Title: Read Excel Files
Description: Import excel files into R. Supports '.xls' via the embedded
'libxls' C library <https://github.com/evanmiller/libxls> and '.xlsx' via
the embedded 'RapidXML' C++ library <https://rapidxml.sourceforge.net>.
Works on Windows, Mac and Linux without external dependencies.
Author: Hadley Wickham [aut] (<https://orcid.org/0000-0003-4757-117X>),
Jennifer Bryan [aut, cre] (<https://orcid.org/0000-0002-6983-2759>),
RStudio [cph, fnd] (Copyright holder of all R code and all C/C++ code
without explicit copyright attribution),
Marcin Kalicinski [ctb, cph] (Author of included RapidXML code),
Komarov Valery [ctb, cph] (Author of included libxls code),
Christophe Leitienne [ctb, cph] (Author of included libxls code),
Bob Colbert [ctb, cph] (Author of included libxls code),
David Hoerl [ctb, cph] (Author of included libxls code),
Evan Miller [ctb, cph] (Author of included libxls code)
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between readxl versions 1.0.0 dated 2017-04-18 and 1.1.0 dated 2018-04-19
readxl-1.0.0/readxl/src/init.c |only readxl-1.0.0/readxl/tests/testthat/sheets/iris-excel.xls |only readxl-1.0.0/readxl/tests/testthat/sheets/iris-excel.xlsx |only readxl-1.0.0/readxl/tests/testthat/sheets/missing-values.xls |only readxl-1.0.0/readxl/tests/testthat/sheets/missing-values.xlsx |only readxl-1.1.0/readxl/DESCRIPTION | 39 readxl-1.1.0/readxl/MD5 | 135 readxl-1.1.0/readxl/NAMESPACE | 3 readxl-1.1.0/readxl/NEWS.md | 29 readxl-1.1.0/readxl/R/RcppExports.R | 18 readxl-1.1.0/readxl/R/excel-format.R |only readxl-1.1.0/readxl/R/excel-sheets.R | 7 readxl-1.1.0/readxl/R/read_excel.R | 75 readxl-1.1.0/readxl/R/utils.R | 23 readxl-1.1.0/readxl/README.md | 228 - readxl-1.1.0/readxl/build/vignette.rds |binary readxl-1.1.0/readxl/inst/doc/cell-and-column-types.R | 5 readxl-1.1.0/readxl/inst/doc/cell-and-column-types.Rmd | 12 readxl-1.1.0/readxl/inst/doc/cell-and-column-types.html | 618 ++- readxl-1.1.0/readxl/inst/doc/sheet-geometry.html | 476 ++ readxl-1.1.0/readxl/inst/extdata/datasets.xls |binary readxl-1.1.0/readxl/man/excel_format.Rd |only readxl-1.1.0/readxl/man/excel_sheets.Rd | 6 readxl-1.1.0/readxl/man/read_excel.Rd | 20 readxl-1.1.0/readxl/man/readxl-package.Rd | 13 readxl-1.1.0/readxl/src/ColSpec.h | 3 readxl-1.1.0/readxl/src/Makevars | 2 readxl-1.1.0/readxl/src/RcppExports.cpp | 36 readxl-1.1.0/readxl/src/XlsCell.h | 7 readxl-1.1.0/readxl/src/XlsWorkBook.cpp | 4 readxl-1.1.0/readxl/src/XlsWorkSheet.cpp | 2 readxl-1.1.0/readxl/src/XlsWorkSheet.h | 10 readxl-1.1.0/readxl/src/XlsxCell.h | 26 readxl-1.1.0/readxl/src/XlsxWorkBook.h | 111 readxl-1.1.0/readxl/src/XlsxWorkSheet.cpp | 2 readxl-1.1.0/readxl/src/XlsxWorkSheet.h | 4 readxl-1.1.0/readxl/src/cran.h | 10 readxl-1.1.0/readxl/src/endian.c | 26 readxl-1.1.0/readxl/src/libxls/ole.h | 26 readxl-1.1.0/readxl/src/libxls/xls.h | 26 readxl-1.1.0/readxl/src/libxls/xlsstruct.h | 33 readxl-1.1.0/readxl/src/libxls/xlstool.h | 8 readxl-1.1.0/readxl/src/ole.c | 694 ++-- readxl-1.1.0/readxl/src/unix/config.h | 27 readxl-1.1.0/readxl/src/utils.h | 24 readxl-1.1.0/readxl/src/windows/config.h | 23 readxl-1.1.0/readxl/src/xls.c | 1588 +++------- readxl-1.1.0/readxl/src/xlstool.c | 281 - readxl-1.1.0/readxl/src/zip.cpp | 1 readxl-1.1.0/readxl/tests/testthat/helper.R | 2 readxl-1.1.0/readxl/tests/testthat/sheets/65536-rows-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/big-texty-numbers-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/big-texty-numbers-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/iris-excel-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/iris-excel-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/los-angeles-arrests-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/missing-v-node-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/missing-values-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/missing-values-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/numbers-as-na-and-shared-strings-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/numbers-as-na-and-shared-strings-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/sheets/texty-dates-xls.xls |only readxl-1.1.0/readxl/tests/testthat/sheets/texty-dates-xlsx.xlsx |only readxl-1.1.0/readxl/tests/testthat/test-coercion.R |only readxl-1.1.0/readxl/tests/testthat/test-col-names.R | 20 readxl-1.1.0/readxl/tests/testthat/test-col-types.R | 134 readxl-1.1.0/readxl/tests/testthat/test-compatibility.R | 33 readxl-1.1.0/readxl/tests/testthat/test-dates.R | 12 readxl-1.1.0/readxl/tests/testthat/test-example.R |only readxl-1.1.0/readxl/tests/testthat/test-formats.R |only readxl-1.1.0/readxl/tests/testthat/test-geometry.R | 7 readxl-1.1.0/readxl/tests/testthat/test-missing-values.R | 65 readxl-1.1.0/readxl/tests/testthat/test-n-max.R | 60 readxl-1.1.0/readxl/tests/testthat/test-problems.R | 30 readxl-1.1.0/readxl/tests/testthat/test-read-excel.R | 77 readxl-1.1.0/readxl/tests/testthat/test-return.R | 4 readxl-1.1.0/readxl/tests/testthat/test-richtext.R | 12 readxl-1.1.0/readxl/tests/testthat/test-sheets.R | 24 readxl-1.1.0/readxl/tests/testthat/test-trim-ws.R | 36 readxl-1.1.0/readxl/vignettes/cell-and-column-types.Rmd | 12 80 files changed, 2827 insertions(+), 2382 deletions(-)
Title: Pedigree/Family-Based Genetic Association Tests Analysis and
Power
Description: This R package provides power calculations via internal simulation methods. The package also provides a frontend to the now abandoned PBAT program (developed by Christoph Lange), and reads in the corresponding output and displays results and figures when appropriate. The license of this R package itself is GPL. However, to have the program interact with the PBAT program for some functionality of the R package, users must additionally obtain the PBAT program from Christoph Lange, and accept his license. Both the data analysis and power calculations have command line and graphical interfaces using tcltk.
Author: Thomas Hoffmann <tjhoffm@gmail.com>, with contributions from Christoph Lange <clange@hsph.harvard.edu>
Maintainer: Thomas Hoffmann <tjhoffm@gmail.com>
Diff between pbatR versions 2.2-9 dated 2013-03-30 and 2.2-13 dated 2018-04-19
DESCRIPTION | 31 ++----- MD5 | 61 +++++++-------- NAMESPACE | 14 ++- R/message.R | 7 - R/metadata.R | 16 +-- R/pbat.R | 26 +++--- R/pbat.dir.R | 14 +-- R/pbatGUI.R | 14 +-- R/plot.pedigree.R | 20 ++-- R/power.R | 8 + R/powerConversions.R | 10 +- R/powerGUI.R | 2 R/wait.R | 6 - man/affectionPhe.Rd | 2 man/c2bat.Rd | 13 +-- man/cluster.Rd | 12 -- man/cped.Rd | 75 ++++++++---------- man/obfuscate.Rd | 2 man/pbat.Rd | 202 +++++++++++++++++++++++++------------------------- man/pbat.clean.Rd | 7 - man/pbat.help.Rd | 9 -- man/pbat.set.Rd | 17 +--- man/pbat.status.Rd | 13 +-- man/pbat.work.Rd | 2 man/ped.Rd | 39 ++++----- man/phe.Rd | 18 +--- man/power.Rd | 33 +++----- man/summary.Rd | 4 man/top.Rd | 2 man/write.pbat.csv.Rd | 9 -- src/Makevars.win | 2 src/pbatR_init.c |only 32 files changed, 331 insertions(+), 359 deletions(-)
Title: Origin Estimation for Propagation Processes on Complex Networks
Description: Performs network-based source estimation. Different approaches are available: effective distance median, recursive backtracking, and centrality-based source estimation. Additionally, we provide public transportation network data as well as methods for data preparation, source estimation performance analysis and visualization.
Author: Juliane Manitz [aut, cre],
Jonas Harbering [ctb]
Maintainer: Juliane Manitz <r@manitz.org>
Diff between NetOrigin versions 1.0-2 dated 2016-07-07 and 1.0-3 dated 2018-04-19
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- R/origin_helper.r | 7 ------- 3 files changed, 7 insertions(+), 13 deletions(-)
Title: Magnitude-Based Inferences
Description: Allows practitioners and researchers a wholesale approach for deriving magnitude-based inferences from raw data. A major goal of 'mbir' is to programmatically detect appropriate statistical tests to run in lieu of relying on practitioners to determine correct stepwise procedures independently.
Author: Kyle Peterson [aut, cre],
Aaron Caldwell [aut]
Maintainer: Kyle Peterson <petersonkdon@gmail.com>
Diff between mbir versions 1.1 dated 2017-08-29 and 1.2 dated 2018-04-19
DESCRIPTION | 14 MD5 | 34 - R/corr.R | 158 ++++--- R/corr_diff.R | 97 ++-- R/corr_test.R | 266 ++++++++---- R/odds.R | 132 +++--- R/smd.R | 150 ++++--- R/smd_test.R | 903 +++++++++++++++++++++++++++++++++----------- inst/doc/mbir-vignette.R | 6 inst/doc/mbir-vignette.Rmd | 10 inst/doc/mbir-vignette.html | 35 - man/corr.Rd | 6 man/corr_diff.Rd | 4 man/corr_test.Rd | 11 man/odds.Rd | 2 man/smd.Rd | 6 man/smd_test.Rd | 17 vignettes/mbir-vignette.Rmd | 10 18 files changed, 1269 insertions(+), 592 deletions(-)
Title: Visualise Clusterings at Different Resolutions
Description: Deciding what resolution to use can be a difficult question when
approaching a clustering analysis. One way to approach this problem is to
look at how samples move as the number of clusters increases. This package
allows you to produce clustering trees, a visualisation for interrogating
clusterings as resolution increases.
Author: Luke Zappia [aut, cre] (<https://orcid.org/0000-0001-7744-8565>),
Alicia Oshlack [aut] (<https://orcid.org/0000-0001-9788-5690>),
Andrea Rau [ctb]
Maintainer: Luke Zappia <luke.zappia@mcri.edu.au>
Diff between clustree versions 0.1.1 dated 2018-03-27 and 0.1.2 dated 2018-04-19
DESCRIPTION | 20 ++++---- MD5 | 11 ++-- NEWS.md | 21 ++++++++- README.md | 46 ++++++++++++++++++-- inst/CITATION |only inst/doc/clustree.html | 87 +++++++++++++++++++-------------------- tests/testthat/test-aesthetics.R | 8 +-- 7 files changed, 126 insertions(+), 67 deletions(-)
Title: Powell Miscellaneous Functions for Teaching and Learning
Statistics
Description: Miscellaneous functions useful for teaching statistics as well as actually practicing the art. They typically are not “new” methods but rather wrappers around either base R or other packages. Currently contains: 'Plot2WayANOVA' which as the name implies conducts a 2 way ANOVA and plots the results using 'ggplot2'. 'neweta' which is a helper function that appends the results of a Type II eta squared calculation onto a classic ANOVA table. Mode which finds the modal value in a vector of data. 'SeeDist' which wraps around 'ggplot2' to provide visualizations of univariate data.
