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Wed, 20 Aug 2014

Package mvnfast updated to version 0.1.3 with previous version 0.1.2 dated 2014-06-16

Title: Fast multivariate normal methods
Description: The package provides computationally efficient tools related to the multivariate normal distribution. The main functionalities are: simulating multivariate normal random vectors, evaluating multivariate normal densities and Mahalanobis distances. These tools are very efficient thanks to the use of C++ code and of the OpenMP API.
Author: Matteo Fasiolo, using the C++ parallel RNG of Thijs van den Berg and Ziggurat algorithm of Jens Maurer and Steven Watanabe (boost)
Maintainer: Matteo Fasiolo

Diff between mvnfast versions 0.1.2 dated 2014-06-16 and 0.1.3 dated 2014-08-20

 DESCRIPTION           |    6 +++---
 MD5                   |   16 ++++++++--------
 NAMESPACE             |    2 +-
 build/vignette.rds    |binary
 inst/doc/mvnfast.html |   24 ++++++++++++------------
 src/dmvnCpp.cpp       |    5 +++++
 src/mahaCpp.cpp       |    1 +
 src/msCpp.cpp         |    3 +++
 src/rmvnCpp.cpp       |   35 ++++++++++++++++++++---------------
 9 files changed, 53 insertions(+), 39 deletions(-)

More information about mvnfast at CRAN
Permanent link

Package RcppMLPACK updated to version 1.0.9-3 with previous version 1.0.9 dated 2014-08-11

Title: Rcpp integration for MLPACK library
Description: MLPACK is an intuitive, fast, scalable C++ machine learning library, meant to be a machine learning analog to LAPACK. It aims to implement a wide array of machine learning methods and function as a Swiss army knife for machine learning researchers: MLPACK is from http://www.mlpack.org/: sources are included in the package.
Author: Qiang Kou
Maintainer: Qiang Kou

Diff between RcppMLPACK versions 1.0.9 dated 2014-08-11 and 1.0.9-3 dated 2014-08-20

