Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-17 0.4.2
2020-01-28 0.4.1
2019-12-18 0.4.0
2019-05-14 0.3.5
2019-05-11 0.3.4
2019-01-24 0.3.3
2018-05-21 0.3.2
2018-04-04 0.3.1
2017-11-13 0.3.0
2017-08-10 0.2.3
2016-12-01 0.2.2
2016-07-23 0.2.1
Title: Interface to 'TensorFlow Probability'
Description: Interface to 'TensorFlow Probability', a 'Python' library built on 'TensorFlow'
that makes it easy to combine probabilistic models and deep learning on modern hardware ('TPU', 'GPU').
'TensorFlow Probability' includes a wide selection of probability distributions and bijectors, probabilistic layers,
variational inference, Markov chain Monte Carlo, and optimizers such as Nelder-Mead, BFGS, and SGLD.
Author: Sigrid Keydana [aut, cre],
Daniel Falbel [ctb],
Kevin Kuo [ctb] (<https://orcid.org/0000-0001-7803-7901>),
RStudio [cph]
Maintainer: Sigrid Keydana <sigrid@rstudio.com>
Diff between tfprobability versions 0.10.0.0 dated 2020-05-19 and 0.11.0.0 dated 2020-08-05
DESCRIPTION | 12 MD5 | 347 ++++---- NAMESPACE | 15 NEWS.md | 26 R/bijector-methods.R | 8 R/bijectors.R | 156 +++ R/distribution-methods.R | 16 R/distributions.R | 720 +++++++++++++++++- R/mcmc-functions.R | 42 - R/mcmc-kernels.R | 46 - R/utils.R | 8 R/vi-functions.R | 2 R/vi-optimization.R | 18 README.md | 10 build/vignette.rds |binary inst/doc/dynamic_linear_models.html | 20 inst/doc/hamiltonian_monte_carlo.html | 20 inst/doc/layer_dense_variational.html | 20 man/install_tfprobability.Rd | 4 man/mcmc_no_u_turn_sampler.Rd | 36 man/mcmc_replica_exchange_mc.Rd | 6 man/mcmc_sample_chain.Rd | 3 man/mcmc_simple_step_size_adaptation.Rd | 2 man/reexports.Rd | 2 man/tfb_absolute_value.Rd | 4 man/tfb_affine.Rd | 4 man/tfb_affine_linear_operator.Rd | 4 man/tfb_affine_scalar.Rd | 4 man/tfb_batch_normalization.Rd | 4 man/tfb_blockwise.Rd | 4 man/tfb_chain.Rd | 4 man/tfb_cholesky_outer_product.Rd | 4 man/tfb_cholesky_to_inv_cholesky.Rd | 4 man/tfb_correlation_cholesky.Rd | 4 man/tfb_cumsum.Rd | 4 man/tfb_discrete_cosine_transform.Rd | 4 man/tfb_exp.Rd | 4 man/tfb_expm1.Rd | 4 man/tfb_ffjord.Rd | 6 man/tfb_fill_scale_tri_l.Rd | 4 man/tfb_fill_triangular.Rd | 4 man/tfb_gompertz_cdf.Rd |only man/tfb_gumbel.Rd | 4 man/tfb_gumbel_cdf.Rd | 4 man/tfb_identity.Rd | 4 man/tfb_inline.Rd | 4 man/tfb_invert.Rd | 4 man/tfb_iterated_sigmoid_centered.Rd | 4 man/tfb_kumaraswamy.Rd | 4 man/tfb_kumaraswamy_cdf.Rd | 4 man/tfb_lambert_w_tail.Rd | 4 man/tfb_masked_autoregressive_default_template.Rd | 4 man/tfb_masked_autoregressive_flow.Rd | 4 man/tfb_masked_dense.Rd | 4 man/tfb_matrix_inverse_tri_l.Rd | 4 man/tfb_matvec_lu.Rd | 4 man/tfb_normal_cdf.Rd | 4 man/tfb_ordered.Rd | 4 man/tfb_pad.Rd | 4 man/tfb_permute.Rd | 4 man/tfb_power_transform.Rd | 4 man/tfb_rational_quadratic_spline.Rd | 4 man/tfb_real_nvp.Rd | 6 man/tfb_real_nvp_default_template.Rd | 4 man/tfb_reciprocal.Rd | 4 man/tfb_reshape.Rd | 4 man/tfb_scale.Rd | 14 man/tfb_scale_matvec_diag.Rd | 4 man/tfb_scale_matvec_linear_operator.Rd | 4 man/tfb_scale_matvec_lu.Rd | 4 man/tfb_scale_matvec_tri_l.Rd | 4 man/tfb_scale_tri_l.Rd | 4 man/tfb_shift.Rd | 4 man/tfb_shifted_gompertz_cdf.Rd |only man/tfb_sigmoid.Rd | 4 man/tfb_sinh.Rd |only man/tfb_sinh_arcsinh.Rd | 4 man/tfb_softmax_centered.Rd | 4 man/tfb_softplus.Rd | 4 man/tfb_softsign.Rd | 4 man/tfb_split.Rd |only man/tfb_square.Rd | 4 man/tfb_tanh.Rd | 4 man/tfb_transform_diagonal.Rd | 4 man/tfb_transpose.Rd | 4 man/tfb_weibull.Rd | 4 man/tfb_weibull_cdf.Rd | 4 man/tfd_autoregressive.Rd | 11 man/tfd_batch_reshape.Rd | 11 man/tfd_bates.Rd |only man/tfd_bernoulli.Rd | 11 man/tfd_beta.Rd | 11 man/tfd_beta_binomial.Rd | 11 man/tfd_binomial.Rd | 11 man/tfd_categorical.Rd | 11 man/tfd_cauchy.Rd | 11 man/tfd_chi.Rd | 11 man/tfd_chi2.Rd | 11 man/tfd_cholesky_lkj.Rd | 11 man/tfd_continuous_bernoulli.Rd |only man/tfd_covariance.Rd | 16 man/tfd_deterministic.Rd | 11 man/tfd_dirichlet.Rd | 11 man/tfd_dirichlet_multinomial.Rd | 11 man/tfd_empirical.Rd | 11 man/tfd_exponential.Rd | 11 man/tfd_gamma.Rd | 11 man/tfd_gamma_gamma.Rd | 11 man/tfd_gaussian_process.Rd | 11 man/tfd_gaussian_process_regression_model.Rd | 11 man/tfd_generalized_normal.Rd |only man/tfd_geometric.Rd | 11 man/tfd_gumbel.Rd | 11 man/tfd_half_cauchy.Rd | 11 man/tfd_half_normal.Rd | 11 man/tfd_hidden_markov_model.Rd | 11 man/tfd_horseshoe.Rd | 13 man/tfd_independent.Rd | 11 man/tfd_inverse_gamma.Rd | 11 man/tfd_inverse_gaussian.Rd | 11 man/tfd_johnson_s_u.Rd |only man/tfd_joint_distribution_named.Rd | 11 man/tfd_joint_distribution_named_auto_batched.Rd |only man/tfd_joint_distribution_sequential.Rd | 11 man/tfd_joint_distribution_sequential_auto_batched.Rd |only man/tfd_kumaraswamy.Rd | 11 man/tfd_laplace.Rd | 11 man/tfd_linear_gaussian_state_space_model.Rd | 11 man/tfd_lkj.Rd | 11 man/tfd_log_logistic.Rd |only man/tfd_log_normal.Rd | 11 man/tfd_logistic.Rd | 11 man/tfd_mixture.Rd | 11 man/tfd_mixture_same_family.Rd | 11 man/tfd_multinomial.Rd | 11 man/tfd_multivariate_normal_diag.Rd | 11 man/tfd_multivariate_normal_diag_plus_low_rank.Rd | 11 man/tfd_multivariate_normal_full_covariance.Rd | 11 man/tfd_multivariate_normal_linear_operator.Rd | 11 man/tfd_multivariate_normal_tri_l.Rd | 11 man/tfd_multivariate_student_t_linear_operator.Rd | 11 man/tfd_negative_binomial.Rd | 11 man/tfd_normal.Rd | 11 man/tfd_one_hot_categorical.Rd | 11 man/tfd_pareto.Rd | 11 man/tfd_pixel_cnn.Rd | 11 man/tfd_poisson.Rd | 11 man/tfd_poisson_log_normal_quadrature_compound.Rd | 11 man/tfd_power_spherical.Rd |only man/tfd_probit_bernoulli.Rd | 11 man/tfd_quantized.Rd | 11 man/tfd_relaxed_bernoulli.Rd | 11 man/tfd_relaxed_one_hot_categorical.Rd | 11 man/tfd_sample_distribution.Rd | 11 man/tfd_sinh_arcsinh.Rd | 11 man/tfd_spherical_uniform.Rd |only man/tfd_student_t.Rd | 11 man/tfd_student_t_process.Rd | 11 man/tfd_transformed_distribution.Rd | 11 man/tfd_triangular.Rd | 11 man/tfd_truncated_cauchy.Rd |only man/tfd_truncated_normal.Rd | 11 man/tfd_uniform.Rd | 11 man/tfd_variational_gaussian_process.Rd | 11 man/tfd_vector_diffeomixture.Rd | 11 man/tfd_vector_exponential_diag.Rd | 11 man/tfd_vector_exponential_linear_operator.Rd | 11 man/tfd_vector_laplace_diag.Rd | 11 man/tfd_vector_laplace_linear_operator.Rd | 11 man/tfd_vector_sinh_arcsinh_diag.Rd | 11 man/tfd_von_mises.Rd | 11 man/tfd_von_mises_fisher.Rd | 11 man/tfd_weibull.Rd |only man/tfd_wishart.Rd | 11 man/tfd_wishart_linear_operator.Rd | 11 man/tfd_wishart_tri_l.Rd | 11 man/tfd_zipf.Rd | 11 man/vi_fit_surrogate_posterior.Rd | 12 tests/testthat/test-bijectors.R | 52 + tests/testthat/test-distributions.R | 161 ++++ tests/testthat/test-mcmc.R | 1 tests/testthat/test-vi-optimization.R | 8 182 files changed, 2597 insertions(+), 302 deletions(-)
Title: Machine Learning Models and Tools
Description: Meta-package for statistical and machine learning with a unified
interface for model fitting, prediction, performance assessment, and
presentation of results. Approaches for model fitting and prediction of
numerical, categorical, or censored time-to-event outcomes include
traditional regression models, regularization methods, tree-based methods,
support vector machines, neural networks, ensembles, data preprocessing,
filtering, and model tuning and selection. Performance metrics are provided
for model assessment and can be estimated with independent test sets, split
sampling, cross-validation, or bootstrap resampling. Resample estimation
can be executed in parallel for faster processing and nested in cases of
model tuning and selection. Modeling results can be summarized with
descriptive statistics; calibration curves; variable importance; partial
dependence plots; confusion matrices; and ROC, lift, and other performance
curves.
Author: Brian J Smith [aut, cre]
Maintainer: Brian J Smith <brian-j-smith@uiowa.edu>
Diff between MachineShop versions 2.4.0 dated 2020-06-04 and 2.5.0 dated 2020-08-05
DESCRIPTION | 10 MD5 | 120 +- NAMESPACE | 22 NEWS.md | 30 R/ML_BARTMachineModel.R | 2 R/ML_BlackBoostModel.R | 4 R/ML_GAMBoostModel.R | 4 R/ML_GBMModel.R | 14 R/ML_GLMBoostModel.R | 4 R/ML_GLMModel.R | 8 R/ML_GLMNetModel.R | 31 R/ML_LMModel.R | 3 R/ML_NNetModel.R | 16 R/ML_SuperModel.R | 2 R/ML_XGBModel.R | 139 ++ R/ModelFrame.R | 46 R/calibration.R | 2 R/fit.R | 2 R/metrics_numeric.R | 2 R/models.R | 8 R/predict.R | 4 R/predictors.R | 7 R/print.R | 60 - R/resample.R | 30 R/response.R | 7 R/settings.R | 25 R/step_kmeans.R | 136 +- R/step_kmedoids.R | 215 ++-- R/step_lincomp.R |only R/step_sbf.R |only R/step_spca.R | 134 -- R/survival.R | 6 R/utils.R | 4 R/varimp.R | 2 README.md | 4 build/vignette.rds |binary inst/doc/MLModels.html | 20 inst/doc/UsersGuide.R | 6 inst/doc/UsersGuide.Rmd | 24 inst/doc/UsersGuide.html | 1861 +++++++++++++++++++------------------- man/BARTMachineModel.Rd | 2 man/BlackBoostModel.Rd | 4 man/DiscreteVariate.Rd | 7 man/GAMBoostModel.Rd | 4 man/GBMModel.Rd | 3 man/GLMBoostModel.Rd | 4 man/GLMModel.Rd | 8 man/GLMNetModel.Rd | 4 man/NNetModel.Rd | 6 man/XGBModel.Rd | 43 man/models.Rd | 8 man/settings.Rd | 5 man/step_kmeans.Rd | 15 man/step_kmedoids.Rd | 56 - man/step_lincomp.Rd |only man/step_sbf.Rd |only man/step_spca.Rd | 22 tests/testthat/Rplots.pdf |binary tests/testthat/test-ML_XGBModel.R | 2 tests/testthat/test-survival.R | 7 tests/testthat/test-survival.txt | 546 ++++++++++- vignettes/UsersGuide.Rmd | 24 vignettes/setup.R | 7 63 files changed, 2262 insertions(+), 1529 deletions(-)
Title: 'GeoNetwork' API R Interface
Description: Provides an R interface to the 'GeoNetwork' API (<https://geonetwork-opensource.org/#api>) allowing to upload and publish metadata in a 'GeoNetwork' web-application and exposte it to OGC CSW.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geonapi versions 0.3-1 dated 2020-01-20 and 0.4 dated 2020-08-05
DESCRIPTION | 12 +++++------ MD5 | 20 +++++++++---------- NAMESPACE | 1 R/GNManager.R | 46 ++++++++++++++++++++++++++++++--------------- R/geonapi.R | 2 - README.md | 9 +++++++- man/GNManager.Rd | 14 ++++++++++--- man/GNPrivConfiguration.Rd | 7 ++---- man/GNRESTRequest.Rd | 5 +--- man/GNUtils.Rd | 5 +--- man/GNVersion.Rd | 5 +--- 11 files changed, 76 insertions(+), 50 deletions(-)
Title: Earth Observation Data Cubes from Satellite Image Collections
Description: Processing collections of Earth observation images as on-demand multispectral, multitemporal raster data cubes. Users
define cubes by spatiotemporal extent, resolution, and spatial reference system and let 'gdalcubes' automatically apply cropping, reprojection, and
resampling using the 'Geospatial Data Abstraction Library' ('GDAL'). Implemented functions on data cubes include reduction over space and time,
applying arithmetic expressions on pixel band values, moving window aggregates over time, filtering by space, time, bands, and predicates on pixel values,
exporting data cubes as 'netCDF' or 'GeoTIFF' files, and plotting. The package implements lazy evaluation and
multithreading. All computational parts are implemented in C++, linking to the 'GDAL', 'netCDF', 'CURL', and 'SQLite' libraries.
See Appel and Pebesma (2019) <doi:10.3390/data4030092> for further details.
