Title: Unicode Data and Utilities
Description: Data from Unicode 8.0.0 and related utilities.
Author: Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between Unicode versions 0.1-5 dated 2014-11-28 and 8.0.0-1 dated 2016-03-15
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- R/sysdata.rda |binary 3 files changed, 7 insertions(+), 7 deletions(-)
Title: R/Weka Interface Jars
Description: External jars required for package 'RWeka'.
Author: Kurt Hornik [aut, cre],
University of Waikato [ctb, cph] (Weka Java library)
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between RWekajars versions 3.7.12-1 dated 2015-01-25 and 3.7.13-1 dated 2016-03-15
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- inst/java/weka.jar |binary 3 files changed, 8 insertions(+), 8 deletions(-)
Title: R/Weka Interface
Description: An R interface to Weka (Version 3.7.13).
Weka is a collection of machine learning algorithms for data mining
tasks written in Java, containing tools for data pre-processing,
classification, regression, clustering, association rules, and
visualization. Package 'RWeka' contains the interface code, the
Weka jar is in a separate package 'RWekajars'. For more information
on Weka see <http://www.cs.waikato.ac.nz/ml/weka/>.
Author: Kurt Hornik [aut, cre],
Christian Buchta [ctb],
Torsten Hothorn [ctb],
Alexandros Karatzoglou [ctb],
David Meyer [ctb],
Achim Zeileis [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between RWeka versions 0.4-24 dated 2015-01-25 and 0.4-25 dated 2016-03-15
CHANGELOG | 4 +++ DESCRIPTION | 20 ++++++++-------- MD5 | 24 ++++++++++---------- build/vignette.rds |binary inst/CITATION | 54 ++++++++++++++++++--------------------------- inst/doc/RWeka.pdf |binary inst/java/RWeka.jar |binary java/RWekaInterfaces.class |binary java/RWekaInterfaces.java | 4 +-- man/WOW.Rd | 2 - man/Weka_interfaces.Rd | 2 - man/read.arff.Rd | 2 - man/write.arff.Rd | 2 - 13 files changed, 54 insertions(+), 60 deletions(-)
Title: ViennaCL C++ Header Files
Description: ViennaCL is a free open-source linear algebra library
for computations on many-core architectures (GPUs, MIC) and
multi-core CPUs. The library is written in C++ and supports CUDA,
OpenCL, and OpenMP (including switches at runtime).
I have placed these libraries in this package as a more efficient
distribution system for CRAN. The idea is that you can write a package
that depends on the ViennaCL library and yet you do not need to
distribute a copy of this code with your package.
Author: Charles Determan Jr.
Maintainer: Charles Determan Jr <cdetermanjr@gmail.com>
Diff between RViennaCL versions 1.7.1-0 dated 2016-01-22 and 1.7.1-1 dated 2016-03-15
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ README.md | 2 +- build/partial.rdb |binary inst/NEWS.Rd | 5 +++-- inst/include/viennacl/ocl/backend.hpp | 6 ++++++ inst/include/viennacl/ocl/context.hpp | 6 ++++++ 7 files changed, 26 insertions(+), 13 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut],
Javier F. Tabima [aut],
Sydney E. Everhart [ctb, dtc],
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb],
Erik Sotka [ctb],
Niklaus J. Grunwald [ths]
Maintainer: Zhian N. Kamvar <kamvarz@science.oregonstate.edu>
Diff between poppr versions 2.1.0 dated 2015-12-01 and 2.1.1 dated 2016-03-15
poppr-2.1.0/poppr/inst/msn_explorer |only poppr-2.1.1/poppr/DESCRIPTION | 8 poppr-2.1.1/poppr/MD5 | 156 ++++---- poppr-2.1.1/poppr/NEWS | 36 + poppr-2.1.1/poppr/R/Index_calculations.r | 177 ++++++--- poppr-2.1.1/poppr/R/aaaMLGclass.R | 2 poppr-2.1.1/poppr/R/bitwise.r | 165 +++++---- poppr-2.1.1/poppr/R/bruvo.r | 10 poppr-2.1.1/poppr/R/classes.r | 22 + poppr-2.1.1/poppr/R/data_subset.r | 363 ++++---------------- poppr-2.1.1/poppr/R/distances.r | 22 - poppr-2.1.1/poppr/R/file_handling.r | 14 poppr-2.1.1/poppr/R/filter_stats.R | 74 ++-- poppr-2.1.1/poppr/R/imsn.R | 4 poppr-2.1.1/poppr/R/internal.r | 100 ++++- poppr-2.1.1/poppr/R/internal_methods.R | 317 +++++++++++------ poppr-2.1.1/poppr/R/messages.r | 58 ++- poppr-2.1.1/poppr/R/methods.r | 193 +++++----- poppr-2.1.1/poppr/R/mlg.r | 181 --------- poppr-2.1.1/poppr/R/poppr.R | 140 ++++--- poppr-2.1.1/poppr/R/round_robin.R | 329 +++++++++++++----- poppr-2.1.1/poppr/README.md | 57 +-- poppr-2.1.1/poppr/build/vignette.rds |binary poppr-2.1.1/poppr/inst/doc/algo.pdf |binary poppr-2.1.1/poppr/inst/doc/how_to_migrate.pdf |binary poppr-2.1.1/poppr/inst/doc/mlg.R | 135 +++---- poppr-2.1.1/poppr/inst/doc/mlg.Rmd | 135 +++---- poppr-2.1.1/poppr/inst/doc/mlg.html | 293 ++++++++-------- poppr-2.1.1/poppr/inst/doc/poppr_manual.pdf |binary poppr-2.1.1/poppr/inst/shiny |only poppr-2.1.1/poppr/man/MLG-class.Rd | 2 poppr-2.1.1/poppr/man/bitwise.dist.Rd | 61 ++- poppr-2.1.1/poppr/man/bitwise.ia.Rd | 47 +- poppr-2.1.1/poppr/man/bruvo.boot.Rd | 2 poppr-2.1.1/poppr/man/bruvo.dist.Rd | 2 poppr-2.1.1/poppr/man/bruvo.msn.Rd | 2 poppr-2.1.1/poppr/man/clonecorrect.Rd | 17 poppr-2.1.1/poppr/man/cutoff_predictor.Rd | 18 poppr-2.1.1/poppr/man/diss.dist.Rd | 11 poppr-2.1.1/poppr/man/filter_stats.Rd | 43 +- poppr-2.1.1/poppr/man/fix_replen.Rd | 2 poppr-2.1.1/poppr/man/genclone-class.Rd | 23 + poppr-2.1.1/poppr/man/genetic_distance.Rd | 12 poppr-2.1.1/poppr/man/ia.Rd | 3 poppr-2.1.1/poppr/man/imsn.Rd | 2 poppr-2.1.1/poppr/man/missingno.Rd | 25 - poppr-2.1.1/poppr/man/mlg.Rd | 12 poppr-2.1.1/poppr/man/mlg.filter.Rd | 21 - poppr-2.1.1/poppr/man/mll-method.Rd | 3 poppr-2.1.1/poppr/man/pgen.Rd | 62 +-- poppr-2.1.1/poppr/man/plot_filter_stats.Rd | 3 poppr-2.1.1/poppr/man/poppr-package.Rd | 143 ++++--- poppr-2.1.1/poppr/man/poppr.Rd | 97 +++-- poppr-2.1.1/poppr/man/popsub.Rd | 9 poppr-2.1.1/poppr/man/psex.Rd | 25 - poppr-2.1.1/poppr/man/rare_allele_correction.Rd |only poppr-2.1.1/poppr/man/recode_polyploids.Rd | 27 - poppr-2.1.1/poppr/man/rraf.Rd | 75 ++-- poppr-2.1.1/poppr/man/samp.ia.Rd | 19 - poppr-2.1.1/poppr/man/test_replen.Rd | 2 poppr-2.1.1/poppr/man/win.ia.Rd | 9 poppr-2.1.1/poppr/src/mlg_clustering.c | 11 poppr-2.1.1/poppr/tests/testthat/test-MLG-class.R | 4 poppr-2.1.1/poppr/tests/testthat/test-amova.R | 6 poppr-2.1.1/poppr/tests/testthat/test-errors.R | 9 poppr-2.1.1/poppr/tests/testthat/test-filter.R | 39 +- poppr-2.1.1/poppr/tests/testthat/test-genclone.R | 8 poppr-2.1.1/poppr/tests/testthat/test-import.R | 35 + poppr-2.1.1/poppr/tests/testthat/test-locustable.R | 2 poppr-2.1.1/poppr/tests/testthat/test-missing.R | 21 - poppr-2.1.1/poppr/tests/testthat/test-mlg.R | 58 ++- poppr-2.1.1/poppr/tests/testthat/test-msn.R | 6 poppr-2.1.1/poppr/tests/testthat/test-plots.R | 89 ++-- poppr-2.1.1/poppr/tests/testthat/test-polyploids.R | 2 poppr-2.1.1/poppr/tests/testthat/test-poppr.R | 16 poppr-2.1.1/poppr/tests/testthat/test-round-robin.R | 67 +++ poppr-2.1.1/poppr/tests/testthat/test-sampling.R | 20 - poppr-2.1.1/poppr/tests/testthat/test-values.R | 5 poppr-2.1.1/poppr/vignettes/mlg.Rmd | 135 +++---- 79 files changed, 2415 insertions(+), 1888 deletions(-)
Title: Solve Nonlinear Optimization with Nonlinear Constraints
Description: Optimization for nonlinear objective and constraint functions. Linear or nonlinear equality and inequality constraints are allowed. It accepts the input parameters as a constrained matrix.
Author: Xianyan Chen <xychen@uga.edu>, Xiangrong Yin <yinxiangrong@uky.edu>
Maintainer: Xianyan Chen <xychen@uga.edu>
Diff between NlcOptim versions 0.3 dated 2015-12-21 and 0.4 dated 2016-03-15
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/NlcOptim.R | 26 +++++++++++++++----------- R/solqp.R | 19 ++++++++++--------- 4 files changed, 31 insertions(+), 26 deletions(-)
Title: Multivariate Extreme Value Distributions
Description: Exact simulation from max-stable processes and multivariate extreme value distributions for various parametric models. Threshold selection methods.
Author: Leo Belzile [aut, cre],
Jennifer L. Wadsworth [aut],
Paul J. Northrop [aut],
Claire L. Coleman [aut],
Jin. Zhang [ctb],
Michael A. Newton [ctb],
Art Owen [ctb]
Maintainer: Leo Belzile <leo.belzile@epfl.ch>
Diff between mev versions 1.6 dated 2016-03-08 and 1.6.1 dated 2016-03-15
DESCRIPTION | 8 +++--- MD5 | 22 ++++++++--------- NEWS | 7 ++++- R/Northrop_Coleman_Extremes_2014.R | 46 ++++++++++++++++++++----------------- R/Wadsworth_Technometrics_2016.R | 1 R/bivpot_methods.R | 2 - R/rmev_wrapper.R | 28 +++++++++++++++++++++- man/NC.diag.Rd | 3 +- man/gp.fit.Rd | 2 - man/ibvpot.Rd | 2 - man/rmev.Rd | 7 ++++- src/ev_sampling.cpp | 4 +-- 12 files changed, 87 insertions(+), 45 deletions(-)
Title: Selected ISO Codes
Description: ISO language, territory, currency, script and character codes.
Provides ISO 639 language codes, ISO 3166 territory codes, ISO 4217
currency codes, ISO 15924 script codes, and the ISO 8859 character codes
as well as the UN M.49 area codes.
Author: Christian Buchta [aut],
Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between ISOcodes versions 2015.04.04 dated 2015-04-04 and 2016.03.15 dated 2016-03-15
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- data/ISO_15924.rda |binary data/ISO_3166_1.rda |binary data/ISO_3166_2.rda |binary data/ISO_3166_3.rda |binary data/ISO_4217.rda |binary data/ISO_4217_Historic.rda |binary data/ISO_639_2.rda |binary data/ISO_639_3.rda |binary data/ISO_639_3_Retirements.rda |binary data/ISO_639_5.rda |binary data/ISO_8859.rda |binary data/UN_M.49_Countries.rda |binary data/UN_M.49_Regions.rda |binary 15 files changed, 18 insertions(+), 18 deletions(-)
Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel
modeling. Includes a user-friendly interface to the packages 'pan' and 'jomo',
and several functions for visualization, data management and the analysis
of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <grund@ipn.uni-kiel.de>
Diff between mitml versions 0.2-4 dated 2015-10-19 and 0.3-0 dated 2016-03-15
DESCRIPTION | 14 ++--- MD5 | 43 +++++++++-------- NAMESPACE | 2 NEWS | 18 +++++++ R/as.mitml.list.R | 2 R/internal-convergence.R |only R/internal-model.R |only R/internal-zzz.R |only R/jomoImpute.R |only R/mitmlComplete.R | 61 ++++++++++++++++++++---- R/panImpute.R | 116 ++++++++++------------------------------------- R/plot.mitml.R | 70 +++++++++++++++++++++++----- R/summary.mitml.R | 7 ++ R/zzz.R | 72 ----------------------------- man/jomoImpute.Rd |only man/mitml-package.Rd | 3 - man/mitmlComplete.Rd | 8 +-- man/panImpute.Rd | 11 +++- man/plot.mitml.Rd | 8 +-- man/read.mitml.Rd | 2 man/summary.mitml.Rd | 4 - man/write.mitml.Rd | 4 - man/write.mitmlMplus.Rd | 4 - man/write.mitmlSAV.Rd | 4 - man/write.mitmlSPSS.Rd | 4 - 25 files changed, 222 insertions(+), 235 deletions(-)
Title: Permutation Tests for Nonparametric Statistics
Description: Performs a permutation test on the difference between two location parameters, a permutation correlation test, a permutation F-test, the Siegel-Tukey test, a ratio mean deviance test. Also performs some graphing techniques, such as for confidence intervals, vector addition, and Fourier analysis; and includes functions related to the Laplace (double exponential) and triangular distributions. Performs power calculations for the binomial test.
Author: Steven T. Garren [aut, cre]
Maintainer: Steven T. Garren <GARRENST@JMU.EDU>
Diff between jmuOutlier versions 1.0 dated 2016-02-25 and 1.1 dated 2016-03-15
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- build/partial.rdb |binary man/jmuOutlier-package.Rd | 4 ++-- man/rmd.test.Rd | 6 +++--- 5 files changed, 14 insertions(+), 14 deletions(-)
Title: Distributed Lag Non-Linear Models
Description: Collection of functions for distributed lag linear and non-linear models.
Author: Antonio Gasparrini and Ben Armstrong
Maintainer: Antonio Gasparrini <antonio.gasparrini@lshtm.ac.uk>
Diff between dlnm versions 2.1.3 dated 2014-08-05 and 2.2.3 dated 2016-03-15
dlnm-2.1.3/dlnm/R/Lag2.R |only dlnm-2.1.3/dlnm/R/check.R |only dlnm-2.1.3/dlnm/R/get.R |only dlnm-2.1.3/dlnm/inst/doc/biblioVignette.bib |only dlnm-2.2.3/dlnm/DESCRIPTION | 19 - dlnm-2.2.3/dlnm/MD5 | 136 ++++----- dlnm-2.2.3/dlnm/NAMESPACE | 17 - dlnm-2.2.3/dlnm/R/checkcrossbasis.R |only dlnm-2.2.3/dlnm/R/checkgroup.R |only dlnm-2.2.3/dlnm/R/checkonebasis.R |only dlnm-2.2.3/dlnm/R/coef.crosspred.R | 10 dlnm-2.2.3/dlnm/R/coef.crossreduce.R | 10 dlnm-2.2.3/dlnm/R/crossbasis.R | 193 ++++++------ dlnm-2.2.3/dlnm/R/crosspred.R | 207 ++++++------- dlnm-2.2.3/dlnm/R/crossreduce.R | 97 +++--- dlnm-2.2.3/dlnm/R/equalknots.R | 49 +-- dlnm-2.2.3/dlnm/R/exphist.R | 84 ++--- dlnm-2.2.3/dlnm/R/fci.R | 68 ++-- dlnm-2.2.3/dlnm/R/getcoef.R |only dlnm-2.2.3/dlnm/R/getlink.R |only dlnm-2.2.3/dlnm/R/getvcov.R |only dlnm-2.2.3/dlnm/R/integer.R | 11 dlnm-2.2.3/dlnm/R/lin.R | 46 +-- dlnm-2.2.3/dlnm/R/lines.crosspred.R | 262 ++++++++--------- dlnm-2.2.3/dlnm/R/lines.crossreduce.R | 105 +++---- dlnm-2.2.3/dlnm/R/logknots.R | 53 +-- dlnm-2.2.3/dlnm/R/mkXpred.R |only dlnm-2.2.3/dlnm/R/mkat.R |only dlnm-2.2.3/dlnm/R/mkcen.R |only dlnm-2.2.3/dlnm/R/mklag.R | 2 dlnm-2.2.3/dlnm/R/onAttach.R | 9 dlnm-2.2.3/dlnm/R/onebasis.R | 88 ++--- dlnm-2.2.3/dlnm/R/plot.crosspred.R | 418 +++++++++++++--------------- dlnm-2.2.3/dlnm/R/plot.crossreduce.R | 117 +++---- dlnm-2.2.3/dlnm/R/points.crosspred.R | 258 ++++++++--------- dlnm-2.2.3/dlnm/R/points.crossreduce.R | 101 +++--- dlnm-2.2.3/dlnm/R/poly.R | 48 +-- dlnm-2.2.3/dlnm/R/seqlag.R | 12 dlnm-2.2.3/dlnm/R/strata.R | 80 ++--- dlnm-2.2.3/dlnm/R/summary.crossbasis.R | 17 - dlnm-2.2.3/dlnm/R/summary.crosspred.R | 45 +-- dlnm-2.2.3/dlnm/R/summary.crossreduce.R | 69 ++-- dlnm-2.2.3/dlnm/R/summary.onebasis.R | 5 dlnm-2.2.3/dlnm/R/thr.R | 68 ++-- dlnm-2.2.3/dlnm/R/vcov.crosspred.R | 10 dlnm-2.2.3/dlnm/R/vcov.crossreduce.R | 10 dlnm-2.2.3/dlnm/build/vignette.rds |binary dlnm-2.2.3/dlnm/inst/ChangeLog | 65 ++++ dlnm-2.2.3/dlnm/inst/Changesince200 | 4 dlnm-2.2.3/dlnm/inst/Changesince220 |only dlnm-2.2.3/dlnm/inst/doc/dlnmExtended.R | 68 ++-- dlnm-2.2.3/dlnm/inst/doc/dlnmExtended.Rnw | 36 +- dlnm-2.2.3/dlnm/inst/doc/dlnmExtended.pdf |binary dlnm-2.2.3/dlnm/inst/doc/dlnmOverview.R | 9 dlnm-2.2.3/dlnm/inst/doc/dlnmOverview.Rnw | 55 ++- dlnm-2.2.3/dlnm/inst/doc/dlnmOverview.pdf |binary dlnm-2.2.3/dlnm/inst/doc/dlnmTS.R | 47 +-- dlnm-2.2.3/dlnm/inst/doc/dlnmTS.Rnw | 111 +++---- dlnm-2.2.3/dlnm/inst/doc/dlnmTS.pdf |binary dlnm-2.2.3/dlnm/man/crossbasis.Rd | 242 ++++++++-------- dlnm-2.2.3/dlnm/man/crosspred.Rd | 41 +- dlnm-2.2.3/dlnm/man/crossreduce.Rd | 24 + dlnm-2.2.3/dlnm/man/dlnm-internal.Rd | 54 ++- dlnm-2.2.3/dlnm/man/equalknots.Rd | 8 dlnm-2.2.3/dlnm/man/integer.Rd | 11 dlnm-2.2.3/dlnm/man/lin.Rd | 10 dlnm-2.2.3/dlnm/man/logknots.Rd | 16 - dlnm-2.2.3/dlnm/man/onebasis.Rd | 47 +-- dlnm-2.2.3/dlnm/man/plot.crosspred.Rd | 296 +++++++++---------- dlnm-2.2.3/dlnm/man/plot.crossreduce.Rd | 12 dlnm-2.2.3/dlnm/man/poly.Rd | 10 dlnm-2.2.3/dlnm/man/strata.Rd | 18 - dlnm-2.2.3/dlnm/man/thr.Rd | 10 dlnm-2.2.3/dlnm/vignettes/dlnmExtended.Rnw | 36 +- dlnm-2.2.3/dlnm/vignettes/dlnmOverview.Rnw | 55 ++- dlnm-2.2.3/dlnm/vignettes/dlnmTS.Rnw | 111 +++---- 76 files changed, 2100 insertions(+), 2020 deletions(-)
Title: R Interface to Bloomberg
Description: An R Interface to Bloomberg is provided via the Blp API.
