Title: Bayesian Graphical Estimation using Spike-and-Slab Priors
Description: Bayesian estimation for undirected graphical models using spike-and-slab priors. The package handles continuous, discrete, and mixed data. To speed up the computations, the computationally intensive tasks of the package are implemented in C++ in parallel using OpenMP.
Author: Reza Mohammadi <https://orcid.org/0000-0001-9538-0648>
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between ssgraph versions 1.7 dated 2019-02-20 and 1.8 dated 2019-03-19
DESCRIPTION | 12 ++--- MD5 | 18 ++++---- R/ssgraph.R | 102 +++++++++++++++++++------------------------------ inst/TODO | 2 man/plot.ssgraph.Rd | 6 +- man/print.ssgraph.Rd | 10 +--- man/ssgraph-package.Rd | 6 +- man/ssgraph.Rd | 7 +-- man/summary.ssgraph.Rd | 2 src/copula.cpp | 57 ++++++++------------------- 10 files changed, 86 insertions(+), 136 deletions(-)
Title: Paws Low-Level Amazon Web Services API
Description: Functions for making low-level API requests to Amazon Web Services
<https://aws.amazon.com>. The functions handle building, signing, and
sending requests, and receiving responses. They are designed to help build
higher-level interfaces to individual services, such as Simple Storage
Service (S3).
Author: David Kretch [aut, cre],
Adam Banker [aut],
Amazon.com, Inc. [cph]
Maintainer: David Kretch <david.kretch@gmail.com>
Diff between paws.common versions 0.1.0 dated 2019-03-13 and 0.1.1 dated 2019-03-19
DESCRIPTION | 20 ++++++++++---------- MD5 | 16 +++++++++------- NAMESPACE | 3 --- NEWS.md | 5 +++++ R/custom_dynamodb.R |only R/custom_s3.R |only R/handlers.R | 4 +--- R/service.R | 19 +++++++++++++++++++ man/handlers.Rd | 1 + tests/testthat/test_service.R | 16 ++++++++++++++++ 10 files changed, 61 insertions(+), 23 deletions(-)
Title: Provides Access to Git Repositories
Description: Interface to the 'libgit2' library, which is a pure C
implementation of the 'Git' core methods. Provides access to 'Git'
repositories to extract data and running some basic 'Git'
commands.
Author: See AUTHORS file.
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between git2r versions 0.25.1 dated 2019-03-17 and 0.25.2 dated 2019-03-19
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 13 +++++++++++++ configure | 32 ++++++++++---------------------- configure.ac | 30 ++++++++++-------------------- src/libgit2/src/xdiff/xdiffi.c | 2 +- 6 files changed, 42 insertions(+), 51 deletions(-)
Title: Cross-Platform File System Operations Based on 'libuv'
Description: A cross-platform interface to file system operations, built on
top of the 'libuv' C library.
Author: Jim Hester [aut, cre],
Hadley Wickham [aut],
libuv project contributors [cph] (libuv library),
Joyent, Inc. and other Node contributors [cph] (libuv library),
RStudio [cph, fnd]
Maintainer: Jim Hester <james.f.hester@gmail.com>
Diff between fs versions 1.2.6 dated 2018-08-23 and 1.2.7 dated 2019-03-19
DESCRIPTION | 12 ++-- MD5 | 75 ++++++++++++++++----------- NAMESPACE | 3 + NEWS.md | 40 ++++++++++++++ R/access.R | 4 + R/copy.R | 2 R/file.R | 15 ++++- R/fs_bytes.R | 4 - R/fs_path.R | 8 ++ R/is.R | 8 ++ R/path.R | 43 ++++++++++++++-- R/temp.R | 11 +++- R/tree.R |only R/utils.R | 4 + build |only inst/doc |only man/dir_tree.Rd |only man/file_info.Rd | 3 + man/file_temp.Rd | 6 +- man/is_file.Rd | 3 + src/Makevars | 4 - src/RcppExports.cpp | 20 +++---- src/dir.cc | 2 src/error.cc | 5 + src/file.cc | 2 src/getmode.h | 7 +- src/unix/getmode.cc | 9 +-- src/utils.cc | 3 + src/windows/getmode.cc | 2 tests/testthat/blns.txt.xz |binary tests/testthat/ref-tree-1 |only tests/testthat/ref-tree-2 |only tests/testthat/ref-tree-3 |only tests/testthat/test-access.R | 7 +- tests/testthat/test-file.R | 19 +++++++ tests/testthat/test-fs_path.R | 7 ++ tests/testthat/test-is.R | 10 +++ tests/testthat/test-path.R | 110 +++++++++++++++++++++++++++++++++++------ tests/testthat/test-sanitize.R | 2 tests/testthat/test-temp.R | 17 ++++++ tests/testthat/test-tree.R |only vignettes |only 42 files changed, 374 insertions(+), 93 deletions(-)
Title: Bayesian Structure Learning in Graphical Models using
Birth-Death MCMC
Description: Statistical tools for Bayesian structure learning in undirected graphical models for continuous, discrete, and mixed data. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889>, Letac et al. (2018) <arXiv:1706.04416>, Dobra and Mohammadi (2018) <doi:10.1214/18-AOAS1164>, Mohammadi et al. (2017) <doi:10.1111/rssc.12171>. To speed up the computations, the BDMCMC sampling algorithms are implemented in parallel using OpenMP in C++.
Author: Reza Mohammadi [aut, cre] <https://orcid.org/0000-0001-9538-0648>,
Ernst Wit [aut] <https://orcid.org/0000-0002-3671-9610>,
Adrian Dobra [ctb]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between BDgraph versions 2.55 dated 2019-02-15 and 2.56 dated 2019-03-19
BDgraph-2.55/BDgraph/inst/doc/vingette.pdf |only BDgraph-2.56/BDgraph/DESCRIPTION | 12 - BDgraph-2.56/BDgraph/MD5 | 111 +++++----- BDgraph-2.56/BDgraph/NEWS | 22 ++ BDgraph-2.56/BDgraph/R/bdgraph.R | 275 ++++++++----------------- BDgraph-2.56/BDgraph/R/bdgraph.mpl.R | 4 BDgraph-2.56/BDgraph/R/bdgraph.npn.R | 2 BDgraph-2.56/BDgraph/R/bdgraph.sim.R | 17 + BDgraph-2.56/BDgraph/R/bdgraph.ts.R | 3 BDgraph-2.56/BDgraph/R/compare.R | 91 +++----- BDgraph-2.56/BDgraph/R/gnorm.R | 58 +++-- BDgraph-2.56/BDgraph/R/graph.sim.R | 4 BDgraph-2.56/BDgraph/R/hill_climb_algorithm.R | 2 BDgraph-2.56/BDgraph/R/hill_climb_binary.R | 2 BDgraph-2.56/BDgraph/R/pgraph.R | 4 BDgraph-2.56/BDgraph/R/plinks.R | 8 BDgraph-2.56/BDgraph/R/plotcoda.R | 11 - BDgraph-2.56/BDgraph/R/plotroc.R | 211 +++++++++---------- BDgraph-2.56/BDgraph/R/rgcwish.R | 29 +- BDgraph-2.56/BDgraph/R/rgwish.R | 29 +- BDgraph-2.56/BDgraph/R/rmvnorm.R | 2 BDgraph-2.56/BDgraph/R/rwish.R | 2 BDgraph-2.56/BDgraph/R/select.R | 17 - BDgraph-2.56/BDgraph/R/traceplot.R | 2 BDgraph-2.56/BDgraph/R/transfer.R | 2 BDgraph-2.56/BDgraph/inst/doc/BDgraph.pdf |binary BDgraph-2.56/BDgraph/inst/doc/vignette.pdf |binary BDgraph-2.56/BDgraph/man/BDgraph-package.Rd | 31 -- BDgraph-2.56/BDgraph/man/bdgraph.Rd | 6 BDgraph-2.56/BDgraph/man/bdgraph.mpl.Rd | 5 BDgraph-2.56/BDgraph/man/bdgraph.ts.Rd | 2 BDgraph-2.56/BDgraph/man/compare.Rd | 37 +-- BDgraph-2.56/BDgraph/man/gnorm.Rd | 14 - BDgraph-2.56/BDgraph/man/pgraph.Rd | 2 BDgraph-2.56/BDgraph/man/plotroc.Rd | 39 +-- BDgraph-2.56/BDgraph/man/print.bdgraph.Rd | 8 BDgraph-2.56/BDgraph/man/print.sim.Rd | 2 BDgraph-2.56/BDgraph/man/rgcwish.Rd | 12 - BDgraph-2.56/BDgraph/man/rgwish.Rd | 14 - BDgraph-2.56/BDgraph/man/select.Rd | 7 BDgraph-2.56/BDgraph/src/bd_for_ts.cpp | 2 BDgraph-2.56/BDgraph/src/copula.cpp | 191 ++++++++--------- BDgraph-2.56/BDgraph/src/copula.h | 2 BDgraph-2.56/BDgraph/src/gcgm_DMH.cpp | 2 BDgraph-2.56/BDgraph/src/gcgm_bd.cpp | 2 BDgraph-2.56/BDgraph/src/ggm_DMH.cpp | 2 BDgraph-2.56/BDgraph/src/ggm_bd.cpp | 2 BDgraph-2.56/BDgraph/src/ggm_mpl_bd.cpp | 2 BDgraph-2.56/BDgraph/src/gm_mpl_Hill_Climb.cpp | 2 BDgraph-2.56/BDgraph/src/gm_mpl_bd_dis.cpp | 2 BDgraph-2.56/BDgraph/src/gm_rj.cpp | 2 BDgraph-2.56/BDgraph/src/matrix.cpp | 51 ++-- BDgraph-2.56/BDgraph/src/matrix.h | 2 BDgraph-2.56/BDgraph/src/omp_set_num_cores.cpp | 2 BDgraph-2.56/BDgraph/src/rgwish.cpp | 12 - BDgraph-2.56/BDgraph/src/rgwish.h | 2 BDgraph-2.56/BDgraph/vignettes/BDgraph.pdf |binary 57 files changed, 635 insertions(+), 744 deletions(-)
Title: Particle Tracking and Demography
Description: Obtain population density and body size structure, using video material or image sequences as input. Functions assist in the creation of image sequences from videos, background detection and subtraction, particle identification and tracking. An artificial neural network can be trained for noise filtering. The goal is to supply accurate estimates of population size, structure and/or individual behavior, for use in evolutionary and ecological studies.
Author: Marjolein Bruijning, Marco D. Visser, Caspar A. Hallmann, Eelke Jongejans
Maintainer: Marjolein Bruijning <mbruijning@princeton.edu>
Diff between trackdem versions 0.4.2 dated 2018-10-24 and 0.4.3 dated 2019-03-19
trackdem-0.4.2/trackdem/inst/tests/trainingdata.RData |only trackdem-0.4.3/trackdem/DESCRIPTION | 13 trackdem-0.4.3/trackdem/MD5 | 50 +- trackdem-0.4.3/trackdem/R/RcppExports.R | 16 trackdem-0.4.3/trackdem/R/identifyFunctions.R | 180 ++++---- trackdem-0.4.3/trackdem/R/nnFunctions.R | 172 ++++---- trackdem-0.4.3/trackdem/R/resultsFunctions.R | 21 - trackdem-0.4.3/trackdem/R/simulationFunctions.R | 4 trackdem-0.4.3/trackdem/R/trackFunctions.R | 4 trackdem-0.4.3/trackdem/build/vignette.rds |binary trackdem-0.4.3/trackdem/inst/doc/tutorial.R | 1 trackdem-0.4.3/trackdem/inst/doc/tutorial.pdf |binary trackdem-0.4.3/trackdem/inst/python/createImageSeq.py | 378 ------------------ trackdem-0.4.3/trackdem/inst/tests/test_all.R | 46 -- trackdem-0.4.3/trackdem/man/createImageSeq.Rd | 10 trackdem-0.4.3/trackdem/man/loadImages.Rd | 4 trackdem-0.4.3/trackdem/man/runBatch.Rd | 4 trackdem-0.4.3/trackdem/man/simulTrajec.Rd | 11 trackdem-0.4.3/trackdem/man/summary.TrDm.Rd | 4 trackdem-0.4.3/trackdem/man/testNN.Rd | 4 trackdem-0.4.3/trackdem/src/RcppExports.cpp | 60 ++ trackdem-0.4.3/trackdem/src/cb1.cpp |only trackdem-0.4.3/trackdem/src/muP.cpp | 2 trackdem-0.4.3/trackdem/src/muP1.cpp |only trackdem-0.4.3/trackdem/src/sb.cpp | 1 trackdem-0.4.3/trackdem/src/sb2.cpp | 1 trackdem-0.4.3/trackdem/src/sdP.cpp | 1 trackdem-0.4.3/trackdem/src/sdP1.cpp |only 28 files changed, 340 insertions(+), 647 deletions(-)
Title: KONP Tests: Powerful K-Sample Tests for Right-Censored Data
Description: The K-sample omnibus non-proportional hazards (KONP) tests are powerful non-parametric tests for comparing K (>=2) hazard functions based on right-censored data (Gorfine, Schlesinger and Hsu, 2019, <arXiv:1901.05739v1>). These tests are consistent against any differences between the hazard functions of the groups. The KONP tests are often more powerful than other existing tests, especially under non-proportional hazard functions.
