.g. data preparation, classification, feature selection, [...]

Changes:
  • 2.0.0 (Mon, Dec 19 2011)

This release aggregates all the changes occurred between official releases in 0.4 series and various snapshot releases (in 0.5 and 0.6 series). To get better overview of high level changes see :ref:release notes for 0.5 <chap_release_notes_0.5> and :ref:0.6 <chap_release_notes_0.6> as well as summaries of release candidates below

  • Fixes (23 BF commits)

    • significance level in the right tail was fixed to include the value tested -- otherwise resulted in optimistic bias (or absurdly high significance in improbable case if all estimates having the same value)
    • compatible with the upcoming IPython 0.12 and renamed sklearn (Fixes #57)
    • do not double-train slave classifiers while assessing sensitivities (Fixes #53)
  • Enhancements (30 ENH + 3 NF commits)

    • resolving voting ties in kNN based on mean distance, and randomly in SMLR
    • :class:kNN's ca.estimates now contains dictionaries with votes for each class
    • consistent zscoring in :class:Hyperalignment
  • 2.0.0~rc5 (Wed, Oct 19 2011)

  • Major: to allow easy co-existence of stable PyMVPA 0.4.x, 0.6 development mvpa module was renamed into mod:mvpa2.

  • Fixes

    • compatible with the new Shogun 1.x series
    • compatible with the new h5py 2.x series
    • mvpa-prep-fmri -- various compatibility fixes and smoke testing
    • deepcopying :class:SummaryStatistics during add
  • Enhancements

    • tutorial uses :mod:mvpa2.tutorial_suite now
    • better suppression of R warnings when needed
    • internal attributes of many classes were exposed as properties
    • more unification of __repr__ for many classes
  • 0.6.0~rc4 (Wed, Jun 14 2011)

  • Fixes

    • Finished transition to :mod:nibabel conventions in plot_lightbox
    • Addressed :mod:matplotlib.hist API change
    • Various adjustments in the tests batteries (:mod:nibabel 1.1.0 compatibility, etc)
  • New functionality

    • Explicit new argument flatten to from_wizard -- default behavior changed if mapper was provided as well
  • Enhancements

    • Elaborated __str__ and __repr__ for some Classifiers and Measures
  • 0.6.0~rc3 (Thu, Apr 12 2011)

  • Fixes

    • Bugfixes regarding the interaction of FlattenMapper and BoxcarMapper that affected event-related analyses.
    • Splitter now handles attribute value None for splitting properly.
    • GNBSearchlight handling of
      roi_ids.
    • More robust detection of mod:scikits.learn and :mod:nipy externals.
  • New functionality

    • Added a Repeater node to yield a dataset multiple times and
      Sifter node to exclude some datasets. Consequently, the "nosplitting" mode of Splitter got removed at the same time.
    • :file:tools/niils -- little tool to list details (dimensionality, scaling, etc) of the files in nibabel-supported formats.
  • Enhancements

    • Numerous documentation fixes.
    • Various improvements and increased flexibility of null distribution estimation of Measures.
    • All attribute are now reported in sorted order when printing a dataset.
    • fmri_dataset now also stores the input image type.
    • Crossvalidation can now take a custom Splitter instance. Moreover, the default splitter of CrossValidation is more robust in terms of number and type of created splits for common usage patterns (i.e. together with partitioners).
    • CrossValidation takes any custom Node as errorfx argument.
    • ConfusionMatrix can now be used as an errorfx in Crossvalidation.
    • LOE(ACC): Linear Order Effect in ACC was added to
      ConfusionMatrix to detect trends in performances across splits.
    • A Node s postproc is now accessible as a property.
    • RepeatedMeasure has a new 'concat_as' argument that allows results to be concatenated along the feature axis. The default behavior, stacking as multiple samples, is unchanged.
    • Searchlight now has the ability to mark the center/seed of an ROI in with a feature attribute in the generated datasets.
    • debug takes args parameter for delayed string comprehensions. It should reduce run-time impact of debug() calls in regular, non -O mode of Python operation.
    • String summaries and representations (provided by __str__ and __repr__) were made more exhaustive and more coherent. Additional properties to access initial constructor arguments were added to variety of classes.
  • Internal changes

    • New debug target STDOUT to allow attaching metrics (e.g. traceback, timestamps) to regular output printed to stdout

    • New set of decorators to help with unittests

    • @nodebug to disable specific debug targets for the duration of the test.

    • @reseed_rng to guarantee consistent random data given initial seeding.

    • @with_tempfile to provide a tempfile name which would get removed upon completion (test success or failure)

    • Dropping daily testing of maint/0.5 branch -- RIP.

    • Collection s were provided with adequate (deep|)copy. And Dataset was refactored to use Collection s copy method.

    • update-* Makefile rules automatically should fast-forward corresponding website-updates branch

    • MVPA_TESTS_VERBOSITY controls also :mod:numpy warnings now.

    • Dataset.__array__ provides original array instead of copy (unless dtype is provided)

Also adapts changes from 0.4.6 and 0.4.7 (see corresponding changelogs).

  • 0.6.0~rc2 (Thu, Mar 3 2011)

  • Various fixes in the mvpa.atlas module.

  • 0.6.0~rc1 (Thu, Feb 24 2011)

  • Many, many, many

  • For an overview of the most drastic changes :ref:see constantly evolving release notes for 0.6 <chap_release_notes_0.6>

  • 0.5.0 (sometime in March 2010)

This is a special release, because it has never seen the general public. A summary of fundamental changes introduced in this development version can be seen in the :ref:release notes <chap_release_notes_0.5>.

Most notably, this version was to first to come with a comprehensive two-day workshop/tutorial.

  • 0.4.7 (Tue, Mar 07 2011) (Total: 12 commits)

A bugfix release

  • Fixed

    • Addressed the issue with input NIfTI files having scl_ fields set: it could result in incorrect analyses and map2nifti-produced NIfTI files. Now input files account for scaling/offset if scl_ fields direct to do so. Moreover upon map2nifti, those fields get reset.
    • :file:doc/examples/searchlight_minimal.py - best error is the minimal one
  • Enhancements

    • :class:~mvpa.clfs.gnb.GNB can now tolerate training datasets with a single label
    • :class:~mvpa.clfs.meta.TreeClassifier can have trailing nodes with no classifier assigned
  • 0.4.6 (Tue, Feb 01 2011) (Total: 20 commits)

A bugfix release

  • Fixed (few BF commits):

    • Compatibility with numpy 1.5.1 (histogram) and scipy 0.8.0 (workaround for a regression in legendre)
    • Compatibility with libsvm 3.0
    • :class:~mvpa.clfs.plr.PLR robustification
  • Enhancements

    • Enforce suppression of numpy warnings while running unittests. Also setting verbosity >= 3 enables all warnings (Python, NumPy, and PyMVPA)
    • :file:doc/examples/nested_cv.py example (adopted from 0.5)
    • Introduced base class :class:~mvpa.clfs.base.LearnerError for classifiers' exceptions (adopted from 0.5)
    • Adjusted example data to live upto nibabel's warranty of NIfTI standard-compliance
    • More robust operation of MC iterations -- skip iterations where classifier experienced difficulties and raise an exception (e.g. due to degenerate data)

Logo JMLR Shark 2.3.0

by igel - October 24, 2009, 22:12:48 CET [ Project Homepage BibTeX Download ] 25421 views, 5136 downloads, 1 subscription

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About: SHARK is a modular C++ library for the design and optimization of adaptive systems. It provides various machine learning and computational intelligence techniques.

Changes:
  • new build system
  • minor bug fixes

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