 DESCRIPTION                                                                           |    8 
 MD5                                                                                   |  710 +++++-----
 build/vignette.rds                                                                    |binary
 inst/doc/RcppMLPACK-intro.pdf                                                         |binary
 inst/include/mlpack/core/arma_extend/typedef.hpp                                      |    2 
 inst/include/mlpack/core/data/load_impl.hpp                                           |    2 
 inst/include/mlpack/core/data/normalize_labels.hpp                                    |    4 
 inst/include/mlpack/core/data/normalize_labels_impl.hpp                               |   12 
 inst/include/mlpack/core/data/save_impl.hpp                                           |    2 
 inst/include/mlpack/core/dists/discrete_distribution.hpp                              |   12 
 inst/include/mlpack/core/dists/gaussian_distribution.hpp                              |    4 
 inst/include/mlpack/core/dists/laplace_distribution.hpp                               |    6 
 inst/include/mlpack/core/kernels/epanechnikov_kernel.hpp                              |    2 
 inst/include/mlpack/core/kernels/example_kernel.hpp                                   |    2 
 inst/include/mlpack/core/kernels/gaussian_kernel.hpp                                  |    2 
 inst/include/mlpack/core/kernels/pspectrum_string_kernel.hpp                          |   10 
 inst/include/mlpack/core/kernels/spherical_kernel.hpp                                 |    2 
 inst/include/mlpack/core/math/lin_alg.hpp                                             |    2 
 inst/include/mlpack/core/math/random.hpp                                              |    4 
 inst/include/mlpack/core/metrics/lmetric_impl.hpp                                     |    4 
 inst/include/mlpack/core/metrics/mahalanobis_distance.hpp                             |    2 
 inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian.hpp                 |   10 
 inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function_impl.hpp   |    4 
 inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_impl.hpp            |   14 
 inst/include/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.hpp  |   20 
 inst/include/mlpack/core/optimizers/lbfgs/lbfgs.hpp                                   |   32 
 inst/include/mlpack/core/optimizers/lbfgs/lbfgs_impl.hpp                              |   32 
 inst/include/mlpack/core/optimizers/lbfgs/test_functions.hpp                          |    6 
 inst/include/mlpack/core/optimizers/lrsdp/lrsdp.hpp                                   |    4 
 inst/include/mlpack/core/optimizers/lrsdp/lrsdp_function.hpp                          |    8 
 inst/include/mlpack/core/optimizers/sa/sa.hpp                                         |   38 
 inst/include/mlpack/core/optimizers/sa/sa_impl.hpp                                    |   34 
 inst/include/mlpack/core/optimizers/sgd/sgd.hpp                                       |   14 
 inst/include/mlpack/core/optimizers/sgd/sgd_impl.hpp                                  |   10 
 inst/include/mlpack/core/optimizers/sgd/test_function.hpp                             |    6 
 inst/include/mlpack/core/tree/ballbound.hpp                                           |    4 
 inst/include/mlpack/core/tree/ballbound_impl.hpp                                      |    6 
 inst/include/mlpack/core/tree/binary_space_tree/binary_space_tree.hpp                 |   94 -
 inst/include/mlpack/core/tree/binary_space_tree/binary_space_tree_impl.hpp            |   86 -
 inst/include/mlpack/core/tree/binary_space_tree/dual_tree_traverser.hpp               |   24 
 inst/include/mlpack/core/tree/binary_space_tree/dual_tree_traverser_impl.hpp          |    4 
 inst/include/mlpack/core/tree/binary_space_tree/mean_split.hpp                        |   36 
 inst/include/mlpack/core/tree/binary_space_tree/mean_split_impl.hpp                   |   50 
 inst/include/mlpack/core/tree/binary_space_tree/single_tree_traverser.hpp             |    8 
 inst/include/mlpack/core/tree/binary_space_tree/single_tree_traverser_impl.hpp        |    6 
 inst/include/mlpack/core/tree/cosine_tree/cosine_tree.hpp                             |   24 
 inst/include/mlpack/core/tree/cover_tree/cover_tree.hpp                               |   86 -
 inst/include/mlpack/core/tree/cover_tree/cover_tree_impl.hpp                          |  172 +-
 inst/include/mlpack/core/tree/cover_tree/dual_tree_traverser.hpp                      |   12 
 inst/include/mlpack/core/tree/cover_tree/dual_tree_traverser_impl.hpp                 |   12 
 inst/include/mlpack/core/tree/cover_tree/first_point_is_root.hpp                      |    2 
 inst/include/mlpack/core/tree/cover_tree/single_tree_traverser.hpp                    |    8 
 inst/include/mlpack/core/tree/cover_tree/single_tree_traverser_impl.hpp               |   18 
 inst/include/mlpack/core/tree/example_tree.hpp                                        |   14 
 inst/include/mlpack/core/tree/hrectbound.hpp                                          |   10 
 inst/include/mlpack/core/tree/hrectbound_impl.hpp                                     |   32 
 inst/include/mlpack/core/tree/mrkd_statistic.hpp                                      |   24 
 inst/include/mlpack/core/tree/mrkd_statistic_impl.hpp                                 |    8 
 inst/include/mlpack/core/util/prefixedoutstream_impl.hpp                              |    4 
 inst/include/mlpack/core/util/string_util.hpp                                         |    2 
 inst/include/mlpack/methods/amf/amf.hpp                                               |    4 
 inst/include/mlpack/methods/amf/amf_impl.hpp                                          |    4 
 inst/include/mlpack/methods/amf/init_rules/random_acol_init.hpp                       |   10 
 inst/include/mlpack/methods/amf/init_rules/random_init.hpp                            |    6 
 inst/include/mlpack/methods/amf/termination_policies/complete_incremental.hpp         |    8 
 inst/include/mlpack/methods/amf/termination_policies/incomplete_incremental.hpp       |    8 
 inst/include/mlpack/methods/amf/termination_policies/simple_residue_termination.hpp   |   16 
 inst/include/mlpack/methods/amf/termination_policies/simple_tolerance_termination.hpp |   26 
 inst/include/mlpack/methods/amf/termination_policies/validation_RMSE_termination.hpp  |   36 
