Title: Simulation and Analysis of Random Fields
Description: Methods for the inference on and the simulation of Gaussian fields are provided, as well as methods for the simulation of extreme value random fields.
Author: Martin Schlather [aut, cre], Alexander Malinowski [aut], Marco Oesting [aut], Daphne Boecker [aut], Kirstin Strokorb [aut], Sebastian Engelke [aut], Johannes Martini [aut], Felix Ballani [aut], Olga Moreva [aut], Jonas Auel[ctr], Peter Menck [ctr], Sebastian Gross [ctr], Ulrike Ober [ctb], Christoph Berreth [ctr], Katharina Burmeister [ctb], Juliane Manitz [ctb], Paulo Ribeiro [ctb], Richard Singleton [ctb], Ben Pfaff [ctb], R Core Team [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between RandomFields versions 3.1.48 dated 2017-04-16 and 3.1.50 dated 2017-04-17
DESCRIPTION | 6 - MD5 | 56 ++++----- R/QMath.R | 2 R/RCauto.R | 2 R/RMmodels.R | 96 ---------------- R/generatemodels.R | 4 R/rf-plots.R | 34 ++--- R/zzz.R | 2 man/QMath.Rd | 16 +- man/papers.jss14.Rd | 11 - src/Brown.cc | 8 - src/Huetchen.cc | 2 src/InternalCov.cc | 12 +- src/KeyInfo.cc | 6 - src/MLE.cc | 6 - src/QMath.cc | 291 +++++++++++++++++++++++++------------------------- src/RF.h | 44 +++++++ src/auxiliary.cc | 14 +- src/families.cc | 6 - src/gauss.cc | 14 +- src/getNset.cc | 6 - src/initNerror.cc | 130 +++++++++++----------- src/kleinkram.cc | 26 ++-- src/operator.cc | 26 ++-- src/rf_interfaces.cc | 49 ++++---- src/startGetNset.cc | 14 +- src/tbm.cc | 4 src/trend.cc | 8 - src/userinterfaces.cc | 4 29 files changed, 427 insertions(+), 472 deletions(-)
Title: Generative Mechanism Estimation in Temporal Complex Networks
Description: Statistical methods for estimating preferential attachment and node fitness generative mechanisms in temporal complex networks are provided.
Author: Thong Pham, Paul Sheridan, Hidetoshi Shimodaira
Maintainer: Thong Pham <thongpham@thongpham.net>
Diff between PAFit versions 0.9.8.3 dated 2017-03-13 and 0.9.8.8 dated 2017-04-17
PAFit-0.9.8.3/PAFit/R/GenerateNet.R |only PAFit-0.9.8.3/PAFit/R/Generate_BA.R |only PAFit-0.9.8.3/PAFit/R/Generate_BB.R |only PAFit-0.9.8.3/PAFit/R/Generate_ER.R |only PAFit-0.9.8.3/PAFit/R/Generate_fitonly.R |only PAFit-0.9.8.3/PAFit/R/GetStatistics.R |only PAFit-0.9.8.3/PAFit/R/JointEstimate.R |only PAFit-0.9.8.3/PAFit/R/OnlyA_Estimate.R |only PAFit-0.9.8.3/PAFit/R/OnlyF_Estimate.R |only PAFit-0.9.8.3/PAFit/inst/simdata |only PAFit-0.9.8.3/PAFit/man/GenerateNet.Rd |only PAFit-0.9.8.3/PAFit/man/Generate_BA.rd |only PAFit-0.9.8.3/PAFit/man/Generate_BB.rd |only PAFit-0.9.8.3/PAFit/man/Generate_ER.rd |only PAFit-0.9.8.3/PAFit/man/Generate_fitonly.rd |only PAFit-0.9.8.3/PAFit/man/GetStatistics.Rd |only PAFit-0.9.8.3/PAFit/man/JointEstimate.rd |only PAFit-0.9.8.3/PAFit/man/OnlyA_Estimate.rd |only PAFit-0.9.8.3/PAFit/man/OnlyF_Estimate.rd |only PAFit-0.9.8.3/PAFit/man/plot.PAFit_result.Rd |only PAFit-0.9.8.3/PAFit/tests/loop_PAFit.R |only PAFit-0.9.8.3/PAFit/tests/test_PAFit.R |only PAFit-0.9.8.3/PAFit/tests/test_PAFit_log_linear.R |only PAFit-0.9.8.3/PAFit/tests/test_PA_only_f.R |only PAFit-0.9.8.8/PAFit/DESCRIPTION | 13 - PAFit-0.9.8.8/PAFit/MD5 | 135 ++++++------- PAFit-0.9.8.8/PAFit/NAMESPACE | 17 - PAFit-0.9.8.8/PAFit/R/CreateDataCV.R | 6 PAFit-0.9.8.8/PAFit/R/CreateDataCV_new.R | 8 PAFit-0.9.8.8/PAFit/R/CreateDataCV_onlyA.R | 8 PAFit-0.9.8.8/PAFit/R/Jeong.R | 23 +- PAFit-0.9.8.8/PAFit/R/Newman.R | 28 +- PAFit-0.9.8.8/PAFit/R/OnlyA_CV.R | 32 +-- PAFit-0.9.8.8/PAFit/R/OnlyF_CV.R | 6 PAFit-0.9.8.8/PAFit/R/PAFit.R | 121 +++++------ PAFit-0.9.8.8/PAFit/R/generate_BA.R |only PAFit-0.9.8.8/PAFit/R/generate_BB.R |only PAFit-0.9.8.8/PAFit/R/generate_ER.R |only PAFit-0.9.8.8/PAFit/R/generate_fit_only.R |only PAFit-0.9.8.8/PAFit/R/generate_net.R |only PAFit-0.9.8.8/PAFit/R/get_statistics.R |only PAFit-0.9.8.8/PAFit/R/joint_estimate.R |only PAFit-0.9.8.8/PAFit/R/only_A_estimate.R |only PAFit-0.9.8.8/PAFit/R/only_F_estimate.R |only PAFit-0.9.8.8/PAFit/R/performCV_old.R | 16 - PAFit-0.9.8.8/PAFit/R/perform_CV_core.R | 41 ++- PAFit-0.9.8.8/PAFit/R/plot.Full_PAFit_result.R |only PAFit-0.9.8.8/PAFit/R/plot.pa_result.R | 2 PAFit-0.9.8.8/PAFit/R/print.CV_Result.R | 2 PAFit-0.9.8.8/PAFit/R/print.cv_data.R | 4 PAFit-0.9.8.8/PAFit/R/print.full_pafit_result.R |only PAFit-0.9.8.8/PAFit/R/print.pa_result.R | 4 PAFit-0.9.8.8/PAFit/R/print.pafit_data.r | 1 PAFit-0.9.8.8/PAFit/R/print.pafit_result.r | 6 PAFit-0.9.8.8/PAFit/R/summary.CV_Result.R | 2 PAFit-0.9.8.8/PAFit/R/summary.cv_data.R | 4 PAFit-0.9.8.8/PAFit/R/summary.full_pafit_result.R |only PAFit-0.9.8.8/PAFit/R/summary.pa_result.R | 4 PAFit-0.9.8.8/PAFit/R/summary.pafit_data.r | 6 PAFit-0.9.8.8/PAFit/R/summary.pafit_result.r | 7 PAFit-0.9.8.8/PAFit/build/vignette.rds |binary PAFit-0.9.8.8/PAFit/inst/CITATION | 44 ---- PAFit-0.9.8.8/PAFit/inst/NEWS.Rd | 10 PAFit-0.9.8.8/PAFit/inst/doc/Tutorial.pdf |binary PAFit-0.9.8.8/PAFit/inst/doc/Tutorial.pdf.asis | 2 PAFit-0.9.8.8/PAFit/man/ComplexNetCoauthor.rd | 19 - PAFit-0.9.8.8/PAFit/man/Jeong.rd | 16 - PAFit-0.9.8.8/PAFit/man/Newman.rd | 19 + PAFit-0.9.8.8/PAFit/man/PAFit-package.Rd | 84 ++++---- PAFit-0.9.8.8/PAFit/man/generate_BA.rd |only PAFit-0.9.8.8/PAFit/man/generate_BB.rd |only PAFit-0.9.8.8/PAFit/man/generate_ER.rd |only PAFit-0.9.8.8/PAFit/man/generate_fit_only.rd |only PAFit-0.9.8.8/PAFit/man/generate_net.Rd |only PAFit-0.9.8.8/PAFit/man/get_statistics.Rd |only PAFit-0.9.8.8/PAFit/man/joint_estimate.rd |only PAFit-0.9.8.8/PAFit/man/only_A_estimate.rd |only PAFit-0.9.8.8/PAFit/man/only_F_estimate.rd |only PAFit-0.9.8.8/PAFit/man/plot.Full_PAFit_result.Rd |only PAFit-0.9.8.8/PAFit/man/plot.PA_result.rd | 10 PAFit-0.9.8.8/PAFit/tests/loop_generate.R |only PAFit-0.9.8.8/PAFit/tests/loop_joint_estimate.R | 29 +- PAFit-0.9.8.8/PAFit/tests/test_GenerateNet_final_padding.R | 3 PAFit-0.9.8.8/PAFit/tests/test_GetStatistics_compress_2.R | 16 - PAFit-0.9.8.8/PAFit/tests/test_GetStatistics_undirected.R | 36 +-- PAFit-0.9.8.8/PAFit/tests/test_Newman_Kong.R | 14 - PAFit-0.9.8.8/PAFit/tests/test_joint_estimate.R | 13 - PAFit-0.9.8.8/PAFit/tests/test_overall.R | 59 +---- PAFit-0.9.8.8/PAFit/tests/test_true_f.R | 15 - PAFit-0.9.8.8/PAFit/tests/test_variance_s.R | 13 - PAFit-0.9.8.8/PAFit/vignettes/Tutorial.pdf.asis | 2 91 files changed, 417 insertions(+), 483 deletions(-)
Title: Analysing Remotely Sensed Forest Data
Description: Provides tools for analyzing remotely sensed forest data, including functions for detecting treetops from canopy models, outlining tree crowns and generating spatial statistics.
Author: Andrew Plowright
Maintainer: Andrew Plowright <andrew.plowright@alumni.ubc.ca>
Diff between ForestTools versions 0.1.2 dated 2017-03-20 and 0.1.4 dated 2017-04-17
DESCRIPTION | 13 ++++---- MD5 | 28 +++++++++++-------- NEWS.md | 4 ++ R/SegmentCrowns.R | 56 +++++++++++++++++++++++--------------- build/vignette.rds |binary inst/doc/inventoryAttributes.R | 7 ++-- inst/doc/inventoryAttributes.Rmd | 27 +++++++++--------- inst/doc/inventoryAttributes.html | 39 +++++++++++++------------- inst/doc/polygonalCrownMaps.R |only inst/doc/polygonalCrownMaps.Rmd |only inst/doc/polygonalCrownMaps.html |only inst/doc/treetopAnalysis.Rmd | 2 - inst/doc/treetopAnalysis.html | 18 ++++++------ man/SegmentCrowns.Rd | 24 ++++++++++++---- vignettes/osgeo_install1.png |only vignettes/osgeo_install2.png |only vignettes/polygonalCrownMaps.Rmd |only vignettes/treetopAnalysis.Rmd | 2 - 18 files changed, 130 insertions(+), 90 deletions(-)
Title: Latent Environmental & Genetic InTeraction (LEGIT) Model
Description: Constructs genotype x environment interaction (GxE) models where
G is a weighted sum of genetic variants (genetic score) and E is a weighted
sum of environments (environmental score) using the alternating optimization algorithm
by Jolicoeur-Martineau et al. (2017) <arXiv:1703.08111>. This approach has greatly
enhanced predictive power over traditional GxE models which include only a single
genetic variant and a single environmental exposure. Although this approach was
originally made for GxE modelling, it is flexible and does not require the use of
genetic and environmental variables. It can also handle more than 2 latent variables
(rather than just G and E) and 3-way interactions or more. The LEGIT model produces
highly interpretable results and is very parameter-efficient thus it can even be
used with small sample sizes (n < 250).
Author: Alexia Jolicoeur-Martineau <alexia.jolicoeur-martineau@mail.mcgill.ca>
Maintainer: Alexia Jolicoeur-Martineau <alexia.jolicoeur-martineau@mail.mcgill.ca>
Diff between LEGIT versions 1.0.3 dated 2017-04-09 and 1.0.4 dated 2017-04-17
DESCRIPTION | 27 - MD5 | 23 - NAMESPACE | 5 R/LEGIT.R | 696 ++++++++++++++++++++++++++++++++++++++++++-- inst/doc/LEGIT.html | 499 +++++++++---------------------- man/IMLEGIT.Rd |only man/IMLEGIT_cv.Rd |only man/LEGIT_cv.Rd | 4 man/example_2way.Rd | 4 man/example_3way.Rd | 6 man/example_3way_3latent.Rd |only man/longitudinal_folds.Rd | 9 man/predict.IMLEGIT.Rd |only man/predict.LEGIT.Rd | 2 man/summary.IMLEGIT.Rd |only 15 files changed, 862 insertions(+), 413 deletions(-)
Title: Serialization Interface for Large List Objects
Description: Functions to write or append a R list to a file, as well as read, remove, modify elements from it without restoring the whole list.
Author: Yuchun Zhang
Maintainer: Yuchun Zhang <yczhangvrc@gmail.com>
Diff between largeList versions 0.3.0 dated 2016-11-05 and 0.3.1 dated 2017-04-17
DESCRIPTION | 14 - MD5 | 83 ++++--- NAMESPACE | 2 R/Exports.R | 129 +++++++---- R/description.R | 2 R/operatorOverload.R | 8 build |only inst |only man/cash-.largeList.Rd | 1 man/cash-set-.largeList.Rd | 1 man/getList.Rd | 1 man/getListLength.Rd | 8 man/getListName.Rd | 8 man/isListCompressed.Rd | 8 man/largeList.Rd | 1 man/length-set-.largeList.Rd | 1 man/length.largeList.Rd | 1 man/modifyInList.Rd | 21 + man/modifyNameInList.Rd | 15 - man/names-set-.largeList.Rd | 1 man/names.largeList.Rd | 1 man/print.largeList.Rd | 1 man/readList.Rd | 25 +- man/removeFromList.Rd | 21 + man/saveList.Rd | 15 - man/sub-.largeList.Rd | 1 man/sub-sub-.largeList.Rd | 1 man/sub-subset-.largeList.Rd | 1 man/subset-.largeList.Rd | 1 src/connection.cpp | 123 +++++----- src/index_object.cpp | 18 - src/init.c |only src/large_list.h | 87 +++++-- src/list_object.cpp | 47 ++-- src/modify_remove_list.cpp | 494 +++++++++++++++++++++++-------------------- src/name_position_tuple.cpp | 22 - src/save_read_list.cpp | 358 ++++++++++++++++--------------- src/unit_object.cpp | 112 +++++---- src/utilities.cpp |only tests |only vignettes |only 41 files changed, 925 insertions(+), 708 deletions(-)
Title: Income Concentration Analysis with Complex Survey Samples
Description: Variance estimation on indicators of income concentration and
poverty using complex sample survey designs. Wrapper around the
survey package.