Author: Marius Appel [aut, cre] (<https://orcid.org/0000-0001-5281-3896>),
Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>),
Roger Bivand [ctb],
Lewis Van Winkle [cph],
Ole Christian Eidheim [cph],
Howard Hinnant [cph],
Adrian Colomitchi [cph],
Florian Dang [cph],
Paul Thompson [cph],
Tomasz Kamiński [cph],
Dropbox, Inc. [cph]
Maintainer: Marius Appel <marius.appel@uni-muenster.de>
Diff between gdalcubes versions 0.2.5 dated 2020-05-17 and 0.3.0 dated 2020-08-05
gdalcubes-0.2.5/gdalcubes/R/server.R |only gdalcubes-0.2.5/gdalcubes/man/gdalcubes_server_status.Rd |only gdalcubes-0.2.5/gdalcubes/man/gdalcubes_start_server.Rd |only gdalcubes-0.2.5/gdalcubes/man/gdalcubes_stop_server.Rd |only gdalcubes-0.2.5/gdalcubes/man/reduce.Rd |only gdalcubes-0.2.5/gdalcubes/src/gdalcubes/src/external/json.hpp |only gdalcubes-0.2.5/gdalcubes/src/gdalcubes/src/reduce.cpp |only gdalcubes-0.2.5/gdalcubes/src/gdalcubes/src/reduce.h |only gdalcubes-0.3.0/gdalcubes/DESCRIPTION | 19 gdalcubes-0.3.0/gdalcubes/MD5 | 238 +- gdalcubes-0.3.0/gdalcubes/NAMESPACE | 16 gdalcubes-0.3.0/gdalcubes/NEWS.md | 38 gdalcubes-0.3.0/gdalcubes/R/RcppExports.R | 64 gdalcubes-0.3.0/gdalcubes/R/apply_pixel.R | 10 gdalcubes-0.3.0/gdalcubes/R/apply_time.R |only gdalcubes-0.3.0/gdalcubes/R/coerce.R | 66 gdalcubes-0.3.0/gdalcubes/R/config.R | 13 gdalcubes-0.3.0/gdalcubes/R/cube.R | 103 - gdalcubes-0.3.0/gdalcubes/R/dummy.R | 3 gdalcubes-0.3.0/gdalcubes/R/filter_geom.R |only gdalcubes-0.3.0/gdalcubes/R/filter_pixel.R | 3 gdalcubes-0.3.0/gdalcubes/R/gdalcubes.R | 2 gdalcubes-0.3.0/gdalcubes/R/image_collection.R | 45 gdalcubes-0.3.0/gdalcubes/R/image_collection_ops.R |only gdalcubes-0.3.0/gdalcubes/R/join_bands.R | 63 gdalcubes-0.3.0/gdalcubes/R/plot.R | 69 gdalcubes-0.3.0/gdalcubes/R/query_timeseries.R |only gdalcubes-0.3.0/gdalcubes/R/reduce.R | 143 - gdalcubes-0.3.0/gdalcubes/R/select_bands.R | 6 gdalcubes-0.3.0/gdalcubes/R/select_time.R |only gdalcubes-0.3.0/gdalcubes/R/streaming.R | 52 gdalcubes-0.3.0/gdalcubes/R/view.R | 37 gdalcubes-0.3.0/gdalcubes/R/window.R | 6 gdalcubes-0.3.0/gdalcubes/R/zonal_statistics.R |only gdalcubes-0.3.0/gdalcubes/R/zzz.R | 36 gdalcubes-0.3.0/gdalcubes/build/vignette.rds |binary gdalcubes-0.3.0/gdalcubes/configure | 18 gdalcubes-0.3.0/gdalcubes/configure.ac | 2 gdalcubes-0.3.0/gdalcubes/inst/COPYRIGHTS | 9 gdalcubes-0.3.0/gdalcubes/inst/doc/MODIS.Rmd | 2 gdalcubes-0.3.0/gdalcubes/inst/doc/MODIS.html | 35 gdalcubes-0.3.0/gdalcubes/inst/formats/ESA_CCI_SM_ACTIVE.json |only gdalcubes-0.3.0/gdalcubes/inst/formats/ESA_CCI_SM_PASSIVE.json |only gdalcubes-0.3.0/gdalcubes/inst/formats/GPM_IMERG_3B_DAY_GIS_V06A.json |only gdalcubes-0.3.0/gdalcubes/inst/formats/MxD09GA.json |only gdalcubes-0.3.0/gdalcubes/inst/nycd.gpkg |only gdalcubes-0.3.0/gdalcubes/man/apply_pixel.Rd | 2 gdalcubes-0.3.0/gdalcubes/man/apply_pixel.cube.Rd | 8 gdalcubes-0.3.0/gdalcubes/man/apply_time.Rd |only gdalcubes-0.3.0/gdalcubes/man/apply_time.array.Rd |only gdalcubes-0.3.0/gdalcubes/man/apply_time.cube.Rd |only gdalcubes-0.3.0/gdalcubes/man/create_image_collection.Rd | 16 gdalcubes-0.3.0/gdalcubes/man/cube_view.Rd | 24 gdalcubes-0.3.0/gdalcubes/man/dimension_bounds.Rd |only gdalcubes-0.3.0/gdalcubes/man/filter_geom.Rd |only gdalcubes-0.3.0/gdalcubes/man/filter_pixel.Rd | 3 gdalcubes-0.3.0/gdalcubes/man/gdalcubes_options.Rd | 5 gdalcubes-0.3.0/gdalcubes/man/join_bands.Rd | 18 gdalcubes-0.3.0/gdalcubes/man/plot.cube.Rd | 5 gdalcubes-0.3.0/gdalcubes/man/query_timeseries.Rd |only gdalcubes-0.3.0/gdalcubes/man/raster_cube.Rd | 2 gdalcubes-0.3.0/gdalcubes/man/raster_cube_dummy.Rd | 3 gdalcubes-0.3.0/gdalcubes/man/reduce_space.array.Rd | 6 gdalcubes-0.3.0/gdalcubes/man/reduce_space.cube.Rd | 10 gdalcubes-0.3.0/gdalcubes/man/reduce_time.array.Rd | 4 gdalcubes-0.3.0/gdalcubes/man/reduce_time.cube.Rd | 7 gdalcubes-0.3.0/gdalcubes/man/select_bands.Rd | 6 gdalcubes-0.3.0/gdalcubes/man/select_time.Rd |only gdalcubes-0.3.0/gdalcubes/man/st_as_stars.cube.Rd |only gdalcubes-0.3.0/gdalcubes/man/translate_cog.Rd |only gdalcubes-0.3.0/gdalcubes/man/translate_gtiff.Rd |only gdalcubes-0.3.0/gdalcubes/man/window_time.Rd | 6 gdalcubes-0.3.0/gdalcubes/man/write_ncdf.Rd | 24 gdalcubes-0.3.0/gdalcubes/man/zonal_statistics.Rd |only gdalcubes-0.3.0/gdalcubes/src/Makevars.in | 12 gdalcubes-0.3.0/gdalcubes/src/Makevars.win | 12 gdalcubes-0.3.0/gdalcubes/src/RcppExports.cpp | 218 +- gdalcubes-0.3.0/gdalcubes/src/gdalcubes.cpp | 397 ++-- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/apply_pixel.cpp | 49 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/apply_pixel.h | 17 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/build_info.h | 16 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/collection_format.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/collection_format.h | 85 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/config.cpp | 116 + gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/config.h | 105 - gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/coord_types.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/cube.cpp | 726 ++++++- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/cube.h | 60 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/cube_factory.cpp | 233 +- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/cube_factory.h | 9 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/datetime.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/datetime.h | 298 --- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/dummy.h | 20 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/error.h | 1 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/external/json11 |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filesystem.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filesystem.h | 175 - gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/fill_time.cpp | 2 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/fill_time.h | 21 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filter_geom.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filter_geom.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filter_pixel.cpp | 1 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/filter_pixel.h | 17 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/gdalcubes.cpp | 45 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/gdalcubes.h | 6 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection.cpp | 735 +++++-- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection.h | 163 - gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection_cube.cpp | 282 +- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection_cube.h | 52 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection_ops.cpp | 148 + gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/image_collection_ops.h | 6 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/join_bands.cpp | 25 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/join_bands.h | 171 + gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/progress.h | 1 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/reduce_space.h | 36 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/reduce_time.cpp | 160 - gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/reduce_time.h | 43 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/select_bands.h | 19 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/select_time.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/select_time.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream.cpp | 25 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream.h | 62 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_apply_pixel.cpp | 18 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_apply_pixel.h | 17 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_apply_time.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_apply_time.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_reduce_space.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_reduce_space.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_reduce_time.cpp | 18 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/stream_reduce_time.h | 35 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/swarm.cpp | 2 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/swarm.h | 1 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/utils.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/utils.h | 100 - gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/vector_queries.cpp | 986 +++++++++- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/vector_queries.h | 35 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/view.cpp | 86 gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/view.h | 396 ++-- gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/warp.cpp |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/warp.h |only gdalcubes-0.3.0/gdalcubes/src/gdalcubes/src/window_time.h | 29 gdalcubes-0.3.0/gdalcubes/vignettes/MODIS.Rmd | 2 142 files changed, 4982 insertions(+), 2559 deletions(-)
Title: Functional Data Analysis with Linear Differential Equations
Description: Provides methods for using differential equations as modelling
objects as described in J. Ramsay G. and Hooker (2017,ISBN 978-1-4939-7188-6)
Dynamic Data Analysis, New York: Springer. Data sets and script files for
analyzing many of the examples in this book are included. This version
corrects bugs and adds two new demos, CruiseControl and monotoneSmoothDemo.
This version incorporates a new system for indexing coefficient list objects.
The step of setting up a set of coefficient list objects has been
eliminated and the functions make.Coef() and coefCheck have been dropped.
'Matlab' versions of the code and sample analyses are available by ftp from
the website. There you find a set of .zip files containing the functions
and sample analyses, as well as two .txt files giving instructions for
installation and some additional information.
Author: James Ramsay [aut, cre]
Maintainer: James Ramsay <James.Ramsay@mcgill.ca>
Diff between Data2LD versions 2.0.0 dated 2019-01-24 and 3.2.1 dated 2020-08-05
Data2LD-2.0.0/Data2LD/R/coefCheck.R |only Data2LD-2.0.0/Data2LD/R/fdascript.force.plot.R |only Data2LD-2.0.0/Data2LD/R/getForceTerm.R |only Data2LD-2.0.0/Data2LD/R/getHomoTerm.R |only Data2LD-2.0.0/Data2LD/R/inprodnow.R |only Data2LD-2.0.0/Data2LD/R/int2Lfd.R |only Data2LD-2.0.0/Data2LD/R/loopJuan.R |only Data2LD-2.0.0/Data2LD/R/make.Coef.R |only Data2LD-2.0.0/Data2LD/R/make.Model.R |only Data2LD-2.0.0/Data2LD/demo/fdascript.R |only Data2LD-2.0.0/Data2LD/man/coefCheck.Rd |only Data2LD-2.0.0/Data2LD/man/getForceTerm.Rd |only Data2LD-2.0.0/Data2LD/man/getHomoTerm.Rd |only Data2LD-2.0.0/Data2LD/man/make.Coef.Rd |only Data2LD-2.0.0/Data2LD/man/make.Model.Rd |only Data2LD-3.2.1/Data2LD/DESCRIPTION | 31 Data2LD-3.2.1/Data2LD/MD5 | 107 - Data2LD-3.2.1/Data2LD/NAMESPACE | 12 Data2LD-3.2.1/Data2LD/R/Atensorfn.R | 23 Data2LD-3.2.1/Data2LD/R/BAtensorfn.R | 29 Data2LD-3.2.1/Data2LD/R/Btensorfn.R | 143 - Data2LD-3.2.1/Data2LD/R/Data2LD.R | 1621 ++++++++----------- Data2LD-3.2.1/Data2LD/R/Data2LD.opt.R | 130 - Data2LD-3.2.1/Data2LD/R/checkModel.R |only Data2LD-3.2.1/Data2LD/R/inprod.TPbasis.R | 2 Data2LD-3.2.1/Data2LD/R/make.Fterm.R | 50 Data2LD-3.2.1/Data2LD/R/make.Variable.R | 22 Data2LD-3.2.1/Data2LD/R/make.Xterm.R | 54 Data2LD-3.2.1/Data2LD/R/modelList2Vec.R | 42 Data2LD-3.2.1/Data2LD/R/modelVec2List.R | 64 Data2LD-3.2.1/Data2LD/R/printMatrix.R |only Data2LD-3.2.1/Data2LD/R/printModel.R |only Data2LD-3.2.1/Data2LD/build/vignette.rds |binary Data2LD-3.2.1/Data2LD/data/GrowthData.rda |only Data2LD-3.2.1/Data2LD/demo/00Index | 12 Data2LD-3.2.1/Data2LD/demo/AverageTemp.R | 278 +-- Data2LD-3.2.1/Data2LD/demo/CruiseControl.R | 219 +- Data2LD-3.2.1/Data2LD/demo/Fdascript.R |only Data2LD-3.2.1/Data2LD/demo/HeadImpact.R | 189 -- Data2LD-3.2.1/Data2LD/demo/Refinery.R | 171 +- Data2LD-3.2.1/Data2LD/demo/monotoneSmoothDemo.R |only Data2LD-3.2.1/Data2LD/inst/doc/Data2LD.R | 351 ++-- Data2LD-3.2.1/Data2LD/inst/doc/Data2LD.Rmd | 616 +++---- Data2LD-3.2.1/Data2LD/inst/doc/Data2LD.html | 2003 +++++++++++++++--------- Data2LD-3.2.1/Data2LD/man/Atensorfn.Rd | 14 Data2LD-3.2.1/Data2LD/man/BAtensorfn.Rd | 18 Data2LD-3.2.1/Data2LD/man/Btensorfn.Rd | 20 Data2LD-3.2.1/Data2LD/man/Data2LD.Rd | 209 +- Data2LD-3.2.1/Data2LD/man/Data2LD.opt.Rd | 134 - Data2LD-3.2.1/Data2LD/man/Data2LD2-package.Rd |only Data2LD-3.2.1/Data2LD/man/checkModel.Rd |only Data2LD-3.2.1/Data2LD/man/fdascript.Rd | 4 Data2LD-3.2.1/Data2LD/man/growth.Rd |only Data2LD-3.2.1/Data2LD/man/make.Fterm.Rd | 51 Data2LD-3.2.1/Data2LD/man/make.Variable.Rd | 386 ++-- Data2LD-3.2.1/Data2LD/man/make.Xterm.Rd | 63 Data2LD-3.2.1/Data2LD/man/modelList2Vec.Rd | 21 Data2LD-3.2.1/Data2LD/man/modelVec2List.Rd | 5 Data2LD-3.2.1/Data2LD/man/printModel.Rd |only Data2LD-3.2.1/Data2LD/src/DASarrayFnCpp.cpp | 25 Data2LD-3.2.1/Data2LD/src/DASarrayFnCpp.h | 2 Data2LD-3.2.1/Data2LD/src/DBSarrayFnCpp.cpp | 23 Data2LD-3.2.1/Data2LD/src/DBSarrayFnCpp.h | 2 Data2LD-3.2.1/Data2LD/src/SmatFnCpp.cpp | 25 Data2LD-3.2.1/Data2LD/src/SmatFnCpp.h | 4 Data2LD-3.2.1/Data2LD/src/init.c | 11 Data2LD-3.2.1/Data2LD/vignettes/Data2LD.Rmd | 616 +++---- 67 files changed, 4101 insertions(+), 3701 deletions(-)
Title: Automated Deconvolution Augmentation of Profiles for Tissue
Specific Cells
Description: Augments existing or de-novo cell-type signature matrices to deconvolve bulk gene expression data.
Useful for building signature matrices from single cell RNAseq data, determine cell type deconvolution
spillover, and hierarchical deconvolution to use spillover to increase deconvolution accuracy. Please cite:
Danziger SA et al. (2019) ADAPTS: Automated Deconvolution Augmentation of Profiles for
Tissue Specific cells <doi:10.1101/633958>. This package expands on the techniques outlined in Newman AM,
Liu CL, Green MR, Gentles AJ, Feng W, Xu Y,
Hoang CD, Diehn M, Alizadeh, AA (2015) <doi:10.1038/nmeth.3337>'s Nature Methods paper:
'Robust enumeration of cell subsets from tissue expression profiles' to allow a user to easily add
their own cell types (e.g. a tumor specific cell type) to Newman's LM22 or other signature matrix.