 inst/include/mlpack/methods/amf/update_rules/nmf_als.hpp                              |    6 
 inst/include/mlpack/methods/amf/update_rules/nmf_mult_dist.hpp                        |    2 
 inst/include/mlpack/methods/amf/update_rules/nmf_mult_div.hpp                         |   14 
 inst/include/mlpack/methods/amf/update_rules/svd_batch_learning.hpp                   |   46 
 inst/include/mlpack/methods/amf/update_rules/svd_complete_incremental_learning.hpp    |   24 
 inst/include/mlpack/methods/amf/update_rules/svd_incomplete_incremental_learning.hpp  |   16 
 inst/include/mlpack/methods/cf/cf.hpp                                                 |   42 
 inst/include/mlpack/methods/cf/cf_impl.hpp                                            |   48 
 inst/include/mlpack/methods/decision_stump/decision_stump.hpp                         |   22 
 inst/include/mlpack/methods/decision_stump/decision_stump_impl.hpp                    |   32 
 inst/include/mlpack/methods/det/dt_utils.hpp                                          |   10 
 inst/include/mlpack/methods/det/dtree.hpp                                             |   50 
 inst/include/mlpack/methods/emst/dtb.hpp                                              |    8 
 inst/include/mlpack/methods/emst/dtb_impl.hpp                                         |   38 
 inst/include/mlpack/methods/emst/dtb_rules.hpp                                        |   28 
 inst/include/mlpack/methods/emst/dtb_rules_impl.hpp                                   |   30 
 inst/include/mlpack/methods/emst/edge_pair.hpp                                        |   14 
 inst/include/mlpack/methods/emst/union_find.hpp                                       |   14 
 inst/include/mlpack/methods/fastmks/fastmks.hpp                                       |   12 
 inst/include/mlpack/methods/fastmks/fastmks_impl.hpp                                  |   48 
 inst/include/mlpack/methods/fastmks/fastmks_rules.hpp                                 |   32 
 inst/include/mlpack/methods/fastmks/fastmks_rules_impl.hpp                            |   30 
 inst/include/mlpack/methods/gmm/eigenvalue_ratio_constraint.hpp                       |    2 
 inst/include/mlpack/methods/gmm/em_fit.hpp                                            |   12 
 inst/include/mlpack/methods/gmm/em_fit_impl.hpp                                       |   38 
 inst/include/mlpack/methods/gmm/gmm.hpp                                               |   26 
 inst/include/mlpack/methods/gmm/gmm_impl.hpp                                          |   42 
 inst/include/mlpack/methods/gmm/phi.hpp                                               |    4 
 inst/include/mlpack/methods/hmm/hmm.hpp                                               |   20 
 inst/include/mlpack/methods/hmm/hmm_impl.hpp                                          |   70 
 inst/include/mlpack/methods/kernel_pca/kernel_pca.hpp                                 |    4 
 inst/include/mlpack/methods/kernel_pca/kernel_pca_impl.hpp                            |    4 
 inst/include/mlpack/methods/kernel_pca/kernel_rules/naive_method.hpp                  |   12 
 inst/include/mlpack/methods/kernel_pca/kernel_rules/nystroem_method.hpp               |    2 
 inst/include/mlpack/methods/kmeans/allow_empty_clusters.hpp                           |    8 
 inst/include/mlpack/methods/kmeans/kmeans.hpp                                         |   24 
 inst/include/mlpack/methods/kmeans/kmeans_impl.hpp                                    |   86 -
 inst/include/mlpack/methods/kmeans/max_variance_new_cluster.hpp                       |    8 
 inst/include/mlpack/methods/kmeans/max_variance_new_cluster_impl.hpp                  |   16 
 inst/include/mlpack/methods/kmeans/random_partition.hpp                               |    6 
 inst/include/mlpack/methods/kmeans/refined_start.hpp                                  |   12 
 inst/include/mlpack/methods/kmeans/refined_start_impl.hpp                             |   20 
 inst/include/mlpack/methods/lars/lars.hpp                                             |   14 
 inst/include/mlpack/methods/local_coordinate_coding/lcc.hpp                           |    6 
 inst/include/mlpack/methods/local_coordinate_coding/lcc_impl.hpp                      |   54 
 inst/include/mlpack/methods/logistic_regression/logistic_regression_function.hpp      |    6 
 inst/include/mlpack/methods/logistic_regression/logistic_regression_impl.hpp          |    4 
 inst/include/mlpack/methods/lsh/lsh_search.hpp                                        |   48 
 inst/include/mlpack/methods/lsh/lsh_search_impl.hpp                                   |   96 -
 inst/include/mlpack/methods/mvu/mvu.hpp                                               |    4 
 inst/include/mlpack/methods/naive_bayes/naive_bayes_classifier.hpp                    |   10 
 inst/include/mlpack/methods/naive_bayes/naive_bayes_classifier_impl.hpp               |   34 
 inst/include/mlpack/methods/nca/nca.hpp                                               |    6 
 inst/include/mlpack/methods/nca/nca_impl.hpp                                          |    2 
 inst/include/mlpack/methods/nca/nca_softmax_error_function.hpp                        |   10 
 inst/include/mlpack/methods/nca/nca_softmax_error_function_impl.hpp                   |   20 
 inst/include/mlpack/methods/neighbor_search/neighbor_search.hpp                       |    8 
 inst/include/mlpack/methods/neighbor_search/neighbor_search_impl.hpp                  |   32 
 inst/include/mlpack/methods/neighbor_search/neighbor_search_rules.hpp                 |   32 
 inst/include/mlpack/methods/neighbor_search/neighbor_search_rules_impl.hpp            |   32 
 inst/include/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort.hpp  |    8 
 inst/include/mlpack/methods/neighbor_search/sort_policies/nearest_neighbor_sort.hpp   |    8 
 inst/include/mlpack/methods/neighbor_search/unmap.hpp                                 |   14 
 inst/include/mlpack/methods/nystroem_method/kmeans_selection.hpp                      |   10 
 inst/include/mlpack/methods/nystroem_method/nystroem_method.hpp                       |   10 
 inst/include/mlpack/methods/nystroem_method/nystroem_method_impl.hpp                  |   24 
 inst/include/mlpack/methods/nystroem_method/ordered_selection.hpp                     |   10 
 inst/include/mlpack/methods/nystroem_method/random_selection.hpp                      |   10 