Author: Djalma Pessoa [aut, cre],
Anthony Damico [aut],
Guilherme Jacob [aut]
Maintainer: Djalma Pessoa <pessoad@gmail.com>
Diff between convey versions 0.1.0 dated 2016-06-24 and 0.2.0 dated 2017-04-17
convey-0.1.0/convey/build |only convey-0.1.0/convey/inst |only convey-0.1.0/convey/vignettes |only convey-0.2.0/convey/DESCRIPTION | 17 convey-0.2.0/convey/MD5 | 168 +++-- convey-0.2.0/convey/NAMESPACE | 50 + convey-0.2.0/convey/R/all_funs.R | 118 +++- convey-0.2.0/convey/R/survey_functions.R | 49 + convey-0.2.0/convey/R/svyafc.R |only convey-0.2.0/convey/R/svyafcdec.R |only convey-0.2.0/convey/R/svyamato.R |only convey-0.2.0/convey/R/svyarpr.R | 46 - convey-0.2.0/convey/R/svyarpt.R | 44 - convey-0.2.0/convey/R/svyatk.R | 34 - convey-0.2.0/convey/R/svybcc.R |only convey-0.2.0/convey/R/svybmi.R |only convey-0.2.0/convey/R/svyfgt.R | 56 + convey-0.2.0/convey/R/svygei.R | 200 +++---- convey-0.2.0/convey/R/svygeidec.R |only convey-0.2.0/convey/R/svygini.R | 19 convey-0.2.0/convey/R/svygpg.R | 7 convey-0.2.0/convey/R/svyiqalpha.R | 17 convey-0.2.0/convey/R/svyisq.R | 18 convey-0.2.0/convey/R/svyjdiv.R |only convey-0.2.0/convey/R/svyjdivdec.R |only convey-0.2.0/convey/R/svylorenz.R | 225 +++++-- convey-0.2.0/convey/R/svypoormed.R | 134 ++-- convey-0.2.0/convey/R/svyqsr.R | 51 + convey-0.2.0/convey/R/svyrenyi.R | 29 - convey-0.2.0/convey/R/svyrmir.R | 148 ++--- convey-0.2.0/convey/R/svyrmpg.R | 30 - convey-0.2.0/convey/R/svysen.R |only convey-0.2.0/convey/R/svysst.R |only convey-0.2.0/convey/R/svyzenga.R | 285 +++------- convey-0.2.0/convey/R/svyzengacurve.R |only convey-0.2.0/convey/README.md |only convey-0.2.0/convey/man/contrastinf.Rd | 7 convey-0.2.0/convey/man/convey_prep.Rd | 1 convey-0.2.0/convey/man/densfun.Rd | 1 convey-0.2.0/convey/man/h_fun.Rd | 1 convey-0.2.0/convey/man/icdf.Rd | 7 convey-0.2.0/convey/man/svyafc.Rd |only convey-0.2.0/convey/man/svyafcdec.Rd |only convey-0.2.0/convey/man/svyamato.Rd |only convey-0.2.0/convey/man/svyarpr.Rd | 32 - convey-0.2.0/convey/man/svyarpt.Rd | 31 - convey-0.2.0/convey/man/svyatk.Rd | 16 convey-0.2.0/convey/man/svybcc.Rd |only convey-0.2.0/convey/man/svybmi.Rd |only convey-0.2.0/convey/man/svyfgt.Rd | 26 convey-0.2.0/convey/man/svygei.Rd | 70 +- convey-0.2.0/convey/man/svygeidec.Rd |only convey-0.2.0/convey/man/svygini.Rd | 20 convey-0.2.0/convey/man/svygpg.Rd | 12 convey-0.2.0/convey/man/svyiqalpha.Rd | 20 convey-0.2.0/convey/man/svyisq.Rd | 21 convey-0.2.0/convey/man/svyjdiv.Rd |only convey-0.2.0/convey/man/svyjdivdec.Rd |only convey-0.2.0/convey/man/svylorenz.Rd | 20 convey-0.2.0/convey/man/svypoormed.Rd | 28 convey-0.2.0/convey/man/svyqsr.Rd | 46 - convey-0.2.0/convey/man/svyrenyi.Rd | 25 convey-0.2.0/convey/man/svyrmir.Rd | 30 - convey-0.2.0/convey/man/svyrmpg.Rd | 31 - convey-0.2.0/convey/man/svysen.Rd |only convey-0.2.0/convey/man/svysst.Rd |only convey-0.2.0/convey/man/svyzenga.Rd | 60 +- convey-0.2.0/convey/man/svyzengacurve.Rd |only convey-0.2.0/convey/tests/testthat.R | 4 convey-0.2.0/convey/tests/testthat/test-extract_renyi-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyafc.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyafcdec.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyamato-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyarpr.R | 116 +++- convey-0.2.0/convey/tests/testthat/test-extract_svyarpt.R | 145 ++++- convey-0.2.0/convey/tests/testthat/test-extract_svyatk-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svybcc.R |only convey-0.2.0/convey/tests/testthat/test-extract_svybmi.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyfgt.R | 222 +++++-- convey-0.2.0/convey/tests/testthat/test-extract_svygei-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svygeidec-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svygini.R | 122 +++- convey-0.2.0/convey/tests/testthat/test-extract_svygpg.R | 121 +++- convey-0.2.0/convey/tests/testthat/test-extract_svyiqalpha.R | 148 +++++ convey-0.2.0/convey/tests/testthat/test-extract_svyisq.R | 117 +++- convey-0.2.0/convey/tests/testthat/test-extract_svyjdiv-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyjdivdec-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svylorenz.R |only convey-0.2.0/convey/tests/testthat/test-extract_svypoormed.R | 120 +++- convey-0.2.0/convey/tests/testthat/test-extract_svyqsr.R | 123 +++- convey-0.2.0/convey/tests/testthat/test-extract_svyrmir.R | 155 +++++ convey-0.2.0/convey/tests/testthat/test-extract_svyrmpg.R | 113 +++ convey-0.2.0/convey/tests/testthat/test-extract_svysen.R |only convey-0.2.0/convey/tests/testthat/test-extract_svysst.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyzenga-pos.R |only convey-0.2.0/convey/tests/testthat/test-extract_svyzengacurve.R |only convey-0.2.0/convey/tests/testthat/test-matrix.R |only convey-0.2.0/convey/tests/testthat/test-skewed_distributions.R |only convey-0.2.0/convey/tests/testthat/test-svyarpr.R | 15 convey-0.2.0/convey/tests/testthat/test-svyarpt.R | 15 convey-0.2.0/convey/tests/testthat/test-svyatk.R | 8 convey-0.2.0/convey/tests/testthat/test-svygini.R | 19 convey-0.2.0/convey/tests/testthat/test-svypoormed.R | 19 convey-0.2.0/convey/tests/testthat/test-svyqsr.R | 14 convey-0.2.0/convey/tests/testthat/test-svyrmir.R | 10 convey-0.2.0/convey/tests/testthat/test-svyrmpg.R | 17 106 files changed, 2596 insertions(+), 1277 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: The H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.10.3.6 dated 2017-02-22 and 3.10.4.4 dated 2017-04-17