Author: Chuck Powell [aut, cre]
Maintainer: Chuck Powell <ibecav@gmail.com>
Diff between CGPfunctions versions 0.1 dated 2018-03-19 and 0.3 dated 2018-04-19
CGPfunctions-0.1/CGPfunctions/inst/doc/CGPfunctions.R |only CGPfunctions-0.1/CGPfunctions/inst/doc/CGPfunctions.Rmd |only CGPfunctions-0.1/CGPfunctions/inst/doc/CGPfunctions.html |only CGPfunctions-0.1/CGPfunctions/vignettes/CGPfunctions.Rmd |only CGPfunctions-0.1/CGPfunctions/vignettes/barplot.png |only CGPfunctions-0.1/CGPfunctions/vignettes/lineplot.png |only CGPfunctions-0.3/CGPfunctions/DESCRIPTION | 9 CGPfunctions-0.3/CGPfunctions/MD5 | 39 +-- CGPfunctions-0.3/CGPfunctions/NAMESPACE | 12 CGPfunctions-0.3/CGPfunctions/NEWS.md |only CGPfunctions-0.3/CGPfunctions/R/CGPfunctions.R | 12 CGPfunctions-0.3/CGPfunctions/R/OurConfidence.R |only CGPfunctions-0.3/CGPfunctions/R/Plot2WayANOVA.R | 34 +- CGPfunctions-0.3/CGPfunctions/R/PlotXTabs.R |only CGPfunctions-0.3/CGPfunctions/R/seedist.R | 4 CGPfunctions-0.3/CGPfunctions/README.md | 121 +++++++--- CGPfunctions-0.3/CGPfunctions/build/vignette.rds |binary CGPfunctions-0.3/CGPfunctions/inst/doc/Using-Plot2WayANOVA.R |only CGPfunctions-0.3/CGPfunctions/inst/doc/Using-Plot2WayANOVA.Rmd |only CGPfunctions-0.3/CGPfunctions/inst/doc/Using-Plot2WayANOVA.html |only CGPfunctions-0.3/CGPfunctions/inst/doc/Using-PlotXTabs.R |only CGPfunctions-0.3/CGPfunctions/inst/doc/Using-PlotXTabs.Rmd |only CGPfunctions-0.3/CGPfunctions/inst/doc/Using-PlotXTabs.html |only CGPfunctions-0.3/CGPfunctions/man/CGPfunctions.Rd | 12 CGPfunctions-0.3/CGPfunctions/man/OurConf.Rd |only CGPfunctions-0.3/CGPfunctions/man/Plot2WayANOVA.Rd | 13 - CGPfunctions-0.3/CGPfunctions/man/PlotXTabs.Rd |only CGPfunctions-0.3/CGPfunctions/man/SeeDist.Rd | 4 CGPfunctions-0.3/CGPfunctions/vignettes/Using-Plot2WayANOVA.Rmd |only CGPfunctions-0.3/CGPfunctions/vignettes/Using-PlotXTabs.Rmd |only 30 files changed, 184 insertions(+), 76 deletions(-)
Title: Utilities for Multi-Label Learning
Description: Multi-label learning strategies and others procedures to support multi-
label classification in R. The package provides a set of multi-label procedures such as
sampling methods, transformation strategies, threshold functions, pre-processing
techniques and evaluation metrics. A complete overview of the matter can be seen in
Zhang, M. and Zhou, Z. (2014) <doi:10.1109/TKDE.2013.39> and Gibaja, E. and
Ventura, S. (2015) <doi:10.1145/2716262>.
Author: Adriano Rivolli [aut, cre]
Maintainer: Adriano Rivolli <rivolli@utfpr.edu.br>
Diff between utiml versions 0.1.3 dated 2017-07-31 and 0.1.4 dated 2018-04-19
utiml-0.1.3/utiml/man/utiml_all_measures_names.Rd |only utiml-0.1.3/utiml/man/utiml_compute_ensemble.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_average.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_check_voteschema.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_majority.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_maximum.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_method.Rd |only utiml-0.1.3/utiml/man/utiml_ensemble_minimum.Rd |only utiml-0.1.3/utiml/man/utiml_ifelse.Rd |only utiml-0.1.3/utiml/man/utiml_is_equal_sets.Rd |only utiml-0.1.3/utiml/man/utiml_iterative_split.Rd |only utiml-0.1.3/utiml/man/utiml_labels_IG.Rd |only utiml-0.1.3/utiml/man/utiml_labels_correlation.Rd |only utiml-0.1.3/utiml/man/utiml_lapply.Rd |only utiml-0.1.3/utiml/man/utiml_measure_accuracy.Rd |only utiml-0.1.3/utiml/man/utiml_measure_average_precision.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_AUC.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_accuracy.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_balacc.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_f1.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_precision.Rd |only utiml-0.1.3/utiml/man/utiml_measure_binary_recall.Rd |only utiml-0.1.3/utiml/man/utiml_measure_coverage.Rd |only utiml-0.1.3/utiml/man/utiml_measure_f1.Rd |only utiml-0.1.3/utiml/man/utiml_measure_hamming_loss.Rd |only utiml-0.1.3/utiml/man/utiml_measure_is_error.Rd |only utiml-0.1.3/utiml/man/utiml_measure_macro_AUC.Rd |only utiml-0.1.3/utiml/man/utiml_measure_macro_accuracy.Rd |only utiml-0.1.3/utiml/man/utiml_measure_macro_f1.Rd |only utiml-0.1.3/utiml/man/utiml_measure_macro_precision.Rd |only utiml-0.1.3/utiml/man/utiml_measure_macro_recall.Rd |only utiml-0.1.3/utiml/man/utiml_measure_margin_loss.Rd |only utiml-0.1.3/utiml/man/utiml_measure_micro_AUC.Rd |only utiml-0.1.3/utiml/man/utiml_measure_micro_accuracy.Rd |only utiml-0.1.3/utiml/man/utiml_measure_micro_f1.Rd |only utiml-0.1.3/utiml/man/utiml_measure_micro_precision.Rd |only utiml-0.1.3/utiml/man/utiml_measure_micro_recall.Rd |only utiml-0.1.3/utiml/man/utiml_measure_names.Rd |only utiml-0.1.3/utiml/man/utiml_measure_one_error.Rd |only utiml-0.1.3/utiml/man/utiml_measure_precision.Rd |only utiml-0.1.3/utiml/man/utiml_measure_ranking_error.Rd |only utiml-0.1.3/utiml/man/utiml_measure_ranking_loss.Rd |only utiml-0.1.3/utiml/man/utiml_measure_recall.Rd |only utiml-0.1.3/utiml/man/utiml_measure_subset_accuracy.Rd |only utiml-0.1.3/utiml/man/utiml_newdata.Rd |only utiml-0.1.3/utiml/man/utiml_normalize.Rd |only utiml-0.1.3/utiml/man/utiml_predict_binary_ensemble.Rd |only utiml-0.1.3/utiml/man/utiml_preserve_seed.Rd |only utiml-0.1.3/utiml/man/utiml_random_split.Rd |only utiml-0.1.3/utiml/man/utiml_rename.Rd |only utiml-0.1.3/utiml/man/utiml_restore_seed.Rd |only utiml-0.1.3/utiml/man/utiml_stratified_split.Rd |only utiml-0.1.3/utiml/man/utiml_validate_splitmethod.Rd |only utiml-0.1.4/utiml/DESCRIPTION | 16 utiml-0.1.4/utiml/MD5 | 173 ++---- utiml-0.1.4/utiml/NAMESPACE | 35 - utiml-0.1.4/utiml/NEWS.md | 18 utiml-0.1.4/utiml/R/base_learner.R | 83 +-- utiml-0.1.4/utiml/R/cross_validation.R |only utiml-0.1.4/utiml/R/data.R | 23 utiml-0.1.4/utiml/R/ensemble.R | 138 ++--- utiml-0.1.4/utiml/R/evaluation.R | 413 ++++++++------- utiml-0.1.4/utiml/R/internal.R | 161 ++--- utiml-0.1.4/utiml/R/method_baseline.R | 21 utiml-0.1.4/utiml/R/method_br.R | 3 utiml-0.1.4/utiml/R/method_esl.R |only utiml-0.1.4/utiml/R/method_mbr.R | 54 - utiml-0.1.4/utiml/R/method_mlknn.R |only utiml-0.1.4/utiml/R/method_prudent.R | 16 utiml-0.1.4/utiml/R/mlresult.R | 5 utiml-0.1.4/utiml/R/sampling.R | 109 ++- utiml-0.1.4/utiml/R/threshold.R | 4 utiml-0.1.4/utiml/R/utiml.R | 25 utiml-0.1.4/utiml/build/vignette.rds |binary utiml-0.1.4/utiml/data/foodtruck.rda |only utiml-0.1.4/utiml/inst/doc/utiml-overview.R | 64 ++ utiml-0.1.4/utiml/inst/doc/utiml-overview.Rmd | 167 +++--- utiml-0.1.4/utiml/man/as.matrix.mlconfmat.Rd |only utiml-0.1.4/utiml/man/baseline.Rd | 6 utiml-0.1.4/utiml/man/br.Rd | 15 utiml-0.1.4/utiml/man/brplus.Rd | 12 utiml-0.1.4/utiml/man/cc.Rd | 12 utiml-0.1.4/utiml/man/clr.Rd | 12 utiml-0.1.4/utiml/man/compute_multilabel_predictions.Rd | 8 utiml-0.1.4/utiml/man/ctrl.Rd | 12 utiml-0.1.4/utiml/man/cv.Rd |only utiml-0.1.4/utiml/man/dbr.Rd | 12 utiml-0.1.4/utiml/man/ebr.Rd | 12 utiml-0.1.4/utiml/man/ecc.Rd | 12 utiml-0.1.4/utiml/man/eps.Rd | 12 utiml-0.1.4/utiml/man/esl.Rd |only utiml-0.1.4/utiml/man/foodtruck.Rd |only utiml-0.1.4/utiml/man/homer.Rd | 11 utiml-0.1.4/utiml/man/lift.Rd | 2 utiml-0.1.4/utiml/man/lp.Rd | 2 utiml-0.1.4/utiml/man/mbr.Rd | 2 utiml-0.1.4/utiml/man/mlknn.Rd |only utiml-0.1.4/utiml/man/mlpredict.Rd | 70 -- utiml-0.1.4/utiml/man/mltrain.Rd | 65 -- utiml-0.1.4/utiml/man/multilabel_confusion_matrix.Rd | 5 utiml-0.1.4/utiml/man/multilabel_evaluate.Rd | 11 utiml-0.1.4/utiml/man/multilabel_measures.Rd | 5 utiml-0.1.4/utiml/man/ns.Rd | 2 utiml-0.1.4/utiml/man/ppt.Rd | 2 utiml-0.1.4/utiml/man/predict.ESLmodel.Rd |only utiml-0.1.4/utiml/man/predict.MLKNNmodel.Rd |only utiml-0.1.4/utiml/man/print.ESLmodel.Rd |only utiml-0.1.4/utiml/man/print.MLKNNmodel.Rd |only utiml-0.1.4/utiml/man/prudent.Rd | 2 utiml-0.1.4/utiml/man/ps.Rd | 2 utiml-0.1.4/utiml/man/rakel.Rd | 2 utiml-0.1.4/utiml/man/rdbr.Rd | 2 utiml-0.1.4/utiml/man/rpc.Rd | 2 utiml-0.1.4/utiml/man/utiml.Rd | 24 utiml-0.1.4/utiml/tests/testthat/test_brclassifiers.R | 8 utiml-0.1.4/utiml/tests/testthat/test_cv.R |only utiml-0.1.4/utiml/tests/testthat/test_evaluation.R | 38 + utiml-0.1.4/utiml/tests/testthat/test_seed.R | 6 utiml-0.1.4/utiml/tests/testthat/test_threshold.R | 14 utiml-0.1.4/utiml/vignettes/utiml-overview.Rmd | 167 +++--- utiml-0.1.4/utiml/vignettes/utiml-overview.html | 346 +++++++++--- 121 files changed, 1326 insertions(+), 1117 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