Author: Matan Schlesinger [cre, aut],
Malka Gorfine [aut]
Maintainer: Matan Schlesinger <matan.schles@gmail.com>
Diff between KONPsurv versions 1.0 dated 2019-03-15 and 1.0.1 dated 2019-03-19
KONPsurv-1.0.1/KONPsurv/DESCRIPTION | 10 - KONPsurv-1.0.1/KONPsurv/MD5 | 23 -- KONPsurv-1.0.1/KONPsurv/R/HHGKM_2_sample.R | 88 ++++----- KONPsurv-1.0.1/KONPsurv/R/HHGKM_K_sample.R | 14 - KONPsurv-1.0.1/KONPsurv/R/RcppExports.R | 72 -------- KONPsurv-1.0.1/KONPsurv/README.md | 9 - KONPsurv-1.0.1/KONPsurv/src/rcpp_code.cpp | 144 ++++++++-------- KONPsurv-1.0/KONPsurv/man/KM_C.Rd |only KONPsurv-1.0/KONPsurv/man/binary_search_km_g.Rd |only KONPsurv-1.0/KONPsurv/man/binary_search_km_ge.Rd |only KONPsurv-1.0/KONPsurv/man/get_perm_stats.Rd |only KONPsurv-1.0/KONPsurv/man/get_perm_stats_K_sample.Rd |only KONPsurv-1.0/KONPsurv/man/hhgsurv_test_stat.Rd |only KONPsurv-1.0/KONPsurv/man/hhgsurv_test_stat_K_sample.Rd |only KONPsurv-1.0/KONPsurv/man/konp_2_sample.Rd |only KONPsurv-1.0/KONPsurv/man/konp_2_sample_impu_output.Rd |only KONPsurv-1.0/KONPsurv/man/sample_group.Rd |only KONPsurv-1.0/KONPsurv/man/sample_group_K_sample.Rd |only 18 files changed, 142 insertions(+), 218 deletions(-)
Title: Creation of Arrays by Mixed Integer Programming
Description: 'CRAN' package 'DoE.base' and non-'CRAN' packages 'gurobi' and 'Rmosek' are enhanced with functionality for the creation of optimized arrays for experimentation, where optimization is in terms of generalized minimum aberration. It is also possible to optimally extend existing arrays to larger run size. Optimization requires the availability of at least one of the commercial products 'Gurobi' or 'Mosek' (free academic licenses available for both). For installing 'Gurobi' and its R package 'gurobi', follow instructions at <http://www.gurobi.com/downloads/gurobi-optimizer> and <http://www.gurobi.com/documentation/7.5/refman/r_api_overview.html> (or higher version). For installing 'Mosek' and its R package 'Rmosek', follow instructions at <https://www.mosek.com/downloads/> and <http://docs.mosek.com/8.1/rmosek/install-interface.html>, or use the functionality in the stump CRAN R package 'Rmosek'.
Author: Ulrike Groemping
Maintainer: Ulrike Groemping <groemping@beuth-hochschule.de>
Diff between DoE.MIParray versions 0.11 dated 2018-03-01 and 0.12 dated 2019-03-19
DESCRIPTION | 12 ++++---- MD5 | 19 ++++++++---- NAMESPACE | 10 ++++-- R/gurobi_MIPsearch.R |only R/mosek_MIPsearch.R |only R/print.oa.R |only inst/NEWS | 12 ++++++-- inst/testsWithGurobiAndMosek/testcombis.Rout.save | 25 ++--------------- inst/testsWithGurobiAndMosek/teststartforced.Rout.save | 10 ++---- man/DoE.MIParray-package.Rd | 8 +++-- man/functionsFromDoEbase.Rd | 4 ++ man/mosek_MIPsearch.Rd |only man/print.oa.Rd |only 13 files changed, 52 insertions(+), 48 deletions(-)
Title: Tau-Leaping Stochastic Simulation
Description: Implements adaptive tau leaping to approximate the
trajectory of a continuous-time stochastic process as
described by Cao et al. (2007) The Journal of Chemical Physics
<doi:10.1063/1.2745299> (aka. the Gillespie stochastic
simulation algorithm). This package is based upon work
supported by NSF DBI-0906041 and NIH K99-GM104158 to Philip
Johnson and NIH R01-AI049334 to Rustom Antia.
Author: Philip Johnson
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between adaptivetau versions 2.2-2 dated 2019-03-12 and 2.2-3 dated 2019-03-19
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 5 +++++ inst/doc/adaptivetau.pdf |binary src/Rwrappers.h | 4 +++- src/adaptivetau.cpp | 28 ++++++++++++---------------- 6 files changed, 29 insertions(+), 26 deletions(-)
Title: Estimation and Projection of Age-Specific Mortality Rates
Description: Age-specific mortality rates are estimated and projected using
the Kannisto, Lee-Carter and related methods as described in
Sevcikova et al. (2016) <doi:10.1007/978-3-319-26603-9_15>.
Author: Hana Sevcikova, Nan Li and Patrick Gerland
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between MortCast versions 1.2-1 dated 2018-09-22 and 2.0-1 dated 2019-03-19
ChangeLog | 12 ++ DESCRIPTION | 13 +- MD5 | 43 ++++++--- NAMESPACE | 7 + R/LC.R | 40 ++++++-- R/MortCast-data.R |only R/MortCast.R | 10 ++ R/kannisto.R | 33 ++++--- R/life_table.R |only R/other_methods.R |only data |only man/MLTlookup.Rd |only man/MortCast-package.Rd | 14 ++- man/PMDadjcoef.Rd |only man/PMDrho.Rd |only man/cokannisto.Rd | 4 man/cokannisto.estimate.Rd | 8 + man/kannisto.Rd | 4 man/leecarter.estimate.Rd | 6 + man/life.table.Rd |only man/mltgroup.Rd |only man/mortcast.Rd | 10 +- man/mortcast.blend.Rd |only man/pmdgroup.Rd |only man/rotate.leecarter.Rd | 2 src/init.c | 6 + src/life_tables.c | 201 +++++++++++++++++++++++++++++++++++++++++---- 27 files changed, 340 insertions(+), 73 deletions(-)
Title: Functional Data Analysis and Empirical Dynamics
Description: Provides implementation of various methods of Functional Data
Analysis (FDA) and Empirical Dynamics. The core of this package is Functional
Principal Component Analysis (FPCA), a key technique for functional data
analysis, for sparsely or densely sampled random trajectories and time courses,
via the Principal Analysis by Conditional Estimation (PACE) algorithm or
numerical integration. PACE is useful for the analysis of data that have been
generated by a sample of underlying (but usually not fully observed) random
trajectories. It does not rely on pre-smoothing of trajectories, which is
problematic if functional data are sparsely sampled. PACE provides options
for functional regression and correlation, for Longitudinal Data Analysis,
the analysis of stochastic processes from samples of realized trajectories,
and for the analysis of underlying dynamics. The core computational algorithms
are implemented using the 'Eigen' C++ library for numerical linear algebra and
'RcppEigen' "glue".
Author: Xiongtao Dai [aut],
Pantelis Z. Hadjipantelis [aut, cre],
Kynghee Han [aut],
Hao Ji [aut],
Shu-Chin Lin [ctb],
Hans-Georg Mueller [cph, ths],
Jane-Ling Wang [cph, ths]
Maintainer: Pantelis Z. Hadjipantelis <pantelis@ucdavis.edu>
Diff between fdapace versions 0.4.0 dated 2018-02-25 and 0.4.1 dated 2019-03-19
DESCRIPTION | 10 MD5 | 36 +-- NEWS | 5 R/CreateBWPlot.R | 2 R/FPCA.R | 2 R/RcppExports.R | 44 +-- build/vignette.rds |binary inst/doc/fdapaceVig.html | 497 ++++++++++++++++++++++++++------------------ man/CreateBWPlot.Rd | 2 man/FAM.Rd | 4 man/FOptDes.Rd | 3 man/GetCrCovYX.Rd | 4 man/GetNormalisedSample.Rd | 2 man/MakeGPFunctionalData.Rd | 4 man/MakeSparseGP.Rd | 6 man/MultiFAM.Rd | 4 man/Wiener.Rd | 3 man/kCFC.Rd | 6 src/RcppExports.cpp | 106 ++++----- 19 files changed, 428 insertions(+), 312 deletions(-)
Title: Safely Access the RStudio API
Description: Access the RStudio API (if available) and provide informative error
messages when it's not.
Author: Kevin Ushey [aut, cre],
JJ Allaire [aut],
Hadley Wickham [aut],
Gary Ritchie [aut],
RStudio [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between rstudioapi versions 0.9.0 dated 2019-01-09 and 0.10 dated 2019-03-19
DESCRIPTION | 6 +++--- MD5 | 37 ++++++++++++++++++++++++++----------- NAMESPACE | 15 +++++++++++++++ NEWS.md | 4 ++++ R/commands.R |only R/document-api.R | 25 +++++++++++++++++++++++++ R/jobs.R | 10 ++++++++-- R/launcher-functions.R |only R/launcher.R |only R/stubs.R | 17 ++++++++++++----- R/themes.R | 2 +- build/vignette.rds |binary man/executeCommand.Rd |only man/jobRunScript.Rd | 7 +++++-- man/launcher.Rd |only man/launcherConfig.Rd |only man/launcherContainer.Rd |only man/launcherControlJob.Rd |only man/launcherGetJob.Rd |only man/launcherHostMount.Rd |only man/launcherNfsMount.Rd |only man/launcherPlacementConstraint.Rd |only man/launcherResourceLimit.Rd |only man/launcherSubmitJob.Rd |only man/launcherSubmitR.Rd |only man/rstudio-documents.Rd | 18 ++++++++++++++++++ man/sendToConsole.Rd | 9 +++++++-- 27 files changed, 124 insertions(+), 26 deletions(-)
Title: Bayesian Emulation of Computer Programs
Description: Allows one to estimate the output of a computer program,
as a function of the input parameters, without actually running it.
The computer program is assumed to be a Gaussian process, whose
parameters are estimated using Bayesian techniques that give a PDF of
expected program output. This PDF is conditional on a training set
of runs, each consisting of a point in parameter space and the model
output at that point. The emphasis is on complex codes that take
weeks or months to run, and that have a large number of undetermined
input parameters; many climate prediction models fall into this
class. The emulator essentially determines Bayesian posterior
estimates of the PDF of the output of a model, conditioned on results
from previous runs and a user-specified prior linear model. A vignette is
provided and the help pages include examples.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between emulator versions 1.2-19 dated 2019-01-15 and 1.2-20 dated 2019-03-19
DESCRIPTION | 10 MD5 | 20 R/aaa_cprod.R | 6 build/partial.rdb |binary build/vignette.rds |binary data/expert.estimates.rda |binary data/results.table.rda |binary data/toy.rda |binary inst/doc/emulex.pdf |binary inst/doc/quad_form_test.html | 924 +++++++++++++++++++++++++------------------ man/quad.form.Rd | 6 11 files changed, 575 insertions(+), 391 deletions(-)
Title: Tools for the Continuous Convolution Trick in Nonparametric
Estimation
Description: Implements the uniform scaled beta distribution and
the continuous convolution kernel density estimator.