Author: Whit Armstrong, Dirk Eddelbuettel and John Laing
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rblpapi versions 0.3.2 dated 2015-12-07 and 0.3.3 dated 2016-03-15
ChangeLog | 103 ++++++++++ DESCRIPTION | 11 - LICENSE | 13 - MD5 | 58 +++-- NAMESPACE | 2 R/RcppExports.R | 16 + R/bdh.R | 19 + R/bds.R | 15 + R/bsrch.R |only R/fieldInfo.R |only R/subscribe.R | 4 README.md | 2 build/vignette.rds |binary configure | 2 inst/NEWS.Rd | 22 ++ inst/doc/rblpapi-intro.html | 13 - inst/unitTests |only man/bdh.Rd | 13 - man/bds.Rd | 12 - man/bsrch.Rd |only man/fieldInfo.Rd |only man/subscribe.Rd | 4 src/RcppExports.cpp | 42 +++- src/bdh.cpp | 50 +++-- src/bdp.cpp | 47 ++-- src/bds.cpp | 196 +++++++++++++++++-- src/blpapi_utils.cpp | 433 +++++++++++++++++++++++--------------------- src/blpapi_utils.h | 31 +-- src/bsrch.cpp |only src/getFieldInfo.cpp |only src/rblpapi_types.h |only src/subscribe.cpp | 2 tests |only 33 files changed, 756 insertions(+), 354 deletions(-)
Title: Tools for Thermoluminescences Dating
Description: A series of function to make thermoluminescence dating using the MAAD or the SAR protocol.
This package completes the R package "Luminescence."
Author: David Strebler [aut, cre],
Dominik Brill [ths],
Helmut Brückner [ths]
Maintainer: David Strebler <david.strebler@uni-koeln.de>
Diff between TLdating versions 0.1.0 dated 2016-03-08 and 0.1.1 dated 2016-03-15
DESCRIPTION | 8 +- MD5 | 42 +++++------ NAMESPACE | 8 ++ R/TLdating-package.R | 10 +- R/TLum-class.R | 7 - R/TLum.Analysis-class.R | 163 ++++++++++++++----------------------------- R/TLum.BIN.File-class.R | 65 +++++++++++++---- R/TLum.Data-class.R | 11 +- R/TLum.Data.Curve-class.R | 95 +++++++++++++++++++------ R/TLum.Results-class.R | 58 ++++++++++----- R/script_TL.MAAD.R | 2 R/script_TL.SAR.R | 4 - R/script_TL.plateau.R | 4 - man/TLdating-package.Rd | 10 +- man/TLum.Analysis-class.Rd | 48 +++++++++++- man/TLum.BIN.File-class.Rd | 46 ++++++++++-- man/TLum.Data-class.Rd | 3 man/TLum.Data.Curve-class.Rd | 60 +++++++++++++++ man/TLum.Results-class.Rd | 30 +++++++ man/script_TL.MAAD.Rd | 2 man/script_TL.SAR.Rd | 4 - man/script_TL.plateau.Rd | 4 - 22 files changed, 455 insertions(+), 229 deletions(-)
Title: Generating Synthetic Versions of Sensitive Microdata for
Statistical Disclosure Control
Description: A tool for producing synthetic versions of microdata containing confidential information so that they are safe to be released to users for exploratory analysis. The key objective of generating synthetic data is to replace sensitive original values with synthetic ones causing minimal distortion of the statistical information contained in the data set. Variables, which can be categorical or continuous, are synthesised one-by-one using sequential modelling. Replacements are generated by drawing from conditional distributions fitted to the original data using parametric or classification and regression trees models. Data are synthesised via the function syn() which can be largely automated, if default settings are used, or with methods defined by the user. Optional parameters can be used to influence the disclosure risk and the analytical quality of the synthesised data.
Author: Beata Nowok, Gillian M Raab, Joshua Snoke and Chris Dibben
Maintainer: Beata Nowok <beata.nowok@gmail.com>
Diff between synthpop versions 1.2-0 dated 2016-02-03 and 1.2-1 dated 2016-03-15
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS | 9 +++++++++ R/sampler.syn.r | 2 ++ R/syn.r | 32 ++++++++++++++++++-------------- inst/doc/synthpop.pdf |binary man/synthpop-package.Rd | 4 ++-- 7 files changed, 41 insertions(+), 26 deletions(-)
Title: Functions to Make Surveys Processing Easier
Description: Set of functions to make the processing and analysis of
surveys easier : interactive shiny apps and addins for data recoding,
contingency tables, dataset metadata handling, and several convenience
functions.
Author: Julien Barnier [aut, cre],
François Briatte [aut],
Joseph Larmarange [aut]
Maintainer: Julien Barnier <julien.barnier@ens-lyon.fr>
Diff between questionr versions 0.4.3 dated 2015-03-31 and 0.5 dated 2016-03-15
questionr-0.4.3/questionr/R/addNAstr.r |only questionr-0.4.3/questionr/R/datasets.r |only questionr-0.4.3/questionr/R/describe.r |only questionr-0.4.3/questionr/R/icut.r |only questionr-0.4.3/questionr/R/irec.r |only questionr-0.4.3/questionr/R/lookfor.r |only questionr-0.4.3/questionr/R/odds.ratio.r |only questionr-0.4.3/questionr/R/questionr-package.r |only questionr-0.4.3/questionr/R/recode.r |only questionr-0.4.3/questionr/R/stats.r |only questionr-0.4.3/questionr/R/table.multi.r |only questionr-0.4.3/questionr/R/tables.r |only questionr-0.4.3/questionr/R/tools.r |only questionr-0.4.3/questionr/R/utils.r |only questionr-0.4.3/questionr/R/weighting.r |only questionr-0.4.3/questionr/data/happy.rda |only questionr-0.4.3/questionr/data/hdv2003.rda |only questionr-0.4.3/questionr/data/rp99.rda |only questionr-0.4.3/questionr/po/R-en.po |only questionr-0.5/questionr/DESCRIPTION | 23 questionr-0.5/questionr/MD5 | 143 questionr-0.5/questionr/NAMESPACE | 8 questionr-0.5/questionr/NEWS | 16 questionr-0.5/questionr/R/addNAstr.R |only questionr-0.5/questionr/R/datasets.R |only questionr-0.5/questionr/R/describe.R |only questionr-0.5/questionr/R/icut.R |only questionr-0.5/questionr/R/iorder.R | 482 questionr-0.5/questionr/R/irec.R |only questionr-0.5/questionr/R/lookfor.R |only questionr-0.5/questionr/R/odds.ratio.R |only questionr-0.5/questionr/R/questionr-package.R |only questionr-0.5/questionr/R/recode.R |only questionr-0.5/questionr/R/shiny-utils.R |only questionr-0.5/questionr/R/stats.R |only questionr-0.5/questionr/R/table.multi.R |only questionr-0.5/questionr/R/tables.R |only questionr-0.5/questionr/R/tools.R |only questionr-0.5/questionr/R/utils.R |only questionr-0.5/questionr/R/weighting.R |only questionr-0.5/questionr/data/fecondite.RData |only questionr-0.5/questionr/data/happy.RData |only questionr-0.5/questionr/data/hdv2003.RData |only questionr-0.5/questionr/data/rp99.RData |only questionr-0.5/questionr/inst/po/en/LC_MESSAGES/R-questionr.mo |binary questionr-0.5/questionr/inst/po/en@quot/LC_MESSAGES/R-questionr.mo |binary questionr-0.5/questionr/inst/po/fr/LC_MESSAGES/R-questionr.mo |binary questionr-0.5/questionr/inst/rstudio |only questionr-0.5/questionr/inst/shiny/css/ifuncs.css | 2 questionr-0.5/questionr/inst/shiny/js/iorder.js | 27 questionr-0.5/questionr/inst/shiny/js/jquery-ui.js |17410 ++-------- questionr-0.5/questionr/man/addNAstr.Rd | 10 questionr-0.5/questionr/man/chisq.residuals.Rd | 4 questionr-0.5/questionr/man/clipcopy.Rd | 4 questionr-0.5/questionr/man/cprop.Rd | 4 questionr-0.5/questionr/man/cramer.v.Rd | 4 questionr-0.5/questionr/man/cross.multi.table.Rd | 12 questionr-0.5/questionr/man/describe.Rd | 6 questionr-0.5/questionr/man/duplicated2.Rd | 8 questionr-0.5/questionr/man/enfants.Rd |only questionr-0.5/questionr/man/escape_regex.Rd |only questionr-0.5/questionr/man/fecondite.Rd |only questionr-0.5/questionr/man/femmes.Rd |only questionr-0.5/questionr/man/first_non_null.Rd |only questionr-0.5/questionr/man/format.proptab.Rd | 4 questionr-0.5/questionr/man/freq.Rd | 4 questionr-0.5/questionr/man/freq.na.Rd | 4 questionr-0.5/questionr/man/hdv2003.Rd | 4 questionr-0.5/questionr/man/icut.Rd | 11 questionr-0.5/questionr/man/ifunc_get_css.Rd |only questionr-0.5/questionr/man/ifunc_run_as_addin.Rd |only questionr-0.5/questionr/man/ifunc_show_alert.Rd |only questionr-0.5/questionr/man/iorder.Rd | 8 questionr-0.5/questionr/man/irec.Rd | 13 questionr-0.5/questionr/man/lookfor.Rd | 4 questionr-0.5/questionr/man/menages.Rd |only questionr-0.5/questionr/man/multi.split.Rd | 5 questionr-0.5/questionr/man/multi.table.Rd | 4 questionr-0.5/questionr/man/na.rm.Rd | 8 questionr-0.5/questionr/man/odds.ratio.Rd | 36 questionr-0.5/questionr/man/print.proptab.Rd | 4 questionr-0.5/questionr/man/prop.Rd | 4 questionr-0.5/questionr/man/qload.Rd | 10 questionr-0.5/questionr/man/qscan.Rd | 12 questionr-0.5/questionr/man/quant.cut.Rd | 4 questionr-0.5/questionr/man/questionr.Rd | 4 questionr-0.5/questionr/man/recode.na.Rd | 6 questionr-0.5/questionr/man/rename.variable.Rd | 4 questionr-0.5/questionr/man/rm.unused.levels.Rd | 4 questionr-0.5/questionr/man/rp99.Rd | 4 questionr-0.5/questionr/man/rprop.Rd | 4 questionr-0.5/questionr/man/wtd.mean.Rd | 4 questionr-0.5/questionr/man/wtd.table.Rd | 4 questionr-0.5/questionr/po/R-fr.mo |binary questionr-0.5/questionr/po/R-fr.po | 174 questionr-0.5/questionr/po/R-questionr.pot | 100 questionr-0.5/questionr/tests |only 97 files changed, 5055 insertions(+), 13555 deletions(-)
Title: Community Assembly by Traits: Individuals and Beyond
Description: Detect and quantify community assembly processes using trait values of individuals or populations, the T-statistics and other metrics, and dedicated null models.
Author: Adrien Taudiere, Cyrille Violle with contribution by Francois Munoz
Maintainer: Adrien Taudiere <adrien.taudiere@cefe.cnrs.fr>
Diff between cati versions 0.99 dated 2015-05-29 and 0.99.1 dated 2016-03-15
cati-0.99.1/cati/DESCRIPTION | 6 +++--- cati-0.99.1/cati/MD5 | 20 ++++++++++---------- cati-0.99.1/cati/NAMESPACE | 3 +++ cati-0.99.1/cati/R/allfunctions_cati.R |only cati-0.99.1/cati/inst/CITATION | 2 +- cati-0.99.1/cati/man/ComIndex.Rd | 11 +++++++++-- cati-0.99.1/cati/man/ComIndexMulti.Rd | 9 ++++++++- cati-0.99.1/cati/man/Fred.Rd | 19 ++++++++++++++----- cati-0.99.1/cati/man/RaoRel.Rd | 4 ++-- cati-0.99.1/cati/man/Tstats.Rd | 1 + cati-0.99.1/cati/man/cati-package.Rd | 2 +- cati-0.99/cati/R/allfunctions_cati.r |only 12 files changed, 52 insertions(+), 25 deletions(-)
Title: Bayesian Structural Time Series
Description: Time series regression using dynamic linear models fit using MCMC.
Author: Steven L. Scott <stevescott@google.com>
Maintainer: Steven L. Scott <stevescott@google.com>
Diff between bsts versions 0.6.2 dated 2015-07-20 and 0.6.3 dated 2016-03-15
bsts-0.6.2/bsts/R/plot.dynamic.distribution.R |only bsts-0.6.2/bsts/man/plot.dynamic.distribution.Rd |only bsts-0.6.2/bsts/src/btlm.cc |only bsts-0.6.2/bsts/src/state_space.cc |only bsts-0.6.3/bsts/DESCRIPTION | 10 bsts-0.6.3/bsts/MD5 | 49 bsts-0.6.3/bsts/NAMESPACE | 9 bsts-0.6.3/bsts/R/add.dynamic.regression.R | 91 bsts-0.6.3/bsts/R/add.trig.R |only bsts-0.6.3/bsts/R/bsts.R | 1517 ++---------- bsts-0.6.3/bsts/R/diagnostics.R |only bsts-0.6.3/bsts/R/format.learning.data.R |only bsts-0.6.3/bsts/R/format.prediction.data.R |only bsts-0.6.3/bsts/R/mixed.frequency.R | 13 bsts-0.6.3/bsts/R/plots.R |only bsts-0.6.3/bsts/R/predict.bsts.R |only bsts-0.6.3/bsts/R/summary.bsts.R |only bsts-0.6.3/bsts/R/utils.R |only bsts-0.6.3/bsts/man/add.dynamic.regression.Rd | 9 bsts-0.6.3/bsts/man/add.trig.Rd |only bsts-0.6.3/bsts/man/bsts.Rd | 44 bsts-0.6.3/bsts/man/plot.bsts.prediction.Rd | 10 bsts-0.6.3/bsts/man/predict.bsts.Rd | 13 bsts-0.6.3/bsts/src/bsts.cc |only bsts-0.6.3/bsts/src/mixed_frequency.cc | 25 bsts-0.6.3/bsts/src/model_manager.cc |only bsts-0.6.3/bsts/src/model_manager.h |only bsts-0.6.3/bsts/src/state_space_gaussian_model_manager.cc |only bsts-0.6.3/bsts/src/state_space_gaussian_model_manager.h |only bsts-0.6.3/bsts/src/state_space_logit_model_manager.cc |only bsts-0.6.3/bsts/src/state_space_logit_model_manager.h |only bsts-0.6.3/bsts/src/state_space_poisson_model_manager.cc |only bsts-0.6.3/bsts/src/state_space_poisson_model_manager.h |only bsts-0.6.3/bsts/src/state_space_regression_model_manager.cc |only bsts-0.6.3/bsts/src/state_space_regression_model_manager.h |only bsts-0.6.3/bsts/src/state_space_student_model_manager.cc |only bsts-0.6.3/bsts/src/state_space_student_model_manager.h |only bsts-0.6.3/bsts/src/utils.cc |only bsts-0.6.3/bsts/src/utils.h | 95 39 files changed, 604 insertions(+), 1281 deletions(-)
Title: MCMC for Spike and Slab Regression
Description: Spike and slab regression a la McCulloch and George (1997).
Author: Steven L. Scott <stevescott@google.com>
Maintainer: Steven L. Scott <stevescott@google.com>
Diff between BoomSpikeSlab versions 0.5.2 dated 2014-12-04 and 0.5.3 dated 2016-03-15
DESCRIPTION | 12 MD5 | 39 +- NAMESPACE | 27 + R/lm.spike.R | 121 +++----- R/logit.spike.R | 128 ++------- R/model.matrix.R |only R/poisson.spike.R | 69 +--- R/spike.slab.prior.R | 393 +++++++++++++++++++++++++++- man/independent.spike.slab.prior.Rd | 5 man/independent.student.spike.slab.prior.Rd |only man/logit.spike.Rd | 30 +- man/logit.zellner.prior.Rd |only man/make.spike.slab.prior.Rd | 6 man/model.matrix.Rd |only man/plot.lm.spike.Rd | 7 man/plot.logit.spike.Rd | 28 + man/plot.poisson.spike.Rd |only man/poisson.zellner.prior.Rd |only man/spike.slab.glm.prior.Rd |only man/student.spike.slab.prior.Rd |only man/summary.logit.spike.Rd | 5 src/logit_spike_slab_wrapper.cc | 47 --- src/poisson_spike_slab_wrapper.cc | 14 src/spike_slab_wrapper.cc | 27 + src/utils.h |only 25 files changed, 657 insertions(+), 301 deletions(-)
Title: Bayesian Object Oriented Modeling
Description: A C++ library for Bayesian modeling, with an emphasis on
Markov chain Monte Carlo. Although boom contains a few R utilities
(mainly plotting functions), its primary purpose is to install the
BOOM C++ library on your system so that other packages can link
against it.
Author: Steven L. Scott is the sole author and creator of the BOOM
project. Some code in the BOOM libraries has been modified from
other open source projects. These include Cephes (obtained from
Netlib, written by Stephen L. Moshier), NEWUOA (M.J.D Powell,
obtained from Powell's web site), and a modified version of the R
math libraries (R core development team). Original copyright
notices have been maintained in all source files. In these cases,
copyright claimed by Steven L. Scott is limited to modifications
made to the original code.