(<https://orcid.org/0000-0002-0734-2199>),
Christoph Burow [aut, trl, dtc]
(<https://orcid.org/0000-0002-5023-4046>),
Michael Dietze [aut] (<https://orcid.org/0000-0001-6063-1726>),
Margret C. Fuchs [aut],
Christoph Schmidt [aut] (<https://orcid.org/0000-0002-2309-3209>),
Manfred Fischer [aut, trl],
Johannes Friedrich [aut],
Norbert Mercier [ctb],
Rachel K. Smedley [ctb] (<https://orcid.org/0000-0001-7773-5193>),
Claire Christophe [ctb],
Antoine Zink [ctb],
Julie Durcan [ctb] (<https://orcid.org/0000-0001-8724-8022>),
Georgina E. King [ctb, dtc] (<https://orcid.org/0000-0003-1059-8192>),
Anne Philippe [ctb],
Guillaume Guerin [ctb] (<https://orcid.org/0000-0001-6298-5579>),
Markus Fuchs [ths]
Maintainer: Sebastian Kreutzer <sebastian.kreutzer@u-bordeaux-montaigne.fr>
Diff between Luminescence versions 0.8.2 dated 2018-03-10 and 0.8.3 dated 2018-04-19
DESCRIPTION | 12 - MD5 | 252 ++++++++++++++++---------------- NEWS | 63 ++++++++ R/Luminescence-package.R | 4 R/analyse_SAR.CWOSL.R | 174 +++++++++++++--------- R/analyse_pIRIRSequence.R | 46 +++-- R/calc_FiniteMixture.R | 14 + R/convert_RLum2Risoe.BINfileData.R | 8 - R/plot_GrowthCurve.R | 116 +++++++------- build/vignette.rds |binary inst/CITATION | 2 inst/NEWS.Rd | 65 ++++++++ inst/doc/HowTo_analyse_Al2O3.html | 18 +- man/Analyse_SAR.OSLdata.Rd | 2 man/CW2pHMi.Rd | 2 man/CW2pLM.Rd | 2 man/CW2pLMi.Rd | 2 man/CW2pPMi.Rd | 2 man/GitHub-API.Rd | 2 man/Luminescence-package.Rd | 4 man/PSL2Risoe.BINfileData.Rd | 2 man/RLum-class.Rd | 2 man/RLum.Analysis-class.Rd | 2 man/RLum.Data.Curve-class.Rd | 2 man/RLum.Data.Image-class.Rd | 2 man/RLum.Data.Spectrum-class.Rd | 2 man/RLum.Results-class.Rd | 2 man/Risoe.BINfileData-class.Rd | 2 man/Risoe.BINfileData2RLum.Analysis.Rd | 2 man/Second2Gray.Rd | 2 man/analyse_Al2O3C_CrossTalk.Rd | 2 man/analyse_Al2O3C_ITC.Rd | 2 man/analyse_Al2O3C_Measurement.Rd | 2 man/analyse_FadingMeasurement.Rd | 2 man/analyse_IRSAR.RF.Rd | 2 man/analyse_SAR.CWOSL.Rd | 4 man/analyse_SAR.TL.Rd | 2 man/analyse_baSAR.Rd | 4 man/analyse_pIRIRSequence.Rd | 4 man/analyse_portableOSL.Rd | 2 man/app_RLum.Rd | 2 man/apply_CosmicRayRemoval.Rd | 2 man/apply_EfficiencyCorrection.Rd | 2 man/bin_RLum.Data.Rd | 2 man/calc_AliquotSize.Rd | 2 man/calc_AverageDose.Rd | 2 man/calc_CentralDose.Rd | 2 man/calc_CommonDose.Rd | 2 man/calc_CosmicDoseRate.Rd | 2 man/calc_FadingCorr.Rd | 2 man/calc_FastRatio.Rd | 2 man/calc_FiniteMixture.Rd | 4 man/calc_FuchsLang2001.Rd | 2 man/calc_HomogeneityTest.Rd | 2 man/calc_Huntley2006.Rd | 2 man/calc_IEU.Rd | 2 man/calc_Kars2008.Rd | 2 man/calc_Lamothe2003.Rd | 2 man/calc_MaxDose.Rd | 2 man/calc_MinDose.Rd | 2 man/calc_OSLLxTxRatio.Rd | 2 man/calc_SourceDoseRate.Rd | 2 man/calc_Statistics.Rd | 2 man/calc_TLLxTxRatio.Rd | 2 man/calc_ThermalLifetime.Rd | 2 man/calc_WodaFuchs2008.Rd | 2 man/calc_gSGC.Rd | 2 man/convert_Activity2Concentration.Rd | 2 man/convert_BIN2CSV.Rd | 2 man/convert_Daybreak2CSV.Rd | 2 man/convert_PSL2CSV.Rd | 2 man/convert_RLum2Risoe.BINfileData.Rd | 4 man/convert_XSYG2CSV.Rd | 2 man/extract_IrradiationTimes.Rd | 2 man/fit_CWCurve.Rd | 2 man/fit_LMCurve.Rd | 2 man/fit_SurfaceExposure.Rd | 2 man/get_Layout.Rd | 2 man/get_Quote.Rd | 2 man/get_RLum.Rd | 2 man/get_Risoe.BINfileData.Rd | 2 man/get_rightAnswer.Rd | 2 man/length_RLum.Rd | 2 man/merge_RLum.Analysis.Rd | 2 man/merge_RLum.Data.Curve.Rd | 2 man/merge_RLum.Rd | 2 man/merge_RLum.Results.Rd | 2 man/merge_Risoe.BINfileData.Rd | 4 man/model_LuminescenceSignals.Rd | 2 man/names_RLum.Rd | 2 man/plot_AbanicoPlot.Rd | 2 man/plot_DRTResults.Rd | 2 man/plot_DetPlot.Rd | 2 man/plot_FilterCombinations.Rd | 2 man/plot_GrowthCurve.Rd | 4 man/plot_Histogram.Rd | 2 man/plot_KDE.Rd | 2 man/plot_NRt.Rd | 2 man/plot_RLum.Analysis.Rd | 2 man/plot_RLum.Data.Curve.Rd | 2 man/plot_RLum.Data.Image.Rd | 2 man/plot_RLum.Data.Spectrum.Rd | 2 man/plot_RLum.Rd | 2 man/plot_RLum.Results.Rd | 2 man/plot_RadialPlot.Rd | 2 man/plot_Risoe.BINfileData.Rd | 2 man/plot_ViolinPlot.Rd | 2 man/read_BIN2R.Rd | 2 man/read_Daybreak2R.Rd | 2 man/read_PSL2R.Rd | 2 man/read_SPE2R.Rd | 2 man/read_XSYG2R.Rd | 2 man/replicate_RLum.Rd | 2 man/report_RLum.Rd | 2 man/sTeve.Rd | 2 man/set_RLum.Rd | 2 man/set_Risoe.BINfileData.Rd | 2 man/smooth_RLum.Rd | 2 man/structure_RLum.Rd | 2 man/template_DRAC.Rd | 2 man/tune_Data.Rd | 2 man/use_DRAC.Rd | 2 man/verify_SingleGrainData.Rd | 2 man/write_R2BIN.Rd | 2 man/write_RLum2CSV.Rd | 2 src/src_create_RLumDataCurve_matrix.cpp | 10 + tests/testthat/test_github.R | 31 +++ 127 files changed, 635 insertions(+), 420 deletions(-)
Title: TIFF I/O for 'ImageJ' Users
Description: Correctly import TIFF files that were saved from 'ImageJ' and write
TIFF files than can be correctly read by 'ImageJ'
<https://imagej.nih.gov/ij/>. Full support for TIFF files with floating
point (real-numbered) pixels. Also supports text image I/O.
Author: Rory Nolan [aut, cre] (<https://orcid.org/0000-0002-5239-4043>),
Simon Urbanek [ctb],
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>),
Jeroen Ooms [rev] (<https://orcid.org/0000-0002-4035-0289>),
Jon Clayden [rev] (<https://orcid.org/0000-0002-6608-0619>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between ijtiff versions 1.0.0 dated 2018-03-16 and 1.1.0 dated 2018-04-19
DESCRIPTION | 23 - MD5 | 37 +- NAMESPACE | 2 NEWS.md | 13 R/graphics.R | 10 R/ijtiff.R | 4 R/read.R | 64 +++- R/utils.R | 34 ++ R/write.R | 6 inst/CITATION |only inst/doc/ijtiff.html | 4 man/count_imgs.Rd |only man/display.Rd | 7 man/read_tags.Rd |only man/write_tif.Rd | 2 src/Makevars | 3 src/RcppExports.cpp | 12 src/read.c | 465 ++++++++++++++++++++---------- src/write.c | 15 tests/testthat/test-count_imgs-examples.R |only tests/testthat/test-read_tags-examples.R |only tests/testthat/test_graphics.R | 5 22 files changed, 497 insertions(+), 209 deletions(-)
Title: Functions for Tabular Reporting
Description: Create pretty tables for 'Microsoft Word', 'Microsoft PowerPoint' and 'HTML' documents.
Functions are provided to let users create tables, modify and format their content.
It extends package 'officer' that does not contain any feature for customized tabular reporting
and can be used with R Markdown documents. It also work within R markdown documents when rendering
to HTML and to 'Microsoft Word' documents.
Author: David Gohel [aut, cre],
Maxim Nazarov [ctb] (rmarkdown for docx output)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between flextable versions 0.4.3 dated 2018-03-14 and 0.4.4 dated 2018-04-19
DESCRIPTION | 6 ++--- MD5 | 58 ++++++++++++++++++++++++------------------------- NAMESPACE | 1 NEWS | 13 ++++++++++ R/display_funs.R | 10 +++++--- R/docx_str.R | 18 ++++++++------- R/flextable_sizes.R | 3 ++ R/html_str.R | 3 ++ R/ph_with_flextable.R | 3 ++ R/printers.R | 14 +++++++++++ R/r6_class.R | 2 - R/set_headers.R | 12 ++++++++-- R/styles.R | 56 ++++++++++++++++++++++++++++++++++++++--------- R/tabpart_format.R | 9 ++++--- README.md | 22 +++--------------- build/vignette.rds |binary inst/doc/examples.R | 3 -- inst/doc/examples.Rmd | 3 -- inst/doc/examples.html | 23 +++++++------------ inst/doc/format.html | 6 ++--- inst/doc/layout.Rmd | 7 +++++ inst/doc/layout.html | 5 +++- inst/doc/overview.Rmd | 6 +++-- inst/doc/overview.html | 4 +-- man/as_image.Rd | 6 +++-- man/hyperlink_text.Rd | 2 - man/rotate.Rd | 11 +++++++-- vignettes/examples.Rmd | 3 -- vignettes/layout.Rmd | 7 +++++ vignettes/overview.Rmd | 6 +++-- 30 files changed, 206 insertions(+), 116 deletions(-)
Title: Statistical Methods for Regional Counts
Description: Implements statistical methods for analyzing the counts of areal data,
with a focus on the detection of spatial clusters and clustering.