 inst/include/mlpack/methods/pca/pca.hpp                                               |   10 
 inst/include/mlpack/methods/perceptron/initialization_methods/random_init.hpp         |    8 
 inst/include/mlpack/methods/perceptron/initialization_methods/zero_init.hpp           |    8 
 inst/include/mlpack/methods/perceptron/learning_policies/simple_weight_update.hpp     |   10 
 inst/include/mlpack/methods/perceptron/perceptron.hpp                                 |   10 
 inst/include/mlpack/methods/perceptron/perceptron_impl.hpp                            |   16 
 inst/include/mlpack/methods/radical/radical.hpp                                       |   32 
 inst/include/mlpack/methods/range_search/range_search.hpp                             |   12 
 inst/include/mlpack/methods/range_search/range_search_impl.hpp                        |   36 
 inst/include/mlpack/methods/range_search/range_search_rules.hpp                       |   20 
 inst/include/mlpack/methods/range_search/range_search_rules_impl.hpp                  |   24 
 inst/include/mlpack/methods/range_search/range_search_stat.hpp                        |    4 
 inst/include/mlpack/methods/rann/ra_query_stat.hpp                                    |    6 
 inst/include/mlpack/methods/rann/ra_search.hpp                                        |   12 
 inst/include/mlpack/methods/rann/ra_search_impl.hpp                                   |   40 
 inst/include/mlpack/methods/rann/ra_search_rules.hpp                                  |   50 
 inst/include/mlpack/methods/rann/ra_search_rules_impl.hpp                             |  170 +-
 inst/include/mlpack/methods/regularized_svd/regularized_svd.hpp                       |    8 
 inst/include/mlpack/methods/regularized_svd/regularized_svd_function.hpp              |   18 
 inst/include/mlpack/methods/regularized_svd/regularized_svd_impl.hpp                  |    8 
 inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder.hpp                 |   24 
 inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder_function.hpp        |   16 
 inst/include/mlpack/methods/sparse_autoencoder/sparse_autoencoder_impl.hpp            |    8 
 inst/include/mlpack/methods/sparse_coding/data_dependent_random_initializer.hpp       |    8 
 inst/include/mlpack/methods/sparse_coding/nothing_initializer.hpp                     |    6 
 inst/include/mlpack/methods/sparse_coding/random_initializer.hpp                      |    8 
 inst/include/mlpack/methods/sparse_coding/sparse_coding.hpp                           |   10 
 inst/include/mlpack/methods/sparse_coding/sparse_coding_impl.hpp                      |   34 
 inst/skeleton/kmeans.cpp                                                              |    4 
 src/Makevars                                                                          |    2 
 src/Makevars.win                                                                      |    2 
 src/kmeans.cpp                                                                        |    2 
 src/mlpack/core/arma_extend/typedef.hpp                                               |    2 
 src/mlpack/core/data/load_impl.hpp                                                    |    2 
 src/mlpack/core/data/normalize_labels.hpp                                             |    4 
 src/mlpack/core/data/normalize_labels_impl.hpp                                        |   12 
 src/mlpack/core/data/save_impl.hpp                                                    |    2 
 src/mlpack/core/dists/discrete_distribution.cpp                                       |   14 
 src/mlpack/core/dists/discrete_distribution.hpp                                       |   12 
 src/mlpack/core/dists/gaussian_distribution.cpp                                       |    8 
 src/mlpack/core/dists/gaussian_distribution.hpp                                       |    4 
 src/mlpack/core/dists/laplace_distribution.cpp                                        |    6 
 src/mlpack/core/dists/laplace_distribution.hpp                                        |    6 
 src/mlpack/core/kernels/epanechnikov_kernel.cpp                                       |    2 
 src/mlpack/core/kernels/epanechnikov_kernel.hpp                                       |    2 
 src/mlpack/core/kernels/example_kernel.hpp                                            |    2 
 src/mlpack/core/kernels/gaussian_kernel.hpp                                           |    2 
 src/mlpack/core/kernels/pspectrum_string_kernel.cpp                                   |   10 
 src/mlpack/core/kernels/pspectrum_string_kernel.hpp                                   |   10 
 src/mlpack/core/kernels/spherical_kernel.hpp                                          |    2 
 src/mlpack/core/math/lin_alg.cpp                                                      |   18 
 src/mlpack/core/math/lin_alg.hpp                                                      |    2 
 src/mlpack/core/math/random.hpp                                                       |    4 
 src/mlpack/core/metrics/lmetric_impl.hpp                                              |    4 
 src/mlpack/core/metrics/mahalanobis_distance.hpp                                      |    2 
 src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian.hpp                          |   10 
 src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_function_impl.hpp            |    4 
 src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_impl.hpp                     |   14 
 src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.cpp           |   34 
 src/mlpack/core/optimizers/aug_lagrangian/aug_lagrangian_test_functions.hpp           |   20 
 src/mlpack/core/optimizers/lbfgs/lbfgs.hpp                                            |   32 
 src/mlpack/core/optimizers/lbfgs/lbfgs_impl.hpp                                       |   32 
 src/mlpack/core/optimizers/lbfgs/test_functions.cpp                                   |    4 
 src/mlpack/core/optimizers/lbfgs/test_functions.hpp                                   |    6 
 src/mlpack/core/optimizers/lrsdp/lrsdp.cpp                                            |    2 
 src/mlpack/core/optimizers/lrsdp/lrsdp.hpp                                            |    4 
 src/mlpack/core/optimizers/lrsdp/lrsdp_function.cpp                                   |   18 
 src/mlpack/core/optimizers/lrsdp/lrsdp_function.hpp                                   |    8 
 src/mlpack/core/optimizers/sa/sa.hpp                                                  |   38 