Author: Thomas Nagler [aut, cre]
Maintainer: Thomas Nagler <thomas.nagler@tum.de>
Diff between cctools versions 0.1.1 dated 2017-11-24 and 0.1.2 dated 2019-03-19
DESCRIPTION | 6 +++--- MD5 | 4 ++-- tests/testthat/test-usb.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Extensible, Parallelizable Implementation of the Random Forest
Algorithm
Description: Scalable implementation of classification and regression forests, as described by Breiman (2001), <DOI:10.1023/A:1010933404324>.
Author: Mark Seligman
Maintainer: Mark Seligman <mseligman@suiji.org>
Diff between Rborist versions 0.1-16 dated 2019-03-15 and 0.1-17 dated 2019-03-19
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/Rborist.default.R | 2 +- src/bv.h | 6 +++--- src/level.h | 8 ++++---- src/ompthread.cc | 13 ++++++++----- src/ompthread.h | 4 ++-- src/predict.h | 2 +- src/runset.h | 2 +- src/sample.h | 2 +- src/trainBridge.h | 2 +- 11 files changed, 36 insertions(+), 33 deletions(-)
Title: Using Percolation and Conductance to Find Information Flow
Certainty in a Direct Network
Description: To find the certainty of dominance interactions with indirect
interactions being considered.
Author: Kevin Fujii [aut],
Jian Jin [aut],
Jessica Vandeleest [aut, cre],
Aaron Shev [aut],
Brianne Beisner [aut],
Brenda McCowan [aut, cph],
Hsieh Fushing [aut, cph]
Maintainer: Jessica Vandeleest <vandelee@ucdavis.edu>
Diff between Perc versions 0.1.2 dated 2016-05-10 and 0.1.3 dated 2019-03-19
Perc-0.1.2/Perc/R/sampleEdgelist.R |only Perc-0.1.2/Perc/R/sampleRawMatrix.R |only Perc-0.1.2/Perc/tests/testthat/plotConfMatOutput1.rds |only Perc-0.1.3/Perc/DESCRIPTION | 18 Perc-0.1.3/Perc/MD5 | 124 +- Perc-0.1.3/Perc/NAMESPACE | 36 Perc-0.1.3/Perc/R/BTinternal.R | 242 ++-- Perc-0.1.3/Perc/R/IDpaths.R | 120 +- Perc-0.1.3/Perc/R/Perc.R | 8 Perc-0.1.3/Perc/R/SampleEdgelist.R |only Perc-0.1.3/Perc/R/SampleRawMatrix.R |only Perc-0.1.3/Perc/R/SimAnneal_profile.R | 238 ++-- Perc-0.1.3/Perc/R/allPaths.R | 32 Perc-0.1.3/Perc/R/as.conflictmat.R | 342 +++--- Perc-0.1.3/Perc/R/bradleyTerry.R | 214 +-- Perc-0.1.3/Perc/R/bt.test.R | 168 +-- Perc-0.1.3/Perc/R/conductance.R | 518 ++++----- Perc-0.1.3/Perc/R/countPaths.R | 168 +-- Perc-0.1.3/Perc/R/findAllPaths.R | 110 +- Perc-0.1.3/Perc/R/findAllRankOrder.R | 110 +- Perc-0.1.3/Perc/R/findIDpaths.R | 188 +-- Perc-0.1.3/Perc/R/imports.R | 4 Perc-0.1.3/Perc/R/myrecode.R | 38 Perc-0.1.3/Perc/R/plot.conf.mat.R | 135 +- Perc-0.1.3/Perc/R/plot.conf.prob.diagnosis.R | 52 Perc-0.1.3/Perc/R/sampleWeightedEdgelist.R | 22 Perc-0.1.3/Perc/R/sim.rank.order.R | 162 +- Perc-0.1.3/Perc/R/transitivity.R | 316 ++--- Perc-0.1.3/Perc/build/vignette.rds |binary Perc-0.1.3/Perc/inst/doc/Perc.R | 240 ++-- Perc-0.1.3/Perc/inst/doc/Perc.Rmd | 459 ++++---- Perc-0.1.3/Perc/inst/doc/Perc.html | 981 +++++++++++------- Perc-0.1.3/Perc/man/Perc.Rd | 21 Perc-0.1.3/Perc/man/as.conflictmat.Rd | 83 - Perc-0.1.3/Perc/man/bradleyTerry.Rd | 93 - Perc-0.1.3/Perc/man/bt.test.Rd | 113 +- Perc-0.1.3/Perc/man/conductance.Rd | 149 +- Perc-0.1.3/Perc/man/countPaths.Rd | 61 - Perc-0.1.3/Perc/man/dyadicLongConverter.Rd | 65 - Perc-0.1.3/Perc/man/findAllPaths.Rd | 69 - Perc-0.1.3/Perc/man/findIDpaths.Rd | 57 - Perc-0.1.3/Perc/man/getAllCosts.Rd | 39 Perc-0.1.3/Perc/man/getAllRankOrder.Rd | 39 Perc-0.1.3/Perc/man/getBestRankOrder.Rd | 39 Perc-0.1.3/Perc/man/getSimOutput.Rd | 47 Perc-0.1.3/Perc/man/individualDomProb.Rd | 59 - Perc-0.1.3/Perc/man/plotConfmat.Rd | 73 - Perc-0.1.3/Perc/man/plotProbDiagnosis.Rd | 49 Perc-0.1.3/Perc/man/sampleEdgelist.Rd | 45 Perc-0.1.3/Perc/man/sampleRawMatrix.Rd | 37 Perc-0.1.3/Perc/man/sampleWeightedEdgelist.Rd | 47 Perc-0.1.3/Perc/man/simRankOrder.Rd | 117 +- Perc-0.1.3/Perc/man/transitivity.Rd | 97 - Perc-0.1.3/Perc/man/valueConverter.Rd | 61 - Perc-0.1.3/Perc/tests/testthat.R | 8 Perc-0.1.3/Perc/tests/testthat/plotConfmatOutput1.rds |only Perc-0.1.3/Perc/tests/testthat/test-Converters.R | 105 - Perc-0.1.3/Perc/tests/testthat/test-as.conflictmat.R | 127 +- Perc-0.1.3/Perc/tests/testthat/test-bradleyTerry.R | 61 - Perc-0.1.3/Perc/tests/testthat/test-conductance.R | 79 - Perc-0.1.3/Perc/tests/testthat/test-countPaths.R | 56 - Perc-0.1.3/Perc/tests/testthat/test-findAllPaths.R | 87 - Perc-0.1.3/Perc/tests/testthat/test-findIDpaths.R | 101 - Perc-0.1.3/Perc/tests/testthat/test-plotConfMat.R | 75 - Perc-0.1.3/Perc/tests/testthat/test-transitivity.R | 51 Perc-0.1.3/Perc/vignettes/Perc.Rmd | 458 ++++---- 66 files changed, 3979 insertions(+), 3734 deletions(-)
Title: ADMB for R Using Scripts or GUI
Description: A collection of software provides R support for 'ADMB'
(Automatic Differentiation Model Builder) and a 'GUI'
interface facilitates the conversion of 'ADMB' template
code to 'C code' followed by compilation to a binary executable.
Stand-alone functions can also be run by users
not interested in clicking a 'GUI'.
Author: Jon T. Schnute [aut],
Rowan Haigh [aut, cre],
Alex Couture-Beil [aut]
Maintainer: Rowan Haigh <rowan.haigh@dfo-mpo.gc.ca>
Diff between PBSadmb versions 0.68.104 dated 2014-04-09 and 1.1.4 dated 2019-03-19
PBSadmb-0.68.104/PBSadmb/inst/doc/00ReadMe.txt |only PBSadmb-0.68.104/PBSadmb/inst/doc/index.html |only PBSadmb-0.68.104/PBSadmb/man/makeADopts.Rd |only PBSadmb-0.68.104/PBSadmb/man/setADMBPath.Rd |only PBSadmb-1.1.4/PBSadmb/DESCRIPTION | 32 PBSadmb-1.1.4/PBSadmb/MD5 | 84 - PBSadmb-1.1.4/PBSadmb/NAMESPACE | 23 PBSadmb-1.1.4/PBSadmb/R/PBSadmb.r | 1149 ++++++++++++----------- PBSadmb-1.1.4/PBSadmb/R/zzz.r | 4 PBSadmb-1.1.4/PBSadmb/inst/doc/ADMB-IG.pdf |only PBSadmb-1.1.4/PBSadmb/inst/doc/ChangeLog.txt | 540 ++++++---- PBSadmb-1.1.4/PBSadmb/inst/doc/Links.html |only PBSadmb-1.1.4/PBSadmb/inst/doc/PBSadmb-UG.pdf |binary PBSadmb-1.1.4/PBSadmb/inst/doc/PBSadmbIntro.pdf |binary PBSadmb-1.1.4/PBSadmb/inst/doc/admb-re.pdf |binary PBSadmb-1.1.4/PBSadmb/inst/doc/admb.pdf |binary PBSadmb-1.1.4/PBSadmb/inst/doc/autodif.pdf |binary PBSadmb-1.1.4/PBSadmb/inst/examples/ADpaths.txt | 1 PBSadmb-1.1.4/PBSadmb/inst/examples/vonb.r | 4 PBSadmb-1.1.4/PBSadmb/inst/win/admbWin.txt | 81 - PBSadmb-1.1.4/PBSadmb/man/PBSadmb-package.Rd |only PBSadmb-1.1.4/PBSadmb/man/admb.Rd | 34 PBSadmb-1.1.4/PBSadmb/man/appendLog.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/atget.Rd | 7 PBSadmb-1.1.4/PBSadmb/man/checkADopts.Rd | 32 PBSadmb-1.1.4/PBSadmb/man/cleanAD.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/compAD.Rd | 8 PBSadmb-1.1.4/PBSadmb/man/convAD.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/convOS.Rd | 5 PBSadmb-1.1.4/PBSadmb/man/copyFiles.Rd | 7 PBSadmb-1.1.4/PBSadmb/man/editAD.Rd | 8 PBSadmb-1.1.4/PBSadmb/man/editADfile.Rd | 18 PBSadmb-1.1.4/PBSadmb/man/linkAD.Rd | 8 PBSadmb-1.1.4/PBSadmb/man/makeAD.Rd | 8 PBSadmb-1.1.4/PBSadmb/man/plotMC.Rd | 7 PBSadmb-1.1.4/PBSadmb/man/readADopts.Rd | 33 PBSadmb-1.1.4/PBSadmb/man/readADpaths.Rd | 12 PBSadmb-1.1.4/PBSadmb/man/readRep.Rd | 7 PBSadmb-1.1.4/PBSadmb/man/runAD.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/runMC.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/setADpath.Rd |only PBSadmb-1.1.4/PBSadmb/man/setupAD.Rd | 4 PBSadmb-1.1.4/PBSadmb/man/showADargs.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/startLog.Rd | 6 PBSadmb-1.1.4/PBSadmb/man/suggestPath.Rd | 7 PBSadmb-1.1.4/PBSadmb/man/writeADopts.Rd | 30 PBSadmb-1.1.4/PBSadmb/vignettes/PBSadmbIntro.Rnw | 65 - 47 files changed, 1355 insertions(+), 905 deletions(-)
Title: Set of Common Tools for Forecast Verification
Description: Set of tools to verify forecasts through the computation of typical prediction scores against one or more observational datasets or reanalyses (a reanalysis being a physical extrapolation of observations that relies on the equations from a model, not a pure observational dataset). Intended for seasonal to decadal climate forecasts although can be useful to verify other kinds of forecasts. The package can be helpful in climate sciences for other purposes than forecasting.