DESCRIPTION | 8 MD5 | 167 +++--- NAMESPACE | 2 R/classes.R | 3 R/communication.R | 5 R/config.R | 49 + R/connection.R | 108 ++-- R/deeplearning.R | 4 R/deepwater.R | 4 R/export.R | 30 + R/frame.R | 1029 ++++++++++++++++++++++------------------- R/gbm.R | 4 R/glm.R | 4 R/glrm.R | 4 R/grid.R | 4 R/kmeans.R | 40 - R/kvstore.R | 4 R/logging.R | 7 R/models.R | 26 - R/naivebayes.R | 4 R/pca.R | 4 R/randomforest.R | 4 R/stackedensemble.R | 4 R/svd.R | 4 R/w2vutils.R | 29 + R/word2vec.R | 30 - inst/branch.txt | 2 inst/buildnum.txt | 2 man/H2OConnection-class.Rd | 2 man/aaa.Rd | 6 man/apply.Rd | 4 man/h2o-package.Rd | 6 man/h2o.cut.Rd | 2 man/h2o.dct.Rd | 3 man/h2o.ddply.Rd | 4 man/h2o.deeplearning.Rd | 4 man/h2o.deepwater.Rd | 4 man/h2o.describe.Rd | 4 man/h2o.diff.Rd | 3 man/h2o.entropy.Rd | 8 man/h2o.filterNACols.Rd | 3 man/h2o.gbm.Rd | 4 man/h2o.getGrid.Rd | 8 man/h2o.getId.Rd | 2 man/h2o.getTypes.Rd | 2 man/h2o.glm.Rd | 4 man/h2o.glrm.Rd | 4 man/h2o.gsub.Rd | 8 man/h2o.head.Rd | 2 man/h2o.ifelse.Rd | 4 man/h2o.init.Rd | 8 man/h2o.insertMissingValues.Rd | 8 man/h2o.interaction.Rd | 2 man/h2o.kfold_column.Rd | 3 man/h2o.kmeans.Rd | 4 man/h2o.lstrip.Rd | 8 man/h2o.match.Rd | 3 man/h2o.median.Rd | 3 man/h2o.merge.Rd | 4 man/h2o.na_omit.Rd | 3 man/h2o.nacnt.Rd | 3 man/h2o.naiveBayes.Rd | 4 man/h2o.nchar.Rd | 8 man/h2o.partialPlot.Rd | 4 man/h2o.prcomp.Rd | 4 man/h2o.randomForest.Rd | 4 man/h2o.rep_len.Rd | 6 man/h2o.rstrip.Rd | 10 man/h2o.runif.Rd | 14 man/h2o.saveModelDetails.Rd |only man/h2o.splitFrame.Rd | 9 man/h2o.stackedEnsemble.Rd | 4 man/h2o.strsplit.Rd | 11 man/h2o.sub.Rd | 8 man/h2o.substring.Rd | 8 man/h2o.summary.Rd | 4 man/h2o.svd.Rd | 4 man/h2o.tokenize.Rd | 8 man/h2o.tolower.Rd | 17 man/h2o.toupper.Rd | 17 man/h2o.transform.Rd | 28 - man/h2o.trim.Rd | 8 man/h2o.unique.Rd | 3 man/h2o.which.Rd | 3 man/h2o.word2vec.Rd | 6 85 files changed, 1154 insertions(+), 763 deletions(-)
Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown" or "free") objects in R expressions
by code inspection using various strategies, e.g. conservative or liberal.
The objective of this package is to make it as simple as possible to
identify global objects for the purpose of exporting them in distributed
compute environments.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between globals versions 0.9.0 dated 2017-03-12 and 0.10.0 dated 2017-04-17
DESCRIPTION | 15 ++- MD5 | 39 +++++----- NEWS | 19 +++++ R/Globals-class.R | 63 ++++++++-------- R/cleanup.R | 11 +- R/findGlobals.R | 192 ++++++++++++++++++++++++++++++++++----------------- R/globalsOf.R | 115 +++++++++++++++++------------- R/packagesOf.R | 3 R/utils.R | 54 ++++++++------ R/walkAST.R | 33 ++++++-- R/where.R | 32 +++++--- man/globalsOf.Rd | 7 + man/walkAST.Rd | 7 + tests/Globals.R | 42 +++++------ tests/conservative.R | 39 +++++----- tests/dotdotdot.R | 72 +++++++++---------- tests/formulas.R |only tests/globalsOf.R | 186 ++++++++++++++++++++++++++----------------------- tests/liberal.R | 39 +++++----- tests/utils.R | 76 ++++++++++---------- tests/walkAST.R | 55 ++++++++------ 21 files changed, 629 insertions(+), 470 deletions(-)
Title: An Image Processing Toolkit
Description: Incorporates functions for image preprocessing, filtering and image recognition. The package takes advantage of 'RcppArmadillo' to speed up computationally intensive functions. The histogram of oriented gradients descriptor is a modification of the 'findHOGFeatures' function of the 'SimpleCV' computer vision platform and the average_hash(), dhash() and phash() functions are based on the 'ImageHash' python library.
Author: Lampros Mouselimis [aut, cre],
Sight Machine [cph] (findHOGFeatures function of the SimpleCV computer
vision platform),
Johannes Buchner [cph] (average_hash, dhash and phash functions of the
ImageHash python library)
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between OpenImageR versions 1.0.4 dated 2017-02-11 and 1.0.5 dated 2017-04-17
DESCRIPTION | 8 MD5 | 19 - NAMESPACE | 2 NEWS.md | 5 R/RcppExports.R | 4 README.md | 1 inst/doc/The_OpenImageR_package.html | 72 ++--- src/RcppExports.cpp | 12 src/hog_features.cpp | 95 +++--- src/image_hashing.cpp | 495 ++++++++++++++++++----------------- src/init.c |only 11 files changed, 390 insertions(+), 323 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: An R implementation of Ken Ludwig's popular Isoplot add-in to Microsoft Excel. Currently plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using the 'York' approach. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith' plots). Constructs Re-Os, Sm-Nd and Rb-Sr isochrons. Future versions will include functionality for Lu-Hf and U-series dating methods. A graphical user interface is provided as an RStudio Shiny app at <http://isoplotr.london-geochron.com>.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 0.10 dated 2017-01-08 and 0.11 dated 2017-04-17