Author: Joshua French
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smerc versions 0.4.3 dated 2018-04-08 and 0.4.5 dated 2018-04-19
DESCRIPTION | 10 +++++----- MD5 | 11 ++++++----- NEWS |only R/bn.test.R | 12 +++++++----- R/tango.test.R | 2 +- man/bn.test.Rd | 9 ++++++--- tests/testthat/test-bn.test.R | 28 ++++++++++++++++++++++++++++ 7 files changed, 53 insertions(+), 19 deletions(-)
Title: Epistemic Network Analysis
Description: ENA (Shaffer, D. W. (2017) Quantitative Ethnography. ISBN: 0578191687) is a method used to identify meaningful and quantifiable patterns in discourse or reasoning. ENA moves beyond the traditional frequency-based assessments by examining the structure of the co-occurrence, or connections in coded data. Moreover, compared to other methodological approaches, ENA has the novelty of (1) modeling whole networks of connections and (2) affording both quantitative and qualitative comparisons between different network models. Shaffer, D.W., Collier, W., & Ruis, A.R. (2016) <doi:10.18608/jla.2016.33.3>.
Author: Cody L Marquart [aut, cre],
Zachari Swiecki [aut],
Wesley Collier [aut],
Brendan Eagan [aut],
Roman Woodward [aut],
David Williamson Shaffer [aut]
Maintainer: Cody L Marquart <cody.marquart@wisc.edu>
Diff between rENA versions 0.1.3 dated 2018-01-26 and 0.1.4 dated 2018-04-19
rENA-0.1.3/rENA/man/ena.conversation.Rd |only rENA-0.1.4/rENA/DESCRIPTION | 8 rENA-0.1.4/rENA/MD5 | 96 + rENA-0.1.4/rENA/NAMESPACE | 2 rENA-0.1.4/rENA/R/ENAdata.R | 14 rENA-0.1.4/rENA/R/ENAplot.R | 62 - rENA-0.1.4/rENA/R/ENAset.R | 770 +++++----------- rENA-0.1.4/rENA/R/accumulate.data.R | 17 rENA-0.1.4/rENA/R/ena.accumulate.data.R | 24 rENA-0.1.4/rENA/R/ena.conversation.R | 55 - rENA-0.1.4/rENA/R/ena.conversations.R |only rENA-0.1.4/rENA/R/ena.correlations.R | 9 rENA-0.1.4/rENA/R/ena.generate.R | 205 +++- rENA-0.1.4/rENA/R/ena.group.R | 20 rENA-0.1.4/rENA/R/ena.make.set.R | 48 rENA-0.1.4/rENA/R/ena.plot.R | 17 rENA-0.1.4/rENA/R/ena.plot.group.R | 24 rENA-0.1.4/rENA/R/ena.plot.network.R | 136 +- rENA-0.1.4/rENA/R/ena.plot.points.R | 30 rENA-0.1.4/rENA/R/ena.plot.trajectory.R | 53 - rENA-0.1.4/rENA/R/ena.rotate.by.mean.R | 9 rENA-0.1.4/rENA/R/ena.svd.R | 7 rENA-0.1.4/rENA/R/ena.unit.group.R |only rENA-0.1.4/rENA/R/lws.positions.sq.R | 10 rENA-0.1.4/rENA/R/zzz.R | 2 rENA-0.1.4/rENA/demo/fullExample.R | 2 rENA-0.1.4/rENA/inst/include/rENA_RcppExports.h | 8 rENA-0.1.4/rENA/man/ENARotationSet.Rd | 1 rENA-0.1.4/rENA/man/ENAdata.Rd | 2 rENA-0.1.4/rENA/man/ENAplot.Rd | 2 rENA-0.1.4/rENA/man/ENAset.Rd | 2 rENA-0.1.4/rENA/man/RS.data.Rd | 1 rENA-0.1.4/rENA/man/cohens.d.Rd | 1 rENA-0.1.4/rENA/man/ena.accumulate.data.Rd | 13 rENA-0.1.4/rENA/man/ena.conversations.Rd |only rENA-0.1.4/rENA/man/ena.correlations.Rd | 5 rENA-0.1.4/rENA/man/ena.group.Rd | 7 rENA-0.1.4/rENA/man/ena.make.set.Rd | 1 rENA-0.1.4/rENA/man/ena.plot.Rd | 19 rENA-0.1.4/rENA/man/ena.plot.group.Rd | 7 rENA-0.1.4/rENA/man/ena.plot.network.Rd | 18 rENA-0.1.4/rENA/man/ena.plot.points.Rd | 15 rENA-0.1.4/rENA/man/ena.plot.trajectory.Rd | 20 rENA-0.1.4/rENA/man/ena.rotate.by.mean.Rd | 1 rENA-0.1.4/rENA/man/ena.svd.Rd | 1 rENA-0.1.4/rENA/man/group.stats.Rd | 1 rENA-0.1.4/rENA/man/namesToAdjacencyKey.Rd | 1 rENA-0.1.4/rENA/man/rENA.Rd | 1 rENA-0.1.4/rENA/src/lws_lsq_positions_c.cpp | 5 rENA-0.1.4/rENA/tests/testthat/test.ena.accumulations.R | 88 + rENA-0.1.4/rENA/tests/testthat/test.ena.make.set.R | 94 + 51 files changed, 978 insertions(+), 956 deletions(-)
Title: Chart Generation for 'Microsoft Word' and 'Microsoft PowerPoint'
Documents
Description: Create native charts for 'Microsoft PowerPoint' and 'Microsoft Word' documents.
These can then be edited and annotated. Functions are provided to let users create charts, modify
and format their content. The chart's underlying data is automatically saved within the
'Word' document or 'PowerPoint' presentation. It extends package 'officer' that does
not contain any feature for 'Microsoft' native charts production.
Author: David Gohel [aut, cre],
YouGov [fnd]
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between mschart versions 0.2.2 dated 2017-12-12 and 0.2.3 dated 2018-04-19
mschart-0.2.2/mschart/tools |only mschart-0.2.2/mschart/vignettes/assets |only mschart-0.2.3/mschart/DESCRIPTION | 6 mschart-0.2.3/mschart/MD5 | 62 +- mschart-0.2.3/mschart/NAMESPACE | 3 mschart-0.2.3/mschart/NEWS.md | 10 mschart-0.2.3/mschart/R/axis_codes.R | 12 mschart-0.2.3/mschart/R/body_add_chart.R | 16 mschart-0.2.3/mschart/R/chart_data_color.R | 69 +++ mschart-0.2.3/mschart/R/chart_data_labels.R | 12 mschart-0.2.3/mschart/R/ms_chart.R | 4 mschart-0.2.3/mschart/R/ooml_code.R | 80 ++- mschart-0.2.3/mschart/R/series.R | 3 mschart-0.2.3/mschart/R/utils.R | 46 ++ mschart-0.2.3/mschart/README.md | 55 +- mschart-0.2.3/mschart/build/vignette.rds |binary mschart-0.2.3/mschart/inst/doc/details.Rmd | 2 mschart-0.2.3/mschart/inst/doc/details.html | 488 ++++++++++++++++------- mschart-0.2.3/mschart/inst/doc/introduction.R | 2 mschart-0.2.3/mschart/inst/doc/introduction.Rmd | 9 mschart-0.2.3/mschart/inst/doc/introduction.html | 329 ++++++++++++--- mschart-0.2.3/mschart/man/chart_data_labels.Rd | 4 mschart-0.2.3/mschart/man/chart_labels_text.Rd |only mschart-0.2.3/mschart/vignettes/details.Rmd | 2 mschart-0.2.3/mschart/vignettes/introduction.Rmd | 9 25 files changed, 904 insertions(+), 319 deletions(-)
Title: Data.frame-Like Operations on Sparse and Dense Matrix Objects
Description: Implements data manipulation methods such as cast, aggregate, and merge/join for Matrix and matrix-like objects.
Author: Craig Varrichio <canthony427@gmail.com>
Maintainer: Craig Varrichio <canthony427@gmail.com>
Diff between Matrix.utils versions 0.9.6 dated 2017-08-28 and 0.9.7 dated 2018-04-19
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/Matrix.utils.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Airborne LiDAR Data Manipulation and Visualization for Forestry
Applications
Description: Airborne LiDAR (Light Detection and Ranging) interface for data
manipulation and visualization. Read/write 'las' and 'laz' files, computation
of metrics in area based approach, point filtering, artificial point reduction,
classification from geographic data, normalization, individual tree segmentation
and other manipulations.
Author: Jean-Romain Roussel [aut, cre, cph],
David Auty [aut, ctb] (Reviews the documentation),
Florian De Boissieu [ctb] (Fixed bugs and improved catalog features),
Andrew Sánchez Meador [ctb] (Implemented lassnags)
Maintainer: Jean-Romain Roussel <jean-romain.roussel.1@ulaval.ca>
Diff between lidR versions 1.4.1 dated 2018-01-31 and 1.4.2 dated 2018-04-19
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS.md | 15 +++++++++++++++ R/RcppExports.R | 4 ++-- R/grid_catalog.r | 2 +- R/grid_tincanopy.r | 3 +++ R/lasclassify.r | 14 +++++++++++--- R/lastrees.r | 21 ++++++++++++++++----- R/metrics.r | 10 ++++++++-- man/lastrees.Rd | 5 ++++- src/RcppExports.cpp | 9 +++++---- src/algo_li2012.cpp | 8 ++++---- src/cxx_utils.cpp | 4 ++-- tests/testthat/Rplots.pdf |binary 14 files changed, 88 insertions(+), 41 deletions(-)
Title: A Tidy Tool for Phylogenetic Tree Data Manipulation
Description: Phylogenetic tree generally contains multiple components including node, edge, branch and associated data. 'tidytree' provides an approach to convert tree object to tidy data frame as well as provides tidy interfaces to manipulate tree data.
Author: Guangchuang Yu [aut, cre, cph]
(<https://orcid.org/0000-0002-6485-8781>),
Bradley Jones [ctb],
Zebulun Arendsee [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between tidytree versions 0.1.7 dated 2018-02-27 and 0.1.8 dated 2018-04-19
DESCRIPTION | 6 ++-- MD5 | 7 +++-- NEWS.md |only R/as-data-frame.R | 3 ++ inst/doc/tidytree.html | 60 +++++++++++++++++++++++++------------------------ 5 files changed, 41 insertions(+), 35 deletions(-)
Title: Spatial ARCH and GARCH Models (spGARCH)
Description: A collection of functions to deal with spatial and spatiotemporal autoregressive conditional heteroscedasticity (spatial ARCH and GARCH models) by Otto, Schmid, Garthoff (2017) <arXiv:1609.00711>: simulation of spatial ARCH-type processes (spARCH, exponential spARCH, complex spARCH); quasi-maximum-likelihood estimation of the parameters of spARCH models and spatial autoregressive models with spARCH disturbances, diagnostic checks, visualizations.