Author: BSC-CNS [aut, cph],
Virginie Guemas [aut],
Nicolau Manubens [aut, cre],
Javier Garcia-Serrano [aut],
Neven Fuckar [aut],
Louis-Philippe Caron [aut],
Omar Bellprat [aut],
Luis Rodrigues [aut],
Veronica Torralba [aut],
Alasdair Hunter [aut],
Chloe Prodhomme [aut],
Martin Menegoz [aut],
Domingo Manubens [ctb],
Constantin Ardilouze [ctb],
Lauriane Batte [ctb],
Fabian Lienert [ctb],
Julia Giner [ctb],
Jean-Philippe Baudouin [ctb],
Nube Gonzalez [ctb],
Ludovic Auger [ctb],
Nicola Cortesi [ctb],
Eleftheria Exarchou [ctb],
Ruben Cruz [ctb],
Isabel Andreu-Burillo [ctb],
Ramiro Saurral [ctb]
Maintainer: Nicolau Manubens <nicolau.manubens@bsc.es>
Diff between s2dverification versions 2.8.0 dated 2017-02-13 and 2.8.5 dated 2019-03-19
s2dverification-2.8.0/s2dverification/inst/sample_data |only s2dverification-2.8.5/s2dverification/DESCRIPTION | 55 - s2dverification-2.8.5/s2dverification/MD5 | 364 ---------- s2dverification-2.8.5/s2dverification/R/ArrayToNetCDF.R | 27 s2dverification-2.8.5/s2dverification/R/CDORemap.R | 147 +++- s2dverification-2.8.5/s2dverification/R/Clim.R | 14 s2dverification-2.8.5/s2dverification/R/ColorBar.R | 18 s2dverification-2.8.5/s2dverification/R/Corr.R | 4 s2dverification-2.8.5/s2dverification/R/Filter.R | 4 s2dverification-2.8.5/s2dverification/R/Load.R | 60 - s2dverification-2.8.5/s2dverification/R/PlotEquiMap.R | 24 s2dverification-2.8.5/s2dverification/R/PlotLayout.R | 38 - s2dverification-2.8.5/s2dverification/R/Subset.R | 8 s2dverification-2.8.5/s2dverification/R/Utils.R | 292 ++++++-- s2dverification-2.8.5/s2dverification/data/sampleDepthData.RData |binary s2dverification-2.8.5/s2dverification/data/sampleMap.RData |binary s2dverification-2.8.5/s2dverification/data/sampleTimeSeries.RData |binary s2dverification-2.8.5/s2dverification/inst/doc/plot_maps.R | 4 s2dverification-2.8.5/s2dverification/inst/doc/plot_timeseries.R | 4 s2dverification-2.8.5/s2dverification/man/ArrayToNetCDF.Rd | 4 s2dverification-2.8.5/s2dverification/man/CDORemap.Rd | 2 s2dverification-2.8.5/s2dverification/man/ColorBar.Rd | 2 s2dverification-2.8.5/s2dverification/man/ConfigFileOpen.Rd | 7 s2dverification-2.8.5/s2dverification/man/Eno.Rd | 31 s2dverification-2.8.5/s2dverification/man/EnoNew.Rd | 30 s2dverification-2.8.5/s2dverification/man/Histo2Hindcast.Rd | 34 s2dverification-2.8.5/s2dverification/man/Load.Rd | 59 + s2dverification-2.8.5/s2dverification/man/PlotLayout.Rd | 2 s2dverification-2.8.5/s2dverification/man/s2dverification.Rd | 4 s2dverification-2.8.5/s2dverification/man/sampleMap.Rd | 33 s2dverification-2.8.5/s2dverification/man/sampleTimeSeries.Rd | 33 31 files changed, 665 insertions(+), 639 deletions(-)
More information about s2dverification at CRAN
Permanent link
Title: Additional Tools for Developing Spatially Explicit Discrete
Event Simulation (SpaDES) Models
Description: Provides GIS and map utilities, plus additional modeling tools for
developing cellular automata, dynamic raster models, and agent based models
in 'SpaDES'.
Included are various methods for spatial spreading, spatial agents, GIS
operations, random map generation, and others.
See '?SpaDES.tools' for an categorized overview of these additional tools.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>),
Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>),
Yong Luo [ctb],
Steve Cumming [ctb],
Jean Marchal [ctb],
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.tools versions 0.3.1 dated 2019-02-01 and 0.3.2 dated 2019-03-19
DESCRIPTION | 15 ++++----- MD5 | 32 +++++++++++-------- NAMESPACE | 8 ++++ NEWS.md | 14 ++++++++ R/SELES.R | 14 +++++++- R/distanceFromEachPoint.R | 4 +- R/spades-tools-deprecated.R | 1 R/spread2.R | 69 ++++++++++++++++++++++++++++++++---------- R/spread3.R |only R/studyArea.R |only inst/WORDLIST | 3 + man/distances.Rd | 3 + man/initiateAgents.Rd | 14 +++++++- man/middlePixel.Rd |only man/randomStudyArea.Rd |only man/spread2.Rd | 40 ++++++++++++++++++------ man/spread3.Rd |only man/testEquivalentMetadata.Rd |only tests/testthat/test-spread.R | 19 +++++++++-- tests/testthat/test-spread2.R | 22 +++++++++---- 20 files changed, 196 insertions(+), 62 deletions(-)
Title: Heart Rate Variability Analysis of ECG Data
Description: Allows users to import data files containing heartbeat positions in the most broadly used formats, to remove outliers or points with unacceptable physiological values present in the time series, to plot HRV data, and to perform time domain, frequency domain and nonlinear HRV analysis.
Author: Leandro Rodriguez-Linares [aut, cre],
Xose Vila [aut],
Maria Jose Lado [aut],
Arturo Mendez [aut],
Abraham Otero [aut],
Constantino Antonio Garcia [aut],
Matti Lassila [ctb]
Maintainer: Leandro Rodriguez-Linares <leandro@uvigo.es>
Diff between RHRV versions 4.2.3 dated 2017-02-09 and 4.2.4 dated 2019-03-19
DESCRIPTION | 12 MD5 | 19 - NAMESPACE | 2 R/CalculatePowerBand.R | 9 build/vignette.rds |binary data/HRVData.rda |binary data/HRVProcessedData.rda |binary inst/doc/RHRV-quickstart.html | 506 +++++++++++++++++++++++++++++++----------- man/CalculatePowerBand.Rd | 2 src/filterhr.c | 83 +++--- src/rhrv_init.c |only 11 files changed, 445 insertions(+), 188 deletions(-)
Title: Easy Dockerfile Creation from R
Description: Build a Dockerfile straight from your R session. 'dockerfiler' allows
you to create step by step a Dockerfile, and provide convenient tools to wrap
R code inside this Dockerfile.
Author: Colin Fay [cre, aut]
Maintainer: Colin Fay <contact@colinfay.me>
Diff between dockerfiler versions 0.1.1 dated 2018-04-18 and 0.1.3 dated 2019-03-19
DESCRIPTION | 10 - MD5 | 22 +- NAMESPACE | 2 NEWS.md | 5 R/add.R | 51 ++++- R/dock_from_desc.R |only R/dockerfile.R | 3 build/vignette.rds |binary inst/doc/dockerfiler.R | 23 ++ inst/doc/dockerfiler.Rmd | 45 +++- inst/doc/dockerfiler.html | 453 +++++++++++++++++++++++++++++++++++----------- man/dock_from_desc.Rd |only vignettes/dockerfiler.Rmd | 45 +++- 13 files changed, 515 insertions(+), 144 deletions(-)
Title: Interactive Circular Visualization of Genomic Data using
'htmlwidgets' and 'BioCircos.js'
Description: Implement in 'R' interactive Circos-like visualizations of genomic data, to map information
such as genetic variants, genomic fusions and aberrations to a circular genome, as proposed by the
'JavaScript' library 'BioCircos.js', based on the 'JQuery' and 'D3' technologies. The output is by
default displayed in stand-alone HTML documents or in the 'RStudio' viewer pane. Moreover it can be
integrated in 'R Markdown' documents and 'Shiny' applications.
Author: Loan Vulliard [trl, cre],
Xiaowei Chen [aut],
Ya Cui [aut]
Maintainer: Loan Vulliard <lvulliard@cemm.at>
Diff between BioCircos versions 0.3.3 dated 2018-02-15 and 0.3.4 dated 2019-03-19
DESCRIPTION | 8 - MD5 | 30 ++-- R/BioCircos.R | 9 - README.md | 12 + build/vignette.rds |binary inst/doc/BioCircos.R | 32 ++-- inst/doc/BioCircos.Rmd | 34 ++-- inst/doc/BioCircos.html | 224 ++++++++++++++++++-------------- inst/htmlwidgets/BioCircos.js | 3 inst/htmlwidgets/lib/biocircos-1.1.2.js | 19 +- man/BioCircos.Rd | 54 ++++--- man/BioCircosArcTrack.Rd | 5 man/BioCircosBarTrack.Rd | 5 man/BioCircosHeatmapTrack.Rd | 4 man/BioCircosLinkTrack.Rd | 10 - vignettes/BioCircos.Rmd | 34 ++-- 16 files changed, 270 insertions(+), 213 deletions(-)
Title: Audio Interface for R
Description: Interfaces to audio devices (mainly sample-based) from R to allow recording and playback of audio. Built-in devices include Windows MM, Mac OS X AudioUnits and PortAudio (the last one is very experimental).
Author: Simon Urbanek <simon.urbanek@r-project.org>
Maintainer: Simon Urbanek <simon.urbanek@r-project.org>
Diff between audio versions 0.1-5.1 dated 2018-06-29 and 0.1-6 dated 2019-03-19
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++----------- NAMESPACE | 15 ++++++++++----- NEWS | 7 +++++++ R/api.R | 22 +++++++++++----------- R/driver.R | 8 ++++---- R/file.R | 4 ++-- R/print.R | 4 ++-- configure | 20 +++++++++++++++++++- configure.ac | 13 +++++++------ src/driver.c | 2 +- src/file.c | 2 +- 12 files changed, 78 insertions(+), 47 deletions(-)
Title: Measuring Multivariate Dependence Using Distance Multivariance
Description: Distance multivariance is a measure of dependence which can be used to detect
and quantify dependence. The necessary functions are implemented in this packages,
and examples are given. For the theoretic background we refer to the papers:
B. Böttcher, M. Keller-Ressel, R.L. Schilling, Detecting independence of random vectors: generalized distance covariance and Gaussian covariance. VMSTA, 2018, Vol. 5, No. 3, 353-383. <arXiv:1711.07778>.
B. Böttcher, M. Keller-Ressel, R.L. Schilling, Distance multivariance: New dependence measures for random vectors. <arXiv:1711.07775>.
B. Böttcher, Dependence and Dependence Structures: Estimation and Visualization Using Distance Multivariance. <arXiv:1712.06532>.
G. Berschneider, B. Böttcher, On complex Gaussian random fields, Gaussian quadratic forms and sample distance multivariance. <arXiv:1808.07280>.
Author: Björn Böttcher [aut, cre],
Martin Keller-Ressel [ctb]
Maintainer: Björn Böttcher <bjoern.boettcher@tu-dresden.de>
Diff between multivariance versions 2.0.0 dated 2019-02-06 and 2.1.0 dated 2019-03-19
DESCRIPTION | 8 - MD5 | 54 +++++----- R/RcppExports.R | 10 - R/multivariance-functions.R | 174 ++++++++++++++++++++++------------ inst/NEWS | 14 ++ inst/examples/dependence-structures.R | 44 ++++---- man/cdm.Rd | 2 man/cdm.mu.bcd.Rd | 2 man/cdms.mu.bcd.Rd | 8 + man/dependence.structure.Rd | 46 ++++---- man/double.center.Rd | 4 man/doubleCenterSymMat.Rd | 4 man/fastEuclideanCdm.Rd | 6 - man/fastdist.Rd | 6 - man/moments.for.pearson.Rd | 13 ++ man/multivariance-package.Rd | 6 - man/multivariance.Rd | 19 +-- man/multivariance.pvalue.Rd | 4 man/multivariance.test.Rd | 22 +++- man/multivariance.timing.Rd | 2 man/pearson.qf.Rd | 2 man/rejection.level.Rd | 2 man/resample.multivariance.Rd | 2 man/sample.cdms.Rd | 4 man/sample.cols.Rd | 4 man/total.multivariance.Rd | 2 src/multivariance.cpp | 14 +- tests/testthat/testmultivariances.R | 27 +++++ 28 files changed, 314 insertions(+), 191 deletions(-)
Title: Mediterranean Forest Simulation
Description: Functions to simulate Mediterranean forest functioning and dynamics using cohort-based description of vegetation [De Caceres et al. (2015) <doi:10.1016/j.agrformet.2015.06.012>].