Maintainer: Steve Scott <stevescott@google.com>
Diff between Boom versions 0.2 dated 2014-12-03 and 0.3 dated 2016-03-15
Boom-0.2/Boom/inst/include/Models/CompositeEmMixtureComponent.hpp |only Boom-0.2/Boom/inst/include/Models/Policies/ConjugatePriorPolicy.hpp |only Boom-0.2/Boom/inst/include/Models/StateSpace/Filters/ScalarHomogeneousKalmanFilter.hpp |only Boom-0.2/Boom/inst/include/Models/StateSpace/Filters/ScalarKalmanFilter.hpp |only Boom-0.2/Boom/inst/include/TargetFun/FpTargetFun.hpp |only Boom-0.2/Boom/src/Models/CompositeEmMixtureComponent.cpp |only Boom-0.2/Boom/src/Models/EmMixtureComponent.cpp |only Boom-0.2/Boom/src/Models/StateSpace/Filters/ScalarHomogeneousKalmanFilter.cpp |only Boom-0.3/Boom/DESCRIPTION | 9 Boom-0.3/Boom/MD5 | 1273 +++++----- Boom-0.3/Boom/NAMESPACE | 7 Boom-0.3/Boom/R/check.data.R | 7 Boom-0.3/Boom/R/compare.many.densities.R | 14 Boom-0.3/Boom/R/histabunch.R |only Boom-0.3/Boom/R/plot.dynamic.distribution.R | 98 Boom-0.3/Boom/R/prior_specification.R | 54 Boom-0.3/Boom/R/suggest_burn_log_likelihood.R |only Boom-0.3/Boom/inst/include/LinAlg/Array.hpp | 51 Boom-0.3/Boom/inst/include/LinAlg/CorrelationMatrix.hpp | 6 Boom-0.3/Boom/inst/include/LinAlg/DiagonalMatrix.hpp | 253 + Boom-0.3/Boom/inst/include/LinAlg/LinAlgExceptions.hpp | 8 Boom-0.3/Boom/inst/include/LinAlg/Matrix.hpp | 541 ++-- Boom-0.3/Boom/inst/include/LinAlg/Selector.hpp | 210 + Boom-0.3/Boom/inst/include/LinAlg/SpdMatrix.hpp | 55 Boom-0.3/Boom/inst/include/LinAlg/Types.hpp | 3 Boom-0.3/Boom/inst/include/LinAlg/Vector.hpp | 50 Boom-0.3/Boom/inst/include/LinAlg/VectorView.hpp | 23 Boom-0.3/Boom/inst/include/LinAlg/blas.hpp | 5 Boom-0.3/Boom/inst/include/Models/Bart/Bart.hpp | 22 Boom-0.3/Boom/inst/include/Models/Bart/GaussianBartModel.hpp | 8 Boom-0.3/Boom/inst/include/Models/Bart/GaussianLinearBartModel.hpp | 6 Boom-0.3/Boom/inst/include/Models/Bart/LogitBartModel.hpp | 8 Boom-0.3/Boom/inst/include/Models/Bart/PoissonBartModel.hpp | 8 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/BartPosteriorSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/GaussianBartPosteriorSampler.hpp | 39 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/GaussianLinearBartPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/LogitBartPosteriorSampler.hpp | 39 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/PoissonBartPosteriorSampler.hpp | 35 Boom-0.3/Boom/inst/include/Models/Bart/PosteriorSamplers/ProbitBartPosteriorSampler.hpp | 39 Boom-0.3/Boom/inst/include/Models/Bart/ProbitBartModel.hpp | 8 Boom-0.3/Boom/inst/include/Models/BetaBinomialModel.hpp | 54 Boom-0.3/Boom/inst/include/Models/BetaModel.hpp | 28 Boom-0.3/Boom/inst/include/Models/BinomialModel.hpp | 45 Boom-0.3/Boom/inst/include/Models/CategoricalData.hpp | 66 Boom-0.3/Boom/inst/include/Models/ChisqModel.hpp | 18 Boom-0.3/Boom/inst/include/Models/CompositeData.hpp | 4 Boom-0.3/Boom/inst/include/Models/CompositeModel.hpp | 10 Boom-0.3/Boom/inst/include/Models/ConstrainedVectorParams.hpp | 48 Boom-0.3/Boom/inst/include/Models/DataPair.hpp | 4 Boom-0.3/Boom/inst/include/Models/DataTypes.hpp | 81 Boom-0.3/Boom/inst/include/Models/DirichletModel.hpp | 69 Boom-0.3/Boom/inst/include/Models/DiscreteUniformModel.hpp |only Boom-0.3/Boom/inst/include/Models/DoubleModel.hpp | 16 Boom-0.3/Boom/inst/include/Models/EmMixtureComponent.hpp | 12 Boom-0.3/Boom/inst/include/Models/ExponentialModel.hpp | 40 Boom-0.3/Boom/inst/include/Models/FiniteMixtureModel.hpp | 28 Boom-0.3/Boom/inst/include/Models/GammaModel.hpp | 44 Boom-0.3/Boom/inst/include/Models/GaussianModel.hpp | 34 Boom-0.3/Boom/inst/include/Models/GaussianModelBase.hpp | 51 Boom-0.3/Boom/inst/include/Models/GaussianModelGivenSigma.hpp | 12 Boom-0.3/Boom/inst/include/Models/Glm/AggregatedRegressionModel.hpp | 48 Boom-0.3/Boom/inst/include/Models/Glm/BinomialLogitModel.hpp | 54 Boom-0.3/Boom/inst/include/Models/Glm/BinomialRegressionData.hpp | 38 Boom-0.3/Boom/inst/include/Models/Glm/ChoiceData.hpp | 20 Boom-0.3/Boom/inst/include/Models/Glm/CumulativeLogitModel.hpp | 12 Boom-0.3/Boom/inst/include/Models/Glm/CumulativeProbitModel.hpp | 12 Boom-0.3/Boom/inst/include/Models/Glm/Glm.hpp | 224 - Boom-0.3/Boom/inst/include/Models/Glm/GlmCoefs.hpp | 12 Boom-0.3/Boom/inst/include/Models/Glm/GlmMvnPriorBase.hpp | 28 Boom-0.3/Boom/inst/include/Models/Glm/HierarchicalPoissonRegression.hpp | 8 Boom-0.3/Boom/inst/include/Models/Glm/LogisticRegressionModel.hpp | 69 Boom-0.3/Boom/inst/include/Models/Glm/ModelSelectionConcepts.hpp | 32 Boom-0.3/Boom/inst/include/Models/Glm/MultinomialLogitModel.hpp | 82 Boom-0.3/Boom/inst/include/Models/Glm/MultinomialProbitModel.hpp | 72 Boom-0.3/Boom/inst/include/Models/Glm/MvReg2.hpp | 154 - Boom-0.3/Boom/inst/include/Models/Glm/MvnGivenX.hpp | 48 Boom-0.3/Boom/inst/include/Models/Glm/MvnGivenXandSigma.hpp | 16 Boom-0.3/Boom/inst/include/Models/Glm/MvtRegModel.hpp | 32 Boom-0.3/Boom/inst/include/Models/Glm/OrdinalCutpointModel.hpp | 48 Boom-0.3/Boom/inst/include/Models/Glm/PoissonRegressionData.hpp | 31 Boom-0.3/Boom/inst/include/Models/Glm/PoissonRegressionModel.hpp | 26 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/AggregatedRegressionSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitAuxmixSampler.hpp | 43 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitCompositeSpikeSlabSampler.hpp | 38 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitDataImputer.hpp | 32 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitSamplerRwm.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitSamplerTim.hpp | 38 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BinomialLogitSpikeSlabSampler.hpp | 30 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/BregVsSampler.hpp | 62 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/CumulativeLogitSampler.hpp | 15 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/CumulativeProbitSampler.hpp | 15 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/DAFE_MLM.hpp | 45 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/HierarchicalPoissonRegressionSampler.hpp | 21 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/LogitSampler.hpp | 22 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/LogitSamplerBma.hpp | 11 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MLAuxMixSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MLVS.hpp | 17 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MLVS_data_imputer.hpp | 18 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MlogitRwm.hpp | 16 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MnpBetaGivenSigmaSampler.hpp | 14 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MnpBetaSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MultinomialLogitCompleteDataSuf.hpp | 4 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MultinomialLogitCompositeSpikeSlabSampler.hpp | 5 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MvRegSampler.hpp | 13 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/MvtRegSampler.hpp | 12 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/NormalMixtureApproximation.hpp | 4 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/PartRegSampler.hpp | 40 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/PoissonRegressionAuxMixSampler.hpp | 34 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/PoissonRegressionRwmSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/PoissonRegressionSpikeSlabSampler.hpp | 20 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/ProbitRegressionSampler.hpp | 17 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/ProbitSpikeSlabSampler.hpp | 17 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/RegressionConjSampler.hpp | 20 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/SpikeSlabDaRegressionSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/SpikeSlabSampler.hpp | 48 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/TDataImputer.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/TRegressionSampler.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/TRegressionSpikeSlabSampler.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/VsPriorSampler.hpp | 15 Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/ZeroInflatedLognormalRegressionPosteriorSampler.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/PosteriorSamplers/ZeroInflatedPoissonRegressionSampler.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/ProbitRegression.hpp | 28 Boom-0.3/Boom/inst/include/Models/Glm/RegressionModel.hpp | 258 +- Boom-0.3/Boom/inst/include/Models/Glm/TRegression.hpp | 82 Boom-0.3/Boom/inst/include/Models/Glm/VariableSelectionPrior.hpp | 38 Boom-0.3/Boom/inst/include/Models/Glm/WeightedRegressionModel.hpp | 68 Boom-0.3/Boom/inst/include/Models/Glm/ZeroInflatedLognormalRegression.hpp |only Boom-0.3/Boom/inst/include/Models/Glm/ZeroInflatedPoissonRegression.hpp |only Boom-0.3/Boom/inst/include/Models/HMM/Clickstream/NestedHmm.hpp | 38 Boom-0.3/Boom/inst/include/Models/HMM/Clickstream/PosteriorSamplers/NestedHmmPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/HMM/Clickstream/Session.hpp | 2 Boom-0.3/Boom/inst/include/Models/HMM/Clickstream/Stream.hpp | 4 Boom-0.3/Boom/inst/include/Models/HMM/HMM2.hpp | 20 Boom-0.3/Boom/inst/include/Models/HMM/HealthStateModel.hpp | 20 Boom-0.3/Boom/inst/include/Models/HMM/HmmFilter.hpp | 16 Boom-0.3/Boom/inst/include/Models/HMM/PosteriorSamplers/HmmPosteriorSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/HMM/hmm_tools.hpp | 6 Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalDirichletModel.hpp |only Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalGammaModel.hpp | 14 Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalModel.hpp |only Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalPoissonModel.hpp | 50 Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalZeroInflatedGammaModel.hpp | 25 Boom-0.3/Boom/inst/include/Models/Hierarchical/HierarchicalZeroInflatedPoissonModel.hpp | 20 Boom-0.3/Boom/inst/include/Models/Hierarchical/PosteriorSamplers/HierarchicalDirichletPosteriorSampler.hpp |only Boom-0.3/Boom/inst/include/Models/Hierarchical/PosteriorSamplers/HierarchicalGammaSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Hierarchical/PosteriorSamplers/HierarchicalPoissonSampler.hpp | 27 Boom-0.3/Boom/inst/include/Models/Hierarchical/PosteriorSamplers/HierarchicalZeroInflatedGammaSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Hierarchical/PosteriorSamplers/HierarchicalZeroInflatedPoissonSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/IRT/DafePcr.hpp | 42 Boom-0.3/Boom/inst/include/Models/IRT/DafePcrRwm.hpp | 26 Boom-0.3/Boom/inst/include/Models/IRT/IrtModel.hpp | 14 Boom-0.3/Boom/inst/include/Models/IRT/Item.hpp | 84 Boom-0.3/Boom/inst/include/Models/IRT/ItemDataPolicy.hpp | 2 Boom-0.3/Boom/inst/include/Models/IRT/ItemSliceSampler.hpp | 6 Boom-0.3/Boom/inst/include/Models/IRT/PartialCreditModel.hpp | 56 Boom-0.3/Boom/inst/include/Models/IRT/PcrNid.hpp | 12 Boom-0.3/Boom/inst/include/Models/IRT/Subject.hpp | 16 Boom-0.3/Boom/inst/include/Models/IRT/SubjectPrior.hpp | 38 Boom-0.3/Boom/inst/include/Models/IRT/SubjectSliceSampler.hpp | 13 Boom-0.3/Boom/inst/include/Models/IRT/Subject_prior.hpp | 12 Boom-0.3/Boom/inst/include/Models/IRT/multisubscale_logit_cutpoint_model.hpp | 8 Boom-0.3/Boom/inst/include/Models/IndependentMvnModel.hpp | 88 Boom-0.3/Boom/inst/include/Models/IndependentMvnModelGivenScalarSigma.hpp | 16 Boom-0.3/Boom/inst/include/Models/LognormalModel.hpp |only Boom-0.3/Boom/inst/include/Models/MarginallyUniformCorrelationModel.hpp | 6 Boom-0.3/Boom/inst/include/Models/MarkovModel.hpp | 94 Boom-0.3/Boom/inst/include/Models/Mixtures/ConditionalFiniteMixtureModel.hpp | 16 Boom-0.3/Boom/inst/include/Models/Mixtures/DirichletProcessMvnModel.hpp |only Boom-0.3/Boom/inst/include/Models/Mixtures/PosteriorSamplers/ConditionalFiniteMixtureSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/Mixtures/PosteriorSamplers/DirichletProcessMvnCollapsedGibbsSampler.hpp |only Boom-0.3/Boom/inst/include/Models/ModelTypes.hpp | 150 - Boom-0.3/Boom/inst/include/Models/MultinomialModel.hpp | 66 Boom-0.3/Boom/inst/include/Models/MvnBase.hpp | 95 Boom-0.3/Boom/inst/include/Models/MvnGivenScalarSigma.hpp | 35 Boom-0.3/Boom/inst/include/Models/MvnGivenSigma.hpp | 36 Boom-0.3/Boom/inst/include/Models/MvnModel.hpp | 47 Boom-0.3/Boom/inst/include/Models/MvtModel.hpp | 43 Boom-0.3/Boom/inst/include/Models/Nonparametric |only Boom-0.3/Boom/inst/include/Models/ParamTypes.hpp | 80 Boom-0.3/Boom/inst/include/Models/PointProcess/CosinePoissonProcess.hpp | 16 Boom-0.3/Boom/inst/include/Models/PointProcess/HomogeneousPoissonProcess.hpp | 44 Boom-0.3/Boom/inst/include/Models/PointProcess/MarkovModulatedPoissonProcess.hpp | 16 Boom-0.3/Boom/inst/include/Models/PointProcess/PointProcess.hpp | 8 Boom-0.3/Boom/inst/include/Models/PointProcess/PoissonClusterProcess.hpp | 26 Boom-0.3/Boom/inst/include/Models/PointProcess/PoissonProcess.hpp | 2 Boom-0.3/Boom/inst/include/Models/PointProcess/PosteriorSamplers/HomogeneousPoissonProcessPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PointProcess/PosteriorSamplers/MarkovModulatedPoissonProcessPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PointProcess/PosteriorSamplers/PoissonClusterPosteriorSampler.hpp | 6 Boom-0.3/Boom/inst/include/Models/PointProcess/PosteriorSamplers/WeeklyCyclePoissonProcessSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PointProcess/WeeklyCyclePoissonProcess.hpp | 74 Boom-0.3/Boom/inst/include/Models/PoissonGammaModel.hpp | 10 Boom-0.3/Boom/inst/include/Models/PoissonModel.hpp | 54 Boom-0.3/Boom/inst/include/Models/Policies/CompositeParamPolicy.hpp | 10 Boom-0.3/Boom/inst/include/Models/Policies/IID_DataPolicy.hpp | 15 Boom-0.3/Boom/inst/include/Models/Policies/ManyParamPolicy.hpp | 7 Boom-0.3/Boom/inst/include/Models/Policies/MixtureDataPolicy.hpp | 12 Boom-0.3/Boom/inst/include/Models/Policies/NonparametricParamPolicy.hpp | 4 Boom-0.3/Boom/inst/include/Models/Policies/NullDataPolicy.hpp | 6 Boom-0.3/Boom/inst/include/Models/Policies/NullParamPolicy.hpp | 6 Boom-0.3/Boom/inst/include/Models/Policies/ParamPolicy_1.hpp | 17 Boom-0.3/Boom/inst/include/Models/Policies/ParamPolicy_2.hpp | 13 Boom-0.3/Boom/inst/include/Models/Policies/ParamPolicy_3.hpp | 13 Boom-0.3/Boom/inst/include/Models/Policies/ParamPolicy_4.hpp | 13 Boom-0.3/Boom/inst/include/Models/Policies/PriorPolicy.hpp | 30 Boom-0.3/Boom/inst/include/Models/Policies/SufstatDataPolicy.hpp | 5 Boom-0.3/Boom/inst/include/Models/Policies/SufstatOnlyDataPolicy.hpp | 2 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/AbsorbingMarkovConjSampler.hpp | 34 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/BetaBinomialPosteriorSampler.hpp | 210 + Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/BetaBinomialSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/BetaPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/CompositeModelSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/CompositeSampler.hpp | 21 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/CorrelationSampler.hpp | 29 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/DirichletPosteriorSampler.hpp | 398 ++- Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ExchangeableDirichletSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ExponentialGammaSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/FiniteMixturePosteriorSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/FixedProbBinomialSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/FixedSpdSampler.hpp | 18 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/FixedUnivariateSampler.hpp | 10 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/GammaPosteriorSampler.hpp | 14 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/GaussianConjSampler.hpp | 16 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/GaussianMeanSampler.hpp | 10 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/GaussianVarSampler.hpp | 26 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/GenericGaussianVarianceSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/Imputer.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/IndependentMvnConjSampler.hpp | 28 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/IndependentMvnVarSampler.hpp |only Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MarkovConjSampler.hpp | 40 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MarkovConjShrinkageSampler.hpp | 18 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MultinomialDirichletSampler.hpp | 17 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MvnConjSampler.hpp | 27 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MvnIndependentVarianceSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MvnMeanSampler.hpp | 32 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/MvnVarSampler.hpp | 22 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/PoissonGammaPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/PoissonGammaSampler.hpp | 14 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/PosteriorSampler.hpp | 41 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ProductDirichletPosteriorSampler.hpp | 10 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/SepStratSampler.hpp | 32 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/SharedSigsqSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroInflatedGammaPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroInflatedLognormalPosteriorSampler.hpp | 9 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroInflatedPoissonSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroMeanGaussianConjSampler.hpp | 14 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroMeanMvnConjSampler.hpp | 12 Boom-0.3/Boom/inst/include/Models/PosteriorSamplers/ZeroMeanMvnIndependenceSampler.hpp | 17 Boom-0.3/Boom/inst/include/Models/ProductDirichletModel.hpp | 44 Boom-0.3/Boom/inst/include/Models/ProductModel.hpp | 4 Boom-0.3/Boom/inst/include/Models/ScaledChisqModel.hpp | 11 Boom-0.3/Boom/inst/include/Models/SpdData.hpp | 54 Boom-0.3/Boom/inst/include/Models/SpdModel.hpp | 6 Boom-0.3/Boom/inst/include/Models/SpdParams.hpp | 16 Boom-0.3/Boom/inst/include/Models/StateSpace/AggregatedStateSpaceRegression.hpp | 114 Boom-0.3/Boom/inst/include/Models/StateSpace/Filters/KalmanTools.hpp | 62 Boom-0.3/Boom/inst/include/Models/StateSpace/Filters/ScalarKalmanStorage.hpp | 21 Boom-0.3/Boom/inst/include/Models/StateSpace/Filters/SparseKalmanTools.hpp | 128 - Boom-0.3/Boom/inst/include/Models/StateSpace/Filters/SparseMatrix.hpp | 449 ++- Boom-0.3/Boom/inst/include/Models/StateSpace/Filters/SparseVector.hpp | 31 Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/AggregatedStateSpacePosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/DynamicRegressionPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/StateSpaceLogitPosteriorSampler.