IsoplotR-0.10/IsoplotR/inst/RbSr.csv |only IsoplotR-0.10/IsoplotR/inst/ReOs.csv |only IsoplotR-0.10/IsoplotR/inst/SmNd.csv |only IsoplotR-0.10/IsoplotR/inst/UPb.csv |only IsoplotR-0.11/IsoplotR/DESCRIPTION | 8 IsoplotR-0.11/IsoplotR/MD5 | 89 +++-- IsoplotR-0.11/IsoplotR/NAMESPACE | 1 IsoplotR-0.11/IsoplotR/R/ArAr.R | 192 ++++++++---- IsoplotR-0.11/IsoplotR/R/PD.R | 13 IsoplotR-0.11/IsoplotR/R/UPb.R | 458 ++++++++++++++++++++--------- IsoplotR-0.11/IsoplotR/R/UThHe.R | 3 IsoplotR-0.11/IsoplotR/R/age.R | 77 +++- IsoplotR-0.11/IsoplotR/R/agespectrum.R | 15 IsoplotR-0.11/IsoplotR/R/central.R | 16 - IsoplotR-0.11/IsoplotR/R/concordia.R | 323 ++++++++------------ IsoplotR-0.11/IsoplotR/R/discordia.R | 95 ++---- IsoplotR-0.11/IsoplotR/R/documentation.R | 10 IsoplotR-0.11/IsoplotR/R/errorellipse.R | 15 IsoplotR-0.11/IsoplotR/R/fissiontracks.R | 12 IsoplotR-0.11/IsoplotR/R/helioplot.R | 2 IsoplotR-0.11/IsoplotR/R/io.R | 301 +++++++++++++------ IsoplotR-0.11/IsoplotR/R/isochron.R | 27 - IsoplotR-0.11/IsoplotR/R/kde.R | 2 IsoplotR-0.11/IsoplotR/R/mds.R | 29 - IsoplotR-0.11/IsoplotR/R/peakfit.R | 44 +- IsoplotR-0.11/IsoplotR/R/radialplot.R | 4 IsoplotR-0.11/IsoplotR/R/regression.R | 165 ++++++---- IsoplotR-0.11/IsoplotR/R/toolbox.R | 36 +- IsoplotR-0.11/IsoplotR/R/weightedmean.R | 26 - IsoplotR-0.11/IsoplotR/data/examples.rda |binary IsoplotR-0.11/IsoplotR/inst/ArAr1.csv | 26 - IsoplotR-0.11/IsoplotR/inst/ArAr2.csv | 26 - IsoplotR-0.11/IsoplotR/inst/ArAr3.csv |only IsoplotR-0.11/IsoplotR/inst/LuHf2.csv |only IsoplotR-0.11/IsoplotR/inst/RbSr1.csv |only IsoplotR-0.11/IsoplotR/inst/RbSr2.csv |only IsoplotR-0.11/IsoplotR/inst/ReOs1.csv |only IsoplotR-0.11/IsoplotR/inst/ReOs2.csv |only IsoplotR-0.11/IsoplotR/inst/SmNd1.csv |only IsoplotR-0.11/IsoplotR/inst/SmNd2.csv |only IsoplotR-0.11/IsoplotR/inst/UPb1.csv |only IsoplotR-0.11/IsoplotR/inst/UPb2.csv |only IsoplotR-0.11/IsoplotR/inst/UPb3.csv |only IsoplotR-0.11/IsoplotR/inst/constants.json | 2 IsoplotR-0.11/IsoplotR/man/age.Rd | 34 +- IsoplotR-0.11/IsoplotR/man/agespectrum.Rd | 7 IsoplotR-0.11/IsoplotR/man/central.Rd | 16 - IsoplotR-0.11/IsoplotR/man/examples.Rd | 14 IsoplotR-0.11/IsoplotR/man/isochron.Rd | 5 IsoplotR-0.11/IsoplotR/man/kde.Rd | 2 IsoplotR-0.11/IsoplotR/man/mds.Rd | 28 - IsoplotR-0.11/IsoplotR/man/read.data.Rd | 76 ++++ IsoplotR-0.11/IsoplotR/man/yorkfit.Rd | 33 -- 53 files changed, 1330 insertions(+), 902 deletions(-)
Title: A Self-Describing Dataset Format and Interface
Description: Defines a compact data format that includes metadata.
The function fold() creates the format by converting
from data.frame, and unfold() converts back. The predictability
of the folded format supports reusability of data processing tools,
while the presence of embedded metadata improves portability,
interpretability, and efficiency.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between fold versions 0.1 dated 2017-04-13 and 0.1.1 dated 2017-04-17
DESCRIPTION | 8 ++++---- MD5 | 8 +++++--- NAMESPACE | 2 ++ R/meta.R | 37 +++++++++++++++++++++++++++++++++++++ man/as.folded.definitions.Rd |only man/as.folded.spec.Rd |only 6 files changed, 48 insertions(+), 7 deletions(-)
Title: Spatial and Network Based Individual Level Models for Epidemics
Description: Provides tools for simulating from individual level models for infectious disease data analysis. This epidemic model class contains spatial and contact-network based models with two disease types: Susceptible-Infectious (SI) and Susceptible-Infectious-Removed (SIR).
Author: Vineetha Warriyar. K. V. and Rob Deardon
Maintainer: Vineetha Warriyar. K. V. <vineethawarriyar.kod@ucalgary.ca>
Diff between EpiILM versions 1.0 dated 2017-04-14 and 1.1 dated 2017-04-17
DESCRIPTION | 12 ++++++------ MD5 | 2 +- 2 files changed, 7 insertions(+), 7 deletions(-)
Title: Toolkit for Item Factor Analysis with 'OpenMx'
Description: Tools, tutorials, and demos of Item Factor Analysis using 'OpenMx'.
Author: Joshua N. Pritikin [cre, aut]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between ifaTools versions 0.13 dated 2016-09-08 and 0.14 dated 2017-04-17
DESCRIPTION | 10 ++++---- MD5 | 34 +++++++++++++++-------------- build/vignette.rds |binary inst/doc/pritikin-schmidt.R | 1 inst/doc/pritikin-schmidt.Rnw | 2 + inst/doc/pritikin-schmidt.pdf |binary man/SitemPlot.Rd | 1 man/addExploratoryFactors.Rd | 1 man/iccPlot.Rd | 1 man/itemModelExplorer.Rd | 1 man/itemResponseMap.Rd | 1 man/modelBuilder.Rd | 1 man/plotInformation.Rd | 1 man/replicateModelBy.Rd | 1 man/uniquenessPrior.Rd | 1 man/univariatePrior.Rd | 1 tests/testthat/g341-19.csv |only tests/testthat/test-addExploratoryFactor.R |only vignettes/pritikin-schmidt.Rnw | 2 + 19 files changed, 28 insertions(+), 31 deletions(-)
Title: Estimation of ICA Mixture Models
Description: Provides R functions which facilitate the estimation of ICA mixture models. We have developed and implemented the NSMM-ICA algorithm that currently integrates npEM and Fast-ICA for non-parametric estimation of ICA mixture models (Zhu, X., & Hunter, D.R., 2016 <DOI:10.1080/10485252.2016.1225049> and Zhu, X., & Hunter, D.R., 2015 <arXiv:1510.08178>). This is a new tool for unsupervised clustering.