Author: Miquel De Cáceres [aut, cre],
Víctor Granda [aut],
Antoine Cabon [aut]
Maintainer: Miquel De Cáceres <miquelcaceres@gmail.com>
Diff between medfate versions 0.2.2 dated 2016-11-10 and 0.7.3 dated 2019-03-19
medfate-0.2.2/medfate/R/SpatialGridForest.R |only medfate-0.2.2/medfate/R/SpatialPointsForest.R |only medfate-0.2.2/medfate/R/plot.swb.R |only medfate-0.2.2/medfate/R/plot.swbgrid.R |only medfate-0.2.2/medfate/R/summary.swb.R |only medfate-0.2.2/medfate/R/swb.functions.R |only medfate-0.2.2/medfate/R/swbgrid.R |only medfate-0.2.2/medfate/R/swbpoints.R |only medfate-0.2.2/medfate/data/exampleSPF.rda |only medfate-0.2.2/medfate/inst/doc/FireBehaviour.R |only medfate-0.2.2/medfate/inst/doc/FireBehaviour.Rnw |only medfate-0.2.2/medfate/inst/doc/FireBehaviour.pdf |only medfate-0.2.2/medfate/inst/doc/Hydraulics.R |only medfate-0.2.2/medfate/inst/doc/Hydraulics.Rnw |only medfate-0.2.2/medfate/inst/doc/Hydraulics.pdf |only medfate-0.2.2/medfate/inst/doc/RootSystems.R |only medfate-0.2.2/medfate/inst/doc/RootSystems.Rnw |only medfate-0.2.2/medfate/inst/doc/RootSystems.pdf |only medfate-0.2.2/medfate/inst/doc/SoilWaterBalance.R |only medfate-0.2.2/medfate/inst/doc/SoilWaterBalance.Rnw |only medfate-0.2.2/medfate/inst/doc/SoilWaterBalance.pdf |only medfate-0.2.2/medfate/man/SpatialGridForest-class.Rd |only medfate-0.2.2/medfate/man/SpatialPointsForest-class.Rd |only medfate-0.2.2/medfate/man/SpatialPointsForest.Rd |only medfate-0.2.2/medfate/man/exampleSPF.Rd |only medfate-0.2.2/medfate/man/forest2swbInput.Rd |only medfate-0.2.2/medfate/man/hydraulics.Rd |only medfate-0.2.2/medfate/man/plot.swb.Rd |only medfate-0.2.2/medfate/man/swb.Rd |only medfate-0.2.2/medfate/man/swbfunctions.Rd |only medfate-0.2.2/medfate/man/swbgrid.Rd |only medfate-0.2.2/medfate/man/swbpoints.Rd |only medfate-0.2.2/medfate/src/PenmanMonteith.cpp |only medfate-0.2.2/medfate/src/PenmanMonteith.h |only medfate-0.2.2/medfate/src/swb.cpp |only medfate-0.2.2/medfate/src/swb.h |only medfate-0.2.2/medfate/vignettes/FireBehaviour-004.pdf |only medfate-0.2.2/medfate/vignettes/FireBehaviour.Rnw |only medfate-0.2.2/medfate/vignettes/Hydraulics-004.pdf |only medfate-0.2.2/medfate/vignettes/Hydraulics-029.pdf 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medfate-0.7.3/medfate/src/hydraulics.h | 139 medfate-0.7.3/medfate/src/hydrology.cpp |only medfate-0.7.3/medfate/src/hydrology.h |only medfate-0.7.3/medfate/src/incgamma.cpp |only medfate-0.7.3/medfate/src/incgamma.h |only medfate-0.7.3/medfate/src/lightextinction.cpp | 408 ++ medfate-0.7.3/medfate/src/lightextinction.h | 21 medfate-0.7.3/medfate/src/modelInput.cpp |only medfate-0.7.3/medfate/src/modelInput.h |only medfate-0.7.3/medfate/src/phenology.cpp |only medfate-0.7.3/medfate/src/phenology.h |only medfate-0.7.3/medfate/src/photosynthesis.cpp |only medfate-0.7.3/medfate/src/photosynthesis.h |only medfate-0.7.3/medfate/src/root.cpp |only medfate-0.7.3/medfate/src/root.h |only medfate-0.7.3/medfate/src/soil.cpp | 666 +++- medfate-0.7.3/medfate/src/soil.h | 32 medfate-0.7.3/medfate/src/spwb.cpp |only medfate-0.7.3/medfate/src/spwb.h |only medfate-0.7.3/medfate/src/tissuemoisture.cpp |only medfate-0.7.3/medfate/src/tissuemoisture.h |only medfate-0.7.3/medfate/src/transpiration.cpp |only medfate-0.7.3/medfate/src/transpiration.h |only medfate-0.7.3/medfate/src/windextinction.cpp | 19 medfate-0.7.3/medfate/src/windextinction.h | 2 medfate-0.7.3/medfate/vignettes/ComplexWaterBalance.Rmd |only medfate-0.7.3/medfate/vignettes/ForestGrowth.Rmd |only medfate-0.7.3/medfate/vignettes/PackageOverview.Rmd |only medfate-0.7.3/medfate/vignettes/SimpleWaterBalance.Rmd |only 188 files changed, 7000 insertions(+), 1879 deletions(-)
Title: Misc Functions of the Department of Statistics, Probability
Theory Group (Formerly: E1071), TU Wien
Description: Functions for latent class analysis, short time Fourier
transform, fuzzy clustering, support vector machines,
shortest path computation, bagged clustering, naive Bayes
classifier, ...
Author: David Meyer [aut, cre],
Evgenia Dimitriadou [aut, cph],
Kurt Hornik [aut],
Andreas Weingessel [aut],
Friedrich Leisch [aut],
Chih-Chung Chang [ctb, cph] (libsvm C++-code),
Chih-Chen Lin [ctb, cph] (libsvm C++-code)
Maintainer: David Meyer <David.Meyer@R-project.org>
Diff between e1071 versions 1.7-0.1 dated 2019-01-21 and 1.7-1 dated 2019-03-19
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/naiveBayes.R | 19 +++++++++++++++---- R/tune.R | 1 + build/vignette.rds |binary inst/NEWS.Rd | 10 ++++++++++ inst/doc/svmdoc.pdf |binary inst/doc/svminternals.pdf |binary src/svm.h | 3 +-- 9 files changed, 39 insertions(+), 18 deletions(-)
Title: Spectral Processing for High Resolution Flow Infusion Mass
Spectrometry
Description: A spectral binning approach for high resolution flow infusion mass spectrometry data.
Author: Jasen Finch [aut, cre]
Maintainer: Jasen Finch <jsf9@aber.ac.uk>
Diff between binneR versions 2.0.10 dated 2019-02-08 and 2.0.11 dated 2019-03-19
DESCRIPTION | 8 ++++---- MD5 | 18 ++++++++++-------- NAMESPACE | 3 +++ R/allGenerics.R | 5 +++++ R/binneR.R | 5 ++++- R/plotFingerprint.R |only inst/doc/binneR.R | 7 +++++-- inst/doc/binneR.Rmd | 10 ++++++++-- inst/doc/binneR.html | 25 ++++++++++++++----------- man/plotFingerprint.Rd |only vignettes/binneR.Rmd | 10 ++++++++-- 11 files changed, 61 insertions(+), 30 deletions(-)
Title: API Client and Dataset Management for the Demographic and Health
Survey (DHS) Data
Description: Provides a client for (1) querying the DHS API for survey indicators
and metadata (<https://api.dhsprogram.com/#/index.html>), (2) identifying surveys
and datasets for analysis, (3) downloading survey datasets from the DHS website,
(4) loading datasets and associate metadata into R, and (5) extracting variables
and combining datasets for pooled analysis.
Author: OJ Watson [aut, cre] (<https://orcid.org/0000-0003-2374-0741>),
Jeff Eaton [aut] (<https://orcid.org/0000-0001-7728-728X>),
Lucy D'Agostino McGowan [rev] (<https://orcid.org/0000-0001-7297-9359>),
Duncan Gillespie [rev]
Maintainer: OJ Watson <oj.watson@hotmail.co.uk>
Diff between rdhs versions 0.6.2 dated 2019-02-28 and 0.6.3 dated 2019-03-19
DESCRIPTION | 6 ++--- MD5 | 15 +++++++------ NAMESPACE | 1 NEWS.md | 5 ++++ R/rbind_labelled.R | 39 ++++++++++++++++++++++++++++++++++++ R/utils.R | 13 ++++++++++-- README.md | 9 ++++---- man/delabel_df.Rd |only tests/testthat/test_miscellaneous.R | 24 ++++++++++++++++++++++ 9 files changed, 96 insertions(+), 16 deletions(-)
Title: Polygonal Symbolic Data Analysis
Description: An implementation of symbolic polygonal data analysis. The package presents the estimation of main descriptive statistical measures, e.g, mean, covariance, variance, correlation and coefficient of variation.
In addition, a method to obtain polygonal data from classical data is presented. Empirical probability distribution function based on
polygonal histogram and a regression model with its main measures are presented.
Author: Wagner Silva [aut, cre, ths],
Renata Souza [aut],
Francisco Cysneiros [aut]
Maintainer: Wagner Silva <wjfs@cin.ufpe.br>
Diff between psda versions 1.2.0 dated 2018-12-15 and 1.3.0 dated 2019-03-19
psda-1.2.0/psda/R |only psda-1.2.0/psda/data |only psda-1.2.0/psda/man |only psda-1.3.0/psda/DESCRIPTION | 14 +++++++------- psda-1.3.0/psda/MD5 | 39 +++------------------------------------ psda-1.3.0/psda/NAMESPACE | 17 ----------------- psda-1.3.0/psda/inst/CITATION | 6 +++--- 7 files changed, 13 insertions(+), 63 deletions(-)
Title: Interacting with the PhenoCam Data and API
Description: A bundle to facilitate working with PhenoCam timeseries and data. The user would be able to obtain phenological time-series and site metadata from the PhenoCam network <https://phenocam.sr.unh.edu/webcam/>.
Author: Bijan Seyednasrollah
Maintainer: Bijan Seyednasrollah <bijan.s.nasr@gmail.com>
Diff between phenocamapi versions 0.1.3 dated 2019-01-07 and 0.1.4 dated 2019-03-19
DESCRIPTION | 10 MD5 | 12 build/vignette.rds |binary inst/doc/getting_started_phenocam_api.html | 839 ++++++++++++++++++----------- inst/doc/phenocam_data_fusion.html | 551 +++++++++++++------ man/download_midday_images.Rd | 4 tests/testthat/testphenocamapi.R | 2 7 files changed, 944 insertions(+), 474 deletions(-)
Title: Mixture Gaussian Graphical Models
Description: The Gaussian graphical model is a widely used tool for learning gene regulatory networks with high-dimensional gene expression data. For many real problems, the data are heterogeneous, which may contain some subgroups or come from different resources. This package provide a Gaussian Graphical Mixture Model (GGMM) for the heterogeneous data. You can refer to Jia, B. and Liang, F. (2018) at <arXiv:1805.02547> for detail.
Author: Bochao Jia [aut, ctb, cre, cph],
Faming Liang [ctb]
Maintainer: Bochao Jia <jbc409@gmail.com>
Diff between GGMM versions 1.0.0 dated 2018-05-09 and 1.0.1 dated 2019-03-19
DESCRIPTION | 12 ++++++------ MD5 | 6 +++--- man/BRGM.Rd | 5 +++-- man/GGMM-package.Rd | 4 ++-- 4 files changed, 14 insertions(+), 13 deletions(-)
Title: Artificial Neural Networks for Anomaly Detection
Description: Training of neural networks for classification and regression tasks
using mini-batch gradient descent. Special features include a function for
training autoencoders, which can be used to detect anomalies, and some
related plotting functions. Multiple activation functions are supported,
including tanh, relu, step and ramp. For the use of the step and ramp
activation functions in detecting anomalies using autoencoders, see
Hawkins et al. (2002) <doi:10.1007/3-540-46145-0_17>. Furthermore,
several loss functions are supported, including robust ones such as Huber
and pseudo-Huber loss, as well as L1 and L2 regularization. The possible
options for optimization algorithms are RMSprop, Adam and SGD with momentum.