Author: Philipp Otto [cre, aut] (<https://orcid.org/0000-0002-9796-6682>)
Maintainer: Philipp Otto <potto@europa-uni.de>
Diff between spGARCH versions 0.1.3 dated 2018-03-29 and 0.1.4 dated 2018-04-19
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/Estimation.R | 1 + 3 files changed, 6 insertions(+), 5 deletions(-)
Title: HTTP and WebSocket Server Library
Description: Provides low-level socket and protocol support for handling
HTTP and WebSocket requests directly from within R. It is primarily
intended as a building block for other packages, rather than making it
particularly easy to create complete web applications using httpuv alone.
httpuv is built on top of the libuv and http-parser C libraries, both of
which were developed by Joyent, Inc. (See LICENSE file for libuv and
http-parser license information.)
Author: Joe Cheng, Hector Corrada Bravo [ctb], Jeroen Ooms [ctb],
Winston Chang [ctb]
Maintainer: Joe Cheng <joe@rstudio.com>
Diff between httpuv versions 1.3.6.2 dated 2018-03-02 and 1.4.0 dated 2018-04-19
httpuv-1.3.6.2/httpuv/NEWS |only httpuv-1.3.6.2/httpuv/src/http-parser/CONTRIBUTIONS |only httpuv-1.3.6.2/httpuv/src/libuv/Makefile |only httpuv-1.3.6.2/httpuv/src/libuv/build.mk |only httpuv-1.3.6.2/httpuv/src/libuv/config-mingw.mk |only httpuv-1.3.6.2/httpuv/src/libuv/config-unix.mk |only httpuv-1.3.6.2/httpuv/src/libuv/gyp_uv |only httpuv-1.3.6.2/httpuv/src/libuv/include/uv-private |only httpuv-1.3.6.2/httpuv/src/libuv/src/unix/error.c |only httpuv-1.3.6.2/httpuv/src/libuv/src/unix/threadpool.c |only httpuv-1.3.6.2/httpuv/src/libuv/src/win/threadpool.c |only httpuv-1.3.6.2/httpuv/src/libuv/test/test-util.c |only httpuv-1.3.6.2/httpuv/src/register.c |only httpuv-1.4.0/httpuv/DESCRIPTION | 15 httpuv-1.4.0/httpuv/LICENSE | 47 httpuv-1.4.0/httpuv/MD5 | 705 +- httpuv-1.4.0/httpuv/NAMESPACE | 9 httpuv-1.4.0/httpuv/NEWS.md |only httpuv-1.4.0/httpuv/R/RcppExports.R | 70 httpuv-1.4.0/httpuv/R/httpuv.R | 342 - httpuv-1.4.0/httpuv/R/utils.R |only httpuv-1.4.0/httpuv/README.md | 24 httpuv-1.4.0/httpuv/demo/00Index | 1 httpuv-1.4.0/httpuv/demo/json-server.R |only httpuv-1.4.0/httpuv/man/runServer.Rd | 6 httpuv-1.4.0/httpuv/man/service.Rd | 27 httpuv-1.4.0/httpuv/man/startDaemonizedServer.Rd | 43 httpuv-1.4.0/httpuv/man/startServer.Rd | 31 httpuv-1.4.0/httpuv/man/stopAllServers.Rd |only httpuv-1.4.0/httpuv/man/stopDaemonizedServer.Rd | 15 httpuv-1.4.0/httpuv/man/stopServer.Rd | 14 httpuv-1.4.0/httpuv/src/Makevars | 54 httpuv-1.4.0/httpuv/src/Makevars.win | 36 httpuv-1.4.0/httpuv/src/RcppExports-legacy.cpp |only httpuv-1.4.0/httpuv/src/RcppExports.cpp | 128 httpuv-1.4.0/httpuv/src/auto_deleter.h |only httpuv-1.4.0/httpuv/src/callback.cpp |only httpuv-1.4.0/httpuv/src/callback.h |only httpuv-1.4.0/httpuv/src/callbackqueue.cpp |only httpuv-1.4.0/httpuv/src/callbackqueue.h |only httpuv-1.4.0/httpuv/src/filedatasource-unix.cpp | 10 httpuv-1.4.0/httpuv/src/filedatasource-win.cpp | 10 httpuv-1.4.0/httpuv/src/http-parser/AUTHORS | 27 httpuv-1.4.0/httpuv/src/http-parser/Makefile | 92 httpuv-1.4.0/httpuv/src/http-parser/README.md | 140 httpuv-1.4.0/httpuv/src/http-parser/bench.c |only httpuv-1.4.0/httpuv/src/http-parser/contrib/parsertrace.c | 12 httpuv-1.4.0/httpuv/src/http-parser/contrib/url_parser.c | 13 httpuv-1.4.0/httpuv/src/http-parser/http_parser.c | 963 ++- httpuv-1.4.0/httpuv/src/http-parser/http_parser.h | 151 httpuv-1.4.0/httpuv/src/http-parser/test.c | 915 ++ httpuv-1.4.0/httpuv/src/http.cpp | 643 -- httpuv-1.4.0/httpuv/src/http.h | 268 httpuv-1.4.0/httpuv/src/httprequest.cpp |only httpuv-1.4.0/httpuv/src/httprequest.h |only httpuv-1.4.0/httpuv/src/httpresponse.cpp |only httpuv-1.4.0/httpuv/src/httpresponse.h |only httpuv-1.4.0/httpuv/src/httpuv.cpp | 736 -- httpuv-1.4.0/httpuv/src/httpuv.h |only httpuv-1.4.0/httpuv/src/libuv/AUTHORS | 238 httpuv-1.4.0/httpuv/src/libuv/CONTRIBUTING.md |only httpuv-1.4.0/httpuv/src/libuv/ChangeLog | 3206 +++++++++- httpuv-1.4.0/httpuv/src/libuv/LICENSE | 37 httpuv-1.4.0/httpuv/src/libuv/LICENSE-docs |only httpuv-1.4.0/httpuv/src/libuv/MAINTAINERS.md |only httpuv-1.4.0/httpuv/src/libuv/Makefile.am |only httpuv-1.4.0/httpuv/src/libuv/Makefile.in |only httpuv-1.4.0/httpuv/src/libuv/Makefile.mingw |only httpuv-1.4.0/httpuv/src/libuv/README.md | 348 - httpuv-1.4.0/httpuv/src/libuv/SUPPORTED_PLATFORMS.md |only httpuv-1.4.0/httpuv/src/libuv/aclocal.m4 |only httpuv-1.4.0/httpuv/src/libuv/android-configure |only httpuv-1.4.0/httpuv/src/libuv/appveyor.yml |only httpuv-1.4.0/httpuv/src/libuv/ar-lib |only httpuv-1.4.0/httpuv/src/libuv/autogen.sh |only httpuv-1.4.0/httpuv/src/libuv/checksparse.sh | 46 httpuv-1.4.0/httpuv/src/libuv/common.gypi | 54 httpuv-1.4.0/httpuv/src/libuv/compile |only httpuv-1.4.0/httpuv/src/libuv/config.guess |only httpuv-1.4.0/httpuv/src/libuv/config.sub |only httpuv-1.4.0/httpuv/src/libuv/configure |only httpuv-1.4.0/httpuv/src/libuv/configure.ac |only httpuv-1.4.0/httpuv/src/libuv/depcomp |only httpuv-1.4.0/httpuv/src/libuv/docs |only httpuv-1.4.0/httpuv/src/libuv/gyp_uv.py |only httpuv-1.4.0/httpuv/src/libuv/img |only httpuv-1.4.0/httpuv/src/libuv/include/android-ifaddrs.h |only httpuv-1.4.0/httpuv/src/libuv/include/pthread-barrier.h |only httpuv-1.4.0/httpuv/src/libuv/include/stdint-msvc2008.h |only httpuv-1.4.0/httpuv/src/libuv/include/tree.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-aix.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-bsd.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-darwin.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-errno.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-linux.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-os390.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-posix.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-sunos.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-threadpool.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-unix.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-version.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv-win.h |only httpuv-1.4.0/httpuv/src/libuv/include/uv.h | 1845 ++--- httpuv-1.4.0/httpuv/src/libuv/install-sh |only httpuv-1.4.0/httpuv/src/libuv/libuv.nsi |only httpuv-1.4.0/httpuv/src/libuv/libuv.pc.in |only httpuv-1.4.0/httpuv/src/libuv/ltmain.sh |only httpuv-1.4.0/httpuv/src/libuv/m4 |only httpuv-1.4.0/httpuv/src/libuv/missing |only httpuv-1.4.0/httpuv/src/libuv/samples |only httpuv-1.4.0/httpuv/src/libuv/src/fs-poll.c | 116 httpuv-1.4.0/httpuv/src/libuv/src/heap-inl.h |only httpuv-1.4.0/httpuv/src/libuv/src/inet.c | 109 httpuv-1.4.0/httpuv/src/libuv/src/queue.h |only httpuv-1.4.0/httpuv/src/libuv/src/threadpool.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/aix-common.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/aix.c | 1027 ++- httpuv-1.4.0/httpuv/src/libuv/src/unix/android-ifaddrs.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/async.c | 202 httpuv-1.4.0/httpuv/src/libuv/src/unix/atomic-ops.h |only httpuv-1.4.0/httpuv/src/libuv/src/unix/bsd-ifaddrs.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/core.c | 929 ++ httpuv-1.4.0/httpuv/src/libuv/src/unix/cygwin.c | 82 httpuv-1.4.0/httpuv/src/libuv/src/unix/darwin-proctitle.c | 193 httpuv-1.4.0/httpuv/src/libuv/src/unix/darwin.c | 328 - httpuv-1.4.0/httpuv/src/libuv/src/unix/dl.c | 15 httpuv-1.4.0/httpuv/src/libuv/src/unix/freebsd.c | 250 httpuv-1.4.0/httpuv/src/libuv/src/unix/fs.c | 932 ++ httpuv-1.4.0/httpuv/src/libuv/src/unix/fsevents.c | 942 ++ httpuv-1.4.0/httpuv/src/libuv/src/unix/getaddrinfo.c | 185 httpuv-1.4.0/httpuv/src/libuv/src/unix/getnameinfo.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/ibmi.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/internal.h | 225 httpuv-1.4.0/httpuv/src/libuv/src/unix/kqueue.c | 276 httpuv-1.4.0/httpuv/src/libuv/src/unix/linux-core.c | 534 + httpuv-1.4.0/httpuv/src/libuv/src/unix/linux-inotify.c | 220 httpuv-1.4.0/httpuv/src/libuv/src/unix/linux-syscalls.c | 103 httpuv-1.4.0/httpuv/src/libuv/src/unix/linux-syscalls.h | 21 httpuv-1.4.0/httpuv/src/libuv/src/unix/loop-watcher.c | 20 httpuv-1.4.0/httpuv/src/libuv/src/unix/loop.c | 149 httpuv-1.4.0/httpuv/src/libuv/src/unix/netbsd.c | 229 httpuv-1.4.0/httpuv/src/libuv/src/unix/no-fsevents.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/no-proctitle.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/openbsd.c | 197 httpuv-1.4.0/httpuv/src/libuv/src/unix/os390-syscalls.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/os390-syscalls.h |only httpuv-1.4.0/httpuv/src/libuv/src/unix/os390.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/pipe.c | 318 httpuv-1.4.0/httpuv/src/libuv/src/unix/poll.c | 63 httpuv-1.4.0/httpuv/src/libuv/src/unix/posix-hrtime.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/posix-poll.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/process.c | 412 - httpuv-1.4.0/httpuv/src/libuv/src/unix/procfs-exepath.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/proctitle.c | 36 httpuv-1.4.0/httpuv/src/libuv/src/unix/pthread-fixes.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/signal.c | 166 httpuv-1.4.0/httpuv/src/libuv/src/unix/spinlock.h |only httpuv-1.4.0/httpuv/src/libuv/src/unix/stream.c | 1198 ++- httpuv-1.4.0/httpuv/src/libuv/src/unix/sunos.c | 491 + httpuv-1.4.0/httpuv/src/libuv/src/unix/sysinfo-loadavg.