Author: Xiaotian Zhu, David R. Hunter
Maintainer: Xiaotian Zhu <xzhu@natera.com>
Diff between icamix versions 1.0.5 dated 2017-01-17 and 1.0.6 dated 2017-04-17
DESCRIPTION | 10 +++++----- MD5 | 7 ++++--- NAMESPACE | 12 ++++++++++-- man/icamix-package.Rd | 12 +++++++----- src/icamix_init.c |only 5 files changed, 26 insertions(+), 15 deletions(-)
More information about Inventorymodel at CRAN
Permanent link
Title: Crunch.io Data Tools
Description: The Crunch.io service <http://crunch.io/> provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal@crunch.io>
Diff between crunch versions 1.15.2 dated 2017-03-23 and 1.16.0 dated 2017-04-17
crunch-1.15.2/crunch/R/batch-catalog.R |only crunch-1.15.2/crunch/man/newDatasetByCSV.Rd |only crunch-1.15.2/crunch/man/shojifyMetadata.Rd |only crunch-1.15.2/crunch/tests/testthat/api |only crunch-1.16.0/crunch/DESCRIPTION | 10 crunch-1.16.0/crunch/MD5 | 365 +++++----- crunch-1.16.0/crunch/NAMESPACE | 12 crunch-1.16.0/crunch/R/AllClasses.R | 33 crunch-1.16.0/crunch/R/AllGenerics.R | 2 crunch-1.16.0/crunch/R/append-dataset.R | 27 crunch-1.16.0/crunch/R/batches.R |only crunch-1.16.0/crunch/R/consent.R | 13 crunch-1.16.0/crunch/R/crunchbox.R | 2 crunch-1.16.0/crunch/R/cube-dims.R | 17 crunch-1.16.0/crunch/R/cube-query.R | 4 crunch-1.16.0/crunch/R/cube-result.R | 35 crunch-1.16.0/crunch/R/dataset-extract.R | 155 ---- crunch-1.16.0/crunch/R/dataset-update.R |only crunch-1.16.0/crunch/R/dataset.R | 11 crunch-1.16.0/crunch/R/fork-and-merge.R | 12 crunch-1.16.0/crunch/R/formula.R | 33 crunch-1.16.0/crunch/R/get-datasets.R | 8 crunch-1.16.0/crunch/R/hide-variables.R | 2 crunch-1.16.0/crunch/R/multitables.R | 12 crunch-1.16.0/crunch/R/new-dataset.R | 323 ++++---- crunch-1.16.0/crunch/R/projects.R | 8 crunch-1.16.0/crunch/R/shoji.R | 4 crunch-1.16.0/crunch/R/subvariables.R | 19 crunch-1.16.0/crunch/R/tab-book.R | 49 + crunch-1.16.0/crunch/R/teams.R | 8 crunch-1.16.0/crunch/R/tuple.R | 10 crunch-1.16.0/crunch/R/user.R | 2 crunch-1.16.0/crunch/R/variable-delete.R | 67 - crunch-1.16.0/crunch/R/variable-summary.R | 3 crunch-1.16.0/crunch/R/variable-update.R | 27 crunch-1.16.0/crunch/R/weight.R | 53 - crunch-1.16.0/crunch/inst/app.crunch.io |only crunch-1.16.0/crunch/man/appendDataset.Rd | 12 crunch-1.16.0/crunch/man/cleanseBatches.Rd | 2 crunch-1.16.0/crunch/man/createWithPreparedData.Rd |only crunch-1.16.0/crunch/man/cube-methods.Rd | 19 crunch-1.16.0/crunch/man/dataset-update.Rd | 2 crunch-1.16.0/crunch/man/delete.Rd | 19 crunch-1.16.0/crunch/man/deleteSubvariables.Rd | 15 crunch-1.16.0/crunch/man/deleteVariables.Rd | 14 crunch-1.16.0/crunch/man/describe-catalog.Rd | 12 crunch-1.16.0/crunch/man/hideVariables.Rd | 4 crunch-1.16.0/crunch/man/newDataset.Rd | 6 crunch-1.16.0/crunch/man/newDatasetByColumn.Rd | 2 crunch-1.16.0/crunch/man/prepareDataForCrunch.Rd |only crunch-1.16.0/crunch/man/shojifyDatasetMetadata.Rd |only crunch-1.16.0/crunch/man/tabbook-methods.Rd | 15 crunch-1.16.0/crunch/man/tuple-methods.Rd | 5 crunch-1.16.0/crunch/man/variable-update.Rd | 7 crunch-1.16.0/crunch/man/weight.Rd | 18 crunch-1.16.0/crunch/man/write.csv.gz.Rd |only crunch-1.16.0/crunch/man/writePreparedData.Rd |only crunch-1.16.0/crunch/tests/testthat/app.crunch.io |only crunch-1.16.0/crunch/tests/testthat/helper-contexts.R | 42 - crunch-1.16.0/crunch/tests/testthat/test-active-filter.R | 13 crunch-1.16.0/crunch/tests/testthat/test-add-variable.R | 2 crunch-1.16.0/crunch/tests/testthat/test-api.R | 8 crunch-1.16.0/crunch/tests/testthat/test-append-subset.R | 60 + crunch-1.16.0/crunch/tests/testthat/test-batches.R | 12 crunch-1.16.0/crunch/tests/testthat/test-combine-categories.R | 85 +- crunch-1.16.0/crunch/tests/testthat/test-combine-responses.R | 8 crunch-1.16.0/crunch/tests/testthat/test-consent.R | 9 crunch-1.16.0/crunch/tests/testthat/test-copy-variable.R | 2 crunch-1.16.0/crunch/tests/testthat/test-crunchbox.R | 32 crunch-1.16.0/crunch/tests/testthat/test-cube-bases.R | 4 crunch-1.16.0/crunch/tests/testthat/test-cube-dims.R |only crunch-1.16.0/crunch/tests/testthat/test-cube-errors.R | 2 crunch-1.16.0/crunch/tests/testthat/test-cubes.R | 40 + crunch-1.16.0/crunch/tests/testthat/test-dataset-catalog.R | 44 - crunch-1.16.0/crunch/tests/testthat/test-dataset-entity.R | 92 +- crunch-1.16.0/crunch/tests/testthat/test-dataset-reference.R | 4 crunch-1.16.0/crunch/tests/testthat/test-drop-rows.R | 4 crunch-1.16.0/crunch/tests/testthat/test-export-dataset.R | 22 crunch-1.16.0/crunch/tests/testthat/test-expressions.R | 2 crunch-1.16.0/crunch/tests/testthat/test-filters.R | 24 crunch-1.16.0/crunch/tests/testthat/test-fork.R | 12 crunch-1.16.0/crunch/tests/testthat/test-get-datasets.R | 13 crunch-1.16.0/crunch/tests/testthat/test-github.R | 50 - crunch-1.16.0/crunch/tests/testthat/test-hide-variables.R | 54 - crunch-1.16.0/crunch/tests/testthat/test-join.R | 12 crunch-1.16.0/crunch/tests/testthat/test-make-array.R | 6 crunch-1.16.0/crunch/tests/testthat/test-merge-datasets.R | 26 crunch-1.16.0/crunch/tests/testthat/test-misc.R | 16 crunch-1.16.0/crunch/tests/testthat/test-multitables.R | 71 + crunch-1.16.0/crunch/tests/testthat/test-new-dataset.R | 59 + crunch-1.16.0/crunch/tests/testthat/test-progress.R | 20 crunch-1.16.0/crunch/tests/testthat/test-projects.R | 70 + crunch-1.16.0/crunch/tests/testthat/test-share.R | 10 crunch-1.16.0/crunch/tests/testthat/test-shoji.R | 6 crunch-1.16.0/crunch/tests/testthat/test-subvariables.R | 72 + crunch-1.16.0/crunch/tests/testthat/test-teams.R | 5 crunch-1.16.0/crunch/tests/testthat/test-update-errors.R | 10 crunch-1.16.0/crunch/tests/testthat/test-update-with-missing.R | 10 crunch-1.16.0/crunch/tests/testthat/test-update.R | 50 + crunch-1.16.0/crunch/tests/testthat/test-user.R | 6 crunch-1.16.0/crunch/tests/testthat/test-variable-catalog.R | 32 crunch-1.16.0/crunch/tests/testthat/test-variable-delete.R | 80 -- crunch-1.16.0/crunch/tests/testthat/test-variable-metadata.R | 6 crunch-1.16.0/crunch/tests/testthat/test-variable-summary.R | 14 crunch-1.16.0/crunch/tests/testthat/test-variable-type.R | 4 crunch-1.16.0/crunch/tests/testthat/test-variables.R | 8 crunch-1.16.0/crunch/tests/testthat/test-versioning.R | 8 crunch-1.16.0/crunch/tests/testthat/test-weighting.R | 21 108 files changed, 1487 insertions(+), 1253 deletions(-)
Title: Morphometrics using R
Description: A complete toolkit for morphometrics, from data
extraction to multivariate analyses. Most common 2D
morphometrics approaches are included: outlines, open
outlines, configurations of landmarks, traditional
morphometrics, and facilities for data preparation,
manipulation and visualization with a consistent grammar
throughout. Momocs allows reproducible, complex
morphometric analyses, paves the way for a pure
open-source workflow in R, and other morphometrics
approaches should be easy to plug in, or develop from, on
top of this canvas.