Author: Samuel A Danziger
Maintainer: Samuel A Danziger <sam.danziger@gmail.com>
Diff between ADAPTS versions 0.9.26 dated 2019-10-29 and 1.0.3 dated 2020-08-05
DESCRIPTION | 10 MD5 | 49 + NAMESPACE | 9 R/MakeSigMatrix.R | 687 ++++++++++++++++++++++++--- R/onlyDeconAlgorithms.R | 172 ++++-- build/vignette.rds |binary inst/doc/ADAPTS3.vignette.html |only inst/doc/ADAPTS3.vignette.html.asis |only inst/doc/ADAPTS4.vignette.html |only inst/doc/ADAPTS4.vignette.html.asis |only man/AugmentSigMatrix.Rd | 20 man/buildSeed.Rd |only man/calcAcc.Rd |only man/clustWspillOver.Rd | 9 man/collapseCellTypes.Rd | 2 man/estCellPercent.DCQ.Rd | 10 man/estCellPercent.proportionsInAdmixture.Rd | 3 man/estCellPercent.spillOver.Rd | 3 man/estCellPercent.svmdecon.Rd | 9 man/gListFromRF.Rd |only man/getF1mcc.Rd |only man/hierarchicalClassify.Rd | 20 man/hierarchicalSplit.Rd | 20 man/plotKappas.Rd |only man/rankByT.Rd | 10 man/remakeLM22p.Rd | 14 man/scSample.Rd |only man/shrinkByKappa.Rd |only man/shrinkSigMatrix.Rd |only man/spillToConvergence.Rd | 10 man/splitSCdata.Rd |only vignettes/ADAPTS3.vignette.html.asis |only vignettes/ADAPTS4.vignette.html.asis |only 33 files changed, 871 insertions(+), 186 deletions(-)
Title: Easily Create Presentation-Ready Display Tables
Description: Build display tables from tabular data with an easy-to-use set of
functions. With its progressive approach, we can construct display tables
with a cohesive set of table parts. Table values can be formatted using any
of the included formatting functions. Footnotes and cell styles can be
precisely added through a location targeting system. The way in which 'gt'
handles things for you means that you don't often have to worry about the
fine details.
Author: Richard Iannone [aut, cre] (<https://orcid.org/0000-0003-3925-190X>),
Joe Cheng [aut],
Barret Schloerke [aut] (<https://orcid.org/0000-0001-9986-114X>),
RStudio [cph, fnd]
Maintainer: Richard Iannone <rich@rstudio.com>
Diff between gt versions 0.2.1 dated 2020-05-23 and 0.2.2 dated 2020-08-05
gt-0.2.1/gt/man/figures/countrypops.png |only gt-0.2.1/gt/man/figures/exibble.svg |only gt-0.2.1/gt/man/figures/gt-test-drive.svg |only gt-0.2.1/gt/man/figures/gt_parts_of_a_table.svg |only gt-0.2.1/gt/man/figures/gt_sp500_table.svg |only gt-0.2.1/gt/man/figures/gt_workflow_diagram.svg |only gt-0.2.1/gt/man/figures/gtcars.svg |only gt-0.2.1/gt/man/figures/logo.svg |only gt-0.2.1/gt/man/figures/pizzaplace.svg |only gt-0.2.1/gt/man/figures/sp500.svg |only gt-0.2.1/gt/man/figures/sza.svg |only gt-0.2.1/gt/man/figures/tables_from_the_web.png |only gt-0.2.2/gt/DESCRIPTION | 10 gt-0.2.2/gt/MD5 | 169 ++++----- gt-0.2.2/gt/NAMESPACE | 7 gt-0.2.2/gt/NEWS.md | 28 + gt-0.2.2/gt/R/compile_scss.R | 21 + gt-0.2.2/gt/R/data_color.R | 191 ++++------- gt-0.2.2/gt/R/dt_options.R | 14 gt-0.2.2/gt/R/format_data.R | 74 +++- gt-0.2.2/gt/R/helpers.R | 202 ++++++++++- gt-0.2.2/gt/R/info_tables.R | 205 +++++++++++ gt-0.2.2/gt/R/modify_columns.R | 49 +- gt-0.2.2/gt/R/opts.R | 242 +++++++++++++ gt-0.2.2/gt/R/reexports.R | 4 gt-0.2.2/gt/R/sysdata.rda |binary gt-0.2.2/gt/R/tab_create_modify.R | 95 ++++- gt-0.2.2/gt/R/utils.R | 48 ++ gt-0.2.2/gt/R/utils_formatters.R | 46 ++ gt-0.2.2/gt/R/utils_render_html.R | 111 ++++-- gt-0.2.2/gt/R/zzz.R | 10 gt-0.2.2/gt/README.md | 176 ---------- gt-0.2.2/gt/inst/css/gt_styles_default.scss | 10 gt-0.2.2/gt/inst/extdata/google_axes_tbl.csv |only gt-0.2.2/gt/inst/extdata/google_font_tbl.csv |only gt-0.2.2/gt/inst/extdata/google_styles_tbl.csv |only gt-0.2.2/gt/man/adjust_luminance.Rd | 4 gt-0.2.2/gt/man/cell_borders.Rd | 2 gt-0.2.2/gt/man/cell_fill.Rd | 2 gt-0.2.2/gt/man/cell_text.Rd | 6 gt-0.2.2/gt/man/cells_body.Rd | 2 gt-0.2.2/gt/man/cells_column_labels.Rd | 2 gt-0.2.2/gt/man/cells_column_spanners.Rd | 2 gt-0.2.2/gt/man/cells_grand_summary.Rd | 2 gt-0.2.2/gt/man/cells_row_groups.Rd | 2 gt-0.2.2/gt/man/cells_stub.Rd | 2 gt-0.2.2/gt/man/cells_stubhead.Rd | 2 gt-0.2.2/gt/man/cells_summary.Rd | 2 gt-0.2.2/gt/man/cells_title.Rd | 2 gt-0.2.2/gt/man/cols_width.Rd | 23 - gt-0.2.2/gt/man/currency.Rd | 2 gt-0.2.2/gt/man/data_color.Rd | 16 gt-0.2.2/gt/man/default_fonts.Rd |only gt-0.2.2/gt/man/escape_latex.Rd | 4 gt-0.2.2/gt/man/figures/man_cols_width_1.png |binary gt-0.2.2/gt/man/figures/man_default_fonts_1.png |only gt-0.2.2/gt/man/figures/man_google_font_1.png |only gt-0.2.2/gt/man/figures/man_google_font_2.png |only gt-0.2.2/gt/man/figures/man_opt_css_1.png |only gt-0.2.2/gt/man/figures/man_opt_table_font_1.png |only gt-0.2.2/gt/man/figures/man_opt_table_font_2.png |only gt-0.2.2/gt/man/figures/man_tab_style_3.png |only gt-0.2.2/gt/man/fmt_currency.Rd | 6 gt-0.2.2/gt/man/fmt_number.Rd | 14 gt-0.2.2/gt/man/fmt_percent.Rd | 21 - gt-0.2.2/gt/man/google_font.Rd |only gt-0.2.2/gt/man/gt-package.Rd | 4 gt-0.2.2/gt/man/gt_latex_dependencies.Rd | 4 gt-0.2.2/gt/man/gtsave.Rd | 1 gt-0.2.2/gt/man/html.Rd | 2 gt-0.2.2/gt/man/info_currencies.Rd | 8 gt-0.2.2/gt/man/info_date_style.Rd | 6 gt-0.2.2/gt/man/info_google_fonts.Rd |only gt-0.2.2/gt/man/info_locales.Rd | 4 gt-0.2.2/gt/man/info_paletteer.Rd | 4 gt-0.2.2/gt/man/info_time_style.Rd | 6 gt-0.2.2/gt/man/md.Rd | 2 gt-0.2.2/gt/man/opt_align_table_header.Rd | 2 gt-0.2.2/gt/man/opt_all_caps.Rd | 2 gt-0.2.2/gt/man/opt_css.Rd |only gt-0.2.2/gt/man/opt_footnote_marks.Rd | 2 gt-0.2.2/gt/man/opt_row_striping.Rd | 2 gt-0.2.2/gt/man/opt_table_font.Rd |only gt-0.2.2/gt/man/opt_table_lines.Rd | 2 gt-0.2.2/gt/man/opt_table_outline.Rd | 2 gt-0.2.2/gt/man/pct.Rd | 2 gt-0.2.2/gt/man/px.Rd | 2 gt-0.2.2/gt/man/random_id.Rd | 4 gt-0.2.2/gt/man/reexports.Rd | 5 gt-0.2.2/gt/man/tab_options.Rd | 44 +- gt-0.2.2/gt/man/tab_style.Rd | 26 + gt-0.2.2/gt/tests/testthat/helper-gt_attr_expectations.R | 2 gt-0.2.2/gt/tests/testthat/test-cols_width.R | 260 +++++++++------ gt-0.2.2/gt/tests/testthat/test-fmt_number.R | 250 ++++++++++++++ gt-0.2.2/gt/tests/testthat/test-fmt_percent.R | 11 gt-0.2.2/gt/tests/testthat/test-info_tables.R | 17 gt-0.2.2/gt/tests/testthat/test-opt_functions.R | 111 ++++++ gt-0.2.2/gt/tests/testthat/test-tab_style.R | 40 ++ gt-0.2.2/gt/tests/testthat/test-util_functions.R | 5 99 files changed, 1998 insertions(+), 664 deletions(-)
Title: Hidden Markov Models of Character Evolution
Description: Fits hidden Markov models of discrete character evolution which allow different transition rate classes on different portions of a phylogeny. Beaulieu et al (2013) <doi:10.1093/sysbio/syt034>.
Author: Jeremy Beaulieu [aut, cre],
Brian O'Meara [aut],
Jeffrey Oliver [aut],
James Boyko [aut]
Maintainer: Jeremy Beaulieu <jmbeauli@uark.edu>
Diff between corHMM versions 2.2 dated 2020-07-08 and 2.3 dated 2020-08-05
DESCRIPTION | 8 - MD5 | 22 ++-- R/ancRECON.R | 50 ++------- R/corHMM.R | 119 +++++++++-------------- R/rate.mat.maker.R | 50 ++++----- R/rayDISC.R | 13 +- inst/doc/corHMMv2.1-vignette.R | 4 inst/doc/corHMMv2.1-vignette.Rmd | 4 inst/doc/corHMMv2.1-vignette.pdf |binary man/corHMM.Rd | 4 vignettes/corHMMv2.1-vignette.Rmd | 4 vignettes/corHMMv2.1-vignette.html | 186 ++++++++++++++----------------------- 12 files changed, 187 insertions(+), 277 deletions(-)
Title: Manipulation Testing Based on Density Discontinuity
Description: Density discontinuity testing (a.k.a. manipulation testing) is commonly employed in regression discontinuity designs and other program evaluation settings to detect perfect self-selection (manipulation) around a cutoff where treatment/policy assignment changes. This package implements manipulation testing procedures using the local polynomial density estimators: rddensity() to construct test statistics and p-values given a prespecified cutoff, rdbwdensity() to perform data-driven bandwidth selection, and rdplotdensity() to construct density plots.
Author: Matias D. Cattaneo, Michael Jansson, Xinwei Ma
Maintainer: Xinwei Ma <x1ma@ucsd.edu>
Diff between rddensity versions 1.0 dated 2019-07-12 and 2.0 dated 2020-08-05
DESCRIPTION | 10 - MD5 | 33 +-- NAMESPACE | 1 R/rdbwdensity.R | 215 ++++++++++++++++++---- R/rddensity-package.R | 51 +++-- R/rddensity.R | 444 +++++++++++++++++++++++++++++++++++++++-------- R/rddensity_fun.R | 125 +++++++++++-- R/rddensity_senate.R | 2 R/rdplotdensity.R | 175 +++++++++++++----- man/h_opt_density.Rd | 3 man/h_opt_density_res.Rd | 11 - man/rdbwdensity.Rd | 93 ++++++--- man/rddensity-package.Rd | 50 +++-- man/rddensity.Rd | 200 +++++++++++++++------ man/rddensityUnique.Rd |only man/rddensity_fV.Rd | 19 +- man/rddensity_senate.Rd | 8 man/rdplotdensity.Rd | 167 +++++++++++++---- 18 files changed, 1238 insertions(+), 369 deletions(-)
Title: Regression Methods for IBD Linkage with Covariates
Description: Method to test genetic linkage with covariates by
regression methods with response IBD sharing for relative
pairs. Account for correlations of IBD statistics and
covariates for relative pairs within the same pedigree.
Author: Jason P. Sinnwell and Daniel J. Schaid
Maintainer: Jason P. Sinnwell <Sinnwell.Jason@mayo.edu>
Diff between ibdreg versions 0.2.5 dated 2013-04-20 and 0.3.1 dated 2020-08-05
ibdreg-0.2.5/ibdreg/inst/doc/manualIBDReg.pdf |only ibdreg-0.2.5/ibdreg/perl |only ibdreg-0.3.1/ibdreg/DESCRIPTION | 19 ++++++---- ibdreg-0.3.1/ibdreg/MD5 | 38 ++++++++++++--------- ibdreg-0.3.1/ibdreg/NAMESPACE | 1 ibdreg-0.3.1/ibdreg/R/Ginv.R | 6 +-- ibdreg-0.3.1/ibdreg/R/create.pairs.frame.q | 4 +- ibdreg-0.3.1/ibdreg/R/linkage.tests.B0.q | 4 +- ibdreg-0.3.1/ibdreg/R/printBanner.q | 2 - ibdreg-0.3.1/ibdreg/README.md |only ibdreg-0.3.1/ibdreg/build |only ibdreg-0.3.1/ibdreg/inst/NEWS.Rd | 12 ++++++ ibdreg-0.3.1/ibdreg/inst/doc/README.ibdreg |only ibdreg-0.3.1/ibdreg/inst/doc/ibdreg.Rnw |only ibdreg-0.3.1/ibdreg/inst/doc/ibdreg.pdf |only ibdreg-0.3.1/ibdreg/inst/doc/manualIBDReg.pdf.asis |only ibdreg-0.3.1/ibdreg/inst/doc/manualIBDReg.rnwsave |only ibdreg-0.3.1/ibdreg/inst/perl |only ibdreg-0.3.1/ibdreg/man/sim.ibd.var.Rd | 37 +++----------------- ibdreg-0.3.1/ibdreg/man/sim.mark.prop.Rd | 31 +---------------- ibdreg-0.3.1/ibdreg/src/lsConstrain.c | 2 - ibdreg-0.3.1/ibdreg/vignettes |only 22 files changed, 65 insertions(+), 91 deletions(-)
Title: Interface to 'Interpretable AI' Modules
Description: An interface to the algorithms of 'Interpretable AI'
<https://www.interpretable.ai> from the R programming language.
'Interpretable AI' provides various modules, including 'Optimal Trees' for
classification, regression, prescription and survival analysis, 'Optimal
Imputation' for missing data imputation and outlier detection, and 'Optimal
Feature Selection' for exact sparse regression. The 'iai' package is an
open-source project. The 'Interpretable AI' software modules are proprietary
products, but free academic and evaluation licenses are available.