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/sysinfo-memory.c |only httpuv-1.4.0/httpuv/src/libuv/src/unix/tcp.c | 395 - httpuv-1.4.0/httpuv/src/libuv/src/unix/thread.c | 539 + httpuv-1.4.0/httpuv/src/libuv/src/unix/timer.c | 61 httpuv-1.4.0/httpuv/src/libuv/src/unix/tty.c | 305 httpuv-1.4.0/httpuv/src/libuv/src/unix/udp.c | 961 +- httpuv-1.4.0/httpuv/src/libuv/src/uv-common.c | 714 +- httpuv-1.4.0/httpuv/src/libuv/src/uv-common.h | 135 httpuv-1.4.0/httpuv/src/libuv/src/version.c | 25 httpuv-1.4.0/httpuv/src/libuv/src/win/async.c | 9 httpuv-1.4.0/httpuv/src/libuv/src/win/atomicops-inl.h | 3 httpuv-1.4.0/httpuv/src/libuv/src/win/core.c | 535 + httpuv-1.4.0/httpuv/src/libuv/src/win/detect-wakeup.c |only httpuv-1.4.0/httpuv/src/libuv/src/win/dl.c | 75 httpuv-1.4.0/httpuv/src/libuv/src/win/error.c | 17 httpuv-1.4.0/httpuv/src/libuv/src/win/fs-event.c | 411 - httpuv-1.4.0/httpuv/src/libuv/src/win/fs.c | 1964 +++--- httpuv-1.4.0/httpuv/src/libuv/src/win/getaddrinfo.c | 324 - httpuv-1.4.0/httpuv/src/libuv/src/win/getnameinfo.c |only httpuv-1.4.0/httpuv/src/libuv/src/win/handle-inl.h | 17 httpuv-1.4.0/httpuv/src/libuv/src/win/handle.c | 10 httpuv-1.4.0/httpuv/src/libuv/src/win/internal.h | 124 httpuv-1.4.0/httpuv/src/libuv/src/win/loop-watcher.c | 10 httpuv-1.4.0/httpuv/src/libuv/src/win/pipe.c | 1206 ++- httpuv-1.4.0/httpuv/src/libuv/src/win/poll.c | 111 httpuv-1.4.0/httpuv/src/libuv/src/win/process-stdio.c | 90 httpuv-1.4.0/httpuv/src/libuv/src/win/process.c | 660 +- httpuv-1.4.0/httpuv/src/libuv/src/win/req-inl.h | 49 httpuv-1.4.0/httpuv/src/libuv/src/win/signal.c | 173 httpuv-1.4.0/httpuv/src/libuv/src/win/snprintf.c |only httpuv-1.4.0/httpuv/src/libuv/src/win/stream-inl.h | 19 httpuv-1.4.0/httpuv/src/libuv/src/win/stream.c | 178 httpuv-1.4.0/httpuv/src/libuv/src/win/tcp.c | 838 +- httpuv-1.4.0/httpuv/src/libuv/src/win/thread.c | 501 - httpuv-1.4.0/httpuv/src/libuv/src/win/timer.c | 99 httpuv-1.4.0/httpuv/src/libuv/src/win/tty.c | 1095 ++- httpuv-1.4.0/httpuv/src/libuv/src/win/udp.c | 621 + httpuv-1.4.0/httpuv/src/libuv/src/win/util.c | 1093 ++- httpuv-1.4.0/httpuv/src/libuv/src/win/winapi.c | 87 httpuv-1.4.0/httpuv/src/libuv/src/win/winapi.h | 446 + httpuv-1.4.0/httpuv/src/libuv/src/win/winsock.c | 63 httpuv-1.4.0/httpuv/src/libuv/src/win/winsock.h | 19 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-async-pummel.c | 2 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-async.c | 18 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-fs-stat.c | 2 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-getaddrinfo.c | 5 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-loop-count.c | 18 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-million-async.c | 4 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-million-timers.c | 23 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-multi-accept.c | 91 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-ping-pongs.c | 59 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-pound.c | 88 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-pump.c | 89 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-sizes.c | 35 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-spawn.c | 27 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-tcp-write-batch.c | 7 httpuv-1.4.0/httpuv/src/libuv/test/benchmark-udp-pummel.c | 39 httpuv-1.4.0/httpuv/src/libuv/test/blackhole-server.c | 21 httpuv-1.4.0/httpuv/src/libuv/test/dns-server.c | 59 httpuv-1.4.0/httpuv/src/libuv/test/echo-server.c | 98 httpuv-1.4.0/httpuv/src/libuv/test/run-benchmarks.c | 17 httpuv-1.4.0/httpuv/src/libuv/test/run-tests.c | 61 httpuv-1.4.0/httpuv/src/libuv/test/runner-unix.c | 144 httpuv-1.4.0/httpuv/src/libuv/test/runner-win.c | 65 httpuv-1.4.0/httpuv/src/libuv/test/runner-win.h | 10 httpuv-1.4.0/httpuv/src/libuv/test/runner.c | 160 httpuv-1.4.0/httpuv/src/libuv/test/runner.h | 39 httpuv-1.4.0/httpuv/src/libuv/test/task.h | 138 httpuv-1.4.0/httpuv/src/libuv/test/test-active.c | 23 httpuv-1.4.0/httpuv/src/libuv/test/test-async-null-cb.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-async.c | 6 httpuv-1.4.0/httpuv/src/libuv/test/test-barrier.c | 16 httpuv-1.4.0/httpuv/src/libuv/test/test-callback-order.c | 6 httpuv-1.4.0/httpuv/src/libuv/test/test-callback-stack.c | 31 httpuv-1.4.0/httpuv/src/libuv/test/test-close-fd.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-close-order.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-condvar.c | 100 httpuv-1.4.0/httpuv/src/libuv/test/test-connection-fail.c | 21 httpuv-1.4.0/httpuv/src/libuv/test/test-cwd-and-chdir.c | 37 httpuv-1.4.0/httpuv/src/libuv/test/test-default-loop-close.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-delayed-accept.c | 36 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httpuv-1.4.0/httpuv/src/libuv/test/test-poll-close.c | 2 httpuv-1.4.0/httpuv/src/libuv/test/test-poll-closesocket.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-poll-oob.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-poll.c | 164 httpuv-1.4.0/httpuv/src/libuv/test/test-process-title.c | 32 httpuv-1.4.0/httpuv/src/libuv/test/test-queue-foreach-delete.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-ref.c | 54 httpuv-1.4.0/httpuv/src/libuv/test/test-run-nowait.c | 3 httpuv-1.4.0/httpuv/src/libuv/test/test-run-once.c | 3 httpuv-1.4.0/httpuv/src/libuv/test/test-semaphore.c | 4 httpuv-1.4.0/httpuv/src/libuv/test/test-shutdown-close.c | 15 httpuv-1.4.0/httpuv/src/libuv/test/test-shutdown-eof.c | 34 httpuv-1.4.0/httpuv/src/libuv/test/test-shutdown-twice.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-signal-multiple-loops.c | 90 httpuv-1.4.0/httpuv/src/libuv/test/test-signal.c | 183 httpuv-1.4.0/httpuv/src/libuv/test/test-socket-buffer-size.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-spawn.c | 1174 +++ httpuv-1.4.0/httpuv/src/libuv/test/test-stdio-over-pipes.c | 37 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-alloc-cb-fail.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-bind-error.c | 78 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-bind6-error.c | 67 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-close-accept.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-close-while-connecting.c | 32 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-close.c | 12 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-connect-error-after-write.c | 14 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-connect-error.c | 16 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-connect-timeout.c | 15 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-connect6-error.c | 16 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-create-socket-early.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-oob.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-open.c | 122 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-read-stop.c | 9 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-shutdown-after-write.c | 18 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-try-write.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-unexpected-read.c | 21 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-write-after-connect.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-write-fail.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-write-queue-order.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-write-to-half-open-connection.c | 27 httpuv-1.4.0/httpuv/src/libuv/test/test-tcp-writealot.c | 27 httpuv-1.4.0/httpuv/src/libuv/test/test-thread-equal.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-thread.c | 83 httpuv-1.4.0/httpuv/src/libuv/test/test-threadpool-cancel.c | 175 httpuv-1.4.0/httpuv/src/libuv/test/test-threadpool.c | 3 httpuv-1.4.0/httpuv/src/libuv/test/test-timer-again.c | 35 httpuv-1.4.0/httpuv/src/libuv/test/test-timer-from-check.c | 6 httpuv-1.4.0/httpuv/src/libuv/test/test-timer.c | 90 httpuv-1.4.0/httpuv/src/libuv/test/test-tmpdir.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-tty.c | 283 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-alloc-cb-fail.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-bind.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-create-socket-early.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-dgram-too-big.c | 12 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-ipv6.c | 62 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-multicast-interface.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-multicast-interface6.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-multicast-join.c | 32 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-multicast-join6.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-multicast-ttl.c | 15 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-open.c | 68 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-options.c | 62 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-send-and-recv.c | 52 httpuv-1.4.0/httpuv/src/libuv/test/test-udp-send-hang-loop.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-send-immediate.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-send-unreachable.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-udp-try-send.c |only httpuv-1.4.0/httpuv/src/libuv/test/test-walk-handles.c | 3 httpuv-1.4.0/httpuv/src/libuv/test/test-watcher-cross-stop.c |only httpuv-1.4.0/httpuv/src/libuv/tools |only httpuv-1.4.0/httpuv/src/libuv/uv.gyp | 391 - httpuv-1.4.0/httpuv/src/libuv/vcbuild.bat | 77 httpuv-1.4.0/httpuv/src/socket.cpp |only httpuv-1.4.0/httpuv/src/socket.h |only httpuv-1.4.0/httpuv/src/thread.cpp |only httpuv-1.4.0/httpuv/src/thread.h |only httpuv-1.4.0/httpuv/src/tqueue.h |only httpuv-1.4.0/httpuv/src/utils.cpp |only httpuv-1.4.0/httpuv/src/utils.h |only httpuv-1.4.0/httpuv/src/uvutil.cpp | 19 httpuv-1.4.0/httpuv/src/uvutil.h | 32 httpuv-1.4.0/httpuv/src/webapplication.cpp |only httpuv-1.4.0/httpuv/src/webapplication.h |only httpuv-1.4.0/httpuv/src/websockets-ietf.cpp | 4 httpuv-1.4.0/httpuv/src/websockets.cpp | 91 httpuv-1.4.0/httpuv/src/websockets.h | 33 httpuv-1.4.0/httpuv/tests |only 376 files changed, 32054 insertions(+), 13475 deletions(-)
Title: General Smoothing Splines
Description: A comprehensive package for structural multivariate
function estimation using smoothing splines.
Author: Chong Gu <chong@purdue.edu>
Maintainer: Chong Gu <chong@purdue.edu>
Diff between gss versions 2.1-7 dated 2017-02-24 and 2.1-8 dated 2018-04-19
ChangeLog | 6 DESCRIPTION | 8 MD5 | 49 ++-- NAMESPACE | 2 R/ssden9.R |only R/ssllrm.R | 13 - data/ColoCan.rda |binary data/LakeAcidity.rda |binary data/NO2.rda |binary data/Sachs.rda |binary data/aids.rda |binary data/bacteriuria.rda |binary data/buffalo.rda |binary data/clim.rda |binary data/esc.rda |binary data/eyetrack.rda |binary data/gastric.rda |binary data/nox.rda |binary data/ozone.rda |binary data/penny.rda |binary data/stan.rda |binary data/wesdr.rda |binary src/dnewton9.f |only src/dnewton99.f |only src/llrmnewton.f | 547 ++++++++++++++++++++++++------------------------ src/ratfor/dnewton9.r |only src/ratfor/dnewton99.r |only src/ratfor/llrmnewton.r | 33 +- 28 files changed, 340 insertions(+), 318 deletions(-)
Title: Fractional Hot Deck and Fully Efficient Fractional Imputation
Description: Impute general multivariate missing data with the fractional hot deck imputation based on Jaekwang Kim (2011) <doi:10.1093/biomet/asq073>.