Author: Vincent Bonhomme [aut, cre],
Julien Claude [aut]
Maintainer: Vincent Bonhomme <bonhomme.vincent@gmail.com>
Diff between Momocs versions 1.1.0 dated 2016-10-25 and 1.1.6 dated 2017-04-17
Momocs-1.1.0/Momocs/man/rw_rule.Rd |only Momocs-1.1.6/Momocs/DESCRIPTION | 33 - Momocs-1.1.6/Momocs/MD5 | 296 ++++++++-------- Momocs-1.1.6/Momocs/NAMESPACE | 28 + Momocs-1.1.6/Momocs/R/Momocs-package.R | 8 Momocs-1.1.6/Momocs/R/babel-bridges.R | 18 Momocs-1.1.6/Momocs/R/babel-import.R | 4 Momocs-1.1.6/Momocs/R/cl-def-Ldk.R | 19 - Momocs-1.1.6/Momocs/R/cl-def-Opn.R | 26 - Momocs-1.1.6/Momocs/R/cl-def-Out.R | 33 - Momocs-1.1.6/Momocs/R/cl-handling.R | 31 + Momocs-1.1.6/Momocs/R/cl-utilities.R | 8 Momocs-1.1.6/Momocs/R/coo-shapedescriptors.R | 15 Momocs-1.1.6/Momocs/R/coo-utilities.R | 129 ++++++ Momocs-1.1.6/Momocs/R/core-out-efourier.R | 8 Momocs-1.1.6/Momocs/R/core-out-rfourier.R | 32 + Momocs-1.1.6/Momocs/R/core-out-sfourier.R |only Momocs-1.1.6/Momocs/R/core-out-tfourier.R | 3 Momocs-1.1.6/Momocs/R/core-outopn-calibrate.R | 159 ++++++-- Momocs-1.1.6/Momocs/R/gr-LDA.R | 30 + Momocs-1.1.6/Momocs/R/gr-PCA.R | 19 - Momocs-1.1.6/Momocs/R/gr-g.R |only Momocs-1.1.6/Momocs/R/gr-layers.R | 38 ++ Momocs-1.1.6/Momocs/R/gr-meanshapes.R |only Momocs-1.1.6/Momocs/R/gr-morphospaces.R | 55 ++ Momocs-1.1.6/Momocs/R/mult-LDA.R | 11 Momocs-1.1.6/Momocs/R/mult-PCA.R | 63 --- Momocs-1.1.6/Momocs/R/mult-clust.R | 4 Momocs-1.1.6/Momocs/R/mult-mshapes.R | 2 Momocs-1.1.6/Momocs/R/pkg-datasets.R | 27 + Momocs-1.1.6/Momocs/R/pkg-misc.R | 188 +++++----- Momocs-1.1.6/Momocs/R/pkg-nse.R |only Momocs-1.1.6/Momocs/build/vignette.rds |binary Momocs-1.1.6/Momocs/data/apodemus.rda |only Momocs-1.1.6/Momocs/data/mouse.rda |only Momocs-1.1.6/Momocs/inst/NEWS.Rd | 8 Momocs-1.1.6/Momocs/inst/doc/Momocs_speed_dating.R | 8 Momocs-1.1.6/Momocs/inst/doc/Momocs_speed_dating.Rmd | 15 Momocs-1.1.6/Momocs/inst/doc/Momocs_speed_dating.html | 242 ++++++------- Momocs-1.1.6/Momocs/man/Momocs.Rd | 4 Momocs-1.1.6/Momocs/man/PCcontrib.Rd | 2 Momocs-1.1.6/Momocs/man/arrange.Rd | 2 Momocs-1.1.6/Momocs/man/at_least.Rd | 2 Momocs-1.1.6/Momocs/man/calibrate_deviations.Rd | 49 ++ Momocs-1.1.6/Momocs/man/calibrate_harmonicpower.Rd | 2 Momocs-1.1.6/Momocs/man/calibrate_reconstructions.Rd | 4 Momocs-1.1.6/Momocs/man/chop.Rd | 2 Momocs-1.1.6/Momocs/man/coeff_rearrange.Rd |only Momocs-1.1.6/Momocs/man/combine.Rd | 2 Momocs-1.1.6/Momocs/man/coo_align.Rd | 10 Momocs-1.1.6/Momocs/man/coo_aligncalliper.Rd | 11 Momocs-1.1.6/Momocs/man/coo_alignminradius.Rd | 11 Momocs-1.1.6/Momocs/man/coo_alignxax.Rd | 10 Momocs-1.1.6/Momocs/man/coo_area.Rd | 3 Momocs-1.1.6/Momocs/man/coo_baseline.Rd | 10 Momocs-1.1.6/Momocs/man/coo_bookstein.Rd | 10 Momocs-1.1.6/Momocs/man/coo_boundingbox.Rd |only Momocs-1.1.6/Momocs/man/coo_calliper.Rd | 12 Momocs-1.1.6/Momocs/man/coo_centdist.Rd | 12 Momocs-1.1.6/Momocs/man/coo_center.Rd | 12 Momocs-1.1.6/Momocs/man/coo_centpos.Rd | 12 Momocs-1.1.6/Momocs/man/coo_centsize.Rd | 26 - 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Title: Elastic Functional Data Analysis
Description: Performs alignment, PCA, and modeling of multidimensional and
unidimensional functions using the square-root velocity framework
(Srivastava et al., 2011 <arXiv:1103.3817> and
Tucker et al., 2014 <DOI:10.1016/j.csda.2012.12.001>). This framework
allows for elastic analysis of functional data through phase and
amplitude separation.
Author: J. Derek Tucker <jdtuck@sandia.gov>
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 1.7.0 dated 2016-09-15 and 1.8.0 dated 2017-04-17
DESCRIPTION | 19 +++- MD5 | 140 +++++++++++++++++++---------------- NAMESPACE | 8 +- NEWS | 10 ++ R/AmplitudeBoxplot.R |only R/PhaseBoxplot.R |only R/SqrtMean.R | 65 +++++++--------- R/SqrtMedian.R |only R/align_fPCA.R | 5 - R/fdasrvf-package.r | 25 +++++- R/gauss_model.R | 9 +- R/geometry.R |only R/horizFPCA.R | 2 R/optimum.reparam.R | 10 +- R/pair_align_functions_bayes.R | 2 R/time_warping.R | 53 ++++++++----- R/utility_functions.R | 148 ++++---------------------------------- R/vertFPCA.R | 10 ++ README.md | 6 + data/datalist | 1 data/simu_warp_median.RData |only man/AmplitudeBoxplot.Rd |only man/PhaseBoxplot.Rd |only man/SqrtMean.Rd | 3 man/SqrtMedian.Rd |only man/align_fPCA.Rd | 1 man/beta.Rd | 1 man/calc_shape_dist.Rd | 1 man/curve_geodesic.Rd | 1 man/curve_karcher_cov.Rd | 1 man/curve_karcher_mean.Rd | 1 man/curve_pair_align.Rd | 1 man/curve_principal_directions.Rd | 1 man/curve_srvf_align.Rd | 1 man/curve_to_q.Rd | 1 man/elastic.distance.Rd | 1 man/elastic.logistic.Rd | 1 man/elastic.mlogistic.Rd | 1 man/elastic.prediction.Rd | 1 man/elastic.regression.Rd | 1 man/f_to_srvf.Rd | 1 man/fdasrvf.Rd | 4 - man/function_group_warp_bayes.Rd | 1 man/function_mean_bayes.Rd | 1 man/gauss_model.Rd | 1 man/gradient.Rd | 1 man/horizFPCA.Rd | 1 man/optimum.reparam.Rd | 5 - man/outlier.detection.Rd | 1 man/pair_align_functions.Rd | 1 man/pair_align_functions_bayes.Rd | 1 man/pair_align_image.Rd | 1 man/q_to_curve.Rd | 1 man/reparam_curve.Rd | 1 man/reparam_image.Rd | 1 man/resamplecurve.Rd | 1 man/rgam.Rd | 1 man/sample_shapes.Rd | 1 man/simu_data.Rd | 1 man/simu_warp.Rd | 1 man/simu_warp_median.Rd |only man/smooth.data.Rd | 1 man/srsf_to_f.Rd | 1 man/time_warping.Rd | 3 man/toy_data.Rd | 1 man/toy_warp.Rd | 1 man/vertFPCA.Rd | 1 man/warp_f_gamma.Rd | 1 man/warp_q_gamma.Rd | 1 src/Makevars | 2 src/Makevars.win | 2 src/fdasrsf/DP.cpp |only src/fdasrsf/DP.h |only src/fdasrsf/bayesian.cpp | 6 - src/fdasrsf/dp_nbhd.h | 80 ++++++++++---------- src/registerDynamicSymbol.cpp |only src/wrapper.cpp | 21 +++++ 77 files changed, 310 insertions(+), 369 deletions(-)
Title: A Set of R6 Classes & a Shiny Application for Reducing Elemental
LA-ICPMS Data from Solid Structures
Description: Aims to facilitate the reduction of elemental microchemistry data from solid-phase LA-ICPMS analysis (laser ablation inductive coupled plasma mass spectrometry). The elementR package provides a reactive and user friendly interface for conducting all steps needed for an optimal data reduction while leaving maximum control for user.