Author: Jack Dunn [aut, cre],
Ying Zhuo [aut],
Interpretable AI LLC [cph]
Maintainer: Jack Dunn <jack@interpretable.ai>
Diff between iai versions 1.2.0 dated 2020-01-29 and 1.3.0 dated 2020-08-05
DESCRIPTION | 10 - MD5 | 214 ++++++++++++---------- NAMESPACE | 17 + NEWS.md | 8 R/iaibase.R | 200 ++++++++++++++++----- R/iaitrees.R | 243 +++++++++++++++++-------- R/interface.R | 40 +++- R/optimalfeatureselection.R | 16 - R/optimaltrees.R | 96 ++++++++-- R/optimpute.R | 36 +-- R/rewardestimation.R |only R/utils.R | 2 inst/julia/convert.jl | 9 man/apply.Rd | 2 man/apply_nodes.Rd | 2 man/as.mixeddata.Rd | 2 man/clone.Rd | 2 man/decision_path.Rd | 2 man/delete_rich_output_param.Rd | 2 man/fit.Rd | 2 man/fit_cv.Rd | 2 man/fit_predict.Rd |only man/fit_transform.Rd | 6 man/fit_transform_cv.Rd | 2 man/get_best_params.Rd | 2 man/get_classification_label.Rd | 2 man/get_classification_proba.Rd | 2 man/get_depth.Rd | 2 man/get_grid_results.Rd | 2 man/get_learner.Rd | 2 man/get_lower_child.Rd | 2 man/get_num_nodes.Rd | 2 man/get_num_samples.Rd | 2 man/get_params.Rd | 2 man/get_parent.Rd | 2 man/get_policy_treatment_rank.Rd |only man/get_prediction_constant.Rd | 2 man/get_prediction_weights.Rd | 2 man/get_prescription_treatment_rank.Rd | 2 man/get_regression_constant.Rd | 2 man/get_regression_weights.Rd | 2 man/get_rich_output_params.Rd | 2 man/get_split_categories.Rd | 2 man/get_split_feature.Rd | 2 man/get_split_threshold.Rd | 2 man/get_split_weights.Rd | 2 man/get_survival_curve.Rd | 2 man/get_survival_curve_data.Rd | 6 man/get_upper_child.Rd | 2 man/grid_search.Rd | 2 man/imputation_learner.Rd | 2 man/impute.Rd | 2 man/impute_cv.Rd | 2 man/is_categoric_split.Rd | 2 man/is_hyperplane_split.Rd | 2 man/is_leaf.Rd | 2 man/is_mixed_ordinal_split.Rd | 2 man/is_mixed_parallel_split.Rd | 2 man/is_ordinal_split.Rd | 2 man/is_parallel_split.Rd | 2 man/mean_imputation_learner.Rd | 2 man/missing_goes_lower.Rd | 2 man/multi_questionnaire.Rd | 26 -- man/multi_questionnaire.default.Rd |only man/multi_questionnaire.grid_search.Rd |only man/multi_tree_plot.Rd | 26 -- man/multi_tree_plot.default.Rd |only man/multi_tree_plot.grid_search.Rd |only man/opt_knn_imputation_learner.Rd | 2 man/opt_svm_imputation_learner.Rd | 2 man/opt_tree_imputation_learner.Rd | 2 man/optimal_feature_selection_classifier.Rd | 2 man/optimal_feature_selection_regressor.Rd | 2 man/optimal_tree_classifier.Rd | 2 man/optimal_tree_policy_maximizer.Rd |only man/optimal_tree_policy_minimizer.Rd |only man/optimal_tree_prescription_maximizer.Rd | 2 man/optimal_tree_prescription_minimizer.Rd | 2 man/optimal_tree_regressor.Rd | 2 man/optimal_tree_survival_learner.Rd |only man/optimal_tree_survivor.Rd | 4 man/predict.Rd | 2 man/predict_expected_survival_time.Rd |only man/predict_hazard.Rd | 2 man/predict_outcomes.Rd | 14 + man/predict_proba.Rd | 2 man/print_path.Rd | 2 man/questionnaire.Rd | 4 man/rand_imputation_learner.Rd | 2 man/read_json.Rd | 2 man/reset_display_label.Rd | 2 man/reward_estimator.Rd |only man/roc_curve.Rd | 16 - man/roc_curve.default.Rd |only man/roc_curve.learner.Rd |only man/score.Rd | 2 man/set_display_label.Rd | 2 man/set_params.Rd | 2 man/set_rich_output_param.Rd | 2 man/set_threshold.Rd | 2 man/show_in_browser.Rd | 7 man/show_questionnaire.Rd | 9 man/single_knn_imputation_learner.Rd | 2 man/split_data.Rd | 2 man/transform.Rd | 2 man/tree_plot.Rd | 4 man/variable_importance.Rd | 7 man/write_dot.Rd | 2 man/write_html.Rd | 9 man/write_json.Rd | 2 man/write_png.Rd | 2 man/write_questionnaire.Rd | 9 tests/testthat/test_iaibase.R | 17 + tests/testthat/test_iaitrees.R | 265 +++++++++++++++++++++------- tests/testthat/test_optimaltrees.R | 76 ++++++++ 115 files changed, 1044 insertions(+), 496 deletions(-)
Title: A Graphical User Interface for Network Modeling with 'Statnet'
Description: A graphical user interface for network modeling with the 'statnet'
software <https://github.com/statnet>.
Author: Martina Morris [cre, aut],
Emily Beylerian [aut],
Kirk Li [ctb],
Samuel Jenness [ctb]
Maintainer: Martina Morris <morrism@uw.edu>
Diff between statnetWeb versions 0.5.5 dated 2019-06-17 and 0.5.6 dated 2020-08-05
statnetWeb-0.5.5/statnetWeb/man/run_sw.Rd |only statnetWeb-0.5.6/statnetWeb/DESCRIPTION | 10 ++-- statnetWeb-0.5.6/statnetWeb/MD5 | 9 ++- statnetWeb-0.5.6/statnetWeb/NEWS.md |only statnetWeb-0.5.6/statnetWeb/README.md | 28 ++++++++--- statnetWeb-0.5.6/statnetWeb/inst/shiny/statnetWeb/ui.R | 40 ++++++++--------- statnetWeb-0.5.6/statnetWeb/man/run_sW.Rd |only 7 files changed, 49 insertions(+), 38 deletions(-)
Title: Maximum Likelihood Estimation for Univariate Densities
Description: User-friendly maximum likelihood estimation (Fisher (1921)
<doi:10.1098/rsta.1922.0009>) of univariate densities.
Author: Jonas Moss [aut, cre] (<https://orcid.org/0000-0002-6876-6964>),
Thomas Nagler [ctb]
Maintainer: Jonas Moss <jonas.gjertsen@gmail.com>
Diff between univariateML versions 1.0.0 dated 2019-12-18 and 1.1.0 dated 2020-08-05
DESCRIPTION | 21 +- MD5 | 78 ++++++---- NAMESPACE | 7 R/data-abalone.R | 2 R/densities.R | 1 R/functions.R | 33 +++- R/mlged.R |only R/mlsged.R |only R/mlsnorm.R |only R/mlsstd.R |only R/mlstd.R |only R/model_select.R |only README.md | 51 +++++- build/vignette.rds |binary inst/doc/copula.R | 60 ++++--- inst/doc/copula.Rmd | 68 +++------ inst/doc/copula.html | 158 ++++++++++----------- inst/doc/distributions.R | 6 inst/doc/distributions.Rmd | 55 +++---- inst/doc/distributions.html | 35 ++++ inst/doc/overview.R | 29 ++- inst/doc/overview.Rmd | 8 + inst/doc/overview.html | 42 +++-- man/ProbabilityPlots.Rd | 3 man/abalone.Rd | 8 - man/bootstrapml.Rd | 13 + man/confint.univariateML.Rd | 3 man/egypt.Rd | 6 man/figures/README-weibull_plot-1.png |binary man/ml_input_checker.Rd | 2 man/mlged.Rd |only man/mlsged.Rd |only man/mlsnorm.Rd |only man/mlsstd.Rd |only man/mlstd.Rd |only man/model_select.Rd |only man/univariateML-package.Rd | 7 man/univariateML_models.Rd |only tests/testthat/test_mlged.R |only tests/testthat/test_mlsged.R |only tests/testthat/test_mlsnorm.R |only tests/testthat/test_mlsstd.R |only tests/testthat/test_mlstd.R |only tests/testthat/test_model_select.R |only vignettes/copula.Rmd | 68 +++------ vignettes/copula.md |only vignettes/copula_files/figure-html/make_data-1.png |binary vignettes/copula_files/figure-markdown_strict |only vignettes/distributions.Rmd | 55 +++---- vignettes/distributions_files |only vignettes/overview.Rmd | 8 + 51 files changed, 478 insertions(+), 349 deletions(-)
Title: Download and Explore Datasets from UCSC Xena Data Hubs
Description: Download and explore datasets from UCSC Xena data hubs, which are
a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Xue-Song Liu [aut] (<https://orcid.org/0000-0002-7736-0077>),
Martin Morgan [ctb],
Christine Stawitz [rev] (Christine reviewed the package for ropensci,
see <https://github.com/ropensci/software-review/issues/315>),
Carl Ganz [rev] (Carl reviewed the package for ropensci, see
<https://github.com/ropensci/software-review/issues/315>)
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaTools versions 1.3.2 dated 2020-07-14 and 1.3.3 dated 2020-08-05
DESCRIPTION | 6 ++--- MD5 | 24 +++++++++++------------ NAMESPACE | 1 NEWS.md | 6 +++++ R/XenaHub-class.R | 2 - R/fetch.R | 40 +++++++++++++++++++++++++++++++++++++-- README.md | 14 ++++++++++++- data/XenaData.rda |binary inst/doc/USCSXenaTools.Rmd | 2 - inst/doc/USCSXenaTools.html | 10 ++++----- man/fetch.Rd | 9 +++++++- tests/testthat/test-full-tests.R | 2 - vignettes/USCSXenaTools.Rmd | 2 - 13 files changed, 90 insertions(+), 28 deletions(-)
Title: Power and Sample Size for (Bio)Equivalence Studies
Description: Contains functions to calculate power and sample size for
various study designs used in bioequivalence studies. Use known.designs() to
see the designs supported. Power and sample size can be obtained based on
different methods, amongst them prominently the TOST procedure (two one-sided t-tests).
See README and NEWS for further information.
Author: Detlew Labes [aut, cre] (<https://orcid.org/0000-0003-2169-426X>),
Helmut Schütz [aut] (<https://orcid.org/0000-0002-1167-7880>),
Benjamin Lang [aut]
Maintainer: Detlew Labes <DetlewLabes@gmx.de>
Diff between PowerTOST versions 1.4-9 dated 2019-12-19 and 1.5-0 dated 2020-08-05
PowerTOST-1.4-9/PowerTOST/inst/doc/RSABE.R |only PowerTOST-1.5-0/PowerTOST/DESCRIPTION | 12 PowerTOST-1.5-0/PowerTOST/MD5 | 107 PowerTOST-1.5-0/PowerTOST/NAMESPACE | 2 PowerTOST-1.5-0/PowerTOST/NEWS.md | 171 - PowerTOST-1.5-0/PowerTOST/R/power_PASS.R | 22 PowerTOST-1.5-0/PowerTOST/R/pvalue.TOST.R | 2 PowerTOST-1.5-0/PowerTOST/R/scABEL.ad.R | 2 PowerTOST-1.5-0/PowerTOST/README.md | 8 PowerTOST-1.5-0/PowerTOST/build/partial.rdb |binary PowerTOST-1.5-0/PowerTOST/build/vignette.rds |binary PowerTOST-1.5-0/PowerTOST/inst/doc/ABE.R | 18 PowerTOST-1.5-0/PowerTOST/inst/doc/ABE.Rmd | 40 PowerTOST-1.5-0/PowerTOST/inst/doc/ABE.html | 710 ++--- PowerTOST-1.5-0/PowerTOST/inst/doc/DP.Rmd | 15 PowerTOST-1.5-0/PowerTOST/inst/doc/DP.html | 353 +- PowerTOST-1.5-0/PowerTOST/inst/doc/Expected_Power_for_TOST.pdf |binary PowerTOST-1.5-0/PowerTOST/inst/doc/NI.R | 8 PowerTOST-1.5-0/PowerTOST/inst/doc/NI.Rmd | 27 PowerTOST-1.5-0/PowerTOST/inst/doc/NI.html | 245 - PowerTOST-1.5-0/PowerTOST/inst/doc/PA.Rmd | 18 PowerTOST-1.5-0/PowerTOST/inst/doc/PA.html | 209 - PowerTOST-1.5-0/PowerTOST/inst/doc/RSABE.Rmd | 492 ++- PowerTOST-1.5-0/PowerTOST/inst/doc/RSABE.html | 1390 +++++----- PowerTOST-1.5-0/PowerTOST/inst/doc/vignette.Rmd | 6 PowerTOST-1.5-0/PowerTOST/inst/doc/vignette.html | 190 - PowerTOST-1.5-0/PowerTOST/inst/tests/test_ABEL.R | 8 PowerTOST-1.5-0/PowerTOST/man/data_2x4x4.Rd | 2 PowerTOST-1.5-0/PowerTOST/man/exppower.TOST.Rd | 35 PowerTOST-1.5-0/PowerTOST/man/exppower.noninf.Rd | 28 PowerTOST-1.5-0/PowerTOST/man/expsampleN.TOST.Rd | 38 PowerTOST-1.5-0/PowerTOST/man/expsampleN.noninf.Rd | 29 PowerTOST-1.5-0/PowerTOST/man/power.TOST.Rd | 37 PowerTOST-1.5-0/PowerTOST/man/power.TOST.sim.Rd | 36 PowerTOST-1.5-0/PowerTOST/man/power.noninf.Rd | 25 PowerTOST-1.5-0/PowerTOST/man/pvalue.TOST.Rd | 29 PowerTOST-1.5-0/PowerTOST/man/sampleN.2TOST.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.HVNTID.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.NTIDFDA.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.RSABE.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.RSABE2L.sdsims.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.RatioF.Rd | 5 PowerTOST-1.5-0/PowerTOST/man/sampleN.TOST.Rd | 44 PowerTOST-1.5-0/PowerTOST/man/sampleN.dp.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.noninf.Rd | 34 PowerTOST-1.5-0/PowerTOST/man/sampleN.scABEL.Rd | 1 PowerTOST-1.5-0/PowerTOST/man/sampleN.scABEL.ad.Rd | 3 PowerTOST-1.5-0/PowerTOST/man/sampleN.scABEL.sdsims.Rd | 3 PowerTOST-1.5-0/PowerTOST/vignettes/ABE.Rmd | 40 PowerTOST-1.5-0/PowerTOST/vignettes/DP.Rmd | 15 PowerTOST-1.5-0/PowerTOST/vignettes/NI.Rmd | 27 PowerTOST-1.5-0/PowerTOST/vignettes/PA.Rmd | 18 PowerTOST-1.5-0/PowerTOST/vignettes/RSABE.Rmd | 492 ++- PowerTOST-1.5-0/PowerTOST/vignettes/vignette.Rmd | 6 PowerTOST-1.5-0/PowerTOST/vignettes/vignette.css | 5 55 files changed, 2919 insertions(+), 2106 deletions(-)
Title: Multivariate Imputation by Chained Equations
Description: Multiple imputation using Fully Conditional Specification (FCS)
implemented by the MICE algorithm as described in Van Buuren and
Groothuis-Oudshoorn (2011) <doi:10.18637/jss.v045.i03>. Each variable has
its own imputation model. Built-in imputation models are provided for
continuous data (predictive mean matching, normal), binary data (logistic
regression), unordered categorical data (polytomous logistic regression)
and ordered categorical data (proportional odds). MICE can also impute
continuous two-level data (normal model, pan, second-level variables).
Passive imputation can be used to maintain consistency between variables.
Various diagnostic plots are available to inspect the quality of the
imputations.