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/StateSpacePoissonPosteriorSampler.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/StateSpacePosteriorSampler.hpp | 15 Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/StateSpaceStudentPosteriorSampler.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/StudentLocalLinearTrendPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/StateSpace/PosteriorSamplers/SufstatManager.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/ArStateModel.hpp | 28 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/DynamicRegressionStateModel.hpp | 32 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/Holiday.hpp | 24 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/LocalLevelStateModel.hpp | 32 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/LocalLinearTrend.hpp | 30 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/LocalLinearTrendMeanRevertingSlope.hpp | 44 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/RandomWalkHolidayStateModel.hpp | 30 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/RegressionStateModel.hpp | 24 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/SeasonalStateModel.hpp | 32 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/StateModel.hpp | 9 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/StudentLocalLinearTrend.hpp | 38 Boom-0.3/Boom/inst/include/Models/StateSpace/StateModels/TrigStateModel.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceLogitModel.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceModel.hpp | 32 Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceModelBase.hpp | 171 - Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceNormalMixture.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpacePoissonModel.hpp |only Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceRegressionModel.hpp | 50 Boom-0.3/Boom/inst/include/Models/StateSpace/StateSpaceStudentRegressionModel.hpp |only Boom-0.3/Boom/inst/include/Models/Sufstat.hpp | 12 Boom-0.3/Boom/inst/include/Models/TimeSeries/ArModel.hpp | 42 Boom-0.3/Boom/inst/include/Models/TimeSeries/NonzeroMeanAr1Model.hpp | 26 Boom-0.3/Boom/inst/include/Models/TimeSeries/PosteriorSamplers/ArPosteriorSampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/TimeSeries/PosteriorSamplers/NonzeroMeanAr1Sampler.hpp | 7 Boom-0.3/Boom/inst/include/Models/TimeSeries/TimeSeries.hpp | 6 Boom-0.3/Boom/inst/include/Models/TimeSeries/TimeSeriesDataPolicy.hpp | 2 Boom-0.3/Boom/inst/include/Models/TimeSeries/TimeSeriesSufstatDataPolicy.hpp | 6 Boom-0.3/Boom/inst/include/Models/TruncatedGammaModel.hpp | 2 Boom-0.3/Boom/inst/include/Models/UniformCorrelationModel.hpp | 6 Boom-0.3/Boom/inst/include/Models/UniformModel.hpp | 30 Boom-0.3/Boom/inst/include/Models/VectorModel.hpp | 40 Boom-0.3/Boom/inst/include/Models/WeightedData.hpp | 4 Boom-0.3/Boom/inst/include/Models/WeightedGaussianSuf.hpp | 20 Boom-0.3/Boom/inst/include/Models/WeightedMvnModel.hpp | 56 Boom-0.3/Boom/inst/include/Models/WishartModel.hpp | 100 Boom-0.3/Boom/inst/include/Models/ZeroInflatedGammaModel.hpp | 18 Boom-0.3/Boom/inst/include/Models/ZeroInflatedLognormalModel.hpp | 29 Boom-0.3/Boom/inst/include/Models/ZeroInflatedPoissonModel.hpp | 24 Boom-0.3/Boom/inst/include/Models/ZeroMeanGaussianModel.hpp | 29 Boom-0.3/Boom/inst/include/Models/ZeroMeanMvnModel.hpp | 27 Boom-0.3/Boom/inst/include/Samplers/ARMS.hpp | 18 Boom-0.3/Boom/inst/include/Samplers/DirectProposal.hpp |only Boom-0.3/Boom/inst/include/Samplers/ImportanceResampler.hpp |only Boom-0.3/Boom/inst/include/Samplers/MH_Proposals.hpp | 89 Boom-0.3/Boom/inst/include/Samplers/MetropolisHastings.hpp | 16 Boom-0.3/Boom/inst/include/Samplers/RejectionSampler.hpp |only Boom-0.3/Boom/inst/include/Samplers/Sampler.hpp | 13 Boom-0.3/Boom/inst/include/Samplers/ScalarAdaptiveRejectionSampler.hpp |only Boom-0.3/Boom/inst/include/Samplers/ScalarLangevinSampler.hpp |only Boom-0.3/Boom/inst/include/Samplers/ScalarSliceSampler.hpp | 13 Boom-0.3/Boom/inst/include/Samplers/SliceSampler.hpp | 10 Boom-0.3/Boom/inst/include/Samplers/TIM.hpp | 7 Boom-0.3/Boom/inst/include/Samplers/UnivariateLangevinSampler.hpp |only Boom-0.3/Boom/inst/include/Samplers/UnivariateSliceSampler.hpp | 58 Boom-0.3/Boom/inst/include/TargetFun/JacobianChecker.hpp |only Boom-0.3/Boom/inst/include/TargetFun/LogPost.hpp | 14 Boom-0.3/Boom/inst/include/TargetFun/Loglike.hpp | 14 Boom-0.3/Boom/inst/include/TargetFun/ScalarLogpostTF.hpp | 2 Boom-0.3/Boom/inst/include/TargetFun/TargetFun.hpp | 119 Boom-0.3/Boom/inst/include/TargetFun/Transformation.hpp |only Boom-0.3/Boom/inst/include/cpputil/Date.hpp | 61 Boom-0.3/Boom/inst/include/cpputil/ParamHolder.hpp | 20 Boom-0.3/Boom/inst/include/cpputil/ProgressTracker.hpp | 2 Boom-0.3/Boom/inst/include/cpputil/file_utils.hpp | 3 Boom-0.3/Boom/inst/include/cpputil/lse.hpp | 16 Boom-0.3/Boom/inst/include/cpputil/permute.hpp | 2 Boom-0.3/Boom/inst/include/cpputil/rep.hpp | 4 Boom-0.3/Boom/inst/include/cpputil/stream.hpp |only Boom-0.3/Boom/inst/include/cpputil/string_utils.hpp | 31 Boom-0.3/Boom/inst/include/distributions.hpp | 274 +- Boom-0.3/Boom/inst/include/distributions/Markov.hpp | 8 Boom-0.3/Boom/inst/include/numopt/NumericalDerivatives.hpp |only Boom-0.3/Boom/inst/include/r_interface/boom_r_tools.hpp | 12 Boom-0.3/Boom/inst/include/r_interface/create_state_model.hpp | 3 Boom-0.3/Boom/inst/include/r_interface/list_io.hpp | 116 Boom-0.3/Boom/inst/include/r_interface/prior_specification.hpp | 134 - Boom-0.3/Boom/inst/include/stats/Bspline.hpp |only Boom-0.3/Boom/inst/include/stats/ChiSquareTest.hpp | 8 Boom-0.3/Boom/inst/include/stats/DataTable.hpp | 157 - Boom-0.3/Boom/inst/include/stats/Design.hpp | 87 Boom-0.3/Boom/inst/include/stats/FreqDist.hpp | 70 Boom-0.3/Boom/inst/include/stats/NaturalSpline.hpp | 44 Boom-0.3/Boom/inst/include/stats/Resampler.hpp | 98 Boom-0.3/Boom/inst/include/stats/Spline.hpp | 18 Boom-0.3/Boom/inst/include/stats/diff.hpp | 6 Boom-0.3/Boom/inst/include/stats/moments.hpp | 12 Boom-0.3/Boom/inst/include/stats/ols.hpp | 2 Boom-0.3/Boom/inst/include/stats/regression.hpp | 2 Boom-0.3/Boom/inst/include/uint.hpp | 4 Boom-0.3/Boom/man/check.data.Rd | 2 Boom-0.3/Boom/man/compare.many.densities.Rd | 4 Boom-0.3/Boom/man/histabunch.Rd |only Boom-0.3/Boom/man/normal.prior.Rd | 6 Boom-0.3/Boom/man/plot.dynamic.distribution.Rd | 18 Boom-0.3/Boom/man/suggest.burn.log.likelihood.Rd |only Boom-0.3/Boom/src/Bmath/Bmath.hpp | 26 Boom-0.3/Boom/src/LinAlg/Array.cpp | 1165 ++++----- Boom-0.3/Boom/src/LinAlg/CorrelationMatrix.cpp | 51 Boom-0.3/Boom/src/LinAlg/DiagonalMatrix.cpp | 529 ++-- Boom-0.3/Boom/src/LinAlg/LU.cpp | 23 Boom-0.3/Boom/src/LinAlg/LinAlgExceptions.cpp | 4 Boom-0.3/Boom/src/LinAlg/Matrix.cpp | 608 ++-- Boom-0.3/Boom/src/LinAlg/SVD.cpp | 4 Boom-0.3/Boom/src/LinAlg/SWEEP.cpp | 16 Boom-0.3/Boom/src/LinAlg/Selector.cpp | 589 ++-- Boom-0.3/Boom/src/LinAlg/SpdMatrix.cpp | 34 Boom-0.3/Boom/src/LinAlg/SubMatrix.cpp | 3 Boom-0.3/Boom/src/LinAlg/Vector.cpp | 95 Boom-0.3/Boom/src/LinAlg/VectorView.cpp | 8 Boom-0.3/Boom/src/LinAlg/blas.cpp | 80 Boom-0.3/Boom/src/Makevars | 13 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/BartPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/GaussianBartPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/GaussianLinearBartPosteriorSampler.cpp | 9 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/LogitBartPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/PoissonBartPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/Bart/PosteriorSamplers/ProbitBartPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/BetaBinomialModel.cpp | 90 Boom-0.3/Boom/src/Models/BetaModel.cpp | 12 Boom-0.3/Boom/src/Models/BinomialModel.cpp | 26 Boom-0.3/Boom/src/Models/CategoricalData.cpp | 292 +- Boom-0.3/Boom/src/Models/ChisqModel.cpp | 11 Boom-0.3/Boom/src/Models/ConstrainedVectorParams.cpp | 46 Boom-0.3/Boom/src/Models/DataTypes.cpp | 119 Boom-0.3/Boom/src/Models/DirichletModel.cpp | 122 Boom-0.3/Boom/src/Models/DiscreteUniformModel.cpp |only Boom-0.3/Boom/src/Models/ExponentialModel.cpp | 21 Boom-0.3/Boom/src/Models/FiniteMixtureModel.cpp | 28 Boom-0.3/Boom/src/Models/GammaModel.cpp | 18 Boom-0.3/Boom/src/Models/GaussianModel.cpp | 86 Boom-0.3/Boom/src/Models/GaussianModelBase.cpp | 28 Boom-0.3/Boom/src/Models/GaussianModelGivenSigma.cpp | 4 Boom-0.3/Boom/src/Models/Glm/AggregatedRegressionModel.cpp | 16 Boom-0.3/Boom/src/Models/Glm/BinomialLogitModel.cpp | 68 Boom-0.3/Boom/src/Models/Glm/BinomialRegressionData.cpp | 31 Boom-0.3/Boom/src/Models/Glm/ChoiceData.cpp | 16 Boom-0.3/Boom/src/Models/Glm/CumulativeLogitModel.cpp | 4 Boom-0.3/Boom/src/Models/Glm/CumulativeProbitModel.cpp | 4 Boom-0.3/Boom/src/Models/Glm/Glm.cpp | 44 Boom-0.3/Boom/src/Models/Glm/GlmCoefs.cpp | 27 Boom-0.3/Boom/src/Models/Glm/LogisticRegressionModel.cpp | 109 Boom-0.3/Boom/src/Models/Glm/MultinomialLogitModel.cpp | 302 -- Boom-0.3/Boom/src/Models/Glm/MultinomialProbitModel.cpp | 58 Boom-0.3/Boom/src/Models/Glm/MvReg2.cpp | 136 - Boom-0.3/Boom/src/Models/Glm/MvnGivenX.cpp | 28 Boom-0.3/Boom/src/Models/Glm/MvnGivenXandSigma.cpp | 16 Boom-0.3/Boom/src/Models/Glm/MvtRegModel.cpp | 44 Boom-0.3/Boom/src/Models/Glm/OrdinalCutpointModel.cpp | 313 +- Boom-0.3/Boom/src/Models/Glm/PoissonRegressionData.cpp | 41 Boom-0.3/Boom/src/Models/Glm/PoissonRegressionModel.cpp | 14 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/AggregatedRegressionSampler.cpp | 6 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitAuxmixSampler.cpp | 33 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitCompositeSpikeSlabSampler.cpp | 187 - Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitDataImputer.cpp | 22 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitSamplerRwm.cpp | 14 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitSamplerTim.cpp | 26 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BinomialLogitSpikeSlabSampler.cpp | 111 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/BregVsSampler.cpp | 75 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/CumulativeLogitSampler.cpp | 13 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/CumulativeProbitSampler.cpp | 14 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/DAFE_MLM.cpp | 134 - Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/HierarchicalPoissonRegressionSampler.cpp | 12 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/LogitSampler.cpp | 22 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/LogitSamplerBma.cpp | 33 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MLAuxMixSampler.cpp | 8 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MLVS.cpp | 28 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MLVS_data_imputer.cpp | 6 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MlogitRwm.cpp | 15 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MnpBetaGivenSigmaSampler.cpp | 32 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MnpBetaSampler.cpp | 15 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MultinomialLogitCompleteDataSuf.cpp | 8 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MultinomialLogitCompositeSpikeSlabSampler.cpp | 6 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MvRegSampler.cpp | 21 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/MvtRegSampler.cpp | 17 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/PartRegSampler.cpp | 50 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/PoissonRegressionAuxMixSampler.cpp | 61 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/PoissonRegressionRwmSampler.cpp | 11 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/PoissonRegressionSpikeSlabSampler.cpp | 24 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/ProbitRegressionSampler.cpp | 18 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/ProbitSpikeSlabSampler.cpp | 33 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/RegressionConjSampler.cpp | 16 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/SpikeSlabDaRegressionSampler.cpp | 10 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/SpikeSlabSampler.cpp | 32 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/TDataImputer.cpp |only Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/TRegressionSampler.cpp |only Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/TRegressionSpikeSlabSampler.cpp |only Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/VsPriorSampler.cpp | 46 Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/ZeroInflatedLognormalRegressionPosteriorSampler.cpp |only Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/ZeroInflatedPoissonRegressionSampler.cpp |only Boom-0.3/Boom/src/Models/Glm/PosteriorSamplers/draw_logit_lambda.cpp | 5 Boom-0.3/Boom/src/Models/Glm/ProbitRegression.cpp | 38 Boom-0.3/Boom/src/Models/Glm/RegressionModel.cpp | 72 Boom-0.3/Boom/src/Models/Glm/TRegression.cpp | 284 -- Boom-0.3/Boom/src/Models/Glm/VariableSelectionPrior.cpp | 50 Boom-0.3/Boom/src/Models/Glm/WeightedRegressionModel.cpp | 247 - Boom-0.3/Boom/src/Models/Glm/ZeroInflatedLognormalRegression.cpp |only Boom-0.3/Boom/src/Models/Glm/ZeroInflatedPoissonRegression.cpp |only Boom-0.3/Boom/src/Models/HMM/Clickstream/NestedHmm.cpp | 58 Boom-0.3/Boom/src/Models/HMM/Clickstream/PosteriorSamplers/NestedHmmPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/HMM/HMM2.cpp | 22 Boom-0.3/Boom/src/Models/HMM/HealthStateModel.cpp | 6 Boom-0.3/Boom/src/Models/HMM/HmmDataImputer.cpp | 2 Boom-0.3/Boom/src/Models/HMM/HmmFilter.cpp | 27 Boom-0.3/Boom/src/Models/HMM/PosteriorSamplers/HmmPosteriorSampler.cpp | 9 Boom-0.3/Boom/src/Models/HMM/hmm_tools.cpp | 6 Boom-0.3/Boom/src/Models/Hierarchical/HierarchicalDirichletModel.cpp |only Boom-0.3/Boom/src/Models/Hierarchical/HierarchicalPoissonModel.cpp | 93 Boom-0.3/Boom/src/Models/Hierarchical/HierarchicalZeroInflatedGammaModel.cpp | 12 Boom-0.3/Boom/src/Models/Hierarchical/HierarchicalZeroInflatedPoissonModel.cpp | 6 Boom-0.3/Boom/src/Models/Hierarchical/PosteriorSamplers/HierarchicalDirichletPosteriorSampler.cpp |only Boom-0.3/Boom/src/Models/Hierarchical/PosteriorSamplers/HierarchicalGammaSampler.cpp | 6 Boom-0.3/Boom/src/Models/Hierarchical/PosteriorSamplers/HierarchicalPoissonSampler.cpp | 10 Boom-0.3/Boom/src/Models/Hierarchical/PosteriorSamplers/HierarchicalZeroInflatedGammaSampler.cpp | 18 Boom-0.3/Boom/src/Models/Hierarchical/PosteriorSamplers/HierarchicalZeroInflatedPoissonSampler.cpp | 28 Boom-0.3/Boom/src/Models/IRT/DafePcrDataImputer.cpp | 52 Boom-0.3/Boom/src/Models/IRT/DafePcrItemSampler.cpp | 53 Boom-0.3/Boom/src/Models/IRT/DafePcrRwmItemSampler.cpp | 32 Boom-0.3/Boom/src/Models/IRT/DafePcrRwmSubject.cpp | 36 Boom-0.3/Boom/src/Models/IRT/DafePcrSubject.cpp | 69 Boom-0.3/Boom/src/Models/IRT/IrtModel.cpp | 36 Boom-0.3/Boom/src/Models/IRT/Item.cpp | 20 Boom-0.3/Boom/src/Models/IRT/PartialCreditModel.cpp | 155 - Boom-0.3/Boom/src/Models/IRT/Subject.cpp | 17 Boom-0.3/Boom/src/Models/IRT/SubjectPrior.cpp | 4 Boom-0.3/Boom/src/Models/IRT/SubjectSliceSampler.cpp | 20 Boom-0.3/Boom/src/Models/IndependentMvnModel.cpp | 56 Boom-0.3/Boom/src/Models/LognormalModel.cpp |only Boom-0.3/Boom/src/Models/MarginallyUniformCorrelationModel.cpp | 6 Boom-0.3/Boom/src/Models/MarkovModel.cpp | 97 Boom-0.3/Boom/src/Models/Mixtures/DirichletProcessMvnModel.cpp |only Boom-0.3/Boom/src/Models/Mixtures/PosteriorSamplers/ConditionalFiniteMixtureSampler.cpp | 5 Boom-0.3/Boom/src/Models/Mixtures/PosteriorSamplers/DirichletProcessMvnCollapsedGibbsSampler.cpp |only Boom-0.3/Boom/src/Models/ModelTypes.cpp | 58 Boom-0.3/Boom/src/Models/MultinomialModel.cpp | 126 Boom-0.3/Boom/src/Models/MvnBase.cpp | 144 - Boom-0.3/Boom/src/Models/MvnGivenScalarSigma.cpp | 24 Boom-0.3/Boom/src/Models/MvnGivenSigma.cpp | 26 Boom-0.3/Boom/src/Models/MvnModel.cpp | 26 Boom-0.3/Boom/src/Models/MvtModel.cpp | 53 Boom-0.3/Boom/src/Models/ParamTypes.cpp | 109 Boom-0.3/Boom/src/Models/PointProcess/BoundedPoissonProcessSimulator.cpp | 2 Boom-0.3/Boom/src/Models/PointProcess/HomogeneousPoissonProcess.cpp | 14 Boom-0.3/Boom/src/Models/PointProcess/PoissonClusterProcess.cpp | 22 Boom-0.3/Boom/src/Models/PointProcess/PosteriorSamplers/HomogeneousPoissonProcessPosteriorSampler.cpp | 9 Boom-0.3/Boom/src/Models/PointProcess/PosteriorSamplers/MarkovModulatedPoissonProcessPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/PointProcess/PosteriorSamplers/WeeklyCyclePoissonProcessSampler.cpp | 34 Boom-0.3/Boom/src/Models/PointProcess/WeeklyCyclePoissonProcess.cpp | 76 Boom-0.3/Boom/src/Models/PoissonGammaModel.cpp | 4 Boom-0.3/Boom/src/Models/PoissonModel.cpp | 40 Boom-0.3/Boom/src/Models/Policies/CompositeParamPolicy.cpp | 13 Boom-0.3/Boom/src/Models/Policies/ManyParamPolicy.cpp | 4 Boom-0.3/Boom/src/Models/Policies/NullParamPolicy.cpp | 4 