 src/mlpack/core/optimizers/sa/sa_impl.hpp                                             |   34 
 src/mlpack/core/optimizers/sgd/sgd.hpp                                                |   14 
 src/mlpack/core/optimizers/sgd/sgd_impl.hpp                                           |   10 
 src/mlpack/core/optimizers/sgd/test_function.cpp                                      |    4 
 src/mlpack/core/optimizers/sgd/test_function.hpp                                      |    6 
 src/mlpack/core/tree/ballbound.hpp                                                    |    4 
 src/mlpack/core/tree/ballbound_impl.hpp                                               |    6 
 src/mlpack/core/tree/binary_space_tree/binary_space_tree.hpp                          |   94 -
 src/mlpack/core/tree/binary_space_tree/binary_space_tree_impl.hpp                     |   86 -
 src/mlpack/core/tree/binary_space_tree/dual_tree_traverser.hpp                        |   24 
 src/mlpack/core/tree/binary_space_tree/dual_tree_traverser_impl.hpp                   |    4 
 src/mlpack/core/tree/binary_space_tree/mean_split.hpp                                 |   36 
 src/mlpack/core/tree/binary_space_tree/mean_split_impl.hpp                            |   50 
 src/mlpack/core/tree/binary_space_tree/single_tree_traverser.hpp                      |    8 
 src/mlpack/core/tree/binary_space_tree/single_tree_traverser_impl.hpp                 |    6 
 src/mlpack/core/tree/cosine_tree/cosine_tree.cpp                                      |   50 
 src/mlpack/core/tree/cosine_tree/cosine_tree.hpp                                      |   24 
 src/mlpack/core/tree/cover_tree/cover_tree.hpp                                        |   86 -
 src/mlpack/core/tree/cover_tree/cover_tree_impl.hpp                                   |  172 +-
 src/mlpack/core/tree/cover_tree/dual_tree_traverser.hpp                               |   12 
 src/mlpack/core/tree/cover_tree/dual_tree_traverser_impl.hpp                          |   12 
 src/mlpack/core/tree/cover_tree/first_point_is_root.hpp                               |    2 
 src/mlpack/core/tree/cover_tree/single_tree_traverser.hpp                             |    8 
 src/mlpack/core/tree/cover_tree/single_tree_traverser_impl.hpp                        |   18 
 src/mlpack/core/tree/example_tree.hpp                                                 |   14 
 src/mlpack/core/tree/hrectbound.hpp                                                   |   10 
 src/mlpack/core/tree/hrectbound_impl.hpp                                              |   32 
 src/mlpack/core/tree/mrkd_statistic.hpp                                               |   24 
 src/mlpack/core/tree/mrkd_statistic_impl.hpp                                          |    8 
 src/mlpack/core/util/prefixedoutstream_impl.hpp                                       |    4 
 src/mlpack/core/util/string_util.cpp                                                  |    6 
 src/mlpack/core/util/string_util.hpp                                                  |    2 
 src/mlpack/methods/amf/amf.hpp                                                        |    4 
 src/mlpack/methods/amf/amf_impl.hpp                                                   |    4 
 src/mlpack/methods/amf/init_rules/random_acol_init.hpp                                |   10 
 src/mlpack/methods/amf/init_rules/random_init.hpp                                     |    6 
 src/mlpack/methods/amf/termination_policies/complete_incremental.hpp                  |    8 
 src/mlpack/methods/amf/termination_policies/incomplete_incremental.hpp                |    8 
 src/mlpack/methods/amf/termination_policies/simple_residue_termination.hpp            |   16 
 src/mlpack/methods/amf/termination_policies/simple_tolerance_termination.hpp          |   26 
 src/mlpack/methods/amf/termination_policies/validation_RMSE_termination.hpp           |   36 
 src/mlpack/methods/amf/update_rules/nmf_als.hpp                                       |    6 
 src/mlpack/methods/amf/update_rules/nmf_mult_dist.hpp                                 |    2 
 src/mlpack/methods/amf/update_rules/nmf_mult_div.hpp                                  |   14 
 src/mlpack/methods/amf/update_rules/svd_batch_learning.hpp                            |   46 
 src/mlpack/methods/amf/update_rules/svd_complete_incremental_learning.hpp             |   24 
 src/mlpack/methods/amf/update_rules/svd_incomplete_incremental_learning.hpp           |   16 
 src/mlpack/methods/cf/cf.hpp                                                          |   42 
 src/mlpack/methods/cf/cf_impl.hpp                                                     |   48 
 src/mlpack/methods/decision_stump/decision_stump.hpp                                  |   22 
 src/mlpack/methods/decision_stump/decision_stump_impl.hpp                             |   32 
 src/mlpack/methods/det/dt_utils.cpp                                                   |   46 
 src/mlpack/methods/det/dt_utils.hpp                                                   |   10 
 src/mlpack/methods/det/dtree.cpp                                                      |   76 -
 src/mlpack/methods/det/dtree.hpp                                                      |   50 
 src/mlpack/methods/emst/dtb.hpp                                                       |    8 
 src/mlpack/methods/emst/dtb_impl.hpp                                                  |   38 
 src/mlpack/methods/emst/dtb_rules.hpp                                                 |   28 
 src/mlpack/methods/emst/dtb_rules_impl.hpp                                            |   30 
 src/mlpack/methods/emst/edge_pair.hpp                                                 |   14 
 src/mlpack/methods/emst/union_find.hpp                                                |   14 
 src/mlpack/methods/fastmks/fastmks.hpp                                                |   12 
 src/mlpack/methods/fastmks/fastmks_impl.hpp                                           |   48 
 src/mlpack/methods/fastmks/fastmks_rules.hpp                                          |   32 
 src/mlpack/methods/fastmks/fastmks_rules_impl.hpp                                     |   30 
 src/mlpack/methods/gmm/eigenvalue_ratio_constraint.hpp                                |    2 
 src/mlpack/methods/gmm/em_fit.hpp                                                     |   12 
 src/mlpack/methods/gmm/em_fit_impl.hpp                                                |   38 