Author: Stef van Buuren [aut, cre],
Karin Groothuis-Oudshoorn [aut],
Gerko Vink [ctb],
Rianne Schouten [ctb],
Alexander Robitzsch [ctb],
Lisa Doove [ctb],
Shahab Jolani [ctb],
Margarita Moreno-Betancur [ctb],
Ian White [ctb],
Philipp Gaffert [ctb],
Florian Meinfelder [ctb],
Bernie Gray [ctb],
Vincent Arel-Bundock [ctb]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>
Diff between mice versions 3.10.0.1 dated 2020-08-02 and 3.11.0 dated 2020-08-05
DESCRIPTION | 12 +- MD5 | 85 ++++++++-------- NAMESPACE | 3 NEWS.md | 13 ++ R/Ampute.R | 177 +++++++++++++++++------------------ R/D1.R | 42 ++++---- R/D2.R | 9 - R/D3.R | 17 ++- R/anova.R | 15 +- R/bwplot.R | 6 - R/cbind.R | 2 R/densityplot.R | 4 R/employee.R | 2 R/fix.coef.R | 4 R/generics.R | 2 R/get.df.R |only R/imports.R | 2 R/install.on.demand.R | 11 -- R/mdc.R | 4 R/mice-package.R | 1 R/mipo.R | 8 + R/pool.R | 46 +-------- R/pool.r.squared.R | 31 ++---- R/stripplot.R | 4 R/summary.R | 6 - R/xyplot.R | 2 man/D1.Rd | 13 +- man/D2.Rd | 4 man/D3.Rd | 11 +- man/ampute.Rd | 173 +++++++++++++++++----------------- man/bwplot.mids.Rd | 6 - man/cbind.Rd | 2 man/cbind.mids.Rd | 2 man/densityplot.mids.Rd | 4 man/employee.Rd | 2 man/mdc.Rd | 4 man/mipo.Rd | 8 + man/pool.Rd | 2 man/pool.r.squared.Rd | 25 +--- man/stripplot.mids.Rd | 4 man/xyplot.mids.Rd | 2 tests/testthat/test-ampute.R | 23 ++-- tests/testthat/test-anova.R | 28 ++++- tests/testthat/test-pool.r.squared.R | 18 --- 44 files changed, 426 insertions(+), 413 deletions(-)
Title: Comprehensive TIFF I/O with Full Support for 'ImageJ' TIFF Files
Description: General purpose TIFF file I/O for R users.
Currently the only such package with read and write support for TIFF
files with floating point (real-numbered) pixels, and the only package
that can correctly import TIFF files that were saved from 'ImageJ' and
write TIFF files than can be correctly read by 'ImageJ'
<https://imagej.nih.gov/ij/>. Also supports text image I/O.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>),
Kent Johnson [aut],
Simon Urbanek [ctb],
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>),
Jeroen Ooms [rev, ctb] (<https://orcid.org/0000-0002-4035-0289>),
Jon Clayden [rev] (<https://orcid.org/0000-0002-6608-0619>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between ijtiff versions 2.1.2 dated 2020-07-24 and 2.2.0 dated 2020-08-05
ijtiff-2.1.2/ijtiff/R/RcppExports.R |only ijtiff-2.1.2/ijtiff/src/RcppExports.cpp |only ijtiff-2.1.2/ijtiff/src/utils.cpp |only ijtiff-2.1.2/ijtiff/tests/figs/graphics/basic-r-logo-again.svg |only ijtiff-2.1.2/ijtiff/tests/figs/graphics/basic-r-logo.svg |only ijtiff-2.1.2/ijtiff/tests/testthat/printing_of_Rlogo-banana-red.txt |only ijtiff-2.2.0/ijtiff/DESCRIPTION | 19 ijtiff-2.2.0/ijtiff/MD5 | 112 +- ijtiff-2.2.0/ijtiff/NAMESPACE | 2 ijtiff-2.2.0/ijtiff/NEWS.md | 9 ijtiff-2.2.0/ijtiff/R/argument-checking.R |only ijtiff-2.2.0/ijtiff/R/class_constructors.R | 16 ijtiff-2.2.0/ijtiff/R/graphics.R | 16 ijtiff-2.2.0/ijtiff/R/ijtiff.R | 4 ijtiff-2.2.0/ijtiff/R/print.R | 26 ijtiff-2.2.0/ijtiff/R/read.R | 18 ijtiff-2.2.0/ijtiff/R/text-io.R | 2 ijtiff-2.2.0/ijtiff/R/utils.R | 375 ++++++---- ijtiff-2.2.0/ijtiff/R/write.R | 133 +-- ijtiff-2.2.0/ijtiff/README.md | 10 ijtiff-2.2.0/ijtiff/build/vignette.rds |binary ijtiff-2.2.0/ijtiff/inst/doc/reading-and-writing-images.Rmd | 2 ijtiff-2.2.0/ijtiff/inst/doc/reading-and-writing-images.html | 18 ijtiff-2.2.0/ijtiff/inst/doc/text-images.html | 4 ijtiff-2.2.0/ijtiff/inst/doc/the-imagej-problem.R | 4 ijtiff-2.2.0/ijtiff/inst/doc/the-imagej-problem.Rmd | 14 ijtiff-2.2.0/ijtiff/inst/doc/the-imagej-problem.html | 50 - ijtiff-2.2.0/ijtiff/inst/img/32x32x6x12-IJ-LUT.tif |only ijtiff-2.2.0/ijtiff/inst/img/32x32x6x12-R-noLUT.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana-1-2.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana-red.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana-red_green.tif |binary ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana3.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana4.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-banana5.tif |only ijtiff-2.2.0/ijtiff/inst/img/Rlogo-grey.tif |binary ijtiff-2.2.0/ijtiff/inst/img/Rlogo-grey2.tif |only ijtiff-2.2.0/ijtiff/inst/img/ropensci_footer.png |only ijtiff-2.2.0/ijtiff/man/as_EBImage.Rd | 5 ijtiff-2.2.0/ijtiff/man/count_frames.Rd | 3 ijtiff-2.2.0/ijtiff/man/display.Rd | 14 ijtiff-2.2.0/ijtiff/man/read_tags.Rd | 5 ijtiff-2.2.0/ijtiff/man/read_tif.Rd | 7 ijtiff-2.2.0/ijtiff/man/text-image-io.Rd | 2 ijtiff-2.2.0/ijtiff/man/write_tif.Rd | 2 ijtiff-2.2.0/ijtiff/src/Makevars.win | 10 ijtiff-2.2.0/ijtiff/src/common.c | 15 ijtiff-2.2.0/ijtiff/src/common.h | 8 ijtiff-2.2.0/ijtiff/src/init.c |only ijtiff-2.2.0/ijtiff/src/read.c | 15 ijtiff-2.2.0/ijtiff/src/utils.c |only ijtiff-2.2.0/ijtiff/tests/figs/deps.txt | 2 ijtiff-2.2.0/ijtiff/tests/figs/graphics/reduced-resolution-basic-r-logo.svg |only ijtiff-2.2.0/ijtiff/tests/testthat/test-as_EBImage-examples.R | 9 ijtiff-2.2.0/ijtiff/tests/testthat/test-class_constructors.R |only ijtiff-2.2.0/ijtiff/tests/testthat/test-count_imgs-examples.R | 3 ijtiff-2.2.0/ijtiff/tests/testthat/test-graphics.R | 42 - ijtiff-2.2.0/ijtiff/tests/testthat/test-io.R | 72 - ijtiff-2.2.0/ijtiff/tests/testthat/test-print.R | 5 ijtiff-2.2.0/ijtiff/tests/testthat/test-read_tags-examples.R | 3 ijtiff-2.2.0/ijtiff/tests/testthat/testthat-figs |only ijtiff-2.2.0/ijtiff/tests/testthat/testthat-files |only ijtiff-2.2.0/ijtiff/tools/winlibs.R | 6 ijtiff-2.2.0/ijtiff/vignettes/reading-and-writing-images.Rmd | 2 ijtiff-2.2.0/ijtiff/vignettes/the-imagej-problem.Rmd | 14 65 files changed, 538 insertions(+), 540 deletions(-)
Title: GeoServer REST API R Interface
Description: Provides an R interface to the GeoServer REST API, allowing to upload
and publish data in a GeoServer web-application and expose data to OGC Web-Services.
The package currently supports all CRUD (Create,Read,Update,Delete) operations
on GeoServer workspaces, namespaces, datastores (stores of vector data), featuretypes,
layers, styles, as well as vector data upload operations. For more information about
the GeoServer REST API, see <http://docs.geoserver.org/stable/en/user/rest/>.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geosapi versions 0.4-1 dated 2019-09-30 and 0.5 dated 2020-08-05
DESCRIPTION | 12 ++--- MD5 | 84 +++++++++++++++++------------------ NAMESPACE | 2 R/GSDatastoreManager.R | 81 ++++++++++++++++++++++++--------- R/GSGeoPackageDataStore.R |only R/GSManager.R | 38 +++++++++++---- R/GSNamespaceManager.R | 14 +++-- R/GSServiceManager.R | 10 ++-- R/GSStyleManager.R | 17 ++++--- R/GSWorkspaceManager.R | 33 +++++++++---- R/geosapi.R | 4 - README.md | 4 - man/GSAbstractDBDataStore.Rd | 5 -- man/GSDataStore.Rd | 5 -- man/GSDataStoreManager.Rd | 9 ++- man/GSDimension.Rd | 7 +- man/GSFeatureType.Rd | 5 -- man/GSGeoPackageDataStore.Rd |only man/GSLayer.Rd | 9 +-- man/GSLayerGroup.Rd | 5 -- man/GSManager.Rd | 5 -- man/GSMetadataLink.Rd | 5 -- man/GSNamespace.Rd | 5 -- man/GSNamespaceManager.Rd | 5 -- man/GSOracleNGDataStore.Rd | 5 -- man/GSPostGISDataStore.Rd | 5 -- man/GSRESTEntrySet.Rd | 5 -- man/GSRESTResource.Rd | 5 -- man/GSResource.Rd | 5 -- man/GSServiceManager.Rd | 5 -- man/GSServiceSettings.Rd | 5 -- man/GSShapefileDataStore.Rd | 5 -- man/GSShapefileDirectoryDataStore.Rd | 5 -- man/GSStyleManager.Rd | 5 -- man/GSUtils.Rd | 5 -- man/GSVersion.Rd | 5 -- man/GSVirtualTable.Rd | 5 -- man/GSVirtualTableGeometry.Rd | 5 -- man/GSVirtualTableParameter.Rd | 5 -- man/GSWorkspace.Rd | 5 -- man/GSWorkspaceManager.Rd | 5 -- man/GSWorkspaceSettings.Rd | 5 -- man/geosapi.Rd | 4 - tests/testthat/test_GSDataStore.R | 37 +++++++++++++++ 44 files changed, 292 insertions(+), 203 deletions(-)
Title: Read, Write, Manipulate, Explore Chess PGN Files and R API to
UCI Chess Engines
Description: Provides functions for reading *.PGN files with more than one game, including large files without copying it into RAM (using 'ff' package or 'RSQLite' package). Handle chess data and chess aggregated data, count figure moves statistics, create player profile, plot winning chances, browse openings. Set of functions of R API to communicate with UCI-protocol based chess engines.
Author: Wojciech Rosa
Maintainer: Wojciech Rosa <w.rosa@pollub.pl>
Diff between bigchess versions 1.9.0 dated 2020-07-03 and 1.9.1 dated 2020-08-05
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NAMESPACE | 1 + R/write.pgn.R | 5 +++-- man/write.pgn.Rd | 4 ++-- 5 files changed, 13 insertions(+), 11 deletions(-)
Title: Access EPA 'ECHO' Data
Description: An R interface to United States Environmental
Protection Agency (EPA) Environmental Compliance
History Online ('ECHO') Application Program Interface
(API). 'ECHO' provides information about EPA permitted
facilities, discharges, and other reporting info
associated with permitted entities. Data are obtained
from <https://echo.epa.gov/>.
Author: Michael Schramm [aut, cre]
Maintainer: Michael Schramm <michael.schramm@ag.tamu.edu>
Diff between echor versions 0.1.4 dated 2020-01-29 and 0.1.5 dated 2020-08-05
echor-0.1.4/echor/tests/spelling.R |only echor-0.1.4/echor/tests/testthat/api/air_rest_services.get_download-f98011.csv |only echor-0.1.4/echor/tests/testthat/api/air_rest_services.get_geojson-4d487a.json |only echor-0.1.4/echor/tests/testthat/api/cwa_rest_services.get_download-279954.csv |only echor-0.1.4/echor/tests/testthat/api/cwa_rest_services.get_download-371b75.csv |only echor-0.1.4/echor/tests/testthat/api/cwa_rest_services.get_geojson-1b9acd.json |only echor-0.1.4/echor/tests/testthat/api/sdw_rest_services.get_download-cd93dc.csv |only echor-0.1.4/echor/vignettes/int/0/air_rest_services.get_download-73d811.csv |only echor-0.1.4/echor/vignettes/int/0/cwa_rest_services.get_download-fbdc39.csv |only echor-0.1.4/echor/vignettes/int/0/eff_rest_services.download_effluent_chart-a94450.json |only echor-0.1.5/echor/DESCRIPTION | 12 echor-0.1.5/echor/MD5 | 147 echor-0.1.5/echor/NAMESPACE | 2 echor-0.1.5/echor/NEWS.md | 10 echor-0.1.5/echor/R/air.R | 21 echor-0.1.5/echor/R/helpers.R | 2 echor-0.1.5/echor/R/sdw.R | 7 echor-0.1.5/echor/R/utils.R | 38 echor-0.1.5/echor/R/water.R | 28 echor-0.1.5/echor/README.md | 414 echor-0.1.5/echor/build/vignette.rds |binary echor-0.1.5/echor/inst/CITATION |only echor-0.1.5/echor/inst/WORDLIST | 5 echor-0.1.5/echor/inst/doc/introduction.R | 74 echor-0.1.5/echor/inst/doc/introduction.Rmd | 66 echor-0.1.5/echor/inst/doc/introduction.html | 832 - echor-0.1.5/echor/man/downloadDMRs.Rd | 68 echor-0.1.5/echor/man/echoAirGetFacilityInfo.Rd | 82 echor-0.1.5/echor/man/echoAirGetMeta.Rd | 48 echor-0.1.5/echor/man/echoGetCAAPR.Rd | 56 echor-0.1.5/echor/man/echoGetEffluent.Rd | 58 echor-0.1.5/echor/man/echoGetFacilities.Rd | 44 echor-0.1.5/echor/man/echoGetReports.Rd | 44 echor-0.1.5/echor/man/echoSDWGetMeta.Rd | 48 echor-0.1.5/echor/man/echoSDWGetSystems.Rd | 50 echor-0.1.5/echor/man/echoWaterGetFacilityInfo.Rd | 84 echor-0.1.5/echor/man/echoWaterGetMeta.Rd | 48 echor-0.1.5/echor/man/echoWaterGetParams.Rd | 60 echor-0.1.5/echor/man/figures/README-example3-1.png |binary echor-0.1.5/echor/man/figures/README-unnamed-chunk-2-1.png |binary echor-0.1.5/echor/man/resp_check.Rd |only echor-0.1.5/echor/tests/testthat/api/air_rest_services.get_download-b9a8bb.csv |only echor-0.1.5/echor/tests/testthat/api/air_rest_services.get_facility_info-96582d.json | 6 echor-0.1.5/echor/tests/testthat/api/air_rest_services.get_facility_info-fdcbbc.json | 6 echor-0.1.5/echor/tests/testthat/api/air_rest_services.get_geojson-b46079.json |only echor-0.1.5/echor/tests/testthat/api/air_rest_services.metadata-a4f118.json | 236 echor-0.1.5/echor/tests/testthat/api/caa_poll_rpt_rest_services.get_caapr-75a2fe.json | 38 echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_download-49c491.csv |only echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_download-cfe86b.csv |only echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_facility_info-3c5df1.json | 23 echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_facility_info-3ebb0f.json | 7 echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_facility_info-5daf35.json | 7 echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.get_geojson-63047a.json |only echor-0.1.5/echor/tests/testthat/api/cwa_rest_services.metadata-a4f118.json | 992 - echor-0.1.5/echor/tests/testthat/api/eff_rest_services.download_effluent_chart-81e3b7.csv | 330 echor-0.1.5/echor/tests/testthat/api/sdw_rest_services.get_download-ba81fc.csv |only echor-0.1.5/echor/tests/testthat/api/sdw_rest_services.get_systems-c651ad.json | 14 echor-0.1.5/echor/tests/testthat/api/sdw_rest_services.metadata-a4f118.json | 60 echor-0.1.5/echor/tests/testthat/test-expected_objects.R | 4 echor-0.1.5/echor/vignettes/int/0/air_rest_services.get_download-9a35d1.csv |only echor-0.1.5/echor/vignettes/int/0/air_rest_services.get_facility_info-dd2056.json | 108 echor-0.1.5/echor/vignettes/int/0/air_rest_services.metadata-a4f118.json | 236 echor-0.1.5/echor/vignettes/int/0/caa_poll_rpt_rest_services.get_caapr-75a2fe.json | 58 echor-0.1.5/echor/vignettes/int/0/cwa_rest_services.get_download-d9c962.csv |only echor-0.1.5/echor/vignettes/int/0/cwa_rest_services.get_facility_info-29a83a.json | 7223 +++++----- echor-0.1.5/echor/vignettes/int/0/cwa_rest_services.get_facility_info-760dfb.json |only echor-0.1.5/echor/vignettes/int/0/cwa_rest_services.get_geojson-f318cb.json |only echor-0.1.5/echor/vignettes/int/0/cwa_rest_services.metadata-a4f118.json | 992 - echor-0.1.5/echor/vignettes/int/0/eff_rest_services.download_effluent_chart-1ca27d.csv | 80 echor-0.1.5/echor/vignettes/int/0/eff_rest_services.download_effluent_chart-79e012.csv | 636 echor-0.1.5/echor/vignettes/int/0/eff_rest_services.download_effluent_chart-d48281.csv |only echor-0.1.5/echor/vignettes/introduction.Rmd | 66 echor-0.1.5/echor/vignettes/rosm.cache |only 73 files changed, 6652 insertions(+), 6818 deletions(-)
Title: A Wrapper of the JavaScript Library 'DataTables'
Description: Data objects in R can be rendered as HTML tables using the
JavaScript library 'DataTables' (typically via R Markdown or Shiny). The
'DataTables' library has been included in this R package. The package name
'DT' is an abbreviation of 'DataTables'.