The package contains a vectorized C++ implementation that facilitates
fast training through mini-batch learning.
Author: Bart Lammers
Maintainer: Bart Lammers <bart.f.lammers@gmail.com>
Diff between ANN2 versions 2.1 dated 2019-02-28 and 2.2 dated 2019-03-19
DESCRIPTION | 12 +++---- MD5 | 47 ++++++++++++++++++---------- R/catch-routine-registration.R |only R/checks.R | 10 +++--- R/interface.R | 44 ++++++++++++++++---------- README.md | 2 + man/autoencoder.Rd | 12 +++---- man/neuralnetwork.Rd | 25 +++++++++------ src/ANN.cpp | 67 ++++++++++++++++++++++++++++++++--------- src/ANN.h | 19 ++++++++--- src/Activations.cpp | 13 ++++++- src/Layer.cpp | 28 ++++++++++------- src/Layer.h | 9 ++++- src/Loss.cpp | 46 ++++++++++++++-------------- src/Loss.h | 12 +++---- src/Optimizer.cpp | 8 ++-- src/RcppExports.cpp | 2 + src/test-cpp-activations.cpp |only src/test-cpp-loss.cpp |only src/test-cpp-optimizers.cpp |only src/test-cpp-utils.cpp |only src/test-runner.cpp |only src/test_utils.cpp |only src/test_utils.h |only src/utils.cpp | 2 + tests |only 26 files changed, 231 insertions(+), 127 deletions(-)
Title: Ridge Estimation of Precision Matrices from High-Dimensional
Data
Description: Proper L2-penalized ML estimators for the
precision matrix as well as supporting functions to employ these estimators
in a graphical modeling setting.
Author: Carel F.W. Peeters [cre, aut], Anders Ellern Bilgrau [aut], Wessel N. van Wieringen [aut]
Maintainer: Carel F.W. Peeters <cf.peeters@vumc.nl>
Diff between rags2ridges versions 2.2 dated 2017-04-13 and 2.2.1 dated 2019-03-19
rags2ridges-2.2.1/rags2ridges/DESCRIPTION | 10 rags2ridges-2.2.1/rags2ridges/MD5 | 34 rags2ridges-2.2.1/rags2ridges/NAMESPACE | 1 rags2ridges-2.2.1/rags2ridges/R/RcppExports.R | 54 rags2ridges-2.2.1/rags2ridges/R/rags2ridges.R | 462 +++--- rags2ridges-2.2.1/rags2ridges/R/rags2ridgesVariants.r | 766 +++++++--- rags2ridges-2.2.1/rags2ridges/README.md | 4 rags2ridges-2.2.1/rags2ridges/inst/NEWS.Rd | 9 rags2ridges-2.2.1/rags2ridges/man/CNplot.Rd | 18 rags2ridges-2.2.1/rags2ridges/man/createS.Rd | 8 rags2ridges-2.2.1/rags2ridges/man/getKEGGPathway.Rd | 2 rags2ridges-2.2.1/rags2ridges/man/ridgePsign.Rd | 13 rags2ridges-2.2.1/rags2ridges/man/support4ridgeP.Rd | 12 rags2ridges-2.2.1/rags2ridges/src/RcppExports.cpp | 570 +------ rags2ridges-2.2.1/rags2ridges/src/rags2ridges.cpp | 214 ++ rags2ridges-2.2.1/rags2ridges/tests/testthat/test-armaRidgeP.fused.R | 2 rags2ridges-2.2/rags2ridges/inst/include |only rags2ridges-2.2/rags2ridges/src/registerDynamicSymbol.c |only rags2ridges-2.2/rags2ridges/src/ridgePchordal.h |only 19 files changed, 1193 insertions(+), 986 deletions(-)
Title: Diversity-Dependent Diversification
Description: Implements maximum likelihood and bootstrap methods based on
the diversity-dependent birth-death process to test whether
speciation or extinction are diversity-dependent, under various
models including various types of key innovations.
See Etienne et al. 2012, Proc. Roy. Soc. B 279: 1300-1309,
<DOI:10.1098/rspb.2011.1439>,
Etienne & Haegeman 2012, Am. Nat. 180: E75-E89,
<DOI:10.1086/667574> and
Etienne et al. 2016. Meth. Ecol. Evol. 7: 1092-1099,
<DOI:10.1111/2041-210X.12565>.
Also contains functions to simulate the diversity-dependent
process.
Author: Rampal S. Etienne & Bart Haegeman
Maintainer: Rampal S. Etienne <r.s.etienne@rug.nl>
Diff between DDD versions 3.8.1 dated 2019-03-12 and 3.9 dated 2019-03-19
DESCRIPTION | 12 ++++++------ MD5 | 30 +++++++++++++++--------------- R/bd_ML.R | 21 +++++++++++++++++++-- R/dd_KI_ML.R | 26 ++++++++++++++++++++++++-- R/dd_ML.R | 7 +++++-- R/dd_MS_ML.R | 26 ++++++++++++++++++++++++-- R/dd_SR_ML.R | 25 +++++++++++++++++++++++-- R/dd_loglik.R | 26 ++++++++++++++++++++++---- R/dd_utils.R | 19 ++++++++++++++----- man/bd_ML.Rd | 6 +++++- man/dd_KI_ML.Rd | 5 ++++- man/dd_ML.Rd | 5 ++++- man/dd_MS_ML.Rd | 6 +++++- man/dd_SR_ML.Rd | 6 +++++- src/Makevars | 9 --------- src/dd_loglik_rhs_FORTRAN.f95 | 8 -------- 16 files changed, 175 insertions(+), 62 deletions(-)
Title: Read and Write XES Files
Description: Read and write XES Files to create event log objects used by the 'bupaR' framework. XES (Extensible Event Stream) is the `IEEE` standard for storing and sharing event data (see <http://standards.ieee.org/findstds/standard/1849-2016.html> for more info).
Author: Gert Janssenswillen [aut, cre],
Benoît Depaire [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between xesreadR versions 0.2.2 dated 2017-12-04 and 0.2.3 dated 2019-03-19
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/read_xes.R | 8 ++++++-- R/write_xes.R | 2 +- build/vignette.rds |binary inst/doc/xesreadr.html | 4 ++-- man/read_xes.Rd | 5 ++++- 7 files changed, 24 insertions(+), 17 deletions(-)
Title: Username, Full Name, Email Address, 'GitHub' Username of the
Current User
Description: Look up the username and full name of the current user,
the current user's email address and 'GitHub' username,
using various sources of system and configuration information.
Author: Gábor Csárdi [aut, cre],
Maëlle Salmon [ctb]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between whoami versions 1.2.0 dated 2018-09-11 and 1.3.0 dated 2019-03-19
DESCRIPTION | 10 ++++---- MD5 | 20 ++++++++--------- R/whoami.R | 48 +++++++++++++++++++++++------------------ inst/NEWS.md | 6 +++++ man/email_address.Rd | 3 +- man/fullname.Rd | 3 +- man/gh_username.Rd | 4 +-- man/username.Rd | 4 +-- man/whoami.Rd | 34 ++++++++++++++--------------- tests/testthat/test-email.R | 6 +++++ tests/testthat/test-fullname.R | 6 +++++ 11 files changed, 86 insertions(+), 58 deletions(-)
Title: Easily Create and Style Tables for LaTeX, HTML and Other Formats
Description: Like 'xtable', creates styled tables. Export to HTML, LaTeX, 'Word',
'Excel', 'PowerPoint' and RTF. Simple, modern interface to manipulate
borders, size, position, captions, colours, text styles and number formatting.
Table cells can span multiple rows and/or columns.
Includes a 'huxreg' function for creation of regression tables, and 'quick_*'
one-liners to print data to a new document.
Author: David Hugh-Jones [aut, cre]
Maintainer: David Hugh-Jones <davidhughjones@gmail.com>
Diff between huxtable versions 4.4.0 dated 2019-03-03 and 4.5.0 dated 2019-03-19
huxtable-4.4.0/huxtable/tests/testthat/file14b383ab2f1ee.log |only huxtable-4.4.0/huxtable/tests/testthat/file14b3859b76b4a.log |only huxtable-4.4.0/huxtable/tests/testthat/file281627f1097.aux |only huxtable-4.4.0/huxtable/tests/testthat/file281627f1097.log |only huxtable-4.4.0/huxtable/tests/testthat/file281627f1097.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd3216c01f3.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd32808b1df.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd32b8f0eb2.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd3344bc875.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd3361a20db.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd3397f213b.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd33a3cebb6.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd3490900e4.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd34f3ceb82.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd354db3c5b.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd368c29668.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file2bd36e0cc965.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file352711c55df2.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file35271bbf09f5.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file352723891c38.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file352731ce759d.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file35273280fba6.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file3527371197c4.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file35273ea9b73e.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file35274446e9d7.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file35275fb2a170.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file3527687300dc.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file3527692b73d4.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file3527dffad76.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file3bc271a55c23.aux |only huxtable-4.4.0/huxtable/tests/testthat/file3bc271a55c23.log |only huxtable-4.4.0/huxtable/tests/testthat/file3bc271a55c23.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file4e831b63892c.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file4e831cd48265.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file4e834c0a5a59.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file4e83f9da096.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file50161f23b02a.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file501627e3db79.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file50163608fe20.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file501643ae8938.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file501644c72350.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file50165bfc2359.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file5016693c5740.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file50166a7fb92e.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file50166e52a038.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file501675624cc6.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file501675a82193.pdf |only huxtable-4.4.0/huxtable/tests/testthat/file5016c593f5f.pdf |only huxtable-4.5.0/huxtable/DESCRIPTION | 6 huxtable-4.5.0/huxtable/MD5 | 95 ++----- huxtable-4.5.0/huxtable/NAMESPACE | 1 huxtable-4.5.0/huxtable/NEWS.md | 8 huxtable-4.5.0/huxtable/R/latex-dependencies.R | 4 huxtable-4.5.0/huxtable/R/quick-functions.R | 74 ++++-- huxtable-4.5.0/huxtable/build/vignette.rds |binary huxtable-4.5.0/huxtable/inst/doc/design-principles.html | 69 +++++ huxtable-4.5.0/huxtable/inst/doc/huxreg.html | 69 +++++ huxtable-4.5.0/huxtable/inst/doc/huxtable.R | 5 huxtable-4.5.0/huxtable/inst/doc/huxtable.Rmd | 60 ++--- huxtable-4.5.0/huxtable/inst/doc/huxtable.html | 132 ++++++++--- huxtable-4.5.0/huxtable/inst/doc/themes.html | 77 +++++- huxtable-4.5.0/huxtable/man/quick-output.Rd | 7 huxtable-4.5.0/huxtable/tests/testthat/bookdown-test.log | 2 huxtable-4.5.0/huxtable/tests/testthat/file80d577cb5bfc.pdf |only huxtable-4.5.0/huxtable/tests/testthat/huxreg.log | 4 huxtable-4.5.0/huxtable/tests/testthat/huxtable.log | 88 +++---- huxtable-4.5.0/huxtable/tests/testthat/table-tester-2.log | 2 huxtable-4.5.0/huxtable/tests/testthat/test-huxreg.R | 2 huxtable-4.5.0/huxtable/tests/testthat/test-openxlsx.R | 3 huxtable-4.5.0/huxtable/tests/testthat/test-quick-output.R | 31 ++ huxtable-4.5.0/huxtable/tests/testthat/test-yy-end-to-end.R | 3 huxtable-4.5.0/huxtable/tests/testthat/themes.log | 4 huxtable-4.5.0/huxtable/vignettes/huxtable.Rmd | 60 ++--- 73 files changed, 542 insertions(+), 264 deletions(-)
Title: Basic Robust Statistics
Description: "Essential" Robust Statistics.