Author: Jongho Im [aut],
Inho Cho [aut, cre],
Jaekwang Kim [aut]
Maintainer: Inho Cho <icho@iastate.edu>
Diff between FHDI versions 1.2.2 dated 2018-04-13 and 1.2.3 dated 2018-04-19
DESCRIPTION | 8 +- MD5 | 10 +- R/FHDI_CellMake.R | 2 R/FHDI_CellProb.R | 2 R/FHDI_Driver.R | 2 src/FHDI.cc | 192 ++++++++++++++++++++++++++++++++++++++++++------------ 6 files changed, 163 insertions(+), 53 deletions(-)
Title: Factor Adjusted Robust Model Selection
Description: Implements a consistent model selection strategy for high dimensional sparse regression when the covariate dependence can be reduced through factor models. By separating the latent factors from idiosyncratic components, the problem is transformed from model selection with highly correlated covariates to that with weakly correlated variables. It is appropriate for cases where we have many variables compared to the number of samples. Moreover, it implements a robust procedure to estimate distribution parameters wherever possible, hence being suitable for cases when the underlying distribution deviates from Gaussianity. See the paper on the 'FarmSelect' method, Fan et al.(2017) <arXiv:1612.08490>, for detailed description of methods and further references.
Author: Koushiki Bose [aut, cre],
Yuan Ke [aut],
Kaizheng Wang [aut]
Maintainer: Koushiki Bose <bose@princeton.edu>
Diff between FarmSelect versions 1.0.1 dated 2018-01-30 and 1.0.2 dated 2018-04-19
DESCRIPTION | 10 MD5 | 27 +- NAMESPACE | 3 R/RcppExports.R | 12 R/main_funcs.R | 449 +++++++++++++++++++++------------- build/vignette.rds |binary inst/doc/FarmSelect-vignette.R | 43 ++- inst/doc/FarmSelect-vignette.Rmd | 70 +++-- inst/doc/FarmSelect-vignette.html | 497 +++++++++++++------------------------- man/farm.res.Rd | 23 + man/farm.select.Rd | 80 ++++-- man/print.farm.select.Rd |only src/Cppfunctions.cpp | 94 +++++++ src/RcppExports.cpp | 41 +++ vignettes/FarmSelect-vignette.Rmd | 70 +++-- 15 files changed, 838 insertions(+), 581 deletions(-)
Title: Profile Analysis of Multivariate Data in R
Description: A suite of multivariate methods and data visualization
tools to implement profile analysis and cross-validation techniques described in
Davison & Davenport (2002) <DOI: 10.1037/1082-989X.7.4.468>, Bulut (2013), and other published and unpublished resources.
The package includes routines to perform criterion-related profile analysis, profile analysis
via multidimensional scaling, moderated profile analysis, profile analysis by group, and a
within-person factor model to derive score profiles.
Author: Okan Bulut <okanbulut84@gmail.com>, Christopher David Desjardins
<cddesjardins@gmail.com>
Maintainer: Christopher David Desjardins <cddesjardins@gmail.com>
Diff between profileR versions 0.3-4 dated 2017-02-24 and 0.3-5 dated 2018-04-19
DESCRIPTION | 24 ++++--- MD5 | 47 +++++++------- NEWS | 7 ++ R/data.R |only R/mpa.R | 156 +++++++++++++++++++++---------------------------- R/pbg.R | 14 +--- README.md | 14 +--- data/bacc2001.RData |only data/leisure.rda |binary man/anova.critpat.Rd | 1 man/bacc2001.Rd |only man/cpa.Rd | 1 man/interest.Rd | 1 man/leisure.Rd | 2 man/mpa.Rd | 29 ++++----- man/pams.Rd | 1 man/paos.Rd | 1 man/pbg.Rd | 1 man/pcv.Rd | 1 man/plot.critpat.Rd | 1 man/plot.prof.Rd | 1 man/pr.Rd | 1 man/print.critpat.Rd | 1 man/profileplot.Rd | 1 man/summary.critpat.Rd | 1 man/wprifm.Rd | 1 26 files changed, 135 insertions(+), 172 deletions(-)
Title: Multivariate Generalized Linear Mixed Models for Ranking Sports
Teams
Description: Maximum likelihood estimates are obtained via an EM algorithm with either a first-order or a fully exponential Laplace approximation.
Author: Andrew T. Karl (Adsurgo LLC), Jennifer Broatch (Arizona State University)
Maintainer: Andrew T. Karl <akarl@asu.edu>
Diff between mvglmmRank versions 1.1-2 dated 2015-11-13 and 1.2-1 dated 2018-04-19
DESCRIPTION | 11 ++- MD5 | 26 ++++---- NAMESPACE | 1 NEWS | 8 ++ R/NB_cre.R | 12 ++-- R/NB_mov.r | 14 ++-- R/N_mov.r |only R/PB_cre.R | 24 ++++---- R/binary_cre.R | 27 +++++---- R/mvglmmRank.R | 10 ++- R/normal_cre.R | 136 +++++++++++++++++++++++++++++++++++++++------- R/poisson_cre.R | 12 ++-- man/N_mov.Rd |only man/mvglmmRank-package.Rd | 5 + man/mvglmmRank.Rd | 14 +++- 15 files changed, 214 insertions(+), 86 deletions(-)
Title: Analysis and Mining of Multilayer Social Networks
Description: Functions for the creation/generation and analysis of multilayer social networks.
Author: Matteo Magnani, Mikael Dubik (lart and glouvain functions). The package uses functions from dlib, Eigen, Spectra and eclat libraries, whose code has been included in our source package.
Maintainer: Matteo Magnani <matteo.magnani@it.uu.se>
Diff between multinet versions 1.1.3 dated 2018-03-20 and 1.1.4 dated 2018-04-19
DESCRIPTION | 8 MD5 | 18 - src/include/transformation.h | 4 src/include/utils/math.h | 28 +- src/multinet/community/community_evaluation.cpp | 287 ++++++++++++------------ src/multinet/community/datastructures.cpp | 7 src/multinet/community/flattening.cpp | 7 src/multinet/community/mlp.cpp | 18 + src/multinet/community/modularity.cpp | 2 src/multinet/transformation/flattening.cpp | 53 ++++ 10 files changed, 251 insertions(+), 181 deletions(-)
Title: Least-Squares Bilinear Clustering for Three-Way Data
Description: Functions for performing least-squares bilinear clustering of
three-way data. The method uses the bilinear decomposition (or bi-additive
model) to model two-way matrix slices while clustering over the third way.
Up to four different types of clusters are included, one for each term of the
bilinear decomposition. In this way, matrices are clustered simultaneously on
(a subset of) their overall means, row margins, column margins and row-column
interactions. The orthogonality of the bilinear model results in separability of
the joint clustering problem into four separate ones. Three of these sub-problems
are specific k-means problems, while a special algorithm is implemented for the
interactions. Plotting methods are provided, including biplots for the low-rank
approximations of the interactions.
Author: Pieter Schoonees [aut, cre],
Patrick Groenen [ctb]
Maintainer: Pieter Schoonees <schoonees@gmail.com>
Diff between lsbclust versions 1.0.4 dated 2016-01-05 and 1.0.5 dated 2018-04-19
lsbclust-1.0.4/lsbclust/R/sim.lsbclust.R |only lsbclust-1.0.4/lsbclust/man/sim.lsbclust.Rd |only lsbclust-1.0.5/lsbclust/DESCRIPTION | 22 +-- lsbclust-1.0.5/lsbclust/MD5 | 118 +++++++++++------ lsbclust-1.0.5/lsbclust/NAMESPACE | 56 +++++++- lsbclust-1.0.5/lsbclust/R/RcppExports.R | 12 - lsbclust-1.0.5/lsbclust/R/T3Clusf.R | 133 ++++++++++++++++---- lsbclust-1.0.5/lsbclust/R/akmeans.R |only lsbclust-1.0.5/lsbclust/R/carray.R |only lsbclust-1.0.5/lsbclust/R/cfsim.R |only lsbclust-1.0.5/lsbclust/R/cfsim.T3Clusf.R |only lsbclust-1.0.5/lsbclust/R/cfsim.akmeans.R |only lsbclust-1.0.5/lsbclust/R/cfsim.lsbclust.R |only lsbclust-1.0.5/lsbclust/R/cluedefinitions.R | 53 ++++++- lsbclust-1.0.5/lsbclust/R/dcars.R | 2 lsbclust-1.0.5/lsbclust/R/fitted.T3Clusf.R |only lsbclust-1.0.5/lsbclust/R/fitted.akmeans.R |only lsbclust-1.0.5/lsbclust/R/fitted.lsbclust.R |only lsbclust-1.0.5/lsbclust/R/int.lsbclust.R | 93 +++++++++---- lsbclust-1.0.5/lsbclust/R/lsbclust-package.R | 5 lsbclust-1.0.5/lsbclust/R/lsbclust.R | 36 ++++- lsbclust-1.0.5/lsbclust/R/meanbiplot.R |only lsbclust-1.0.5/lsbclust/R/meanheatmap.R |only lsbclust-1.0.5/lsbclust/R/plot.T3Clusf.R |only lsbclust-1.0.5/lsbclust/R/rlsbclust.R |only lsbclust-1.0.5/lsbclust/R/rorth.R |only lsbclust-1.0.5/lsbclust/R/sim_lsbclust.R |only lsbclust-1.0.5/lsbclust/R/simsv.R |only lsbclust-1.0.5/lsbclust/R/step.lsbclust.R | 12 - lsbclust-1.0.5/lsbclust/data/dcars.rda |binary lsbclust-1.0.5/lsbclust/data/lov.rda |binary lsbclust-1.0.5/lsbclust/data/supermarkets.rda |binary lsbclust-1.0.5/lsbclust/inst/CITATION | 2 lsbclust-1.0.5/lsbclust/man/ClustMeans.Rd | 1 lsbclust-1.0.5/lsbclust/man/KMeansW.Rd | 4 lsbclust-1.0.5/lsbclust/man/LossMat.Rd | 1 lsbclust-1.0.5/lsbclust/man/T3Clusf.Rd | 18 +- lsbclust-1.0.5/lsbclust/man/akmeans.Rd |only lsbclust-1.0.5/lsbclust/man/bicomp.Rd | 1 lsbclust-1.0.5/lsbclust/man/carray.Rd |only lsbclust-1.0.5/lsbclust/man/cfsim.Rd |only lsbclust-1.0.5/lsbclust/man/cfsim.T3Clusf.Rd |only lsbclust-1.0.5/lsbclust/man/cfsim.akmeans.Rd |only lsbclust-1.0.5/lsbclust/man/cfsim.lsbclust.Rd |only lsbclust-1.0.5/lsbclust/man/cmat.Rd | 1 lsbclust-1.0.5/lsbclust/man/dcars.Rd | 3 lsbclust-1.0.5/lsbclust/man/fitted.T3Clusf.Rd |only lsbclust-1.0.5/lsbclust/man/fitted.akmeans.Rd |only lsbclust-1.0.5/lsbclust/man/fitted.lsbclust.Rd |only lsbclust-1.0.5/lsbclust/man/genproc.Rd | 1 lsbclust-1.0.5/lsbclust/man/indarr.Rd | 1 lsbclust-1.0.5/lsbclust/man/int.lsbclust.Rd | 15 +- lsbclust-1.0.5/lsbclust/man/lov.Rd | 1 lsbclust-1.0.5/lsbclust/man/lsbclust-package.Rd | 7 - lsbclust-1.0.5/lsbclust/man/lsbclust.Rd | 9 - lsbclust-1.0.5/lsbclust/man/lsbclusttoclue.Rd | 36 ++++- lsbclust-1.0.5/lsbclust/man/meanbiplot.Rd |only lsbclust-1.0.5/lsbclust/man/meanheatmap.Rd |only lsbclust-1.0.5/lsbclust/man/orc.lsbclust.Rd | 3 lsbclust-1.0.5/lsbclust/man/plot.T3Clusf.Rd |only lsbclust-1.0.5/lsbclust/man/plot.bicomp.Rd | 1 lsbclust-1.0.5/lsbclust/man/plot.col.kmeans.Rd | 1 lsbclust-1.0.5/lsbclust/man/plot.int.lsbclust.Rd | 1 lsbclust-1.0.5/lsbclust/man/plot.lsbclust.Rd | 7 - lsbclust-1.0.5/lsbclust/man/plot.ovl.kmeans.Rd | 1 lsbclust-1.0.5/lsbclust/man/plot.row.kmeans.Rd | 1 lsbclust-1.0.5/lsbclust/man/plot.step.lsbclust.Rd | 1 lsbclust-1.0.5/lsbclust/man/print.lsbclust.Rd | 1 lsbclust-1.0.5/lsbclust/man/rlsbclust.Rd |only lsbclust-1.0.5/lsbclust/man/rorth.Rd |only lsbclust-1.0.5/lsbclust/man/sim_lsbclust.Rd |only lsbclust-1.0.5/lsbclust/man/simsv.Rd |only lsbclust-1.0.5/lsbclust/man/step.lsbclust.Rd | 9 - lsbclust-1.0.5/lsbclust/man/summary.int.lsbclust.Rd | 1 lsbclust-1.0.5/lsbclust/man/summary.lsbclust.Rd | 1 lsbclust-1.0.5/lsbclust/man/supermarkets.Rd | 1 lsbclust-1.0.5/lsbclust/src/RcppExports.cpp | 66 ++++++--- 77 files changed, 516 insertions(+), 222 deletions(-)
Title: R Package for Designing and Analyzing Randomized Experiments
Description: Provides various statistical methods for
designing and analyzing randomized experiments. One main functionality
of the package is the implementation of randomized-block and
matched-pair designs based on possibly multivariate pre-treatment
covariates. The package also provides the tools to analyze various
randomized experiments including cluster randomized experiments,
two-stage randomized experiments, randomized experiments with
noncompliance, and randomized experiments with missing data.