Author: Yihui Xie [aut, cre],
Joe Cheng [aut],
Xianying Tan [aut],
JJ Allaire [ctb],
Maximilian Girlich [ctb],
Greg Freedman Ellis [ctb],
Johannes Rauh [ctb],
jQuery contributors [ctb, cph] (jQuery in htmlwidgets/lib),
SpryMedia Limited [ctb, cph] (DataTables in htmlwidgets/lib),
Brian Reavis [ctb, cph] (selectize.js in htmlwidgets/lib),
Leon Gersen [ctb, cph] (noUiSlider in htmlwidgets/lib),
Bartek Szopka [ctb, cph] (jquery.highlight.js in htmlwidgets/lib),
RStudio, PBC [cph]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between DT versions 0.14 dated 2020-06-24 and 0.15 dated 2020-08-05
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/datatables.R | 8 ++++---- R/format.R | 5 +++-- README.md | 4 ++-- build/vignette.rds |binary inst/doc/DT.Rmd | 2 +- inst/doc/DT.html | 18 +++++++++++++----- inst/htmlwidgets/datatables.js | 8 ++++++++ man/datatable.Rd | 8 ++++---- man/formatCurrency.Rd | 3 ++- tests/testit/test-format.R | 8 ++++++++ vignettes/DT.Rmd | 2 +- 13 files changed, 62 insertions(+), 36 deletions(-)
Title: Simulate Temporally Autocorrelated Populations
Description: Temporally autocorrelated populations are correlated in their vital rates (growth, death, etc.) from year to year. It is very common for populations, whether they be bacteria, plants, or humans, to be temporally autocorrelated. This poses a challenge for stochastic population modeling, because a temporally correlated population will behave differently from an uncorrelated one.
This package provides tools for simulating populations with white noise (no temporal autocorrelation), red noise (positive temporal autocorrelation), and blue noise (negative temporal autocorrelation). The algebraic formulation for autocorrelated noise comes from Ruokolainen et al. (2009) <doi:10.1016/j.tree.2009.04.009>. Models for unstructured populations and for structured populations (matrix models) are available.
Author: Julia Pilowsky [aut, cre] (<https://orcid.org/0000-0002-6376-2585>)
Maintainer: Julia Pilowsky <jap2178@caa.columbia.edu>
Diff between colorednoise versions 1.0.5 dated 2019-09-27 and 1.1.0 dated 2020-08-05
colorednoise-1.0.5/colorednoise/man/figures/logo.png |only colorednoise-1.1.0/colorednoise/DESCRIPTION | 14 colorednoise-1.1.0/colorednoise/MD5 | 63 colorednoise-1.1.0/colorednoise/NAMESPACE | 39 colorednoise-1.1.0/colorednoise/NEWS.md | 61 colorednoise-1.1.0/colorednoise/R/RcppExports.R | 287 +-- colorednoise-1.1.0/colorednoise/R/colorednoise.R | 39 colorednoise-1.1.0/colorednoise/R/simulate_populations.R | 470 ++--- colorednoise-1.1.0/colorednoise/R/utils.R | 54 colorednoise-1.1.0/colorednoise/README.md | 127 - colorednoise-1.1.0/colorednoise/build/vignette.rds |binary colorednoise-1.1.0/colorednoise/inst/doc/noise.R | 188 +- colorednoise-1.1.0/colorednoise/inst/doc/noise.Rmd | 332 +-- colorednoise-1.1.0/colorednoise/inst/doc/noise.html | 938 +++++----- colorednoise-1.1.0/colorednoise/man/autocorr_sim.Rd | 129 - colorednoise-1.1.0/colorednoise/man/autocorrelation.Rd | 54 colorednoise-1.1.0/colorednoise/man/colored_multi_rnorm.Rd | 69 colorednoise-1.1.0/colorednoise/man/colored_noise.Rd | 64 colorednoise-1.1.0/colorednoise/man/colorednoise.Rd | 25 colorednoise-1.1.0/colorednoise/man/cor2cov.Rd | 50 colorednoise-1.1.0/colorednoise/man/figures/README-example-1.png |binary colorednoise-1.1.0/colorednoise/man/figures/README-example-2.png |binary colorednoise-1.1.0/colorednoise/man/figures/hex.png |only colorednoise-1.1.0/colorednoise/man/matrix_model.Rd | 149 - colorednoise-1.1.0/colorednoise/man/multi_rnorm.Rd | 56 colorednoise-1.1.0/colorednoise/man/stdev_transform.Rd |only colorednoise-1.1.0/colorednoise/man/unstructured_pop.Rd | 130 - colorednoise-1.1.0/colorednoise/src/RcppExports.cpp | 10 colorednoise-1.1.0/colorednoise/src/noise.cpp | 9 colorednoise-1.1.0/colorednoise/src/simulation.cpp | 30 colorednoise-1.1.0/colorednoise/tests/testthat.R | 8 colorednoise-1.1.0/colorednoise/tests/testthat/test_noise.R | 84 colorednoise-1.1.0/colorednoise/tests/testthat/test_simulations.R | 88 colorednoise-1.1.0/colorednoise/vignettes/noise.Rmd | 332 +-- 34 files changed, 2009 insertions(+), 1890 deletions(-)
Title: Robust Mixture Regression
Description: Finite mixture models are a popular technique for modelling unobserved heterogeneity or to approximate general distribution functions in a semi-parametric way. They are used in a lot of different areas such as astronomy, biology, economics, marketing or medicine.
This package is the implementation of popular robust mixture regression methods based on different algorithms including: fleximix, finite mixture models and latent class regression; CTLERob, component-wise adaptive trimming likelihood estimation; mixbi, bi-square estimation; mixL, Laplacian distribution; mixt, t-distribution; TLE, trimmed likelihood estimation.
The implemented algorithms includes: CTLERob stands for Component-wise adaptive Trimming Likelihood Estimation based mixture regression; mixbi stands for mixture regression based on bi-square estimation; mixLstands for mixture regression based on Laplacian distribution; TLE stands for Trimmed Likelihood Estimation based mixture regression. For more detail of the algorithms, please refer to below references.
Reference: Chun Yu, Weixin Yao, Kun Chen (2017) <doi:10.1002/cjs.11310>.
NeyKov N, Filzmoser P, Dimova R et al. (2007) <doi:10.1016/j.csda.2006.12.024>.
Bai X, Yao W. Boyer JE (2012) <doi:10.1016/j.csda.2012.01.016>.
Wennan Chang, Xinyu Zhou, Yong Zang, Chi Zhang, Sha Cao (2020) <arXiv:2005.11599>.
Author: Sha Cao [aut, cph, ths],
Wennan Chang [aut, cre],
Chi Zhang [aut, ctb, ths]
Maintainer: Wennan Chang <wnchang@iu.edu>
Diff between RobMixReg versions 1.0.0 dated 2020-06-08 and 1.1.0 dated 2020-08-05
RobMixReg-1.0.0/RobMixReg/data/BRCA_ATAC_RNA_seq.RData |only RobMixReg-1.0.0/RobMixReg/data/Cytokine_dataset.RData |only RobMixReg-1.0.0/RobMixReg/man/BRCA_ATAC_RNA_seq.Rd |only RobMixReg-1.0.0/RobMixReg/man/BRCA_source.Rd |only RobMixReg-1.0.0/RobMixReg/man/Cytokine_dataset.Rd |only RobMixReg-1.1.0/RobMixReg/DESCRIPTION | 10 - RobMixReg-1.1.0/RobMixReg/MD5 | 42 +++-- RobMixReg-1.1.0/RobMixReg/NAMESPACE | 7 RobMixReg-1.1.0/RobMixReg/NEWS.md | 7 RobMixReg-1.1.0/RobMixReg/R/RBSL.R | 103 +++++++++++- RobMixReg-1.1.0/RobMixReg/R/data.R | 46 ++--- RobMixReg-1.1.0/RobMixReg/R/mixtureReg.R | 37 +++- RobMixReg-1.1.0/RobMixReg/R/outer2.R | 139 ++++++++++++++--- RobMixReg-1.1.0/RobMixReg/R/plot_RobMixReg.R | 26 +-- RobMixReg-1.1.0/RobMixReg/R/plot_wrapper.R |only RobMixReg-1.1.0/RobMixReg/R/simulation.R |only RobMixReg-1.1.0/RobMixReg/R/vali_mode.R |only RobMixReg-1.1.0/RobMixReg/README.md | 43 +---- RobMixReg-1.1.0/RobMixReg/data/CCLE_data.RData |only RobMixReg-1.1.0/RobMixReg/data/colon_data.RData |only RobMixReg-1.1.0/RobMixReg/data/datalist |only RobMixReg-1.1.0/RobMixReg/man/CCLE_data.Rd |only RobMixReg-1.1.0/RobMixReg/man/CSMR_predict.Rd |only RobMixReg-1.1.0/RobMixReg/man/CSMR_train.Rd |only RobMixReg-1.1.0/RobMixReg/man/MLM.Rd | 14 - RobMixReg-1.1.0/RobMixReg/man/MLM_bic.Rd |only RobMixReg-1.1.0/RobMixReg/man/MLM_cv.Rd |only RobMixReg-1.1.0/RobMixReg/man/colon_data.Rd |only RobMixReg-1.1.0/RobMixReg/man/compPlot.Rd |only RobMixReg-1.1.0/RobMixReg/man/mixtureReg.Rd | 4 RobMixReg-1.1.0/RobMixReg/man/simu_func.Rd |only RobMixReg-1.1.0/RobMixReg/man/simu_low.Rd |only 32 files changed, 342 insertions(+), 136 deletions(-)
Title: Methods for the Indirect Estimation of Bilateral Migration
Description: Indirect methods for estimating bilateral migration flows in the presence of partial or missing data, including the estimation of bilateral migration flows from changes in bilateral migrant stock tables (e.g. Abel (2013) <doi:10.4054/DemRes.2013.28.18>).
Author: Guy J. Abel [aut, cre] (<https://orcid.org/0000-0002-4893-5687>)
Maintainer: Guy J. Abel <g.j.abel@gmail.com>
Diff between migest versions 1.8.1 dated 2019-10-05 and 1.8.2 dated 2020-08-05
migest-1.8.1/migest/R/net_sum.R |only migest-1.8.1/migest/man/net_sum.Rd |only migest-1.8.2/migest/DESCRIPTION | 14 migest-1.8.2/migest/MD5 | 66 migest-1.8.2/migest/NAMESPACE | 5 migest-1.8.2/migest/R/birth_mat.R | 6 migest-1.8.2/migest/R/ffs_demo.R | 64 migest-1.8.2/migest/R/global.R | 2 migest-1.8.2/migest/R/ipf2.R | 8 migest-1.8.2/migest/R/ipf3.R | 4 migest-1.8.2/migest/R/match_pob_tot.R | 96 + migest-1.8.2/migest/R/net_from_lifetime.R |only migest-1.8.2/migest/R/net_stream.R |only migest-1.8.2/migest/R/rescale_nb.R | 11 migest-1.8.2/migest/R/sum_total.R |only migest-1.8.2/migest/R/sum_turnover.R |only migest-1.8.2/migest/README.md | 5 migest-1.8.2/migest/inst/imr/reg_flow.csv | 1784 +++++++++++++-------------- migest-1.8.2/migest/man/birth_mat.Rd | 2 migest-1.8.2/migest/man/cm2.Rd | 13 migest-1.8.2/migest/man/cm3.Rd | 10 migest-1.8.2/migest/man/cm_net.Rd | 3 migest-1.8.2/migest/man/death_mat.Rd | 9 migest-1.8.2/migest/man/ffs_demo.Rd | 30 migest-1.8.2/migest/man/ipf2.Rd | 10 migest-1.8.2/migest/man/ipf2_block.Rd | 14 migest-1.8.2/migest/man/ipf2_stripe.Rd | 14 migest-1.8.2/migest/man/ipf3.Rd | 14 migest-1.8.2/migest/man/ipf3_qi.Rd | 13 migest-1.8.2/migest/man/match_pob_tot.Rd | 16 migest-1.8.2/migest/man/migest-package.Rd | 11 migest-1.8.2/migest/man/multi_comp2.Rd | 50 migest-1.8.2/migest/man/net_from_lifetime.Rd |only migest-1.8.2/migest/man/net_stream.Rd |only migest-1.8.2/migest/man/rc9.fund.Rd | 6 migest-1.8.2/migest/man/rescale_nb.Rd | 8 migest-1.8.2/migest/man/rescale_net.Rd | 8 migest-1.8.2/migest/man/sum_total.Rd |only migest-1.8.2/migest/man/sum_turnover.Rd |only 39 files changed, 1251 insertions(+), 1045 deletions(-)
Title: Bayesian and Classical Audit Sampling
Description: Implements the audit sampling workflow as discussed in Derks et al. (2019) <doi:10.31234/osf.io/9f6ub>. The package makes it easy for an auditor to plan an audit sample, sample from the population, and evaluating that sample using various confidence bounds according to the International Standards on Auditing. Furthermore, the package implements Bayesian equivalents of these methods.
Author: Koen Derks [aut, cre]
Maintainer: Koen Derks <k.derks@nyenrode.nl>
Diff between jfa versions 0.1.0 dated 2020-01-08 and 0.2.0 dated 2020-08-05
DESCRIPTION | 8 MD5 | 45 - NAMESPACE | 2 NEWS.md | 16 R/auditPrior.R | 177 +++- R/evaluation.R | 131 ++- R/hidden.R | 242 +++-- R/planning.R | 142 ++- R/sampling.R | 117 +- README.md | 36 build/vignette.rds |binary inst/doc/auditWorkflow.html | 139 +-- man/BuildIt.Rd | 52 - man/auditPrior.Rd | 74 + man/evaluation.Rd | 64 + man/figures/logo/baseLogo.svg | 220 ++--- man/figures/logo/createBaseLogo.R | 2 man/figures/logo/jfaLogo.svg | 1636 ++++++++++++++++---------------------- man/figures/poster/poster.png |binary man/manual/jfa_0.2.0.pdf |only man/planning.Rd | 75 + man/sampling.Rd | 34 tests/testthat/test-auditPrior.R | 92 ++ tests/testthat/test-planning.R | 68 + 24 files changed, 1931 insertions(+), 1441 deletions(-)
Title: Nonlinear Time Series Analysis
Description: Simulation, estimation, prediction procedure, and model identification methods for nonlinear time series analysis, including threshold autoregressive models, Markov-switching models, convolutional functional autoregressive models, nonlinearity tests, Kalman filters and various sequential Monte Carlo methods. More examples and details about this package can be found in the book "Nonlinear Time Series Analysis" by Ruey S. Tsay and Rong Chen, John Wiley & Sons, 2018 (ISBN: 978-1-119-26407-1).