Tools allowing to analyze data with robust methods. This includes
regression methodology including model selections and multivariate
statistics where we strive to cover the book "Robust Statistics,
Theory and Methods" by 'Maronna, Martin and Yohai'; Wiley 2006.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>),
Peter Rousseeuw [ctb] (Qn and Sn),
Christophe Croux [ctb] (Qn and Sn),
Valentin Todorov [aut] (most robust Cov),
Andreas Ruckstuhl [aut] (nlrob, anova, glmrob),
Matias Salibian-Barrera [aut] (lmrob orig.),
Tobias Verbeke [ctb, fnd] (mc, adjbox),
Manuel Koller [aut] (mc, lmrob, psi-func.),
Eduardo L. T. Conceicao [aut] (MM-, tau-, CM-, and MTL- nlrob),
Maria Anna di Palma [ctb] (initial version of Comedian)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between robustbase versions 0.93-3 dated 2018-09-21 and 0.93-4 dated 2019-03-19
DESCRIPTION | 10 MD5 | 83 +++--- R/covPlot.R | 5 R/ltsPlot.R | 2 build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 27 +- inst/doc/fastMcd-kmini.pdf |binary inst/doc/lmrob_simulation.pdf | 382 +++++++++++++---------------- inst/doc/psi_functions.pdf |binary inst/xtraR/platform-sessionInfo.R |only man/adjOutlyingness.Rd | 14 - man/covPlot.Rd | 4 man/glmrob.Rd | 6 man/ltsPlot.Rd | 3 man/nlrob-algos.Rd | 11 src/rowMedians.c | 9 tests/mc-strict.R | 58 ++-- tests/nlregrob-tst.R | 38 ++ tests/poisson-ex.R | 1 vignettes/plot-fig-AdB2-1.pdf |binary vignettes/plot-fig-Mscale-all.pdf |binary vignettes/plot-fig-Mscale.pdf |binary vignettes/plot-fig-cpr.pdf |binary vignettes/plot-fig-efficiency-all.pdf |binary vignettes/plot-fig-efficiency.pdf |binary vignettes/plot-fig-emp-level.pdf |binary vignettes/plot-fig-example-design.pdf |binary vignettes/plot-fig-lqq-level.pdf |binary vignettes/plot-fig-max-asymptotic-bias.pdf |binary vignettes/plot-fig-meanscale.pdf |binary vignettes/plot-fig-power-1-0_2.pdf |binary vignettes/plot-fig-power-1-0_4.pdf |binary vignettes/plot-fig-power-1-0_6.pdf |binary vignettes/plot-fig-power-1-0_8.pdf |binary vignettes/plot-fig-power-1-1.pdf |binary vignettes/plot-fig-pred-points.pdf |binary vignettes/plot-fig-psi-functions.pdf |binary vignettes/plot-fig-qscale-all.pdf |binary vignettes/plot-fig-qscale.pdf |binary vignettes/plot-fig-sdAdB2-1.pdf |binary vignettes/plot-fig-sdscale-1.pdf |binary vignettes/plot-fig-sdscale-all.pdf |binary 43 files changed, 357 insertions(+), 296 deletions(-)
Title: Download DBnomics Data
Description: R access to hundreds of millions data series from DBnomics API
(<https://db.nomics.world/>).
Author: Thomas Brand [aut],
Sebastien Galais [cre, ctb]
Maintainer: Sebastien Galais <s915.stem@gmail.com>
Diff between rdbnomics versions 0.4.6 dated 2019-02-11 and 0.4.7 dated 2019-03-19
DESCRIPTION | 10 +++--- MD5 | 24 +++++++------- NEWS.md | 4 ++ R/rdb.R | 55 ++++++++++++++++++--------------- R/rdb_last_updates.R | 2 - R/utils.R | 10 +++--- R/zzz.R | 5 +-- README.md | 3 + build/vignette.rds |binary inst/doc/rdbnomics.html | 48 ++++++++++++++-------------- man/rdb.Rd | 2 - tests/testthat/test-rdb_last_updates.R | 2 - tests/testthat/test-rdb_providers.R | 2 - 13 files changed, 90 insertions(+), 77 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
Amadou Gaye [ctb] (<https://orcid.org/0000-0002-1180-2792>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 1.0.1 dated 2019-02-26 and 1.0.2 dated 2019-03-19
DESCRIPTION | 6 MD5 | 10 - R/opal.datasource.r | 5 inst/doc/opal-files.html | 362 ++++++++++++++------------------------------ inst/doc/opal-projects.html | 336 ++++++++++++---------------------------- inst/doc/opal-rsession.html | 326 ++++++++++++--------------------------- 6 files changed, 337 insertions(+), 708 deletions(-)
Title: Annotation of Metabolites from Liquid Chromatography-Mass
Spectrometry Data
Description: Automatic metabolite annotation from Liquid Chromatography-Mass Spectrometry (LC-MS and LC-MS/MS DIA) analysis.
Author: Manuel David Peris Diaz
Maintainer: Manuel David Peris Diaz <manuel.perisdiaz@uwr.edu.pl>
Diff between MetaboList versions 1.2 dated 2017-04-30 and 1.3 dated 2019-03-19
MetaboList-1.2/MetaboList/R/annotation.R |only MetaboList-1.2/MetaboList/man/annotation.rd |only MetaboList-1.3/MetaboList/DESCRIPTION | 12 ++++++------ MetaboList-1.3/MetaboList/MD5 | 20 ++++++++++++++++---- MetaboList-1.3/MetaboList/NAMESPACE | 8 ++++++-- MetaboList-1.3/MetaboList/R/AIF.R |only MetaboList-1.3/MetaboList/R/CE.isolation.R |only MetaboList-1.3/MetaboList/R/FullMS.R |only MetaboList-1.3/MetaboList/R/PeakGroup.R |only MetaboList-1.3/MetaboList/R/ScoresDIA.R |only MetaboList-1.3/MetaboList/R/ScoresMS1.R |only MetaboList-1.3/MetaboList/R/plot_EIC.R |only MetaboList-1.3/MetaboList/man/AIF.rd |only MetaboList-1.3/MetaboList/man/CE.isolation.rd |only MetaboList-1.3/MetaboList/man/FullMS.rd |only MetaboList-1.3/MetaboList/man/PeakGroup.rd |only MetaboList-1.3/MetaboList/man/ScoresDIA.rd |only MetaboList-1.3/MetaboList/man/ScoresMS1.rd |only MetaboList-1.3/MetaboList/man/plot_EIC.rd |only 19 files changed, 28 insertions(+), 12 deletions(-)
Title: Phase I/II Adaptive Dose-Finding Design for Combination Studies
Description: Phase I/II adaptive dose-finding design for combination
studies where toxicity rates are supposed to increase with both agents.
Author: Marie-Karelle Riviere and Jacques-Henri Jourdan
Maintainer: Jacques-Henri Jourdan <jacques-henri.jourdan@normalesup.org>
Diff between dfcomb versions 2.6-0 dated 2019-02-22 and 3.0-0 dated 2019-03-19
dfcomb-2.6-0/dfcomb/cleanup |only dfcomb-2.6-0/dfcomb/configure |only dfcomb-2.6-0/dfcomb/configure.ac |only dfcomb-2.6-0/dfcomb/configure.win |only dfcomb-2.6-0/dfcomb/man/CombPlateau_next.Rd |only dfcomb-2.6-0/dfcomb/man/CombPlateau_sim.Rd |only dfcomb-2.6-0/dfcomb/src/CppBugs |only dfcomb-2.6-0/dfcomb/src/Makevars.in |only dfcomb-2.6-0/dfcomb/src/Makevars.win |only dfcomb-2.6-0/dfcomb/src/plateau.cpp |only dfcomb-2.6-0/dfcomb/tools |only dfcomb-3.0-0/dfcomb/DESCRIPTION | 23 dfcomb-3.0-0/dfcomb/MD5 | 55 - dfcomb-3.0-0/dfcomb/NAMESPACE | 5 dfcomb-3.0-0/dfcomb/R/dfcomb.R | 868 +++++++-------------------- dfcomb-3.0-0/dfcomb/build/partial.rdb |binary dfcomb-3.0-0/dfcomb/man/CombIncrease_next.Rd | 124 ++- dfcomb-3.0-0/dfcomb/man/CombIncrease_sim.Rd | 112 ++- dfcomb-3.0-0/dfcomb/man/dfcomb-package.Rd | 3 dfcomb-3.0-0/dfcomb/src/arms.c | 6 dfcomb-3.0-0/dfcomb/src/dfcomb.c | 6 dfcomb-3.0-0/dfcomb/src/dfcomb.h | 67 -- dfcomb-3.0-0/dfcomb/src/logistic.cpp | 647 ++++++++++++-------- 23 files changed, 813 insertions(+), 1103 deletions(-)
Title: CUSUM Charts for Monitoring of Hospital Performance
Description: Provides functions for constructing and evaluating
CUSUM charts and RA-CUSUM charts with focus on false signal probability.
Author: Lena Hubig [aut, cre] (<https://orcid.org/0000-0002-9454-1232>)
Maintainer: Lena Hubig <cs@lenahubig.de>
Diff between cusum versions 0.2.0 dated 2019-03-15 and 0.2.1 dated 2019-03-19
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ R/cusum_alpha_sim.R | 2 +- R/cusum_limit_sim.R | 2 +- build/vignette.rds |binary inst/doc/cusum.html | 27 +++++++++++++++------------ tests/testthat/test-cusum_alpha_sim.R | 2 +- tests/testthat/test-cusum_limit_sim.R | 4 ++-- 9 files changed, 37 insertions(+), 28 deletions(-)
Title: Helpers for Developing Command Line Interfaces
Description: A suite of tools designed to build attractive command line
interfaces ('CLIs'). Includes tools for drawing rules, boxes, trees, and
'Unicode' symbols with 'ASCII' alternatives.
Author: Gábor Csárdi [aut, cre],
Hadley Wickham [ctb],
Kirill Müller [ctb]
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between cli versions 1.0.1 dated 2018-09-25 and 1.1.0 dated 2019-03-19
cli-1.0.1/cli/inst/Menlo-Regular.ttf |only cli-1.0.1/cli/man/figures |only cli-1.1.0/cli/DESCRIPTION | 8 cli-1.1.0/cli/MD5 | 101 ++++-------- cli-1.1.0/cli/NAMESPACE | 38 ++++ cli-1.1.0/cli/NEWS.md | 25 ++- cli-1.1.0/cli/R/boxes.R | 26 +-- cli-1.1.0/cli/R/cat.R | 2 cli-1.1.0/cli/R/crayon.R |only cli-1.1.0/cli/R/html-readme.R | 13 - cli-1.1.0/cli/R/onload.R | 7 cli-1.1.0/cli/R/rules.R | 25 +-- cli-1.1.0/cli/R/spinner.R | 161 +++++++++++++++++++ cli-1.1.0/cli/R/symbol.R | 18 +- cli-1.1.0/cli/R/tree.R | 4 cli-1.1.0/cli/R/tty.R |only cli-1.1.0/cli/R/utf8.R | 2 cli-1.1.0/cli/R/utils.R | 6 cli-1.1.0/cli/README.md | 175 ++++++++++----------- cli-1.1.0/cli/man/ansi-styles.Rd |only cli-1.1.0/cli/man/ansi_hide_cursor.Rd |only cli-1.1.0/cli/man/boxx.Rd | 26 +-- cli-1.1.0/cli/man/cat_line.Rd | 2 cli-1.1.0/cli/man/combine_ansi_styles.Rd |only cli-1.1.0/cli/man/demo_spinners.Rd | 2 cli-1.1.0/cli/man/get_spinner.Rd | 2 cli-1.1.0/cli/man/is_ansi_tty.Rd |only cli-1.1.0/cli/man/is_dynamic_tty.Rd |only cli-1.1.0/cli/man/is_utf8_output.Rd | 2 cli-1.1.0/cli/man/list_spinners.Rd | 2 cli-1.1.0/cli/man/make_ansi_style.Rd |only cli-1.1.0/cli/man/make_spinner.Rd |only cli-1.1.0/cli/man/rule.Rd | 27 +-- cli-1.1.0/cli/man/tree.Rd | 4 cli-1.1.0/cli/tests/testthat/test-assertions.R | 2 cli-1.1.0/cli/tests/testthat/test-boxes.R | 4 cli-1.1.0/cli/tests/testthat/test-crayon-combine.R |only cli-1.1.0/cli/tests/testthat/test-crayon-make.R |only cli-1.1.0/cli/tests/testthat/test-crayon.R |only cli-1.1.0/cli/tests/testthat/test-rules.R | 2 cli-1.1.0/cli/tests/testthat/test-sitrep.R | 6 cli-1.1.0/cli/tests/testthat/test-utils.R | 2 42 files changed, 459 insertions(+), 235 deletions(-)
Title: Animal Movement Tools
Description: Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses (resource and step-selection functions), and simulation of space-use from fitted step-selection functions.