Author: Charlotte Sirot, Francois Guilhaumon
Maintainer: Charlotte Sirot <charlott.sirot@gmail.com>
Diff between elementR versions 1.3.0 dated 2017-03-06 and 1.3.1 dated 2017-04-17
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/classElementR_R6.R | 15 +++++++++++++-- README.md | 3 ++- 4 files changed, 21 insertions(+), 9 deletions(-)
Title: Weighted Subspace Random Forest for Classification
Description: A parallel implementation of Weighted Subspace Random
Forest. The Weighted Subspace Random Forest algorithm was
proposed in the International Journal of Data Warehousing and
Mining by Baoxun Xu, Joshua Zhexue Huang, Graham Williams, Qiang
Wang, and Yunming Ye (2012) <DOI:10.4018/jdwm.2012040103>. The
algorithm can classify very high-dimensional data with random
forests built using small subspaces. A novel variable weighting
method is used for variable subspace selection in place of the
traditional random variable sampling.This new approach is
particularly useful in building models from high-dimensional data.
Author: Qinghan Meng [aut],
He Zhao [aut, cre],
Graham J. Williams [aut],
Junchao Lv [aut],
Baoxun Xu [aut],
Joshua Zhexue Huang [aut]
Maintainer: He Zhao <Simon.Yansen.Zhao@gmail.com>
Diff between wsrf versions 1.7.10 dated 2017-03-28 and 1.7.13 dated 2017-04-17
DESCRIPTION | 9 +++++---- MD5 | 10 +++++----- inst/NEWS.Rd | 13 +++++++++++++ inst/doc/wsrf-guide.html | 4 ++-- src/Makevars | 7 ------- src/Makevars.win | 7 ------- 6 files changed, 25 insertions(+), 25 deletions(-)
Title: Bayesian Regression Models using Stan
Description: Fit Bayesian generalized (non-)linear multilevel models
using Stan for full Bayesian inference. A wide range of distributions
and link functions are supported, allowing users to fit -- among others --
linear, robust linear, count data, survival, response times, ordinal,
zero-inflated, hurdle, and even self-defined mixture models all in a
multilevel context. Further modeling options include non-linear and
smooth terms, auto-correlation structures, censored data, meta-analytic
standard errors, and quite a few more. In addition, all parameters of the
response distribution can be predicted in order to perform distributional
regression. Prior specifications are flexible and explicitly encourage
users to apply prior distributions that actually reflect their beliefs.
Model fit can easily be assessed and compared with posterior predictive
checks and leave-one-out cross-validation.
Author: Paul-Christian Bürkner [aut, cre]
Maintainer: Paul-Christian Bürkner <paul.buerkner@gmail.com>
Diff between brms versions 1.6.0 dated 2017-04-06 and 1.6.1 dated 2017-04-17
DESCRIPTION | 17 +- MD5 | 85 +++++++------- NAMESPACE | 4 R/brmsfit-methods.R | 24 +--- R/brmsformula.R | 28 +++- R/data-helpers.R | 72 +++++------- R/data-predictor.R | 3 R/families.R | 148 ++++++++++++++++--------- R/fitted.R | 7 + R/generics.R | 7 + R/loglik.R | 16 ++ R/make_standata.R | 8 + R/predict.R | 13 ++ R/priors.R | 19 ++- R/rename.R | 5 R/stan-helpers.R | 29 +++- R/stan-likelihood.R | 37 +++++- R/stan-predictor.R | 20 ++- R/sysdata.rda |binary README.md | 15 +- inst/NEWS.Rd | 30 +++++ inst/chunks/fun_hurdle_gamma.stan | 19 +-- inst/chunks/fun_hurdle_lognormal.stan | 14 +- inst/chunks/fun_hurdle_negbinomial.stan | 85 ++++++++++---- inst/chunks/fun_hurdle_poisson.stan | 73 +++++++++--- inst/chunks/fun_zero_inflated_beta.stan | 29 ++-- inst/chunks/fun_zero_inflated_binomial.stan | 89 +++++++++++---- inst/chunks/fun_zero_inflated_negbinomial.stan | 94 +++++++++++---- inst/chunks/fun_zero_inflated_poisson.stan | 85 ++++++++++---- inst/chunks/fun_zero_one_inflated_beta.stan |only inst/doc/brms_families.Rmd | 11 + inst/doc/brms_families.html | 14 +- man/brmsfamily.Rd | 73 +++++++----- man/brmsformula.Rd | 21 ++- man/pairs.brmsfit.Rd | 8 - man/set_prior.Rd | 14 +- tests/testthat/tests.brmsfit-methods.R | 7 - tests/testthat/tests.families.R | 1 tests/testthat/tests.loglik.R | 17 +- tests/testthat/tests.make_stancode.R | 83 ++++++++++---- tests/testthat/tests.plots.R | 3 tests/testthat/tests.predict.R | 5 tests/testthat/tests.priors.R | 4 vignettes/brms_families.Rmd | 11 + 44 files changed, 916 insertions(+), 431 deletions(-)
Title: Analysis of Aerobiological Data
Description: Supports analysis of aerobiological data. Available features include determination of pollen season limits, replacement of outliers (Kasprzyk and Walanus (2014) <doi:10.1007/s10453-014-9332-8>), and calculation of growing degree days.
Author: Jakub Nowosad [aut, cre]
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between pollen versions 0.50.0 dated 2016-11-20 and 0.52.00 dated 2017-04-17
DESCRIPTION | 12 ++++++------ MD5 | 21 ++++++++++++--------- NAMESPACE | 1 + R/gdd.R |only build/vignette.rds |binary inst/doc/intro.html | 6 +++--- man/gdd.Rd |only man/outliers_replacer.Rd | 1 - man/pollen.Rd | 1 - man/pollen_count.Rd | 1 - man/pollen_season.Rd | 1 - tests/testthat/test-gdd.R |only tests/testthat/test-seasons.R | 1 - 13 files changed, 22 insertions(+), 23 deletions(-)