Author: Ruey Tsay [aut],
Rong Chen [aut],
Xialu Liu [aut, cre]
Maintainer: Xialu Liu <xialu.liu@sdsu.edu>
Diff between NTS versions 1.1.0 dated 2019-12-18 and 1.1.1 dated 2020-08-05
NTS-1.1.0/NTS/R/hello.R |only NTS-1.1.0/NTS/man/MKF.Full.RB.Rd |only NTS-1.1.0/NTS/man/MKFstep.fading.Rd |only NTS-1.1.0/NTS/man/MSM.fit.Rd |only NTS-1.1.0/NTS/man/NNsetting.Rd |only NTS-1.1.0/NTS/man/SISstep.fading.Rd |only NTS-1.1.0/NTS/man/SMC.Full.RB.Rd |only NTS-1.1.0/NTS/man/SMC.Full.Rd |only NTS-1.1.0/NTS/man/SMC.Rd |only NTS-1.1.0/NTS/man/SMC.Smooth.Rd |only NTS-1.1.0/NTS/man/Sstep.Clutter.Full.RB.Rd |only NTS-1.1.0/NTS/man/Sstep.Clutter.Full.Rd |only NTS-1.1.0/NTS/man/Sstep.Clutter.Rd |only NTS-1.1.0/NTS/man/Sstep.Smooth.Sonar.Rd |only NTS-1.1.0/NTS/man/Sstep.Sonar.Rd |only NTS-1.1.0/NTS/man/clutterKF.Rd |only NTS-1.1.0/NTS/man/cvlm.Rd |only NTS-1.1.0/NTS/man/simPassiveSonar.Rd |only NTS-1.1.0/NTS/man/simuTargetClutter.Rd |only NTS-1.1.0/NTS/man/simu_fading.Rd |only NTS-1.1.0/NTS/man/uTAR.grid.Rd |only NTS-1.1.0/NTS/man/wrap.SMC.Rd |only NTS-1.1.1/NTS/DESCRIPTION | 8 +- NTS-1.1.1/NTS/MD5 | 94 +++++++++++------------------ NTS-1.1.1/NTS/NAMESPACE | 23 ------- NTS-1.1.1/NTS/R/ACMx.R |only NTS-1.1.1/NTS/R/CFAR.r |only NTS-1.1.1/NTS/R/SMC.r |only NTS-1.1.1/NTS/R/TAR.r |only NTS-1.1.1/NTS/man/ACMx.Rd | 2 NTS-1.1.1/NTS/man/F.test.Rd | 2 NTS-1.1.1/NTS/man/F_test_cfar.Rd | 10 ++- NTS-1.1.1/NTS/man/F_test_cfarh.Rd | 18 +++++ NTS-1.1.1/NTS/man/MSM.sim.Rd | 2 NTS-1.1.1/NTS/man/PRnd.Rd | 2 NTS-1.1.1/NTS/man/Tsay.Rd | 2 NTS-1.1.1/NTS/man/backTAR.Rd | 2 NTS-1.1.1/NTS/man/backtest.Rd | 2 NTS-1.1.1/NTS/man/est_cfar.Rd | 14 ++++ NTS-1.1.1/NTS/man/est_cfarh.Rd | 22 ++++++ NTS-1.1.1/NTS/man/g_cfar.Rd | 19 +++++ NTS-1.1.1/NTS/man/g_cfar1.Rd | 24 +++++++ NTS-1.1.1/NTS/man/g_cfar2.Rd | 27 ++++++++ NTS-1.1.1/NTS/man/g_cfar2h.Rd | 29 ++++++++ NTS-1.1.1/NTS/man/hfDummy.Rd | 2 NTS-1.1.1/NTS/man/mTAR.Rd | 2 NTS-1.1.1/NTS/man/mTAR.est.Rd | 2 NTS-1.1.1/NTS/man/mTAR.pred.Rd | 2 NTS-1.1.1/NTS/man/mTAR.sim.Rd | 2 NTS-1.1.1/NTS/man/p_cfar.Rd | 20 +++++- NTS-1.1.1/NTS/man/p_cfar_part.Rd | 10 ++- NTS-1.1.1/NTS/man/rankQ.Rd | 2 NTS-1.1.1/NTS/man/rcAR.Rd | 2 NTS-1.1.1/NTS/man/ref.mTAR.Rd | 2 NTS-1.1.1/NTS/man/thr.test.Rd | 2 NTS-1.1.1/NTS/man/tvAR.Rd | 2 NTS-1.1.1/NTS/man/tvARFiSm.Rd | 2 NTS-1.1.1/NTS/man/uTAR.Rd | 23 ++++--- NTS-1.1.1/NTS/man/uTAR.est.Rd | 6 - NTS-1.1.1/NTS/man/uTAR.pred.Rd | 6 - NTS-1.1.1/NTS/man/uTAR.sim.Rd | 2 61 files changed, 263 insertions(+), 128 deletions(-)
Title: Multivariate Likelihood Ratio Calculation and Evaluation
Description: Functions for calculating and evaluating likelihood ratios from uni/multivariate continuous observations.
The package includes the two-level functions to calculate the LR assuming multivariate normality, and another with drops
this assumption and uses a multivariate kernel density estimate. The package also contains code to perform empirical
cross entropy (ECE) calibration of likelihood ratios. The LR functions are based primarily on
Aitken, C.G.G. and Lucy, D. (2004) <doi:10.1046/j.0035-9254.2003.05271.x>, "Evaluation of trace evidence in the form of multivariate data,"
Journal of the Royal Statistical Society: Series C (Applied Statistics), 53: 109-122. The ECE functions are based primarily
on D. Ramos and J. Gonzalez-Rodrigues, (2008) "Cross-entropy analysis of the information in forensic speaker recognition,"
in Proc. IEEE Odyssey, Speaker Lang. Recognit. Workshop.
Author: David Lucy [aut],
James Curran [aut, cre],
Agnieszka Martyna [aut]
Maintainer: James Curran <j.curran@auckland.ac.nz>
Diff between comparison versions 1.0-4 dated 2013-11-05 and 1.0-5 dated 2020-08-05
comparison-1.0-4/comparison/R/all.class.defs.r |only comparison-1.0-4/comparison/R/calc.ece.r |only comparison-1.0-4/comparison/R/calibrate.set.r |only comparison-1.0-4/comparison/R/plot.ece.r |only comparison-1.0-4/comparison/R/two.level.comparison.items.r |only comparison-1.0-4/comparison/R/two.level.components.r |only comparison-1.0-4/comparison/R/two.level.density.LR.r |only comparison-1.0-4/comparison/R/two.level.lindley.LR.r |only comparison-1.0-4/comparison/R/two.level.normal.LR.r |only comparison-1.0-4/comparison/man/comparison-package.Rd |only comparison-1.0-4/comparison/man/compcovar-class.Rd |only comparison-1.0-4/comparison/man/compitem-class.Rd |only comparison-1.0-4/comparison/man/ece-class.Rd |only comparison-1.0-4/comparison/man/plot.Rd |only comparison-1.0-5/comparison/DESCRIPTION | 38 +++- comparison-1.0-5/comparison/MD5 | 49 ++--- comparison-1.0-5/comparison/NAMESPACE | 32 +-- comparison-1.0-5/comparison/R/calc.ece.R |only comparison-1.0-5/comparison/R/calibrate.set.R |only comparison-1.0-5/comparison/R/comparison-package.R |only comparison-1.0-5/comparison/R/glass.R |only comparison-1.0-5/comparison/R/plot.ece.R |only comparison-1.0-5/comparison/R/two.level.comparison.items.R |only comparison-1.0-5/comparison/R/two.level.components.R |only comparison-1.0-5/comparison/R/two.level.density.LR.R |only comparison-1.0-5/comparison/R/two.level.lindley.LR.R |only comparison-1.0-5/comparison/R/two.level.normal.LR.R |only comparison-1.0-5/comparison/README.md |only comparison-1.0-5/comparison/data/glass.rda |binary comparison-1.0-5/comparison/man/calc.ece.Rd | 73 ++++--- comparison-1.0-5/comparison/man/calibrate.set.Rd | 60 ++---- comparison-1.0-5/comparison/man/comparison.Rd |only comparison-1.0-5/comparison/man/glass.Rd | 74 ++++--- comparison-1.0-5/comparison/man/plot.ece.Rd |only comparison-1.0-5/comparison/man/two.level.comparison.items.Rd | 78 +------- comparison-1.0-5/comparison/man/two.level.components.Rd | 71 ++----- comparison-1.0-5/comparison/man/two.level.density.LR.Rd | 84 +++------ comparison-1.0-5/comparison/man/two.level.lindley.LR.Rd | 93 ++++------ comparison-1.0-5/comparison/man/two.level.normal.LR.Rd | 86 +++------ 39 files changed, 331 insertions(+), 407 deletions(-)
Title: Conservation Planning Datasets
Description: Conservation planning datasets for learning how to use the
'prioritizr' package <https://CRAN.R-project.org/package=prioritizr>.
Author: Jeffrey O Hanson [aut] (<https://orcid.org/0000-0002-4716-6134>),
Richard Schuster [aut, cre] (<https://orcid.org/0000-0003-3191-7869>),
Nina Morrell [aut],
Matthew Strimas-Mackey [aut] (<https://orcid.org/0000-0001-8929-7776>),
Matthew E Watts [aut],
Peter Arcese [aut] (<https://orcid.org/0000-0002-8097-482X>),
Joseph Bennett [aut] (<https://orcid.org/0000-0002-3901-9513>),
Hugh P Possingham [aut] (<https://orcid.org/0000-0001-7755-996X>)
Maintainer: Richard Schuster <richard.schuster@glel.carleton.ca>
Diff between prioritizrdata versions 0.2.2 dated 2018-05-22 and 0.2.4 dated 2020-08-05
DESCRIPTION | 74 +++++++++++++++++++++++------------------ MD5 | 26 +++++++------- R/package.R | 22 ++++++------ R/salt_data.R | 53 +++++++++++++---------------- R/tas_data.R | 48 +++++++++++++------------- README.md | 18 ++++++--- data/salt_features.rda |binary data/salt_pu.rda |binary data/tas_features.rda |binary data/tas_pu.rda |binary man/prioritizrdata.Rd | 37 +++++++++----------- man/salt_data.Rd | 63 +++++++++++++++++----------------- man/tas_data.Rd | 58 +++++++++++++++++--------------- tests/testthat/test_tas_data.R | 7 +++ 14 files changed, 215 insertions(+), 191 deletions(-)
More information about prioritizrdata at CRAN
Permanent link
Title: Open Working Directory
Description: Open the current working directory (or a given directory path) in your computer's file manager.
Author: Benjamin G. Feakins [aut, cre]
(<https://orcid.org/0000-0002-3928-6750>),
Benjamin J. Cairns [ctb] (<https://orcid.org/0000-0001-7994-8213>),
University of Oxford [cph, sht]
Maintainer: Benjamin G. Feakins <benjamin.feakins@ndph.ox.ac.uk>
Diff between owd versions 1.0.5 dated 2020-08-03 and 1.0.6 dated 2020-08-05
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/CITATION | 9 +++++---- inst/NEWS.Rd | 5 +++++ 4 files changed, 17 insertions(+), 11 deletions(-)
Title: Data and Code Behind the Stories and Interactives at
'FiveThirtyEight'
Description: Datasets and code published by the data journalism website
'FiveThirtyEight' available at <https://github.com/fivethirtyeight/data>.
Note that while we received guidance from editors at 'FiveThirtyEight', this
package is not officially published by 'FiveThirtyEight'.
Author: Albert Y. Kim [aut, cre] (<https://orcid.org/0000-0001-7824-306X>),
Chester Ismay [aut] (<https://orcid.org/0000-0003-2820-2547>),
Jennifer Chunn [aut],
Meredith Manley [ctb] (<https://orcid.org/0000-0001-7707-0654>),
Maggie Shea [ctb],
Starry Yujia Zhou [ctb],
Andrew Flowers [ctb],
Jonathan Bouchet [ctb],
G. Elliott Morris [ctb],
Adam Spannbauer [ctb],
Pradeep Adhokshaja [ctb],
Olivia Barrows [ctb],
Jojo Miller [ctb],
Jayla Nakayama [ctb],
Ben Baumer [ctb] (<https://orcid.org/0000-0002-3279-0516>),
Rana Gahwagy [ctb] (<https://orcid.org/0000-0002-6331-2840>),
Natalia Iannucci [ctb] (<https://orcid.org/0000-0001-5663-1731>),
Marium Tapal [ctb] (<https://orcid.org/0000-0001-5093-6462>),
Irene Ryan [ctb],
Alina Barylsky [ctb],
Danica Miguel [ctb],
Sunni Raleigh [ctb],
Anna Ballou [ctb],
Jane Bang [ctb],
Jordan Moody [ctb],
Kara Van Allen [ctb],
Jessica Keast [ctb],
Lizette Carpenter [ctb],
Fatima Keita [ctb]
Maintainer: Albert Y. Kim <albert.ys.kim@gmail.com>
Diff between fivethirtyeight versions 0.6.0 dated 2020-08-03 and 0.6.1 dated 2020-08-05
DESCRIPTION | 8 MD5 | 51 - NEWS.md | 8 R/data.R | 41 + R/fivethirtyeight.R | 20 data/datasets_master.rda |only inst/doc/fivethirtyeight.R | 33 - inst/doc/fivethirtyeight.Rmd | 38 - inst/doc/fivethirtyeight.html | 916 +++++++++++++++---------------- inst/doc/tame.R | 80 +- inst/doc/tame.Rmd | 41 + inst/doc/tame.html | 206 +++--- inst/doc/user_contributed_vignettes.html | 4 man/antiquities_act.Rd | 2 man/bechdel.Rd | 2 man/biopics.Rd | 2 man/datasets_master.Rd |only man/fivethirtyeight.Rd | 20 man/hiphop_cand_lyrics.Rd | 2 man/librarians.Rd | 2 man/media_mentions_2020.Rd | 2 man/nfl_fandom_google.Rd | 2 man/nfl_fandom_surveymonkey.Rd | 2 man/russia_investigation.Rd | 2 man/trump_lawsuits.Rd | 2 vignettes/fivethirtyeight.Rmd | 38 - vignettes/images/bechdel.png |only vignettes/tame.Rmd | 41 + 28 files changed, 789 insertions(+), 776 deletions(-)
More information about fivethirtyeight at CRAN
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Title: Mathematical Modeling of Infectious Disease Dynamics
Description: Tools for simulating mathematical models of infectious disease dynamics.
Epidemic model classes include deterministic compartmental models, stochastic
individual-contact models, and stochastic network models. Network models use the
robust statistical methods of exponential-family random graph models (ERGMs)
from the Statnet suite of software packages in R. Standard templates for epidemic
modeling include SI, SIR, and SIS disease types. EpiModel features
an API for extending these templates to address novel scientific research aims.