 src/mlpack/methods/gmm/gmm.hpp                                                        |   26 
 src/mlpack/methods/gmm/gmm_impl.hpp                                                   |   42 
 src/mlpack/methods/gmm/phi.hpp                                                        |    4 
 src/mlpack/methods/hmm/hmm.hpp                                                        |   20 
 src/mlpack/methods/hmm/hmm_impl.hpp                                                   |   70 
 src/mlpack/methods/kernel_pca/kernel_pca.hpp                                          |    4 
 src/mlpack/methods/kernel_pca/kernel_pca_impl.hpp                                     |    4 
 src/mlpack/methods/kernel_pca/kernel_rules/naive_method.hpp                           |   12 
 src/mlpack/methods/kernel_pca/kernel_rules/nystroem_method.hpp                        |    2 
 src/mlpack/methods/kmeans/allow_empty_clusters.hpp                                    |    8 
 src/mlpack/methods/kmeans/kmeans.hpp                                                  |   24 
 src/mlpack/methods/kmeans/kmeans_impl.hpp                                             |   86 -
 src/mlpack/methods/kmeans/max_variance_new_cluster.hpp                                |    8 
 src/mlpack/methods/kmeans/max_variance_new_cluster_impl.hpp                           |   16 
 src/mlpack/methods/kmeans/random_partition.hpp                                        |    6 
 src/mlpack/methods/kmeans/refined_start.hpp                                           |   12 
 src/mlpack/methods/kmeans/refined_start_impl.hpp                                      |   20 
 src/mlpack/methods/lars/lars.cpp                                                      |   38 
 src/mlpack/methods/lars/lars.hpp                                                      |   14 
 src/mlpack/methods/linear_regression/linear_regression.cpp                            |    6 
 src/mlpack/methods/local_coordinate_coding/lcc.hpp                                    |    6 
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 src/mlpack/methods/logistic_regression/logistic_regression_impl.hpp                   |    4 
 src/mlpack/methods/lsh/lsh_search.hpp                                                 |   48 
 src/mlpack/methods/lsh/lsh_search_impl.hpp                                            |   96 -
 src/mlpack/methods/mvu/mvu.cpp                                                        |   12 
 src/mlpack/methods/mvu/mvu.hpp                                                        |    4 
 src/mlpack/methods/naive_bayes/naive_bayes_classifier.hpp                             |   10 
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 src/mlpack/methods/nca/nca.hpp                                                        |    6 
 src/mlpack/methods/nca/nca_impl.hpp                                                   |    2 
 src/mlpack/methods/nca/nca_softmax_error_function.hpp                                 |   10 
 src/mlpack/methods/nca/nca_softmax_error_function_impl.hpp                            |   20 
 src/mlpack/methods/neighbor_search/neighbor_search.hpp                                |    8 
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 src/mlpack/methods/neighbor_search/sort_policies/furthest_neighbor_sort.cpp           |   12 
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 src/mlpack/methods/neighbor_search/unmap.cpp                                          |   20 
 src/mlpack/methods/neighbor_search/unmap.hpp                                          |   14 
 src/mlpack/methods/nystroem_method/kmeans_selection.hpp                               |   10 
 src/mlpack/methods/nystroem_method/nystroem_method.hpp                                |   10 
 src/mlpack/methods/nystroem_method/nystroem_method_impl.hpp                           |   24 
 src/mlpack/methods/nystroem_method/ordered_selection.hpp                              |   10 
 src/mlpack/methods/nystroem_method/random_selection.hpp                               |   10 
 src/mlpack/methods/pca/pca.cpp                                                        |    6 
 src/mlpack/methods/pca/pca.hpp                                                        |   10 
 src/mlpack/methods/perceptron/initialization_methods/random_init.hpp                  |    8 
 src/mlpack/methods/perceptron/initialization_methods/zero_init.hpp                    |    8 
 src/mlpack/methods/perceptron/learning_policies/simple_weight_update.hpp              |   10 
 src/mlpack/methods/perceptron/perceptron.hpp                                          |   10 
 src/mlpack/methods/perceptron/perceptron_impl.hpp                                     |   16 
 src/mlpack/methods/radical/radical.cpp                                                |   20 
 src/mlpack/methods/radical/radical.hpp                                                |   32 
 src/mlpack/methods/range_search/range_search.hpp                                      |   12 
 src/mlpack/methods/range_search/range_search_impl.hpp                                 |   36 
 src/mlpack/methods/range_search/range_search_rules.hpp                                |   20 
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 src/mlpack/methods/range_search/range_search_stat.hpp                                 |    4 
 src/mlpack/methods/rann/ra_query_stat.hpp                                             |    6 
 src/mlpack/methods/rann/ra_search.hpp                                                 |   12 
 src/mlpack/methods/rann/ra_search_impl.hpp                                            |   40 
 src/mlpack/methods/rann/ra_search_rules.hpp                                           |   50 
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 src/mlpack/methods/regularized_svd/regularized_svd_impl.hpp                           |    8 
 src/mlpack/methods/sparse_autoencoder/sparse_autoencoder.hpp                          |   24 
 src/mlpack/methods/sparse_autoencoder/sparse_autoencoder_function.cpp                 |   16 
 src/mlpack/methods/sparse_autoencoder/sparse_autoencoder_function.hpp                 |   16 
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 src/mlpack/methods/sparse_coding/nothing_initializer.hpp                              |    6 
 src/mlpack/methods/sparse_coding/random_initializer.hpp                               |    8 
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 356 files changed, 3882 insertions(+), 3886 deletions(-)