Boom-0.3/Boom/src/Models/PosteriorSamplers/AbsorbingMarkovConjSampler.cpp | 199 - Boom-0.3/Boom/src/Models/PosteriorSamplers/BetaBinomialPosteriorSampler.cpp | 325 ++ Boom-0.3/Boom/src/Models/PosteriorSamplers/BetaBinomialSampler.cpp | 7 Boom-0.3/Boom/src/Models/PosteriorSamplers/BetaPosteriorSampler.cpp | 11 Boom-0.3/Boom/src/Models/PosteriorSamplers/CompositeModelSampler.cpp | 5 Boom-0.3/Boom/src/Models/PosteriorSamplers/CompositeSampler.cpp | 18 Boom-0.3/Boom/src/Models/PosteriorSamplers/CorrelationSampler.cpp | 14 Boom-0.3/Boom/src/Models/PosteriorSamplers/DirichletPosteriorSampler.cpp | 669 ++++- Boom-0.3/Boom/src/Models/PosteriorSamplers/ExchangeableDirichletSampler.cpp | 20 Boom-0.3/Boom/src/Models/PosteriorSamplers/ExponentialGammaSampler.cpp | 9 Boom-0.3/Boom/src/Models/PosteriorSamplers/FixedProbBinomialSampler.cpp | 6 Boom-0.3/Boom/src/Models/PosteriorSamplers/GammaPosteriorSampler.cpp | 20 Boom-0.3/Boom/src/Models/PosteriorSamplers/GaussianConjSampler.cpp | 10 Boom-0.3/Boom/src/Models/PosteriorSamplers/GaussianMeanSampler.cpp | 12 Boom-0.3/Boom/src/Models/PosteriorSamplers/GaussianVarSampler.cpp | 45 Boom-0.3/Boom/src/Models/PosteriorSamplers/GenericGaussianVarianceSampler.cpp | 11 Boom-0.3/Boom/src/Models/PosteriorSamplers/IndependentMvnConjSampler.cpp | 32 Boom-0.3/Boom/src/Models/PosteriorSamplers/IndependentMvnVarSampler.cpp |only Boom-0.3/Boom/src/Models/PosteriorSamplers/MarkovConjSampler.cpp | 71 Boom-0.3/Boom/src/Models/PosteriorSamplers/MarkovConjShrinkageSampler.cpp | 42 Boom-0.3/Boom/src/Models/PosteriorSamplers/MultinomialDirichletSampler.cpp | 23 Boom-0.3/Boom/src/Models/PosteriorSamplers/MvnConjSampler.cpp | 31 Boom-0.3/Boom/src/Models/PosteriorSamplers/MvnIndependentVarianceSampler.cpp | 10 Boom-0.3/Boom/src/Models/PosteriorSamplers/MvnMeanSampler.cpp | 52 Boom-0.3/Boom/src/Models/PosteriorSamplers/MvnVarSampler.cpp | 38 Boom-0.3/Boom/src/Models/PosteriorSamplers/PoissonGammaPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/PosteriorSamplers/PoissonGammaSampler.cpp | 12 Boom-0.3/Boom/src/Models/PosteriorSamplers/PosteriorSampler.cpp | 24 Boom-0.3/Boom/src/Models/PosteriorSamplers/ProductDirichletPosteriorSampler.cpp | 23 Boom-0.3/Boom/src/Models/PosteriorSamplers/SepStratSampler.cpp | 30 Boom-0.3/Boom/src/Models/PosteriorSamplers/SharedSigsqSampler.cpp | 6 Boom-0.3/Boom/src/Models/PosteriorSamplers/ZeroInflatedGammaPosteriorSampler.cpp | 12 Boom-0.3/Boom/src/Models/PosteriorSamplers/ZeroInflatedPoissonSampler.cpp | 30 Boom-0.3/Boom/src/Models/PosteriorSamplers/ZeroMeanGaussianConjSampler.cpp | 17 Boom-0.3/Boom/src/Models/PosteriorSamplers/ZeroMeanMvnConjSampler.cpp | 18 Boom-0.3/Boom/src/Models/PosteriorSamplers/ZeroMeanMvnIndependenceSampler.cpp | 28 Boom-0.3/Boom/src/Models/ProductDirichletModel.cpp | 40 Boom-0.3/Boom/src/Models/ScaledChisqModel.cpp | 22 Boom-0.3/Boom/src/Models/SpdData.cpp | 48 Boom-0.3/Boom/src/Models/SpdParams.cpp | 16 Boom-0.3/Boom/src/Models/StateSpace/AggregatedStateSpaceRegression.cpp | 71 Boom-0.3/Boom/src/Models/StateSpace/Filters/KalmanTools.cpp | 40 Boom-0.3/Boom/src/Models/StateSpace/Filters/SparseKalmanTools.cpp | 65 Boom-0.3/Boom/src/Models/StateSpace/Filters/SparseMatrix.cpp | 284 +- Boom-0.3/Boom/src/Models/StateSpace/Filters/SparseVector.cpp | 86 Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/AggregatedStateSpacePosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/DynamicRegressionPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/StateSpaceLogitPosteriorSampler.cpp |only Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/StateSpacePoissonPosteriorSampler.cpp |only Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/StateSpacePosteriorSampler.cpp | 9 Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/StateSpaceStudentPosteriorSampler.cpp |only Boom-0.3/Boom/src/Models/StateSpace/PosteriorSamplers/StudentLocalLinearTrendPosteriorSampler.cpp | 6 Boom-0.3/Boom/src/Models/StateSpace/StateModels/ArStateModel.cpp | 12 Boom-0.3/Boom/src/Models/StateSpace/StateModels/DynamicRegressionStateModel.cpp | 18 Boom-0.3/Boom/src/Models/StateSpace/StateModels/Holiday.cpp | 6 Boom-0.3/Boom/src/Models/StateSpace/StateModels/LocalLevelStateModel.cpp | 8 Boom-0.3/Boom/src/Models/StateSpace/StateModels/LocalLinearTrend.cpp | 14 Boom-0.3/Boom/src/Models/StateSpace/StateModels/LocalLinearTrendMeanRevertingSlope.cpp | 10 Boom-0.3/Boom/src/Models/StateSpace/StateModels/RandomWalkHolidayStateModel.cpp | 8 Boom-0.3/Boom/src/Models/StateSpace/StateModels/RegressionStateModel.cpp | 8 Boom-0.3/Boom/src/Models/StateSpace/StateModels/SeasonalStateModel.cpp | 24 Boom-0.3/Boom/src/Models/StateSpace/StateModels/StudentLocalLinearTrend.cpp | 12 Boom-0.3/Boom/src/Models/StateSpace/StateModels/TrigStateModel.cpp |only Boom-0.3/Boom/src/Models/StateSpace/StateSpaceLogitModel.cpp |only Boom-0.3/Boom/src/Models/StateSpace/StateSpaceModel.cpp | 30 Boom-0.3/Boom/src/Models/StateSpace/StateSpaceModelBase.cpp | 390 +-- Boom-0.3/Boom/src/Models/StateSpace/StateSpaceNormalMixture.cpp |only Boom-0.3/Boom/src/Models/StateSpace/StateSpacePoissonModel.cpp |only Boom-0.3/Boom/src/Models/StateSpace/StateSpaceRegressionModel.cpp | 129 - Boom-0.3/Boom/src/Models/StateSpace/StateSpaceStudentRegressionModel.cpp |only Boom-0.3/Boom/src/Models/Sufstat.cpp | 10 Boom-0.3/Boom/src/Models/TimeSeries/ArModel.cpp | 34 Boom-0.3/Boom/src/Models/TimeSeries/NonzeroMeanAr1Model.cpp | 18 Boom-0.3/Boom/src/Models/TimeSeries/PosteriorSamplers/ArPosteriorSampler.cpp | 25 Boom-0.3/Boom/src/Models/TimeSeries/PosteriorSamplers/NonzeroMeanAr1Sampler.cpp | 6 Boom-0.3/Boom/src/Models/UniformCorrelationModel.cpp | 6 Boom-0.3/Boom/src/Models/UniformModel.cpp | 10 Boom-0.3/Boom/src/Models/WeightedGaussianSuf.cpp | 14 Boom-0.3/Boom/src/Models/WeightedMvnModel.cpp | 46 Boom-0.3/Boom/src/Models/WishartModel.cpp | 64 Boom-0.3/Boom/src/Models/ZeroInflatedLognormalModel.cpp | 23 Boom-0.3/Boom/src/Models/ZeroInflatedPoissonModel.cpp | 12 Boom-0.3/Boom/src/Models/ZeroMeanGaussianModel.cpp | 18 Boom-0.3/Boom/src/Models/ZeroMeanMvnModel.cpp | 16 Boom-0.3/Boom/src/Samplers/ARMS.cpp | 15 Boom-0.3/Boom/src/Samplers/DirectProposal.cpp |only Boom-0.3/Boom/src/Samplers/ImportanceResampler.cpp |only Boom-0.3/Boom/src/Samplers/MH_Proposals.cpp | 38 Boom-0.3/Boom/src/Samplers/MetropolisHastings.cpp | 83 Boom-0.3/Boom/src/Samplers/RejectionSampler.cpp |only Boom-0.3/Boom/src/Samplers/Sampler.cpp | 10 Boom-0.3/Boom/src/Samplers/ScalarAdaptiveRejectionSampler.cpp |only Boom-0.3/Boom/src/Samplers/ScalarLangevinSampler.cpp |only Boom-0.3/Boom/src/Samplers/ScalarSliceSampler.cpp | 125 Boom-0.3/Boom/src/Samplers/SliceSampler.cpp | 9 Boom-0.3/Boom/src/Samplers/TIM.cpp | 26 Boom-0.3/Boom/src/Samplers/UnivariateLangevinSampler.cpp |only Boom-0.3/Boom/src/Samplers/UnivariateSliceSampler.cpp | 115 Boom-0.3/Boom/src/TargetFun/JacobianChecker.cpp |only Boom-0.3/Boom/src/TargetFun/LogPost.cpp | 12 Boom-0.3/Boom/src/TargetFun/ScalarLogpostTF.cpp | 4 Boom-0.3/Boom/src/TargetFun/TargetFun.cpp | 83 Boom-0.3/Boom/src/TargetFun/Transformation.cpp |only Boom-0.3/Boom/src/boom_r_tools.cpp | 43 Boom-0.3/Boom/src/cpputil/Date.cpp | 39 Boom-0.3/Boom/src/cpputil/ParamHolder.cpp | 12 Boom-0.3/Boom/src/cpputil/lse.cpp | 17 Boom-0.3/Boom/src/cpputil/parse_range.cpp | 4 Boom-0.3/Boom/src/cpputil/print_columns.cpp | 68 Boom-0.3/Boom/src/cpputil/rep.cpp | 10 Boom-0.3/Boom/src/cpputil/split.cpp | 5 Boom-0.3/Boom/src/create_mixture_component.cpp | 88 Boom-0.3/Boom/src/create_state_model.cpp | 70 Boom-0.3/Boom/src/distributions/BoundedAdaptiveRejectionSampler.cpp | 3 Boom-0.3/Boom/src/distributions/DoublyBoundedAdaptiveRejectionSampler.cpp | 5 Boom-0.3/Boom/src/distributions/Markov.cpp | 34 Boom-0.3/Boom/src/distributions/Rmath_dist.cpp | 47 Boom-0.3/Boom/src/distributions/Wishart.cpp | 39 Boom-0.3/Boom/src/distributions/dirichlet.cpp | 36 Boom-0.3/Boom/src/distributions/inverse_gaussian.cpp | 23 Boom-0.3/Boom/src/distributions/matrix_normal.cpp | 32 Boom-0.3/Boom/src/distributions/mvn.cpp | 52 Boom-0.3/Boom/src/distributions/mvt.cpp | 14 Boom-0.3/Boom/src/distributions/random_cor.cpp | 2 Boom-0.3/Boom/src/distributions/rmulti.cpp | 4 Boom-0.3/Boom/src/distributions/rtriangle.cpp | 15 Boom-0.3/Boom/src/distributions/trun_exp.cpp | 55 Boom-0.3/Boom/src/distributions/usp.cpp | 49 Boom-0.3/Boom/src/error.cpp | 2 Boom-0.3/Boom/src/extract_mixture_data.cpp | 18 Boom-0.3/Boom/src/list_io.cpp | 22 Boom-0.3/Boom/src/numopt/Negate.cpp | 6 Boom-0.3/Boom/src/numopt/NumericalDerivatives.cpp |only Boom-0.3/Boom/src/numopt/ScalarLaplaceApproximation.cpp | 26 Boom-0.3/Boom/src/numopt/ScalarNewtonMax.cpp | 9 Boom-0.3/Boom/src/numopt/bfgs.cpp | 23 Boom-0.3/Boom/src/numopt/conj_grad.cpp | 15 Boom-0.3/Boom/src/numopt/max_nd.cpp | 78 Boom-0.3/Boom/src/numopt/nelder_mead.cpp | 18 Boom-0.3/Boom/src/numopt/newton.cpp | 188 - Boom-0.3/Boom/src/numopt/simulated_annealing.cpp | 8 Boom-0.3/Boom/src/prior_specification.cpp | 116 Boom-0.3/Boom/src/spike_slab_prior.cpp | 34 Boom-0.3/Boom/src/stats/Bspline.cpp |only Boom-0.3/Boom/src/stats/ChiSquareTest.cpp | 10 Boom-0.3/Boom/src/stats/DataTable.cpp | 479 ++- Boom-0.3/Boom/src/stats/Design.cpp | 498 +++ Boom-0.3/Boom/src/stats/FreqDist.cpp | 129 - Boom-0.3/Boom/src/stats/IQagent.cpp | 4 Boom-0.3/Boom/src/stats/NaturalSpline.cpp | 53 Boom-0.3/Boom/src/stats/Resampler.cpp | 46 Boom-0.3/Boom/src/stats/Spline.cpp | 12 Boom-0.3/Boom/src/stats/diff.cpp | 10 Boom-0.3/Boom/src/stats/moments.cpp | 30 Boom-0.3/Boom/src/stats/regression.cpp | 7 674 files changed, 16222 insertions(+), 12051 deletions(-)
Title: Tools for Reading SDMX Data and Metadata
Description: Set of classes and methods to read data and metadata documents
exchanged through the Statistical Data and Metadata Exchange (SDMX) framework,
currently focusing on the SDMX XML standard format (SDMX-ML).
Author: Emmanuel Blondel [aut, cre],
Matthieu Stigler [ctb]
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between rsdmx versions 0.5-1 dated 2016-02-02 and 0.5-2 dated 2016-03-15
rsdmx-0.5-1/rsdmx/R/Class-SDMXRESTRequestBuilder.R |only rsdmx-0.5-1/rsdmx/R/SDMXRESTRequestBuilder-methods.R |only rsdmx-0.5-1/rsdmx/man/SDMXRESTRequestBuilder.Rd |only rsdmx-0.5-2/rsdmx/DESCRIPTION | 58 + rsdmx-0.5-2/rsdmx/MD5 | 256 ++++---- rsdmx-0.5-2/rsdmx/NAMESPACE | 43 - rsdmx-0.5-2/rsdmx/R/Class-SDMX.R | 3 rsdmx-0.5-2/rsdmx/R/Class-SDMXAttribute.R | 10 rsdmx-0.5-2/rsdmx/R/Class-SDMXCode.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXCodelist.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXCompactData.R | 2 rsdmx-0.5-2/rsdmx/R/Class-SDMXConcept.R | 12 rsdmx-0.5-2/rsdmx/R/Class-SDMXConceptScheme.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXCrossSectionalData.R | 2 rsdmx-0.5-2/rsdmx/R/Class-SDMXData.R |only rsdmx-0.5-2/rsdmx/R/Class-SDMXDataFlow.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXDataStructure.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXDataStructureDefinition.R | 5 rsdmx-0.5-2/rsdmx/R/Class-SDMXDimension.R | 6 rsdmx-0.5-2/rsdmx/R/Class-SDMXDotStatRequestBuilder.R |only rsdmx-0.5-2/rsdmx/R/Class-SDMXFooterMessage.R | 18 rsdmx-0.5-2/rsdmx/R/Class-SDMXGenericData.R | 2 rsdmx-0.5-2/rsdmx/R/Class-SDMXHeader.R | 73 +- rsdmx-0.5-2/rsdmx/R/Class-SDMXMessageGroup.R | 2 rsdmx-0.5-2/rsdmx/R/Class-SDMXPrimaryMeasure.R | 5 rsdmx-0.5-2/rsdmx/R/Class-SDMXREST20RequestBuilder.R |only rsdmx-0.5-2/rsdmx/R/Class-SDMXREST21RequestBuilder.R |only rsdmx-0.5-2/rsdmx/R/Class-SDMXRequestBuilder.R | 35 - rsdmx-0.5-2/rsdmx/R/Class-SDMXRequestParams.R |only rsdmx-0.5-2/rsdmx/R/Class-SDMXSchema.R | 28 rsdmx-0.5-2/rsdmx/R/Class-SDMXStructureSpecificData.R | 2 rsdmx-0.5-2/rsdmx/R/Class-SDMXStructureType.R | 30 rsdmx-0.5-2/rsdmx/R/Class-SDMXTimeDimension.R | 8 rsdmx-0.5-2/rsdmx/R/Class-SDMXType.R | 36 - rsdmx-0.5-2/rsdmx/R/Class-SDMXUtilityData.R | 2 rsdmx-0.5-2/rsdmx/R/SDMX-methods.R | 110 ++- rsdmx-0.5-2/rsdmx/R/SDMXAttribute-methods.R | 13 rsdmx-0.5-2/rsdmx/R/SDMXCode-methods.R | 13 rsdmx-0.5-2/rsdmx/R/SDMXCodelist-methods.R | 14 rsdmx-0.5-2/rsdmx/R/SDMXCodelists-methods.R | 28 rsdmx-0.5-2/rsdmx/R/SDMXCompactData-methods.R | 37 - rsdmx-0.5-2/rsdmx/R/SDMXComponents-methods.R | 111 ++- rsdmx-0.5-2/rsdmx/R/SDMXConcept-methods.R | 13 rsdmx-0.5-2/rsdmx/R/SDMXConceptScheme-methods.R | 16 rsdmx-0.5-2/rsdmx/R/SDMXConcepts-methods.R | 33 - rsdmx-0.5-2/rsdmx/R/SDMXCrossSectionalData-methods.R | 32 - rsdmx-0.5-2/rsdmx/R/SDMXData-methods.R |only rsdmx-0.5-2/rsdmx/R/SDMXDataFlow-methods.R | 41 + rsdmx-0.5-2/rsdmx/R/SDMXDataFlows-methods.R | 33 - rsdmx-0.5-2/rsdmx/R/SDMXDataStructure-methods.R | 10 rsdmx-0.5-2/rsdmx/R/SDMXDataStructureDefinition-methods.R | 13 rsdmx-0.5-2/rsdmx/R/SDMXDataStructures-methods.R | 22 rsdmx-0.5-2/rsdmx/R/SDMXDimension-methods.R | 8 rsdmx-0.5-2/rsdmx/R/SDMXDotStatRequestBuilder-methods.R |only rsdmx-0.5-2/rsdmx/R/SDMXFooter-methods.R | 8 rsdmx-0.5-2/rsdmx/R/SDMXGenericData-methods.R | 42 - rsdmx-0.5-2/rsdmx/R/SDMXHeader-methods.R | 7 rsdmx-0.5-2/rsdmx/R/SDMXMessageGroup-methods.R | 27 rsdmx-0.5-2/rsdmx/R/SDMXPrimaryMeasure-methods.R | 8 rsdmx-0.5-2/rsdmx/R/SDMXREST20RequestBuilder-methods.R |only rsdmx-0.5-2/rsdmx/R/SDMXREST21RequestBuilder-methods.R |only rsdmx-0.5-2/rsdmx/R/SDMXRequestBuilder-methods.R | 55 + rsdmx-0.5-2/rsdmx/R/SDMXRequestParams-methods.R |only rsdmx-0.5-2/rsdmx/R/SDMXSchema-methods.R | 25 rsdmx-0.5-2/rsdmx/R/SDMXServiceProvider-methods.R | 316 +++++++--- rsdmx-0.5-2/rsdmx/R/SDMXServiceProviders-methods.R | 11 rsdmx-0.5-2/rsdmx/R/SDMXStructureSpecificData-methods.R | 15 rsdmx-0.5-2/rsdmx/R/SDMXStructureType-methods.R | 30 rsdmx-0.5-2/rsdmx/R/SDMXTimeDimension-methods.R | 8 rsdmx-0.5-2/rsdmx/R/SDMXType-methods.R | 7 rsdmx-0.5-2/rsdmx/R/SDMXUtilityData-methods.R | 15 rsdmx-0.5-2/rsdmx/R/profile.R | 6 rsdmx-0.5-2/rsdmx/R/readSDMX.R | 171 ++++- rsdmx-0.5-2/rsdmx/R/rsdmx.R | 4 rsdmx-0.5-2/rsdmx/README.md | 150 +++- rsdmx-0.5-2/rsdmx/inst/doc/quickstart.R | 20 rsdmx-0.5-2/rsdmx/inst/doc/quickstart.Rmd | 35 + rsdmx-0.5-2/rsdmx/inst/doc/quickstart.html | 141 +++- rsdmx-0.5-2/rsdmx/man/SDMX.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXAttribute.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXCode.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXCodelist.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXCodelists.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXCompactData.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXComponents.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXConcept.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXConceptScheme.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXConcepts.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXCrossSectionalData.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXData.Rd |only rsdmx-0.5-2/rsdmx/man/SDMXDataFlow.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDataFlows.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDataStructure.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDataStructureDefinition.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDataStructures.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDimension.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXDotStatRequestBuilder.Rd |only rsdmx-0.5-2/rsdmx/man/SDMXFooter.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXGenericData.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXHeader.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXMessageGroup.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXPrimaryMeasure.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXREST20RequestBuilder.Rd |only rsdmx-0.5-2/rsdmx/man/SDMXREST21RequestBuilder.Rd |only rsdmx-0.5-2/rsdmx/man/SDMXRequestBuilder.Rd | 61 + rsdmx-0.5-2/rsdmx/man/SDMXRequestParams.Rd |only rsdmx-0.5-2/rsdmx/man/SDMXSchema.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXServiceProvider.Rd | 2 rsdmx-0.5-2/rsdmx/man/SDMXStructureSpecificData.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXStructureType.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXTimeDimension.Rd | 4 rsdmx-0.5-2/rsdmx/man/SDMXUtilityData.Rd | 4 rsdmx-0.5-2/rsdmx/man/addSDMXServiceProvider.Rd | 2 rsdmx-0.5-2/rsdmx/man/findNamespace.Rd | 5 rsdmx-0.5-2/rsdmx/man/getRegistryInterfaceResult.Rd |only rsdmx-0.5-2/rsdmx/man/isRegistryInterfaceEnvelope.Rd |only rsdmx-0.5-2/rsdmx/man/isSoapRequestEnvelope.Rd | 4 rsdmx-0.5-2/rsdmx/man/readSDMX.Rd | 26 rsdmx-0.5-2/rsdmx/man/rsdmx.Rd | 4 rsdmx-0.5-2/rsdmx/man/setDSD.Rd |only rsdmx-0.5-2/rsdmx/tests/testthat/test_Codelists.R | 10 rsdmx-0.5-2/rsdmx/tests/testthat/test_CompactData.R | 4 rsdmx-0.5-2/rsdmx/tests/testthat/test_Concepts.R | 11 rsdmx-0.5-2/rsdmx/tests/testthat/test_CrossSectionalData.R | 4 rsdmx-0.5-2/rsdmx/tests/testthat/test_Data.R |only rsdmx-0.5-2/rsdmx/tests/testthat/test_DataFlows.R | 5 rsdmx-0.5-2/rsdmx/tests/testthat/test_DataStructureDefinition.R | 8 rsdmx-0.5-2/rsdmx/tests/testthat/test_DataStructures.R | 10 rsdmx-0.5-2/rsdmx/tests/testthat/test_Footer.R | 10 rsdmx-0.5-2/rsdmx/tests/testthat/test_GenericData.R | 12 rsdmx-0.5-2/rsdmx/tests/testthat/test_Header.R | 8 rsdmx-0.5-2/rsdmx/tests/testthat/test_Main_Helpers.R | 230 ++++++- rsdmx-0.5-2/rsdmx/tests/testthat/test_MessageGroup.R | 8 rsdmx-0.5-2/rsdmx/tests/testthat/test_Namespaces.R | 4 rsdmx-0.5-2/rsdmx/tests/testthat/test_RequestBuilder.R | 114 +++ rsdmx-0.5-2/rsdmx/tests/testthat/test_Schema.R | 17 rsdmx-0.5-2/rsdmx/tests/testthat/test_ServiceProvider.R | 39 - rsdmx-0.5-2/rsdmx/tests/testthat/test_Soap.R | 8 rsdmx-0.5-2/rsdmx/tests/testthat/test_StructureSpecificData.R | 4 rsdmx-0.5-2/rsdmx/vignettes/quickstart.Rmd | 35 + 140 files changed, 2154 insertions(+), 925 deletions(-)
Title: Lightweight GitHub Package Installer
Description: A lightweight, vectorized drop-in replacement for 'devtools::install_github()' that uses native git and R methods to clone and install a package from GitHub.