Author: Samuel Jenness [cre, aut],
Steven M. Goodreau [aut],
Martina Morris [aut],
Emily Beylerian [ctb],
Skye Bender-deMoll [ctb],
Kevin Weiss [ctb],
Shawnee Anderson [ctb]
Maintainer: Samuel Jenness <samuel.m.jenness@emory.edu>
Diff between EpiModel versions 1.8.0 dated 2020-05-08 and 2.0.2 dated 2020-08-05
EpiModel-1.8.0/EpiModel/R/control.R |only EpiModel-1.8.0/EpiModel/R/crosscheck.R |only EpiModel-1.8.0/EpiModel/R/init.R |only EpiModel-1.8.0/EpiModel/R/net.mod.getprev.R |only EpiModel-1.8.0/EpiModel/R/net.mod.status.R |only EpiModel-1.8.0/EpiModel/R/param.R |only EpiModel-1.8.0/EpiModel/inst/EpiModelJSS.R |only EpiModel-1.8.0/EpiModel/man/bipvals.Rd |only EpiModel-1.8.0/EpiModel/man/check_bip_degdist.Rd |only EpiModel-1.8.0/EpiModel/man/copy_toall_attr.Rd |only EpiModel-1.8.0/EpiModel/man/get_prev.icm.Rd |only EpiModel-1.8.0/EpiModel/man/get_prev.net.Rd |only EpiModel-1.8.0/EpiModel/man/idmode.Rd |only EpiModel-1.8.0/EpiModel/man/init_pids.Rd |only EpiModel-1.8.0/EpiModel/man/modeids.Rd |only EpiModel-1.8.0/EpiModel/man/split_bip.Rd |only EpiModel-1.8.0/EpiModel/man/transco.Rd |only EpiModel-1.8.0/EpiModel/man/update_nwattr.Rd |only EpiModel-1.8.0/EpiModel/tests/testthat/test-netpids.R |only EpiModel-1.8.0/EpiModel/tests/testthat/test-newnet.R |only EpiModel-2.0.2/EpiModel/DESCRIPTION | 12 EpiModel-2.0.2/EpiModel/MD5 | 271 ++-- EpiModel-2.0.2/EpiModel/NAMESPACE | 54 EpiModel-2.0.2/EpiModel/NEWS.md | 22 EpiModel-2.0.2/EpiModel/R/EpiModel-package.r | 6 EpiModel-2.0.2/EpiModel/R/ErgmTerms.R | 8 EpiModel-2.0.2/EpiModel/R/as.data.frame.R | 6 EpiModel-2.0.2/EpiModel/R/dcm.R | 9 EpiModel-2.0.2/EpiModel/R/dcm.inputs.R |only EpiModel-2.0.2/EpiModel/R/dcm.mods.R | 132 +- EpiModel-2.0.2/EpiModel/R/dendo.R | 7 EpiModel-2.0.2/EpiModel/R/get.R | 57 EpiModel-2.0.2/EpiModel/R/icm.R | 7 EpiModel-2.0.2/EpiModel/R/icm.inputs.R |only EpiModel-2.0.2/EpiModel/R/icm.mod.init.R | 2 EpiModel-2.0.2/EpiModel/R/icm.mod.status.R | 193 ++- EpiModel-2.0.2/EpiModel/R/icm.mod.vital.R | 283 ++-- EpiModel-2.0.2/EpiModel/R/icm.utils.R | 128 +- EpiModel-2.0.2/EpiModel/R/merge.R | 8 EpiModel-2.0.2/EpiModel/R/modules.icm.R | 2 EpiModel-2.0.2/EpiModel/R/modules.net.R | 27 EpiModel-2.0.2/EpiModel/R/net.accessor.R |only EpiModel-2.0.2/EpiModel/R/net.inputs.R |only EpiModel-2.0.2/EpiModel/R/net.mod.infection.R |only EpiModel-2.0.2/EpiModel/R/net.mod.init.R | 261 +--- EpiModel-2.0.2/EpiModel/R/net.mod.nwupdate.R |only EpiModel-2.0.2/EpiModel/R/net.mod.prevalence.R |only EpiModel-2.0.2/EpiModel/R/net.mod.recovery.R |only EpiModel-2.0.2/EpiModel/R/net.mod.simnet.R | 133 +- EpiModel-2.0.2/EpiModel/R/net.mod.vital.R | 512 +++----- EpiModel-2.0.2/EpiModel/R/net.utils.R | 439 +++---- EpiModel-2.0.2/EpiModel/R/netdx.R | 9 EpiModel-2.0.2/EpiModel/R/netest.R | 9 EpiModel-2.0.2/EpiModel/R/netsim.R | 185 +-- EpiModel-2.0.2/EpiModel/R/plot.R | 615 ++++------ EpiModel-2.0.2/EpiModel/R/print.r | 32 EpiModel-2.0.2/EpiModel/R/saveout.R | 63 - EpiModel-2.0.2/EpiModel/R/summary.R | 119 - EpiModel-2.0.2/EpiModel/R/test.R | 84 - EpiModel-2.0.2/EpiModel/R/utils.R | 101 - EpiModel-2.0.2/EpiModel/R/verbose.R | 5 EpiModel-2.0.2/EpiModel/R/zzz.R |only EpiModel-2.0.2/EpiModel/build/vignette.rds |binary EpiModel-2.0.2/EpiModel/inst/EpiModel2 |only EpiModel-2.0.2/EpiModel/inst/JSS |only EpiModel-2.0.2/EpiModel/inst/doc/Intro.html | 4 EpiModel-2.0.2/EpiModel/inst/web |only EpiModel-2.0.2/EpiModel/man/EpiModel-package.Rd | 4 EpiModel-2.0.2/EpiModel/man/InitErgmTerm.absdiffnodemix.Rd | 8 EpiModel-2.0.2/EpiModel/man/arrivals.2g.net.Rd |only EpiModel-2.0.2/EpiModel/man/arrivals.icm.bip.Rd |only EpiModel-2.0.2/EpiModel/man/as.data.frame.icm.Rd | 4 EpiModel-2.0.2/EpiModel/man/as.data.frame.netdx.Rd | 2 EpiModel-2.0.2/EpiModel/man/as.phylo.transmat.Rd | 5 EpiModel-2.0.2/EpiModel/man/auto_update_attr.Rd |only EpiModel-2.0.2/EpiModel/man/check_degdist_bal.Rd |only EpiModel-2.0.2/EpiModel/man/color_tea.Rd | 4 EpiModel-2.0.2/EpiModel/man/control.dcm.Rd | 8 EpiModel-2.0.2/EpiModel/man/control.icm.Rd | 43 EpiModel-2.0.2/EpiModel/man/control.net.Rd | 129 -- EpiModel-2.0.2/EpiModel/man/copy_datattr_to_nwattr.Rd |only EpiModel-2.0.2/EpiModel/man/copy_nwattr_to_datattr.Rd |only EpiModel-2.0.2/EpiModel/man/crosscheck.dcm.Rd | 12 EpiModel-2.0.2/EpiModel/man/crosscheck.icm.Rd | 2 EpiModel-2.0.2/EpiModel/man/crosscheck.net.Rd | 2 EpiModel-2.0.2/EpiModel/man/dcm.Rd | 9 EpiModel-2.0.2/EpiModel/man/delete_attr.Rd |only EpiModel-2.0.2/EpiModel/man/departures.2g.net.Rd |only EpiModel-2.0.2/EpiModel/man/departures.icm.bip.Rd |only EpiModel-2.0.2/EpiModel/man/discord_edgelist.Rd | 14 EpiModel-2.0.2/EpiModel/man/dissolution_coefs.Rd | 13 EpiModel-2.0.2/EpiModel/man/edgelist_censor.Rd | 2 EpiModel-2.0.2/EpiModel/man/edgelist_meanage.Rd | 2 EpiModel-2.0.2/EpiModel/man/get_attr_prop.Rd | 18 EpiModel-2.0.2/EpiModel/man/get_degree.Rd | 6 EpiModel-2.0.2/EpiModel/man/get_network.Rd | 13 EpiModel-2.0.2/EpiModel/man/get_network_term_attr.Rd |only EpiModel-2.0.2/EpiModel/man/get_nwstats.Rd | 9 EpiModel-2.0.2/EpiModel/man/get_sims.Rd | 6 EpiModel-2.0.2/EpiModel/man/get_transmat.Rd | 9 EpiModel-2.0.2/EpiModel/man/icm.Rd | 3 EpiModel-2.0.2/EpiModel/man/idgroup.Rd |only EpiModel-2.0.2/EpiModel/man/infection.2g.net.Rd |only EpiModel-2.0.2/EpiModel/man/infection.icm.bip.Rd |only EpiModel-2.0.2/EpiModel/man/infection.net.Rd | 4 EpiModel-2.0.2/EpiModel/man/init.dcm.Rd | 6 EpiModel-2.0.2/EpiModel/man/init.icm.Rd | 4 EpiModel-2.0.2/EpiModel/man/init.net.Rd | 24 EpiModel-2.0.2/EpiModel/man/merge.netsim.Rd | 8 EpiModel-2.0.2/EpiModel/man/modules.icm.Rd | 2 EpiModel-2.0.2/EpiModel/man/modules.net.Rd | 28 EpiModel-2.0.2/EpiModel/man/mutate_epi.Rd | 15 EpiModel-2.0.2/EpiModel/man/net-accessor.Rd |only EpiModel-2.0.2/EpiModel/man/netdx.Rd | 2 EpiModel-2.0.2/EpiModel/man/netest.Rd | 7 EpiModel-2.0.2/EpiModel/man/netsim.Rd | 52 EpiModel-2.0.2/EpiModel/man/netsim_loop.Rd |only EpiModel-2.0.2/EpiModel/man/nwupdate.net.Rd |only EpiModel-2.0.2/EpiModel/man/param.dcm.Rd | 32 EpiModel-2.0.2/EpiModel/man/param.icm.Rd | 12 EpiModel-2.0.2/EpiModel/man/param.net.Rd | 80 - EpiModel-2.0.2/EpiModel/man/plot.dcm.Rd | 4 EpiModel-2.0.2/EpiModel/man/plot.icm.Rd | 10 EpiModel-2.0.2/EpiModel/man/plot.netdx.Rd | 16 EpiModel-2.0.2/EpiModel/man/plot.netsim.Rd | 41 EpiModel-2.0.2/EpiModel/man/prevalence.icm.Rd |only EpiModel-2.0.2/EpiModel/man/prevalence.icm.bip.Rd |only EpiModel-2.0.2/EpiModel/man/prevalence.net.Rd |only EpiModel-2.0.2/EpiModel/man/process_out.net.Rd |only EpiModel-2.0.2/EpiModel/man/recovery.2g.net.Rd |only EpiModel-2.0.2/EpiModel/man/recovery.icm.bip.Rd |only EpiModel-2.0.2/EpiModel/man/recovery.net.Rd | 2 EpiModel-2.0.2/EpiModel/man/set_transmat.Rd |only EpiModel-2.0.2/EpiModel/man/summary.netsim.Rd | 9 EpiModel-2.0.2/EpiModel/man/update_dissolution.Rd | 2 EpiModel-2.0.2/EpiModel/tests/testthat/test-attr-copy.R |only EpiModel-2.0.2/EpiModel/tests/testthat/test-get-set.R |only EpiModel-2.0.2/EpiModel/tests/testthat/test-get.R | 7 EpiModel-2.0.2/EpiModel/tests/testthat/test-icm-long.R | 6 EpiModel-2.0.2/EpiModel/tests/testthat/test-merge.R | 18 EpiModel-2.0.2/EpiModel/tests/testthat/test-mutate.R | 17 EpiModel-2.0.2/EpiModel/tests/testthat/test-net-long.R | 305 +--- EpiModel-2.0.2/EpiModel/tests/testthat/test-net-tergmLite.R |only EpiModel-2.0.2/EpiModel/tests/testthat/test-netattr.R | 170 ++ EpiModel-2.0.2/EpiModel/tests/testthat/test-netdx.R | 45 EpiModel-2.0.2/EpiModel/tests/testthat/test-netest.R | 24 EpiModel-2.0.2/EpiModel/tests/testthat/test-netoffset.R | 8 EpiModel-2.0.2/EpiModel/tests/testthat/test-netrestart.R | 17 EpiModel-2.0.2/EpiModel/tests/testthat/test-netsim-parallel.R | 24 EpiModel-2.0.2/EpiModel/tests/testthat/test-netsim.R | 9 EpiModel-2.0.2/EpiModel/tests/testthat/test-netvary.R | 23 EpiModel-2.0.2/EpiModel/tests/testthat/test-newmodules.R |only EpiModel-2.0.2/EpiModel/tests/testthat/test-print.R | 16 EpiModel-2.0.2/EpiModel/tests/testthat/test-stergm.R |only EpiModel-2.0.2/EpiModel/tests/testthat/test-transmat-dendo.R | 19 EpiModel-2.0.2/EpiModel/tests/testthat/test-utils.R | 132 +- 156 files changed, 2730 insertions(+), 2602 deletions(-)
Title: Functions to Create Publication-Quality Plots
Description: Contains several plotting functions such as barplots, scatterplots, heatmaps, as well as functions to combine plots and assist in the creation of these plots. These functions will give users great ease of use and customization options in broad use for biomedical applications, as well as general purpose plotting. Each of the functions also provides valid default settings to make plotting data more efficient and producing high quality plots with standard colour schemes simpler. All functions within this package are capable of producing plots that are of the quality to be presented in scientific publications and journals. P'ng et al.; BPG: Seamless, automated and interactive visualization of scientific data; BMC Bioinformatics 2019 <doi: 10.1186/s12859-019-2610-2>.
Author: Paul Boutros [aut, cre],
Christine P'ng [ctb],
Jeff Green [ctb],
Stephenie Prokopec [ctb],
Ontario Institute for Cancer Research [cph],
The R Core Team [cph],
The R Foundation [cph],
Robert Gentleman [ctb],
Ross Ihaka [ctb],
Caden Bugh [ctb]
Maintainer: Paul Boutros <PBoutros@mednet.ucla.edu>
Diff between BoutrosLab.plotting.general versions 6.0.0 dated 2020-04-06 and 6.0.1 dated 2020-08-05
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ build/vignette.rds |binary inst/doc/PlottingGuide.Rnw | 4 ++-- inst/doc/PlottingGuide.pdf |binary man/create.scatterplot.Rd | 2 +- vignettes/PlottingGuide.Rnw | 4 ++-- 7 files changed, 16 insertions(+), 16 deletions(-)
More information about BoutrosLab.plotting.general at CRAN
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Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-07 0.1.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-22 3.0.0
2019-02-13 2.9.0
2018-05-08 2.2.0
2018-05-01 2.1.0
2018-02-26 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-12-14 0.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-09-18 1.5.2
2012-04-13 1.5.1
2010-01-13 1.5
2009-11-23 1.4
2009-11-22 1.3
2009-09-20 1.1
2009-07-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-02 0.3
2016-04-17 0.2
2016-04-13 0.1
Title: The MBESS R Package
Description: Implements methods that useful in designing research studies and analyzing data, with
particular emphasis on methods that are developed for or used within the behavioral,
educational, and social sciences (broadly defined). That being said, many of the methods
implemented within MBESS are applicable to a wide variety of disciplines. MBESS has a
suite of functions for a variety of related topics, such as effect sizes, confidence intervals
for effect sizes (including standardized effect sizes and noncentral effect sizes), sample size
planning (from the accuracy in parameter estimation [AIPE], power analytic, equivalence, and
minimum-risk point estimation perspectives), mediation analysis, various properties of
distributions, and a variety of utility functions. MBESS (pronounced 'em-bes') was originally
an acronym for 'Methods for the Behavioral, Educational, and Social Sciences,' but at this
point MBESS contains methods applicable and used in a wide variety of fields and is an
orphan acronym, in the sense that what was an acronym is now literally its name. MBESS has
greatly benefited from others, see <http://nd.edu/~kkelley/site/MBESS.html> for a detailed
list of those that have contributed and other details.
Author: Ken Kelley [aut, cre]
Maintainer: Ken Kelley <kkelley@nd.edu>
Diff between MBESS versions 4.7.0 dated 2020-05-15 and 4.8.0 dated 2020-08-05
DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- README.md |only man/HS.Rd | 6 +++--- man/MBESS-package.Rd | 9 ++++++--- 5 files changed, 17 insertions(+), 13 deletions(-)