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Package robumeta updated to version 1.3 with previous version 1.2 dated 2014-08-20

Title: Robust variance meta-regression
Description: Functions for conducting robust variance estimation (RVE) meta-regression using both large and small sample RVE estimators under various weighting schemes. These methods are distribution free and provide valid point estimates, standard errors and hypothesis tests even when the degree and structure of dependence between effect sizes is unknown. Also included in the robumeta package are functions for conducting sensitivity analyses under correlated effects weighting and producing RVE-based forest plots.
Author: Zachary Fisher and Elizabeth Tipton.
Maintainer: Zachary Fisher

Diff between robumeta versions 1.2 dated 2014-08-20 and 1.3 dated 2014-08-20

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 2 files changed, 5 insertions(+), 5 deletions(-)

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Package CCTpack updated to version 1.4 with previous version 1.3 dated 2014-08-16

Title: Cultural Consensus Theory applications to data
Description: A user-friendly GUI for the application of Cultural Consensus Theory (CCT) models and methods to consensus data. The models are applied using hierarchical Bayesian inference. The current package version supports binary, ordinal, and continuous data formats.
Author: Royce Anders
Maintainer: Royce Anders

Diff between CCTpack versions 1.3 dated 2014-08-16 and 1.4 dated 2014-08-20

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New package geoBayes with initial version 0.1.2
Package: geoBayes
Type: Package
Title: Analysis of geostatistical data using Bayes and Empirical Bayes methods
Description: This package provides functions to fit geostatistical data. The data can be continuous, binary or count data and the models implemented are flexible. Conjugate priors are assumed on some parameters while non-conjugate parameters can be estimated either by Monte-Carlo or empirical Bayes methods.
Version: 0.1.2
Date: 2014-08-20
Author: Evangelos Evangelou , Vivekanda Roy
Maintainer: Evangelos Evangelou
Imports: stats, coda, sp
Depends: R (>= 2.0.0)
Suggests: geoR, geoRglm
LazyData: true
License: GPL (>= 2)
Classification/ACM: 86A32, 62M30, 62F15
Packaged: 2014-08-20 18:16:16 UTC; ee224
NeedsCompilation: yes
Repository: CRAN
Date/Publication: 2014-08-20 21:07:01

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Package bold updated to version 0.2.0 with previous version 0.1.2 dated 2014-07-24

Title: Interface to Bold Systems API
Description: A programmatic interface to the Web Service methods provided by Bold Systems for genetic barcode data. Functions include methods for searching by sequences by taxonomic names, ids, collectors, and institutions; as well as a function for searching for specimens, and downloading trace files.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain

Diff between bold versions 0.1.2 dated 2014-07-24 and 0.2.0 dated 2014-08-20

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Package TDA updated to version 1.1 with previous version 1.0 dated 2014-08-19

Title: Statistical Tools for Topological Data Analysis
Description: This package provides tools for the statistical analysis of persistent homology and for density clustering.
Author: Brittany T. Fasy, Fabrizio Lecci
Maintainer: Fabrizio Lecci

Diff between TDA versions 1.0 dated 2014-08-19 and 1.1 dated 2014-08-20

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Package robumeta updated to version 1.2 with previous version 1.1 dated 2014-03-20

Title: Robust variance meta-regression
Description: The robumeta package provides a host of functions for conducting robust variance estimation (RVE) meta-regression using both large and small sample RVE estimators under various weighting schemes. These methods are distribution free and provide valid point estimates, standard errors and hypothesis tests even when the degree and structure of dependence between effect sizes is unknown. Also included in the robumeta package are functions for conducting sensitivity analyses under correlated effects weighting and producing RVE-based forest plots.
Author: Zachary Fisher and Elizabeth Tipton.
Maintainer: Zachary Fisher

Diff between robumeta versions 1.1 dated 2014-03-20 and 1.2 dated 2014-08-20

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Package mokken updated to version 2.7.7 with previous version 2.7.5 dated 2013-01-27

Title: Mokken Scale Analysis in R
Description: mokken contains functions for performing Mokken scale analysis on test and questionnaire data. It includes an automated item selection algorithm, and various checks of model assumptions.
Author: L. Andries van der Ark
Maintainer: L. Andries van der Ark

Diff between mokken versions 2.7.5 dated 2013-01-27 and 2.7.7 dated 2014-08-20

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Package GLSME updated to version 1.0.2 with previous version 1.0.1 dated 2014-05-25