Author: Johannes Signer [aut, cre],
Bjoern Reineking [ctb],
Ulrike Schlaegel [ctb],
Scott LaPoint [dtc]
Maintainer: Johannes Signer <jsigner@gwdg.de>
Diff between amt versions 0.0.5.0 dated 2018-09-12 and 0.0.6 dated 2019-03-19
amt-0.0.5.0/amt/R/data-animal_sim.R |only amt-0.0.5.0/amt/R/track_duration_accuracy.R |only amt-0.0.5.0/amt/data/animal_sim.rda |only amt-0.0.5.0/amt/data/habitat.rda |only amt-0.0.5.0/amt/man/animal_sim.Rd |only amt-0.0.5.0/amt/man/as_rad.Rd |only amt-0.0.5.0/amt/man/habitat.Rd |only amt-0.0.6/amt/DESCRIPTION | 35 +- amt-0.0.6/amt/MD5 | 127 +++++----- amt-0.0.6/amt/NAMESPACE | 32 ++ amt-0.0.6/amt/NEWS.md | 9 amt-0.0.6/amt/R/RcppExports.R | 8 amt-0.0.6/amt/R/amt.R | 7 amt-0.0.6/amt/R/bbox.R |only amt-0.0.6/amt/R/coercion.R | 54 +--- amt-0.0.6/amt/R/data-fisher.R |only amt-0.0.6/amt/R/data-sh.R | 2 amt-0.0.6/amt/R/distance_to_center.R | 11 amt-0.0.6/amt/R/distributions.R |only amt-0.0.6/amt/R/eda_sampling_rate.R | 22 + amt-0.0.6/amt/R/extract_covariates.R | 169 +++++++++++++ amt-0.0.6/amt/R/fit_clogit.R | 2 amt-0.0.6/amt/R/fit_distr.R | 22 - amt-0.0.6/amt/R/helper.R | 15 - amt-0.0.6/amt/R/hr_area.R | 4 amt-0.0.6/amt/R/od.R |only amt-0.0.6/amt/R/plot_sl.R |only amt-0.0.6/amt/R/random_points.R | 18 - amt-0.0.6/amt/R/random_steps.R | 29 +- amt-0.0.6/amt/R/steps.R | 122 +++------- amt-0.0.6/amt/R/track.R | 12 amt-0.0.6/amt/R/track_align.R | 40 +-- amt-0.0.6/amt/R/track_methods.R | 35 -- amt-0.0.6/amt/R/track_resample.R | 1 amt-0.0.6/amt/build/partial.rdb |binary amt-0.0.6/amt/build/vignette.rds |binary amt-0.0.6/amt/data/amt_fisher.rda |only amt-0.0.6/amt/data/amt_fisher_lu.rda |only amt-0.0.6/amt/inst/CITATION |only amt-0.0.6/amt/inst/doc/p1_getting_started.R | 37 ++- amt-0.0.6/amt/inst/doc/p1_getting_started.Rmd | 92 ++++++- amt-0.0.6/amt/inst/doc/p1_getting_started.html | 190 +++++++++++---- amt-0.0.6/amt/inst/doc/p4_SSF.html | 305 ++++++++++++++----------- amt-0.0.6/amt/man/amt-package.Rd | 14 + amt-0.0.6/amt/man/amt_fisher.Rd |only amt-0.0.6/amt/man/amt_fisher_lu.Rd |only amt-0.0.6/amt/man/available_distr.Rd |only amt-0.0.6/amt/man/bbox.Rd | 21 + amt-0.0.6/amt/man/centroid.Rd | 2 amt-0.0.6/amt/man/coercion.Rd | 26 -- amt-0.0.6/amt/man/convert_angles.Rd |only amt-0.0.6/amt/man/coords.Rd | 4 amt-0.0.6/amt/man/dist_cent.Rd | 9 amt-0.0.6/amt/man/distributions.Rd |only amt-0.0.6/amt/man/extract_covariates.Rd | 96 +++++++ amt-0.0.6/amt/man/filter_min_n_burst.Rd | 2 amt-0.0.6/amt/man/fit_clogit.Rd | 2 amt-0.0.6/amt/man/fit_distr.Rd |only amt-0.0.6/amt/man/from_to.Rd | 2 amt-0.0.6/amt/man/hr.Rd | 6 amt-0.0.6/amt/man/inspect.Rd | 2 amt-0.0.6/amt/man/movement_metrics.Rd | 2 amt-0.0.6/amt/man/od.Rd |only amt-0.0.6/amt/man/plot_sl.Rd | 30 ++ amt-0.0.6/amt/man/random_points.Rd | 18 - amt-0.0.6/amt/man/reexports.Rd | 30 -- amt-0.0.6/amt/man/sh_forest.Rd | 2 amt-0.0.6/amt/man/sim_ud.Rd | 3 amt-0.0.6/amt/man/steps.Rd | 93 ++----- amt-0.0.6/amt/man/summarize_sampling_rate.Rd | 6 amt-0.0.6/amt/man/track.Rd | 1 amt-0.0.6/amt/man/track_align.Rd |only amt-0.0.6/amt/man/transform_coords.Rd | 2 amt-0.0.6/amt/src/RcppExports.cpp | 31 -- amt-0.0.6/amt/src/track_methods.cpp | 119 ++++----- amt-0.0.6/amt/vignettes/p1_getting_started.Rmd | 92 ++++++- 76 files changed, 1261 insertions(+), 754 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-01 1.2.1.2
2018-07-04 1.2.1.1
2018-06-01 1.2.1.0
2018-02-08 1.2.0.6
2018-01-30 1.2.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-03-15 0.1.2.3
2019-03-04 0.1.2.2
2018-11-27 0.1.2.1
2018-09-14 0.1.2
2018-02-12 0.1.1
2018-01-11 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-08-09 1.0.3.3
2018-07-10 1.0.3.2
2018-07-01 1.0.3.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-07-09 1.3
2013-03-20 1.02
2013-01-21 1.01
2012-11-27 1.0
Title: Efficient Computation and Testing of the Bergsma-Dassios Sign
Covariance
Description: Computes the t* statistic corresponding to the tau* population
coefficient introduced by Bergsma and Dassios (2014) <DOI:10.3150/13-BEJ514>
and does so in O(n^2) time following the algorithm of Heller and
Heller (2016) <arXiv:1605.08732> building off of the work of Weihs,
Drton, and Leung (2016) <DOI:10.1007/s00180-015-0639-x>. Also allows for
independence testing using the asymptotic distribution of t* as described by
Nandy, Weihs, and Drton (2016) <arXiv:1602.04387>.
Author: Luca Weihs [aut, cre],
Emin Martinian [ctb] (Created the red-black tree library included in
package.)
Maintainer: Luca Weihs <lucaw@uw.edu>
Diff between TauStar versions 1.1.3 dated 2017-03-21 and 1.1.4 dated 2019-03-19
TauStar-1.1.3/TauStar/src/init.c |only TauStar-1.1.4/TauStar/DESCRIPTION | 16 - TauStar-1.1.4/TauStar/MD5 | 17 - TauStar-1.1.4/TauStar/NEWS.md | 8 TauStar-1.1.4/TauStar/R/RcppExports.R | 28 +- TauStar-1.1.4/TauStar/inst/include/TauStar_RcppExports.h | 106 ++++--- TauStar-1.1.4/TauStar/man/tStar.Rd | 3 TauStar-1.1.4/TauStar/src/RcppExports.cpp | 185 +++++++++---- TauStar-1.1.4/TauStar/tests/testthat/test_CdfsPdfs.R | 204 +++++++-------- TauStar-1.1.4/TauStar/tests/testthat/test_tauStarTest.R | 1 10 files changed, 332 insertions(+), 236 deletions(-)
Title: Bivariate Empirical Subcopula
Description: Calculate empirical subcopula and dependence measures from a given bivariate sample, and Bernstein copula approximations.
Author: Arturo Erdely
Maintainer: Arturo Erdely <arturo.erdely@comunidad.unam.mx>
Diff between subcopem2D versions 1.2 dated 2017-01-31 and 1.3 dated 2019-03-19
subcopem2D-1.2/subcopem2D/INDEX |only subcopem2D-1.3/subcopem2D/DESCRIPTION | 10 +++++----- subcopem2D-1.3/subcopem2D/MD5 | 14 ++++++++------ subcopem2D-1.3/subcopem2D/NAMESPACE | 3 +++ subcopem2D-1.3/subcopem2D/R/Bcopula.R |only subcopem2D-1.3/subcopem2D/R/subcopem2D-internal.R |only subcopem2D-1.3/subcopem2D/man/Bcopula.Rd |only subcopem2D-1.3/subcopem2D/man/dependence.Rd | 2 +- subcopem2D-1.3/subcopem2D/man/subcopem.Rd | 2 +- subcopem2D-1.3/subcopem2D/man/subcopemc.Rd | 7 ++----- 10 files changed, 20 insertions(+), 18 deletions(-)
Title: Sparse Biclustering of Transposable Data
Description: Implements the sparse biclustering proposal of Tan and Witten (2014), Sparse biclustering of transposable data. Journal of Computational and Graphical Statistics 23(4):985-1008.
Author: Kean Ming Tan
Maintainer: Kean Ming Tan <keanming@u.washington.edu>
Diff between sparseBC versions 1.1 dated 2015-02-15 and 1.2 dated 2019-03-19
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 4 ++++ R/Functions.R | 2 +- R/sparseBC.R | 1 + 5 files changed, 14 insertions(+), 9 deletions(-)
Title: Core Utilities for Developing and Running Spatially Explicit
Discrete Event Simulation Models
Description: Provide the core discrete event simulation (DES) framework for
implementing spatially explicit simulation models. The core DES components
facilitate modularity, and easily enable the user to include additional
functionality by running user-built simulation modules. Now includes (experimental)
conditional scheduling.
Author: Alex M Chubaty [aut, cre] (<https://orcid.org/0000-0001-7146-8135>),
Eliot J B McIntire [aut] (<https://orcid.org/0000-0002-6914-8316>),
Yong Luo [ctb],
Steve Cumming [ctb],
Ceres Barros [ctb] (<https://orcid.org/0000-0003-4036-977X>),
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Alex M Chubaty <alex.chubaty@gmail.com>
Diff between SpaDES.core versions 0.2.4 dated 2019-02-03 and 0.2.5 dated 2019-03-19
DESCRIPTION | 12 MD5 | 78 +- NAMESPACE | 4 NEWS.md | 6 R/cache.R | 50 - R/copy.R | 7 R/experiment.R | 486 ++++++++++------- R/plotting-diagrams.R | 69 +- R/simulation-simInit.R | 4 R/simulation-spades.R | 17 build/vignette.rds |binary inst/doc/i-introduction.html | 9 inst/doc/ii-modules.R | 6 inst/doc/ii-modules.Rmd | 8 inst/doc/ii-modules.html | 27 inst/doc/iii-cache.R | 2 inst/doc/iii-cache.Rmd | 6 inst/doc/iii-cache.html | 158 ++++- inst/sampleModules/randomLandscapes/randomLandscapes.R | 14 man/addChangedAttr.Rd | 4 man/addTagsToOutput.Rd | 2 man/cacheMessage.Rd | 2 man/checkCacheRepo.Rd | 2 man/dot-setupCl.Rd |only man/findSimList.Rd | 4 man/objSize.simList.Rd | 4 man/objSizeInclEnviros.Rd | 2 man/preDigestByClass.Rd | 2 man/prepareOutput.Rd | 2 man/robustDigest.Rd | 4 man/scheduleConditionalEvent.Rd | 5 man/scheduleEvent.Rd | 5 man/simInit.Rd | 1 man/spades.Rd | 2 man/tagsByClass.Rd | 2 tests/testthat/test-Copy.R |only tests/testthat/test-cache.R | 35 - tests/testthat/test-simulation.R | 186 ++++-- tests/testthat/test-timeunits.R | 8 vignettes/ii-modules.Rmd | 8 vignettes/iii-cache.Rmd | 6 41 files changed, 796 insertions(+), 453 deletions(-)