Author: Thomas J. Leeper [aut, cre]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>
Diff between ghit versions 0.2.0 dated 2016-02-15 and 0.2.5 dated 2016-03-15
DESCRIPTION | 10 ++++--- MD5 | 20 +++++++------- NEWS | 13 +++++++++ R/build_and_insert.R | 2 - R/checkout_pkg.R | 32 ++++++++++++++--------- R/install.R | 56 +++++++++++++++++++++++++++-------------- README.md | 3 ++ man/ghit.Rd | 2 - man/install.Rd | 4 +- tests/testthat/test_install.R | 34 +++++++++++++----------- tests/testthat/test_internal.R | 3 -- 11 files changed, 113 insertions(+), 66 deletions(-)
Title: Digital PCR Analysis
Description: Analysis, visualisation and simulation of digital polymerase chain
reaction (dPCR).
Author: Michal Burdukiewicz [cre, aut],
Stefan Roediger [aut],
Bart Jacobs [aut],
Piotr Sobczyk [ctb]
Maintainer: Michal Burdukiewicz <michalburdukiewicz@gmail.com>
Diff between dpcR versions 0.2 dated 2015-12-11 and 0.3 dated 2016-03-15
CHANGELOG | 111 DESCRIPTION | 42 MD5 | 335 NAMESPACE | 207 R/AUCtest.R | 136 R/BioradCNV.R |only R/White.R | 170 R/adpcr2panel.R | 160 R/adpcr2ppp.R | 136 R/analyze_pooled.R |only R/binarize.R | 92 R/bind_dpcr.R | 400 R/bioamp.R | 152 R/calc_breaks.R | 24 R/calc_coordinates.R | 90 R/calc_lambda.R | 40 R/classes.R | 546 R/compare_dens.R | 118 R/count_test-class.R | 292 R/create_dpcr.R | 146 R/dPCRmethyl.R | 32 R/dpcR-package.R | 140 R/dpcReport_gui.R | 22 R/dpcr_calculator.R | 32 R/dpcr_density.R | 200 R/dpcr_density_gui.R | 24 R/dpcr_density_table.R | 86 R/extract_dpcr.R | 150 R/fit_adpcr.R | 62 R/fl.R | 2 R/get_k_n.R | 24 R/limit_cq.R | 344 R/many_peaks.R | 38 R/moments.R | 194 R/num2int.R | 40 R/pds.R | 162 R/pds_raw.R | 250 R/plot_distr.R | 92 R/plot_panel.R | 290 R/plot_vf_circ.R | 6 R/plot_vic_fam.R | 260 R/print_summary.R | 66 R/qdpcr.R | 190 R/qpcr2pp.R | 238 R/qpcr_analyser.R | 320 R/read_dpcr.R | 426 R/rename_dpcr.R | 54 R/rtadpcr.R | 62 R/safe_efficiency.R | 20 R/show_dpcr.R | 84 R/sim_adpcr.R | 200 R/sim_ddpcr.R | 182 R/sim_ddpcr_bkm.R | 596 - R/simulations.R | 130 R/six_panels.R | 38 R/summary_dpcr.R | 212 R/test_counts.R | 467 R/test_counts_gui.R | 22 R/test_panel.R | 114 R/test_peaks.R | 210 R/test_ratio.R | 306 R/valid_amp.R | 10 R/y_val_conf.R | 26 README.md | 60 build/vignette.rds |binary data/BioradCNV.rda |only data/White.rda |binary data/dPCRmethyl.rda |binary data/datalist | 13 data/many_peaks.rda |binary data/pds.rda |binary data/pds_raw.rda |binary data/six_panels.rda |binary inst/CITATION | 28 inst/doc/overview.R | 496 inst/doc/overview.Rmd | 898 - inst/doc/overview.html | 2032 +-- inst/dpcReport/about.Rmd | 106 inst/dpcReport/about.md | 128 inst/dpcReport/data_summary/data_summary_table1.md | 28 inst/dpcReport/data_summary/summary_input.R | 10 inst/dpcReport/download_report1.md | 22 inst/dpcReport/dpcr.bib | 118 inst/dpcReport/input_file1.md | 36 inst/dpcReport/input_file2.md | 6 inst/dpcReport/plot_panel/plot_panel.R | 24 inst/dpcReport/plot_panel/plot_panel0.md | 4 inst/dpcReport/plot_panel/plot_panel1.md | 10 inst/dpcReport/plot_panel/plot_panel2.md | 2 inst/dpcReport/plot_panel/subpanel_summary.R | 34 inst/dpcReport/plot_panel/test_panel.R | 14 inst/dpcReport/prob_distr/get_kn.R | 20 inst/dpcReport/prob_distr/plot_density.R | 28 inst/dpcReport/prob_distr/prob_distr1.md | 6 inst/dpcReport/prob_distr/prob_distr2.md | 16 inst/dpcReport/prob_distr/prob_distr3.md | 10 inst/dpcReport/prob_distr/prob_distr4.md | 24 inst/dpcReport/prob_distr/single_run_moments.R | 6 inst/dpcReport/r_code_gen.R | 244 inst/dpcReport/report.css | 214 inst/dpcReport/report_template.Rmd | 334 inst/dpcReport/server.R | 1138 +- inst/dpcReport/server_data.R | 216 inst/dpcReport/summary_plots/data_summary_scatterchart1.md | 10 inst/dpcReport/summary_plots/data_summary_scatterchart2.md | 6 inst/dpcReport/summary_plots/summary_exprep_plot.R | 28 inst/dpcReport/summary_plots/summary_plot.R | 22 inst/dpcReport/test_counts/test_counts1.md | 10 inst/dpcReport/test_counts/test_counts2.md | 10 inst/dpcReport/test_counts/test_counts3.md | 2 inst/dpcReport/test_counts/test_counts_group.R | 8 inst/dpcReport/test_counts/test_counts_plot.R | 48 inst/dpcReport/test_counts/test_counts_res.R | 16 inst/dpcReport/ui.R | 264 inst/dpcr_density_gui/server.R | 146 inst/dpcr_density_gui/ui.R | 48 inst/test_counts_gui/readme.md | 20 inst/test_counts_gui/server.R | 92 inst/test_counts_gui/ui.R | 54 man/BioradCNV.Rd |only man/White.Rd | 186 man/adpcr-class.Rd | 114 man/adpcr2panel.Rd | 98 man/adpcr2ppp.Rd | 124 man/analyze_pooled.Rd |only man/binarize.Rd | 72 man/bind_dpcr-methods.Rd | 132 man/bioamp.Rd | 106 man/calc_coordinates.Rd | 64 man/compare_dens.Rd | 74 man/count_test-class.Rd | 134 man/create_dpcr.Rd | 178 man/dPCRmethyl.Rd | 50 man/ddpcr-class.Rd | 86 man/dpcR-package.Rd | 122 man/dpcReport.Rd | 40 man/dpcr-class.Rd | 116 man/dpcr_density.Rd | 152 man/dpcr_density_gui.Rd | 46 man/dpcr_density_table.Rd | 110 man/extract_dpcr.Rd | 120 man/limit_cq.Rd | 198 man/many_peaks.Rd | 46 man/moments-methods.Rd | 116 man/num2int.Rd | 44 man/pds.Rd | 184 man/pds_raw.Rd | 274 man/plot.qdpcr.Rd | 88 man/plot_panel.Rd | 238 man/plot_vic_fam.Rd | 148 man/qdpcr-class.Rd | 66 man/qpcr2pp.Rd | 222 man/qpcr_analyser.Rd | 228 man/read_BioMark.Rd | 60 man/read_QX100.Rd | 56 man/read_dpcr.Rd | 80 man/read_raw.Rd | 64 man/rename_dpcr.Rd | 44 man/rtadpcr-class.Rd | 76 man/show-methods.Rd | 80 man/sim_adpcr.Rd | 234 man/sim_ddpcr.Rd | 176 man/six_panels.Rd | 48 man/summary-methods.Rd | 188 man/test_counts.Rd | 175 man/test_counts_gui.Rd | 46 man/test_panel.Rd | 164 man/test_peaks.Rd | 180 man/test_ratio.Rd | 204 vignettes/dpcr.bib | 7114 ++++++------- vignettes/overview.Rmd | 898 - 171 files changed, 15341 insertions(+), 15251 deletions(-)
Title: Vector Generalized Linear and Additive Models
Description: An implementation of about 6 major classes of
statistical regression models. At the heart of it are the
vector generalized linear and additive model (VGLM/VGAM)
classes, and the book "Vector Generalized Linear and
Additive Models: With an Implementation in R" (Yee, 2015)
gives details of the statistical framework and VGAM package.
Currently only fixed-effects models are implemented,
i.e., no random-effects models. Many (150+) models and
distributions are estimated by maximum likelihood estimation
(MLE) or penalized MLE, using Fisher scoring. VGLMs can be
loosely thought of as multivariate GLMs. VGAMs are data-driven
VGLMs (i.e., with smoothing). The other classes are RR-VGLMs
(reduced-rank VGLMs), quadratic RR-VGLMs, reduced-rank VGAMs,
RCIMs (row-column interaction models)---these classes perform
constrained and unconstrained quadratic ordination (CQO/UQO)
models in ecology, as well as constrained additive ordination
(CAO). Note that these functions are subject to change;
see the NEWS and ChangeLog files for latest changes.
Author: Thomas W. Yee <t.yee@auckland.ac.nz>
Maintainer: Thomas Yee <t.yee@auckland.ac.nz>
Diff between VGAM versions 1.0-0 dated 2015-10-29 and 1.0-1 dated 2016-03-15
VGAM-1.0-0/VGAM/man/expint.Rd |only VGAM-1.0-0/VGAM/man/log1pexp.Rd |only VGAM-1.0-1/VGAM/DESCRIPTION | 8 VGAM-1.0-1/VGAM/MD5 | 414 ++-- VGAM-1.0-1/VGAM/NAMESPACE | 33 VGAM-1.0-1/VGAM/NEWS | 103 + VGAM-1.0-1/VGAM/R/aamethods.q | 66 VGAM-1.0-1/VGAM/R/calibrate.q | 4 VGAM-1.0-1/VGAM/R/cao.R | 2 VGAM-1.0-1/VGAM/R/cao.fit.q | 10 VGAM-1.0-1/VGAM/R/coef.vlm.q | 31 VGAM-1.0-1/VGAM/R/cqo.R | 2 VGAM-1.0-1/VGAM/R/family.actuary.R | 412 ++-- VGAM-1.0-1/VGAM/R/family.aunivariate.R | 164 + VGAM-1.0-1/VGAM/R/family.basics.R | 126 + VGAM-1.0-1/VGAM/R/family.binomial.R | 242 ++ VGAM-1.0-1/VGAM/R/family.bivariate.R | 301 +-- VGAM-1.0-1/VGAM/R/family.categorical.R | 1105 ++++++++++- VGAM-1.0-1/VGAM/R/family.censored.R | 163 - VGAM-1.0-1/VGAM/R/family.circular.R | 153 - VGAM-1.0-1/VGAM/R/family.exp.R | 20 VGAM-1.0-1/VGAM/R/family.extremes.R | 283 ++ VGAM-1.0-1/VGAM/R/family.genetic.R | 29 VGAM-1.0-1/VGAM/R/family.glmgam.R | 131 - VGAM-1.0-1/VGAM/R/family.loglin.R | 49 VGAM-1.0-1/VGAM/R/family.math.R | 96 VGAM-1.0-1/VGAM/R/family.mixture.R | 265 +- VGAM-1.0-1/VGAM/R/family.nonlinear.R | 38 VGAM-1.0-1/VGAM/R/family.normal.R | 204 +- VGAM-1.0-1/VGAM/R/family.others.R | 525 ++++- VGAM-1.0-1/VGAM/R/family.positive.R | 763 +++++-- VGAM-1.0-1/VGAM/R/family.qreg.R | 307 ++- VGAM-1.0-1/VGAM/R/family.rcim.R | 3 VGAM-1.0-1/VGAM/R/family.rcqo.R | 2 VGAM-1.0-1/VGAM/R/family.robust.R | 30 VGAM-1.0-1/VGAM/R/family.rrr.R | 14 VGAM-1.0-1/VGAM/R/family.sur.R | 5 VGAM-1.0-1/VGAM/R/family.survival.R | 60 VGAM-1.0-1/VGAM/R/family.ts.R | 95 VGAM-1.0-1/VGAM/R/family.univariate.R | 1935 +++++++++++-------- VGAM-1.0-1/VGAM/R/family.zeroinf.R | 2636 ++++++++++++++++----------- VGAM-1.0-1/VGAM/R/links.q | 79 VGAM-1.0-1/VGAM/R/lrwaldtest.R | 6 VGAM-1.0-1/VGAM/R/mux.q | 8 VGAM-1.0-1/VGAM/R/plot.vglm.q | 2 VGAM-1.0-1/VGAM/R/predict.vglm.q | 98 - VGAM-1.0-1/VGAM/R/predict.vlm.q | 14 VGAM-1.0-1/VGAM/R/print.vglm.q | 27 VGAM-1.0-1/VGAM/R/qtplot.q | 8 VGAM-1.0-1/VGAM/R/residuals.vlm.q | 4 VGAM-1.0-1/VGAM/R/rrvglm.fit.q | 2 VGAM-1.0-1/VGAM/R/summary.vglm.q | 166 + VGAM-1.0-1/VGAM/R/summary.vlm.q | 5 VGAM-1.0-1/VGAM/R/vgam.control.q | 2 VGAM-1.0-1/VGAM/R/vglm.R | 1 VGAM-1.0-1/VGAM/R/vglm.control.q | 9 VGAM-1.0-1/VGAM/R/vglm.fit.q | 75 VGAM-1.0-1/VGAM/R/vlm.wfit.q | 2 VGAM-1.0-1/VGAM/R/vsmooth.spline.q | 6 VGAM-1.0-1/VGAM/build/vignette.rds |binary VGAM-1.0-1/VGAM/data/Huggins89.t1.rda |binary VGAM-1.0-1/VGAM/data/Huggins89table1.rda |binary VGAM-1.0-1/VGAM/data/alclevels.rda |binary VGAM-1.0-1/VGAM/data/alcoff.rda |binary VGAM-1.0-1/VGAM/data/auuc.rda |binary VGAM-1.0-1/VGAM/data/backPain.rda |binary VGAM-1.0-1/VGAM/data/beggs.rda |binary VGAM-1.0-1/VGAM/data/car.all.rda |binary VGAM-1.0-1/VGAM/data/cfibrosis.rda |binary VGAM-1.0-1/VGAM/data/corbet.rda |binary VGAM-1.0-1/VGAM/data/crashbc.rda |binary VGAM-1.0-1/VGAM/data/crashf.rda |binary VGAM-1.0-1/VGAM/data/crashi.rda |binary VGAM-1.0-1/VGAM/data/crashmc.rda |binary VGAM-1.0-1/VGAM/data/crashp.rda |binary VGAM-1.0-1/VGAM/data/crashtr.rda |binary VGAM-1.0-1/VGAM/data/deermice.rda |binary VGAM-1.0-1/VGAM/data/ducklings.rda |binary VGAM-1.0-1/VGAM/data/finney44.rda |binary VGAM-1.0-1/VGAM/data/flourbeetle.rda |binary VGAM-1.0-1/VGAM/data/hspider.rda |binary VGAM-1.0-1/VGAM/data/lakeO.rda |binary VGAM-1.0-1/VGAM/data/leukemia.rda |binary VGAM-1.0-1/VGAM/data/marital.nz.rda |binary VGAM-1.0-1/VGAM/data/melbmaxtemp.rda |binary VGAM-1.0-1/VGAM/data/pneumo.rda |binary VGAM-1.0-1/VGAM/data/prinia.rda |binary VGAM-1.0-1/VGAM/data/ruge.rda |binary VGAM-1.0-1/VGAM/data/toxop.rda |binary VGAM-1.0-1/VGAM/data/venice.rda |binary VGAM-1.0-1/VGAM/data/venice90.rda |binary VGAM-1.0-1/VGAM/data/wine.rda |binary VGAM-1.0-1/VGAM/inst/doc/categoricalVGAM.pdf |binary VGAM-1.0-1/VGAM/inst/doc/crVGAM.pdf |binary VGAM-1.0-1/VGAM/man/AR1.Rd | 52 VGAM-1.0-1/VGAM/man/CommonVGAMffArguments.Rd | 78 VGAM-1.0-1/VGAM/man/UtilitiesVGAM.Rd |only VGAM-1.0-1/VGAM/man/acat.Rd | 3 VGAM-1.0-1/VGAM/man/alaplace3.Rd | 4 VGAM-1.0-1/VGAM/man/betaII.Rd | 3 VGAM-1.0-1/VGAM/man/betaR.Rd | 4 VGAM-1.0-1/VGAM/man/betabinomUC.Rd | 81 VGAM-1.0-1/VGAM/man/betabinomial.Rd | 10 VGAM-1.0-1/VGAM/man/betabinomialff.Rd | 4 VGAM-1.0-1/VGAM/man/betaff.Rd | 1 VGAM-1.0-1/VGAM/man/bigamma.mckay.Rd | 2 VGAM-1.0-1/VGAM/man/bilogistic.Rd | 3 VGAM-1.0-1/VGAM/man/binom2.or.Rd | 7 VGAM-1.0-1/VGAM/man/binom2.rho.Rd | 37 VGAM-1.0-1/VGAM/man/binormal.Rd | 2 VGAM-1.0-1/VGAM/man/bisa.Rd | 17 VGAM-1.0-1/VGAM/man/bistudentt.Rd | 2 VGAM-1.0-1/VGAM/man/cauchy.Rd | 4 VGAM-1.0-1/VGAM/man/cens.gumbel.Rd | 4 VGAM-1.0-1/VGAM/man/cens.normal.Rd | 14 VGAM-1.0-1/VGAM/man/cloglog.Rd | 1 VGAM-1.0-1/VGAM/man/coefvgam.Rd |only VGAM-1.0-1/VGAM/man/coefvlm.Rd | 3 VGAM-1.0-1/VGAM/man/cratio.Rd | 12 VGAM-1.0-1/VGAM/man/dagum.Rd | 3 VGAM-1.0-1/VGAM/man/double.cens.normal.Rd | 8 VGAM-1.0-1/VGAM/man/double.expbinomial.Rd | 10 VGAM-1.0-1/VGAM/man/expint3.Rd |only VGAM-1.0-1/VGAM/man/fisk.Rd | 3 VGAM-1.0-1/VGAM/man/fittedvlm.Rd | 2 VGAM-1.0-1/VGAM/man/freund61.Rd | 5 VGAM-1.0-1/VGAM/man/gamma2.Rd | 23 VGAM-1.0-1/VGAM/man/gammaR.Rd | 3 VGAM-1.0-1/VGAM/man/genbetaII.Rd | 11 VGAM-1.0-1/VGAM/man/gengamma.Rd | 12 VGAM-1.0-1/VGAM/man/genpoisson.Rd | 3 VGAM-1.0-1/VGAM/man/geometric.Rd | 2 VGAM-1.0-1/VGAM/man/gev.Rd | 13 VGAM-1.0-1/VGAM/man/gpd.Rd | 4 VGAM-1.0-1/VGAM/man/gumbel.Rd | 4 VGAM-1.0-1/VGAM/man/gumbelII.Rd | 3 VGAM-1.0-1/VGAM/man/huber.Rd | 4 VGAM-1.0-1/VGAM/man/inv.gaussianff.Rd | 2 VGAM-1.0-1/VGAM/man/inv.lomax.Rd | 6 VGAM-1.0-1/VGAM/man/inv.paralogistic.Rd | 2 VGAM-1.0-1/VGAM/man/laplace.Rd | 4 VGAM-1.0-1/VGAM/man/lerch.Rd | 3 VGAM-1.0-1/VGAM/man/levy.Rd | 5 VGAM-1.0-1/VGAM/man/lgammaff.Rd | 3 VGAM-1.0-1/VGAM/man/lino.Rd | 4 VGAM-1.0-1/VGAM/man/lms.bcg.Rd | 2 VGAM-1.0-1/VGAM/man/lms.bcn.Rd | 