Title: Generalized Least Squares with Measurement Error
Description: Performs linear regression with correlated predictors, responses and correlated measurement errors in predictors and responses, correcting for biased caused by these.
Author: Krzysztof Bartoszek
Maintainer: Krzysztof Bartoszek

Diff between GLSME versions 1.0.1 dated 2014-05-25 and 1.0.2 dated 2014-08-20

 DESCRIPTION  |    6 +++---
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 3 files changed, 7 insertions(+), 7 deletions(-)

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New package metaplus with initial version 0.6-0
Package: metaplus
Type: Package
Title: Robust meta-analysis and meta-regression.
Version: 0.6-0
Date: 2014-08-20
Author: Ken Beath
Maintainer: Ken Beath
Description: Performs meta-analysis using standard and robust methods with confidence intervals from profile likelihood.
Depends: R(>= 3.1.0), bbmle, metafor
Imports: boot, methods, numDeriv
License: GPL (>= 2)
Packaged: 2014-08-20 09:08:57 UTC; kjbeath
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-08-20 14:37:51

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New package DepthProc with initial version 1.0
Package: DepthProc
Version: 1.0
Date: 2014-08-18
Title: DepthProc
Author: Daniel Kosiorowski, Mateusz Bocian, Anna Wegrzynkiewicz and Zygmunt Zawadzki from Cracow University of Economics.
Maintainer: Zygmunt Zawadzki
Description: Package for depths
License: GPL-2
Depends: R (>= 3.0.0), ggplot2, Rcpp (>= 0.11.2), rrcov, np, methods, MASS
Imports: lattice, sm, geometry
Suggests: mvtnorm, rgl, sn, robustbase,
LinkingTo: Rcpp, RcppArmadillo
Repository: CRAN
Repository/R-Forge/Project: depthproc
Repository/R-Forge/Revision: 54
Repository/R-Forge/DateTimeStamp: 2014-08-20 09:54:39
Date/Publication: 2014-08-20 14:33:13
Packaged: 2014-08-20 10:15:11 UTC; rforge
NeedsCompilation: yes

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New package rsunlight with initial version 0.3.0
Package: rsunlight
Description: Interface to four Sunlight Foundation APIs (http://sunlightfoundation.com/api/) for government data, including the Congress API v3, the Capitol Words API, the Influence Explorer API, and the Open States API. Sunlight Foundation is a nonpartison nonprofit that collects and provides data on government activities, and those that influence government. Functions are provided to interact with each of the four APIs. rCharts - https://github.com/ramnathv/rCharts
Title: Interface to Sunlight Foundation APIs.
Version: 0.3.0
Date: 2014-08-19
License: MIT + file LICENSE
URL: https://github.com/ropengov/rsunlight
BugReports: https://github.com/ropengov/rsunlight/issues
Authors@R: c(person("Scott", "Chamberlain", role = c("aut", "cre"), email = "myrmecocystus@gmail.com"), person("Thomas J.", "Leeper", role=c("ctb"), email="thosjleeper@gmail.com"))
VignetteBuilder: knitr
LazyLoad: yes
LazyData: yes
Imports: httr, plyr, jsonlite, stringr, assertthat
Suggests: knitr, testthat, rCharts
Packaged: 2014-08-20 06:53:38 UTC; sacmac
Author: Scott Chamberlain [aut, cre], Thomas J. Leeper [ctb]
Maintainer: Scott Chamberlain
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-08-20 10:39:41

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New package RGA with initial version 0.1.1
Package: RGA
Type: Package
Title: A Google Analytics API client for R
Description: Provides functions for accessing and retrieving data from the Google Analytics APIs (https://developers.google.com/analytics/). Supports OAuth 2.0 authorization. Package provides access to the Management, Core Reporting, Multi-Channel Funnels Reporting, Real Time Reporting and Metadata APIs. Access to all the Google Analytics accounts which the user has access to. Auto-pagination to return more than 10,000 rows of the results by combining multiple data requests. Also the RGA package provides shiny app to explore the core reporting API dimensions and metrics.
URL: https://bitbucket.org/unikum/rga
BugReports: https://bitbucket.org/unikum/rga/issues
Version: 0.1.1
Date: 2014-06-03
Authors@R: c( person(given = "Artem", family = "Klevtsov", email = "a.a.klevtsov@gmail.com", role = c("aut", "cre")), person(given = "Philipp", family = "Upravitelev", email = "upravitelev@gmail.com", role = "ctb"), person(given = "Olga", family = "Shramko", email = "ol1709@yahoo.com", role = "ctb"))
License: GPL (>= 2)
Depends: R (>= 2.15.1)
Imports: RCurl, jsonlite, httr (>= 0.3), httpuv, shiny (>= 0.10.0)
Collate: 'auth.R' 'convert.R' 'data.R' 'utils.R' 'url.R' 'query.R' 'get-data.R' 'mgmt.R' 'onload.R' 'package.R' 'report.R' 'shiny.R'
Packaged: 2014-08-20 07:19:17 UTC; xxx
Author: Artem Klevtsov [aut, cre], Philipp Upravitelev [ctb], Olga Shramko [ctb]
Maintainer: Artem Klevtsov
NeedsCompilation: no
Repository: CRAN
Date/Publication: 2014-08-20 10:39:37

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Package pfa (with last version 1.0) was removed from CRAN