9 VGAM-1.0-1/VGAM/man/lms.yjn.Rd | 4 VGAM-1.0-1/VGAM/man/log1mexp.Rd |only VGAM-1.0-1/VGAM/man/logistic.Rd | 7 VGAM-1.0-1/VGAM/man/logit.Rd | 2 VGAM-1.0-1/VGAM/man/logitoffsetlink.Rd |only VGAM-1.0-1/VGAM/man/loglinb2.Rd | 11 VGAM-1.0-1/VGAM/man/loglinb3.Rd | 8 VGAM-1.0-1/VGAM/man/lognormal.Rd | 8 VGAM-1.0-1/VGAM/man/lomax.Rd | 2 VGAM-1.0-1/VGAM/man/makeham.Rd | 1 VGAM-1.0-1/VGAM/man/margeff.Rd | 94 VGAM-1.0-1/VGAM/man/mccullagh89.Rd | 6 VGAM-1.0-1/VGAM/man/micmen.Rd | 16 VGAM-1.0-1/VGAM/man/mix2exp.Rd | 2 VGAM-1.0-1/VGAM/man/mix2normal.Rd | 7 VGAM-1.0-1/VGAM/man/mix2poisson.Rd | 2 VGAM-1.0-1/VGAM/man/multinomial.Rd | 3 VGAM-1.0-1/VGAM/man/nbcanlink.Rd | 10 VGAM-1.0-1/VGAM/man/negbinomial.Rd | 198 +- VGAM-1.0-1/VGAM/man/negbinomial.size.Rd | 2 VGAM-1.0-1/VGAM/man/normal.vcm.Rd | 5 VGAM-1.0-1/VGAM/man/notdocumentedyet.Rd | 31 VGAM-1.0-1/VGAM/man/ozibetaUC.Rd |only VGAM-1.0-1/VGAM/man/paralogistic.Rd | 4 VGAM-1.0-1/VGAM/man/pgamma.deriv.Rd | 3 VGAM-1.0-1/VGAM/man/poissonff.Rd | 2 VGAM-1.0-1/VGAM/man/posnegbinomial.Rd | 95 VGAM-1.0-1/VGAM/man/posnormal.Rd | 4 VGAM-1.0-1/VGAM/man/pospoisson.Rd | 11 VGAM-1.0-1/VGAM/man/prentice74.Rd | 7 VGAM-1.0-1/VGAM/man/quasibinomialff.Rd | 3 VGAM-1.0-1/VGAM/man/quasipoissonff.Rd | 5 VGAM-1.0-1/VGAM/man/rec.normal.Rd | 3 VGAM-1.0-1/VGAM/man/riceff.Rd | 4 VGAM-1.0-1/VGAM/man/sc.studentt2.Rd | 2 VGAM-1.0-1/VGAM/man/simplex.Rd | 7 VGAM-1.0-1/VGAM/man/sinmad.Rd | 3 VGAM-1.0-1/VGAM/man/skellam.Rd | 2 VGAM-1.0-1/VGAM/man/slash.Rd | 3 VGAM-1.0-1/VGAM/man/sratio.Rd | 4 VGAM-1.0-1/VGAM/man/studentt.Rd | 4 VGAM-1.0-1/VGAM/man/summaryvglm.Rd | 20 VGAM-1.0-1/VGAM/man/tikuv.Rd | 10 VGAM-1.0-1/VGAM/man/tobit.Rd | 6 VGAM-1.0-1/VGAM/man/truncweibull.Rd | 6 VGAM-1.0-1/VGAM/man/undocumented-methods.Rd | 44 VGAM-1.0-1/VGAM/man/uninormal.Rd | 2 VGAM-1.0-1/VGAM/man/vglmff-class.Rd | 10 VGAM-1.0-1/VGAM/man/vonmises.Rd | 5 VGAM-1.0-1/VGAM/man/weibull.mean.Rd | 2 VGAM-1.0-1/VGAM/man/weibullR.Rd | 3 VGAM-1.0-1/VGAM/man/yip88.Rd | 10 VGAM-1.0-1/VGAM/man/zabinomial.Rd | 17 VGAM-1.0-1/VGAM/man/zageometric.Rd | 6 VGAM-1.0-1/VGAM/man/zanegbinomial.Rd | 74 VGAM-1.0-1/VGAM/man/zapoisson.Rd | 31 VGAM-1.0-1/VGAM/man/zero.Rd | 13 VGAM-1.0-1/VGAM/man/zeta.Rd | 11 VGAM-1.0-1/VGAM/man/zetaff.Rd | 2 VGAM-1.0-1/VGAM/man/zibinomial.Rd | 16 VGAM-1.0-1/VGAM/man/zigeometric.Rd | 6 VGAM-1.0-1/VGAM/man/zinegbinomial.Rd | 137 + VGAM-1.0-1/VGAM/man/zipebcom.Rd | 2 VGAM-1.0-1/VGAM/man/zipoisson.Rd | 43 VGAM-1.0-1/VGAM/src/tyeepolygamma3.c | 52 212 files changed, 9011 insertions(+), 3946 deletions(-)
Title: Convert R Markdown Files to DataCamp Light HTML Files
Description: DataCamp Light (<https://github.com/datacamp/datacamp-light>) is a light-weight implementation of the DataCamp UI,
that allows you to embed interactive exercises inside HTML documents. The 'tutorial' package makes it easy to create these
HTML files from R Markdown files. A wrapper around the 'rmarkdown' package, 'tutorial' pre-detects code chunks with the 'ex' and 'type'
properties, and replaces the chunks with DataCamp Light readable chunks in the resulting HTML file.
Author: Filip Schouwenaars
Maintainer: Filip Schouwenaars <filip@datacamp.com>
Diff between tutorial versions 0.2.1 dated 2016-03-14 and 0.2.2 dated 2016-03-15
DESCRIPTION | 8 +++++--- MD5 | 4 ++-- README.md | 1 + 3 files changed, 8 insertions(+), 5 deletions(-)
Title: Calculate Agreement or Consensus in Ordered Rating Scales
Description: Calculate agreement or consensus in ordered rating scales. The package implements van der Eijk's (2001) measure of agreement A, which can be used to describe agreement, consensus, or polarization among respondents. It also implements measures of consensus (dispersion) by Leik, Tatsle and Wierman, Blair and Lacy, Kvalseth, Berry and Mielke, and Garcia-Montalvo and Reynal-Querol. Furthermore, an implementation of Galtungs AJUS-system is provided to classify distributions, as well as a function to identify the position of multiple modes.
Author: Didier Ruedin
Maintainer: Didier Ruedin <didier.ruedin@wolfson.oxon.org>
Diff between agrmt versions 1.39.3 dated 2015-12-07 and 1.40.1 dated 2016-03-15
DESCRIPTION | 14 - MD5 | 21 - NEWS |only R/MRQ.R | 2 build/vignette.rds |binary inst/doc/agrmt.R | 38 +-- inst/doc/agrmt.Rnw | 580 ++++++++++++++++++++++++++++------------------------ inst/doc/agrmt.pdf |binary man/MRQ.Rd | 17 + man/consensus.Rd | 2 vignettes/agrmt.Rnw | 580 ++++++++++++++++++++++++++++------------------------ vignettes/agrmt.bib | 96 ++++++-- 12 files changed, 755 insertions(+), 595 deletions(-)
Title: Optimization of Sample Configurations using Spatial Simulated
Annealing
Description: Methods to optimize spatial sample configurations using spatial simulated annealing. Multiple
objective functions are implemented for various purposes, such as variogram estimation, spatial trend
estimation, and spatial interpolation. A general purpose spatial simulated annealing function enables the
user to define his/her own objective function.
Author: Alessandro Samuel-Rosa [aut, cre],
Lucia Helena Cunha dos Anjos [ths],
Gustavo de Mattos Vasques [ths],
Gerard B M Heuvelink [ths],
Edzer Pebesma [ctb],
Jon Skoien [ctb],
Joshua French [ctb],
Pierre Roudier [ctb],
Dick Brus [ctb],
Murray Lark [ctb]
Maintainer: Alessandro Samuel-Rosa <alessandrosamuelrosa@gmail.com>
Diff between spsann versions 1.0-2 dated 2015-10-25 and 2.0-0 dated 2016-03-15
spsann-1.0-2/spsann/man/spJitterFinite.Rd |only spsann-2.0-0/spsann/DESCRIPTION | 53 -- spsann-2.0-0/spsann/MD5 | 90 ++-- spsann-2.0-0/spsann/NAMESPACE | 8 spsann-2.0-0/spsann/NEWS.md |only spsann-2.0-0/spsann/R/AAA.R | 11 spsann-2.0-0/spsann/R/SPSANNtools.R | 111 ++--- spsann-2.0-0/spsann/R/ZZZ.R |only spsann-2.0-0/spsann/R/check-first-chain.R |only spsann-2.0-0/spsann/R/check-spsann-arguments.R | 46 -- spsann-2.0-0/spsann/R/check-suggests.R | 3 spsann-2.0-0/spsann/R/minmaxPareto.R |only spsann-2.0-0/spsann/R/optimACDC.R | 408 ++++++++---------- spsann-2.0-0/spsann/R/optimCLHS.R | 394 ++++++++--------- spsann-2.0-0/spsann/R/optimCORR.R | 315 +++++++------- spsann-2.0-0/spsann/R/optimDIST.R | 273 +++++++----- spsann-2.0-0/spsann/R/optimMKV.R | 316 +++++++------- spsann-2.0-0/spsann/R/optimMSSD.R | 268 ++++++------ spsann-2.0-0/spsann/R/optimPPL.R | 389 ++++++++++------- spsann-2.0-0/spsann/R/optimSPAN.R | 448 ++++++++++---------- spsann-2.0-0/spsann/R/optimUSER.R | 214 ++++----- spsann-2.0-0/spsann/R/plot-and-jitter.R | 24 - spsann-2.0-0/spsann/R/plot-method.R |only spsann-2.0-0/spsann/R/plotting-options.R | 6 spsann-2.0-0/spsann/R/prepare-acdc-covars.R | 7 spsann-2.0-0/spsann/R/prepare-jittering.R | 34 - spsann-2.0-0/spsann/R/prepare-output.R | 66 ++ spsann-2.0-0/spsann/R/prepare-points.R | 27 - spsann-2.0-0/spsann/R/scheduleSPSANN.R |only spsann-2.0-0/spsann/R/set-progress.R |only spsann-2.0-0/spsann/R/spJitter.R | 195 ++++++-- spsann-2.0-0/spsann/R/spsann.R | 166 ++++--- spsann-2.0-0/spsann/R/update-progress.R |only spsann-2.0-0/spsann/README.md | 2 spsann-2.0-0/spsann/build |only spsann-2.0-0/spsann/inst |only spsann-2.0-0/spsann/man/SPSANNtools.Rd | 18 spsann-2.0-0/spsann/man/minmaxPareto.Rd |only spsann-2.0-0/spsann/man/optimACDC.Rd | 479 +++++---------------- spsann-2.0-0/spsann/man/optimCLHS.Rd | 382 +++++------------ spsann-2.0-0/spsann/man/optimCORR.Rd | 400 ++++-------------- spsann-2.0-0/spsann/man/optimDIST.Rd | 427 ++++--------------- spsann-2.0-0/spsann/man/optimMKV.Rd | 352 +++------------ spsann-2.0-0/spsann/man/optimMSSD.Rd | 331 +++----------- spsann-2.0-0/spsann/man/optimPPL.Rd | 455 ++++++-------------- spsann-2.0-0/spsann/man/optimSPAN.Rd | 553 +++++-------------------- spsann-2.0-0/spsann/man/optimUSER.Rd | 304 ++----------- spsann-2.0-0/spsann/man/plot-method.Rd |only spsann-2.0-0/spsann/man/scheduleSPSANN.Rd |only spsann-2.0-0/spsann/man/spJitter.Rd |only spsann-2.0-0/spsann/man/spsann-package.Rd | 163 ++++--- spsann-2.0-0/spsann/src/spJitterCpp.cpp | 2 spsann-2.0-0/spsann/vignettes |only 53 files changed, 3146 insertions(+), 4594 deletions(-)
Title: Numerical Estimation of Sparse Hessians
Description: Estimates Hessian of a scalar-valued function, and returns it
in a sparse Matrix format. The sparsity pattern must be known in advance. The
algorithm is especially efficient for hierarchical models with a large number of
heterogeneous units.
Author: Michael Braun [aut, cre, cph]
Maintainer: Michael Braun <braunm@smu.edu>
Diff between sparseHessianFD versions 0.2.0 dated 2015-02-04 and 0.3.0 dated 2016-03-15
sparseHessianFD-0.2.0/sparseHessianFD/LICENSE |only sparseHessianFD-0.2.0/sparseHessianFD/R/sparseHessianFD-new.R |only sparseHessianFD-0.2.0/sparseHessianFD/inst/Rfunc_old.cpp |only sparseHessianFD-0.2.0/sparseHessianFD/inst/doc/sparseHessianFD.Rmd |only sparseHessianFD-0.2.0/sparseHessianFD/inst/doc/sparseHessianFD.html |only sparseHessianFD-0.2.0/sparseHessianFD/inst/examples |only sparseHessianFD-0.2.0/sparseHessianFD/inst/include |only sparseHessianFD-0.2.0/sparseHessianFD/inst/misc |only sparseHessianFD-0.2.0/sparseHessianFD/man/Coord.to.Pattern.Matrix.Rd |only sparseHessianFD-0.2.0/sparseHessianFD/man/sparseHessianFD-deprecated.Rd |only sparseHessianFD-0.2.0/sparseHessianFD/man/sparseHessianFD.new.Rd |only sparseHessianFD-0.2.0/sparseHessianFD/src/FDHS-DSSM.c |only sparseHessianFD-0.2.0/sparseHessianFD/src/rcpp_module.cpp |only sparseHessianFD-0.2.0/sparseHessianFD/vignettes/sparseHessianFD.Rmd |only sparseHessianFD-0.3.0/sparseHessianFD/DESCRIPTION | 40 - sparseHessianFD-0.3.0/sparseHessianFD/MD5 | 81 +-- sparseHessianFD-0.3.0/sparseHessianFD/NAMESPACE | 4 sparseHessianFD-0.3.0/sparseHessianFD/NEWS | 30 + sparseHessianFD-0.3.0/sparseHessianFD/NEWS.md |only sparseHessianFD-0.3.0/sparseHessianFD/R/RcppExports.R |only sparseHessianFD-0.3.0/sparseHessianFD/R/binary-data.R | 32 + sparseHessianFD-0.3.0/sparseHessianFD/R/binary.R | 83 +-- sparseHessianFD-0.3.0/sparseHessianFD/R/coloring.R |only sparseHessianFD-0.3.0/sparseHessianFD/R/deprecated.R | 87 ++- sparseHessianFD-0.3.0/sparseHessianFD/R/matrices.R | 249 +++++++-- sparseHessianFD-0.3.0/sparseHessianFD/R/sparseHessianFD-class.R | 267 ++++++++-- sparseHessianFD-0.3.0/sparseHessianFD/R/sparseHessianFD.R | 37 - sparseHessianFD-0.3.0/sparseHessianFD/build/vignette.rds |binary sparseHessianFD-0.3.0/sparseHessianFD/data/binary.rda |binary sparseHessianFD-0.3.0/sparseHessianFD/data/binary_large.rda |only sparseHessianFD-0.3.0/sparseHessianFD/data/binary_small.rda |only sparseHessianFD-0.3.0/sparseHessianFD/data/binary_super.rda |only sparseHessianFD-0.3.0/sparseHessianFD/inst/CITATION | 3 sparseHessianFD-0.3.0/sparseHessianFD/inst/doc/sparseHessianFD.R | 116 ++-- sparseHessianFD-0.3.0/sparseHessianFD/inst/doc/sparseHessianFD.Rnw |only sparseHessianFD-0.3.0/sparseHessianFD/inst/doc/sparseHessianFD.pdf |only sparseHessianFD-0.3.0/sparseHessianFD/man/Coord.to.Pointers.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/man/Matrix.to.Coord.Rd | 34 - sparseHessianFD-0.3.0/sparseHessianFD/man/Matrix.to.Pointers.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/man/binary-data.Rd | 26 sparseHessianFD-0.3.0/sparseHessianFD/man/binary.Rd | 30 - sparseHessianFD-0.3.0/sparseHessianFD/man/coloring.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/man/deprecated.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/man/get_colors.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/man/sparseHessianFD-class.Rd | 111 +++- sparseHessianFD-0.3.0/sparseHessianFD/man/sparseHessianFD-package.Rd | 47 - sparseHessianFD-0.3.0/sparseHessianFD/man/subst.Rd |only sparseHessianFD-0.3.0/sparseHessianFD/src/Makevars | 4 sparseHessianFD-0.3.0/sparseHessianFD/src/Makevars.win | 8 sparseHessianFD-0.3.0/sparseHessianFD/src/RcppExports.cpp |only sparseHessianFD-0.3.0/sparseHessianFD/src/color.cpp |only sparseHessianFD-0.3.0/sparseHessianFD/src/subst.cpp |only sparseHessianFD-0.3.0/sparseHessianFD/tests/testthat/test_binary.R | 101 +-- sparseHessianFD-0.3.0/sparseHessianFD/tests/testthat/test_mat2.R |only sparseHessianFD-0.3.0/sparseHessianFD/tests/testthat/test_matrices.R | 127 +++- sparseHessianFD-0.3.0/sparseHessianFD/vignettes/fig_timings.pdf |only sparseHessianFD-0.3.0/sparseHessianFD/vignettes/sparseHessianFD.Rnw |only sparseHessianFD-0.3.0/sparseHessianFD/vignettes/sparseHessianFD.bib |only sparseHessianFD-0.3.0/sparseHessianFD/vignettes/timings.pdf |only 59 files changed, 1092 insertions(+), 425 deletions(-)
More information about sparseHessianFD at CRAN
Permanent link
Title: Multichannel Wavelet Deconvolution with Additive Long Memory
Noise
Description: Computes the Wavelet deconvolution estimate of a common signal
present in multiple channels that have possible different levels of blur
and long memory additive error.
Author: Justin Rory Wishart
Maintainer: Justin Rory Wishart <justin.wishart@mq.edu.au>
Diff between mwaved versions 1.1.1 dated 2015-01-07 and 1.1.2 dated 2016-03-15
DESCRIPTION | 11 MD5 | 68 +- NAMESPACE | 19 R/RcppExports.R |only R/functions.R | 1210 +++++++++++++++++++++++----------------------- R/makeFunctions.R | 1 build/vignette.rds |binary cleanup | 2 inst/doc/mWaveD.R | 578 ++++++++++----------- inst/doc/mWaveD.html | 1182 +++++++++++++++++++++++--------------------- inst/mWaveDDemo/rsconnect |only inst/mWaveDDemo/ui.R | 160 +++--- man/blurSignal.Rd | 3 man/boxcarBlur.Rd | 2 man/detectBlur.Rd | 2 man/directBlur.Rd | 2 man/gammaBlur.Rd | 2 man/mWaveDDemo.Rd | 2 man/makeSignals.Rd | 2 man/multiCoef.Rd | 2 man/multiEstimate.Rd | 5 man/multiNoise.Rd | 2 man/multiProj.Rd | 6 man/multiSigma.Rd | 3 man/multiThresh.Rd | 3 man/multiWaveD.Rd | 5 man/mwaved.Rd | 2 man/plot.mWaveD.Rd | 2 man/plot.waveletCoef.Rd | 2 man/resolutionMethod.Rd | 2 man/sigmaSNR.Rd | 4 man/summary.mWaveD.Rd | 4 man/theoreticalEta.Rd | 2 man/waveletThresh.Rd | 14 src/Makevars.win | 2 src/RcppExports.cpp | 258 ++++----- 36 files changed, 1801 insertions(+), 1763 deletions(-)
Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source
math engine for big data that computes parallel distributed
machine learning algorithms such as generalized linear models,
gradient boosting machines, random forests, and neural networks
(deep learning) within various cluster environments.
Author: Spencer Aiello, Tom Kraljevic and Petr Maj, with contributions from the
H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.6.0.8 dated 2015-11-24 and 3.8.1.3 dated 2016-03-15
h2o-3.6.0.8/h2o/man/Frame-Extract.Rd |only h2o-3.6.0.8/h2o/man/Frame.Rd |only h2o-3.6.0.8/h2o/man/as.character.Frame.Rd |only h2o-3.6.0.8/h2o/man/as.data.frame.Frame.Rd |only h2o-3.6.0.8/h2o/man/as.matrix.Frame.Rd |only h2o-3.6.0.8/h2o/man/as.vector.Rd |only h2o-3.6.0.8/h2o/man/dim.Frame.Rd |only h2o-3.6.0.8/h2o/man/dimnames.Frame.Rd |only h2o-3.6.0.8/h2o/man/h2o.startGLMJob.Rd |only h2o-3.6.0.8/h2o/man/names.Frame.Rd |only h2o-3.6.0.8/h2o/man/print.Frame.Rd |only h2o-3.6.0.8/h2o/man/range.Frame.Rd |only h2o-3.6.0.8/h2o/man/str.Frame.Rd |only h2o-3.8.1.3/h2o/DESCRIPTION | 8 h2o-3.8.1.3/h2o/MD5 | 303 +- h2o-3.8.1.3/h2o/NAMESPACE | 121 - h2o-3.8.1.3/h2o/NEWS |only h2o-3.8.1.3/h2o/R/astfun.R | 6 h2o-3.8.1.3/h2o/R/classes.R | 46 h2o-3.8.1.3/h2o/R/communication.R | 64 h2o-3.8.1.3/h2o/R/connection.R | 142 - h2o-3.8.1.3/h2o/R/constants.R | 19 h2o-3.8.1.3/h2o/R/deeplearning.R | 156 - h2o-3.8.1.3/h2o/R/export.R | 19 h2o-3.8.1.3/h2o/R/frame.R | 1144 ++++++----- h2o-3.8.1.3/h2o/R/gbm.R | 39 h2o-3.8.1.3/h2o/R/glm.R | 230 +- h2o-3.8.1.3/h2o/R/glrm.R | 108 - h2o-3.8.1.3/h2o/R/grid.R | 46 h2o-3.8.1.3/h2o/R/import.R | 11 h2o-3.8.1.3/h2o/R/kmeans.R | 23 h2o-3.8.1.3/h2o/R/kvstore.R | 42 h2o-3.8.1.3/h2o/R/models.R | 613 +++-- h2o-3.8.1.3/h2o/R/naivebayes.R | 16 h2o-3.8.1.3/h2o/R/parse.R | 14 h2o-3.8.1.3/h2o/R/pca.R | 35 h2o-3.8.1.3/h2o/R/randomforest.R | 35 h2o-3.8.1.3/h2o/R/svd.R | 15 h2o-3.8.1.3/h2o/R/word2vec.R | 12 h2o-3.8.1.3/h2o/inst/branch.txt | 2 h2o-3.8.1.3/h2o/inst/buildnum.txt | 2 h2o-3.8.1.3/h2o/man/H2OClusteringModel-class.Rd | 2 h2o-3.8.1.3/h2o/man/H2OConnection-class.Rd | 2 h2o-3.8.1.3/h2o/man/H2OFrame-Extract.Rd |only h2o-3.8.1.3/h2o/man/H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/H2OGrid-class.Rd | 2 h2o-3.8.1.3/h2o/man/H2OModel-class.Rd | 2 h2o-3.8.1.3/h2o/man/Logical-or.Rd |only h2o-3.8.1.3/h2o/man/and-and.Rd |only h2o-3.8.1.3/h2o/man/apply.Rd | 6 h2o-3.8.1.3/h2o/man/as.character.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/as.data.frame.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/as.factor.Rd | 2 h2o-3.8.1.3/h2o/man/as.h2o.Rd | 4 h2o-3.8.1.3/h2o/man/as.matrix.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/as.numeric.Rd | 2 h2o-3.8.1.3/h2o/man/as.vector.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/colnames.Rd | 6 h2o-3.8.1.3/h2o/man/dim.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/dimnames.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/h2o-package.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.aic.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.anomaly.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.anyFactor.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.assign.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.auc.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.betweenss.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.biases.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.cbind.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.centers.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.centersSTD.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.centroid_stats.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.cluster_sizes.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.confusionMatrix.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.createFrame.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.cut.Rd | 8 h2o-3.8.1.3/h2o/man/h2o.day.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.dayOfWeek.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.dct.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.ddply.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.deepfeatures.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.deeplearning.Rd | 146 - h2o-3.8.1.3/h2o/man/h2o.describe.Rd |only h2o-3.8.1.3/h2o/man/h2o.downloadCSV.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.download_pojo.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.entropy.Rd |only h2o-3.8.1.3/h2o/man/h2o.exportFile.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.gainsLift.Rd |only h2o-3.8.1.3/h2o/man/h2o.gbm.Rd | 36 h2o-3.8.1.3/h2o/man/h2o.getGrid.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.getId.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.getTypes.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.giniCoef.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.glm.Rd | 52 h2o-3.8.1.3/h2o/man/h2o.glrm.Rd | 29 h2o-3.8.1.3/h2o/man/h2o.grid.Rd | 27 h2o-3.8.1.3/h2o/man/h2o.group_by.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.head.Rd | 14 h2o-3.8.1.3/h2o/man/h2o.hist.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.hit_ratio_table.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.hour.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.importFile.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.impute.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.init.Rd | 26 h2o-3.8.1.3/h2o/man/h2o.insertMissingValues.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.interaction.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.kmeans.Rd | 17 h2o-3.8.1.3/h2o/man/h2o.levels.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.logloss.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.lstrip.Rd |only h2o-3.8.1.3/h2o/man/h2o.match.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.mean.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.mean_residual_deviance.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.median.Rd | 8 h2o-3.8.1.3/h2o/man/h2o.merge.Rd | 20 h2o-3.8.1.3/h2o/man/h2o.metric.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.month.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.mse.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.nacnt.Rd |only h2o-3.8.1.3/h2o/man/h2o.naiveBayes.Rd | 11 h2o-3.8.1.3/h2o/man/h2o.nlevels.Rd |only h2o-3.8.1.3/h2o/man/h2o.no_progress.Rd |only h2o-3.8.1.3/h2o/man/h2o.null_deviance.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.null_dof.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.parseRaw.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.parseSetup.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.performance.Rd | 15 h2o-3.8.1.3/h2o/man/h2o.prcomp.Rd | 32 h2o-3.8.1.3/h2o/man/h2o.pro_substrings_words.Rd |only h2o-3.8.1.3/h2o/man/h2o.proj_archetypes.Rd |only h2o-3.8.1.3/h2o/man/h2o.quantile.Rd | 18 h2o-3.8.1.3/h2o/man/h2o.r2.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.randomForest.Rd | 33 h2o-3.8.1.3/h2o/man/h2o.rbind.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.reconstruct.Rd |only h2o-3.8.1.3/h2o/man/h2o.removeVecs.Rd | 6 h2o-3.8.1.3/h2o/man/h2o.rep_len.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.residual_deviance.Rd | 5 h2o-3.8.1.3/h2o/man/h2o.residual_dof.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.rm.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.round.Rd |only h2o-3.8.1.3/h2o/man/h2o.rstrip.Rd |only h2o-3.8.1.3/h2o/man/h2o.runif.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.scale.Rd | 8 h2o-3.8.1.3/h2o/man/h2o.scoreHistory.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.sd.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.show_progress.Rd |only h2o-3.8.1.3/h2o/man/h2o.signif.Rd |only h2o-3.8.1.3/h2o/man/h2o.splitFrame.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.substring.Rd |only h2o-3.8.1.3/h2o/man/h2o.summary.Rd | 19 h2o-3.8.1.3/h2o/man/h2o.svd.Rd | 8 h2o-3.8.1.3/h2o/man/h2o.table.Rd | 15 h2o-3.8.1.3/h2o/man/h2o.tabulate.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.tolower.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.tot_withinss.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.totss.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.toupper.Rd | 2 h2o-3.8.1.3/h2o/man/h2o.unique.Rd |only h2o-3.8.1.3/h2o/man/h2o.var.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.varimp.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.week.Rd | 10 h2o-3.8.1.3/h2o/man/h2o.weights.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.which.Rd |only h2o-3.8.1.3/h2o/man/h2o.withinss.Rd | 4 h2o-3.8.1.3/h2o/man/h2o.year.Rd | 10 h2o-3.8.1.3/h2o/man/is.character.Rd |only h2o-3.8.1.3/h2o/man/is.factor.Rd | 2 h2o-3.8.1.3/h2o/man/is.numeric.Rd | 2 h2o-3.8.1.3/h2o/man/na.omit.Rd | 8 h2o-3.8.1.3/h2o/man/names.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/predict.H2OModel.Rd | 8 h2o-3.8.1.3/h2o/man/predict_leaf_node_assignment.H2OModel.Rd |only h2o-3.8.1.3/h2o/man/print.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/range.H2OFrame.Rd |only h2o-3.8.1.3/h2o/man/str.H2OFrame.Rd |only 176 files changed, 2540 insertions(+), 1652 deletions(-)
Title: Functional Time Series Analysis
Description: Functions for visualizing, modeling, forecasting and hypothesis testing of functional time series.
Author: Rob J Hyndman and Han Lin Shang
Maintainer: Han Lin Shang <hanlin.shang@anu.edu.au>
Diff between ftsa versions 4.6 dated 2015-12-23 and 4.7 dated 2016-03-15
ftsa-4.6/ftsa/R/DataPostProc.R |only ftsa-4.6/ftsa/R/L1median2.R |only ftsa-4.6/ftsa/R/MISE.R |only ftsa-4.6/ftsa/R/ParseControlStructure.R |only ftsa-4.6/ftsa/R/ParseDevString.R |only ftsa-4.6/ftsa/R/Qn.R |only ftsa-4.6/ftsa/R/ScaleAdv.R |only ftsa-4.6/ftsa/R/aveISFE.R |only ftsa-4.6/ftsa/R/colQn.R |only ftsa-4.6/ftsa/R/hossjercroux.R |only ftsa-4.6/ftsa/R/hyman.filter.R |only ftsa-4.6/ftsa/R/isfe.fts.R |only ftsa-4.6/ftsa/R/loadSgnU.R |only ftsa-4.6/ftsa/R/matrix.rank.R |only ftsa-4.6/ftsa/R/metri.p.R |only ftsa-4.6/ftsa/R/mrobj.R |only ftsa-4.6/ftsa/R/nicerange.R |only ftsa-4.6/ftsa/R/norm.R |only ftsa-4.6/ftsa/R/norme.R |only ftsa-4.6/ftsa/R/pegelsna.R |only ftsa-4.6/ftsa/R/rapca.R |only ftsa-4.6/ftsa/R/repmat.R |only ftsa-4.6/ftsa/R/rstep.R |only ftsa-4.6/ftsa/R/rw.drift.R |only ftsa-4.6/ftsa/R/spl.coef.conv.R |only ftsa-4.6/ftsa/R/struct.forecast.R |only ftsa-4.7/ftsa/ChangeLog | 4 ftsa-4.7/ftsa/DESCRIPTION | 10 - ftsa-4.7/ftsa/MD5 | 85 +++++---- ftsa-4.7/ftsa/R/DataPostProc.r |only ftsa-4.7/ftsa/R/L1median2.r |only ftsa-4.7/ftsa/R/MISE.r |only ftsa-4.7/ftsa/R/ParseControlStructure.r |only ftsa-4.7/ftsa/R/ParseDevString.r |only ftsa-4.7/ftsa/R/Qn.r |only ftsa-4.7/ftsa/R/ScaleAdv.r |only ftsa-4.7/ftsa/R/aveISFE.r |only ftsa-4.7/ftsa/R/colQn.r |only ftsa-4.7/ftsa/R/farforecast.R | 6 ftsa-4.7/ftsa/R/hossjercroux.r |only ftsa-4.7/ftsa/R/hyman.filter.r |only ftsa-4.7/ftsa/R/isfe.fts.r |only ftsa-4.7/ftsa/R/loadSgnU.r |only ftsa-4.7/ftsa/R/matrix.rank.r |only ftsa-4.7/ftsa/R/metri.p.r |only ftsa-4.7/ftsa/R/mrobj.r |only ftsa-4.7/ftsa/R/nicerange.r |only ftsa-4.7/ftsa/R/norm.r |only ftsa-4.7/ftsa/R/norme.r |only ftsa-4.7/ftsa/R/pegelsna.r |only ftsa-4.7/ftsa/R/rapca.r |only ftsa-4.7/ftsa/R/repmat.r |only ftsa-4.7/ftsa/R/rstep.r |only ftsa-4.7/ftsa/R/rw.drift.r |only ftsa-4.7/ftsa/R/spl.coef.conv.r |only ftsa-4.7/ftsa/R/struct.forecast.r |only ftsa-4.7/ftsa/build/vignette.rds |binary ftsa-4.7/ftsa/inst/doc/ftsa.Rnw | 4 ftsa-4.7/ftsa/inst/doc/ftsa.pdf |binary ftsa-4.7/ftsa/inst/doc/ftsa_test.Rnw |only ftsa-4.7/ftsa/inst/doc/ftsa_test.pdf |only ftsa-4.7/ftsa/man/MFDM.Rd | 6 ftsa-4.7/ftsa/man/dynamic_FLR.Rd | 2 ftsa-4.7/ftsa/man/farforecast.Rd | 2 ftsa-4.7/ftsa/man/forecast.ftsm.Rd | 2 ftsa-4.7/ftsa/man/fplsr.Rd | 266 +++++++++++++++--------------- ftsa-4.7/ftsa/man/ftsa-package.Rd | 4 ftsa-4.7/ftsa/vignettes/KokoszkaShang.bib |only ftsa-4.7/ftsa/vignettes/ftsa.Rnw | 4 ftsa-4.7/ftsa/vignettes/ftsa_test.Rnw |only ftsa-4.7/ftsa/vignettes/ibm.pdf |only ftsa-4.7/ftsa/vignettes/pm10.pdf |only ftsa-4.7/ftsa/vignettes/pm10_ftsm.pdf |only 73 files changed, 204 insertions(+), 191 deletions(-)
Title: Analyzing Dichotomous Choice Contingent Valuation Data
Description: Functions for analyzing dichotomous choice contingent valuation (CV) data. It provides
functions for estimating parametric and nonparametric models for single- and double-bounded
CV data.
Author: Tomoaki Nakatani [aut, cph] (original developer),
Hideo Aizaki [aut, cre] (code patches),
Kazuo Sato [ctb] (theoretical part of the manual)
Maintainer: Hideo Aizaki <azk-r@spa.nifty.com>
Diff between DCchoice versions 0.0.13-3 dated 2015-09-15 and 0.0.14 dated 2016-03-15
DESCRIPTION | 11 - MD5 | 55 +++-- NAMESPACE | 16 + R/bootCI.R | 31 ++ R/dbchoice.R | 116 ++++------ R/krCI.R | 19 + R/kristrom.R | 11 - R/logLik.dbchoice.R |only R/logLik.sbchoice.R |only R/plot.dbchoice.R |only R/plot.sbchoice.R |only R/predict.dbchoice.R |only R/predict.sbchoice.R |only R/sbchoice.R | 131 +++++------- R/turnbull_db.R | 14 + R/turnbull_sb.R | 11 - R/update.dbchoice.R |only R/update.sbchoice.R |only R/vcov.dbchoice.R |only R/vcov.sbchoice.R |only R/wtp.R |only inst/CITATION | 38 +-- man/bootCI.Rd | 6 man/dbchoice.Rd | 522 ++++++++++++++++++++++++++---------------------- man/krCI.Rd | 6 man/kristrom.Rd | 245 +++++++++++----------- man/plot.dbchoice.Rd |only man/plot.kristrom.Rd | 76 +++--- man/plot.sbchoice.Rd |only man/predict.dbchoice.Rd |only man/predict.sbchoice.Rd |only man/sbchoice.Rd | 389 +++++++++++++++++++---------------- man/summary.kristrom.Rd | 70 +++--- man/summary.sbchoice.Rd | 154 +++++++------- man/turnbull.Rd | 5 man/update.dbchoice.Rd |only man/update.sbchoice.Rd |only 37 files changed, 1040 insertions(+), 886 deletions(-)