Author: Kosuke Imai [aut, cre],
Zhichao Jiang [aut]
Maintainer: Kosuke Imai <kimai@princeton.edu>
Diff between experiment versions 1.1-2 dated 2018-01-18 and 1.1-3 dated 2018-04-19
DESCRIPTION | 16 ++++++++-------- MD5 | 9 +++++++-- R/CADEbasic.R |only R/CADErand.R |only R/CADEreg.R |only man/CADErand.Rd |only man/CADEreg.Rd |only src/MARnoncomp.c | 6 ++++-- 8 files changed, 19 insertions(+), 12 deletions(-)
Title: Regression Models for Ordinal Data
Description: Implementation of cumulative link (mixed) models also known
as ordered regression models, proportional odds models, proportional
hazards models for grouped survival times and ordered logit/probit/...
models. Estimation is via maximum likelihood and mixed models are fitted
with the Laplace approximation and adaptive Gauss-Hermite quadrature.
Multiple random effect terms are allowed and they may be nested, crossed or
partially nested/crossed. Restrictions of symmetry and equidistance can be
imposed on the thresholds (cut-points/intercepts). Standard model
methods are available (summary, anova, drop-methods, step,
confint, predict etc.) in addition to profile methods and slice
methods for visualizing the likelihood function and checking
convergence.
Author: Rune Haubo Bojesen Christensen [aut, cre]
Maintainer: Rune Haubo Bojesen Christensen <rune.haubo@gmail.com>
Diff between ordinal versions 2015.6-28 dated 2015-06-28 and 2018.4-19 dated 2018-04-19
DESCRIPTION | 12 +++++++----- LICENCE.note | 2 +- MD5 | 33 +++++++++++++++++---------------- NAMESPACE | 2 +- R/AO.R | 6 +++--- R/clm2.R | 13 ------------- R/clmm.R | 4 ++-- R/clmm.methods.R | 2 +- R/clmm.ssr.R | 2 +- R/clmm2.R | 2 +- R/clmm2.utils.R | 4 ++-- R/gdist.R | 6 +++--- R/gumbel.R | 12 ++++++------ R/lgamma.R | 6 +++--- man/clmm.Rd | 8 ++++++++ src/get_fitted.c | 8 ++++---- src/init.c |only src/utilityFuns.c | 46 +++++++++++++++++++++++----------------------- 18 files changed, 83 insertions(+), 85 deletions(-)
Title: Spatial Nonparametric Covariance Functions
Description: R functions for analyzing spatial (cross-)covariance: the
nonparametric (cross-)covariance, the spline correlogram, the
nonparametric phase coherence function, and related.
Author: Ottar N. Bjornstad [aut, cre],
Jun Cai [ctb]
Maintainer: Ottar N. Bjornstad <onb1@psu.edu>
Diff between ncf versions 1.2-2 dated 2018-04-10 and 1.2-3 dated 2018-04-19
ncf-1.2-2/ncf/R/ncf.r |only ncf-1.2-2/ncf/man/spline.correlog.2D.Rd |only ncf-1.2-3/ncf/CHANGES | 2 ncf-1.2-3/ncf/DESCRIPTION | 17 + ncf-1.2-3/ncf/MD5 | 91 +++++---- ncf-1.2-3/ncf/NAMESPACE | 99 ++++------ ncf-1.2-3/ncf/R/Sncf.R |only ncf-1.2-3/ncf/R/Sncf2D.R |only ncf-1.2-3/ncf/R/correlog.R |only ncf-1.2-3/ncf/R/data.R |only ncf-1.2-3/ncf/R/lisa.R |only ncf-1.2-3/ncf/R/mSynch.R |only ncf-1.2-3/ncf/R/mantel-test.R |only ncf-1.2-3/ncf/R/spline-correlog.R |only ncf-1.2-3/ncf/R/spline-correlog2D.R |only ncf-1.2-3/ncf/R/utilities.R |only ncf-1.2-3/ncf/man/Sncf.Rd | 265 +++++++++++---------------- ncf-1.2-3/ncf/man/Sncf.srf.Rd | 218 ++++++++++------------ ncf-1.2-3/ncf/man/Sncf2D.Rd | 235 ++++++++++------------- ncf-1.2-3/ncf/man/cc.offset.Rd | 62 ++---- ncf-1.2-3/ncf/man/circ.cor2.Rd | 55 ++--- ncf-1.2-3/ncf/man/cor2.Rd | 62 ++---- ncf-1.2-3/ncf/man/correlog.Rd | 206 +++++++++----------- ncf-1.2-3/ncf/man/correlog.nc.Rd | 143 ++++++-------- ncf-1.2-3/ncf/man/ff.filter.Rd | 44 ++-- ncf-1.2-3/ncf/man/gather.Rd | 41 ++-- ncf-1.2-3/ncf/man/gcdist.Rd | 22 +- ncf-1.2-3/ncf/man/lbm.Rd | 40 +--- ncf-1.2-3/ncf/man/lisa.Rd | 130 ++++++------- ncf-1.2-3/ncf/man/lisa.nc.Rd | 144 +++++++------- ncf-1.2-3/ncf/man/mSynch.Rd | 135 ++++++------- ncf-1.2-3/ncf/man/mantel.correlog.Rd | 165 +++++++--------- ncf-1.2-3/ncf/man/mantel.test.Rd | 127 ++++++------ ncf-1.2-3/ncf/man/partial.mantel.test.Rd | 116 +++++------ ncf-1.2-3/ncf/man/plot.Sncf.Rd | 65 +++--- ncf-1.2-3/ncf/man/plot.Sncf.cov.Rd | 51 ++--- ncf-1.2-3/ncf/man/plot.Sncf2D.Rd | 63 +++--- ncf-1.2-3/ncf/man/plot.cc.offset.Rd | 37 +-- ncf-1.2-3/ncf/man/plot.correlog.Rd | 55 ++--- ncf-1.2-3/ncf/man/plot.lisa.Rd | 70 +++---- ncf-1.2-3/ncf/man/plot.lisa.nc.Rd | 72 +++---- ncf-1.2-3/ncf/man/plot.spline.correlog.Rd | 59 ++---- ncf-1.2-3/ncf/man/print.Sncf.Rd | 46 ++-- ncf-1.2-3/ncf/man/print.Sncf2D.Rd | 26 +- ncf-1.2-3/ncf/man/print.mSynch.Rd | 60 ++---- ncf-1.2-3/ncf/man/print.spline.correlog.Rd | 46 ++-- ncf-1.2-3/ncf/man/rmvn.spa.Rd | 85 +++----- ncf-1.2-3/ncf/man/spatial.plot.Rd | 109 +++++------ ncf-1.2-3/ncf/man/spline.correlog.Rd | 257 +++++++++++--------------- ncf-1.2-3/ncf/man/spline.correlog2D.Rd |only ncf-1.2-3/ncf/man/summary.Sncf.Rd | 76 +++---- ncf-1.2-3/ncf/man/summary.Sncf2D.Rd | 54 ++--- ncf-1.2-3/ncf/man/summary.spline.correlog.Rd | 67 ++---- 53 files changed, 1701 insertions(+), 2016 deletions(-)
Title: Gaussian-Based Visualization of Gaussian and Non-Gaussian
Model-Based Clustering
Description: Gaussian-Based Visualization of Gaussian and Non-Gaussian Model-Based Clustering done on any type of data. Visualization is based on the probabilities of classification.
Author: Christophe Biernacki [aut],
Matthieu Marbac [aut, cre],
Vincent Vandewalle [aut]
Maintainer: Matthieu Marbac <matthieu.marbac@gmail.com>
Diff between ClusVis versions 1.0.0 dated 2017-07-13 and 1.1.0 dated 2018-04-19
ClusVis-1.0.0/ClusVis/src/clusvis_init.c |only ClusVis-1.1.0/ClusVis/DESCRIPTION | 21 +++---- ClusVis-1.1.0/ClusVis/MD5 | 22 ++++--- ClusVis-1.1.0/ClusVis/NAMESPACE | 4 + ClusVis-1.1.0/ClusVis/R/RcppExports.R | 4 - ClusVis-1.1.0/ClusVis/R/clusvis.R | 76 +++++++++++++++++++++++--- ClusVis-1.1.0/ClusVis/R/clusvisvarsellcm.R |only ClusVis-1.1.0/ClusVis/data |only ClusVis-1.1.0/ClusVis/inst |only ClusVis-1.1.0/ClusVis/man/ClusVis-package.Rd | 35 +++++++++-- ClusVis-1.1.0/ClusVis/man/clusvis.Rd | 22 +++++++ ClusVis-1.1.0/ClusVis/man/clusvisVarSelLCM.Rd |only ClusVis-1.1.0/ClusVis/man/congress.Rd |only ClusVis-1.1.0/ClusVis/src/Makevars | 1 ClusVis-1.1.0/ClusVis/src/RcppExports.cpp | 15 ++++- 15 files changed, 163 insertions(+), 37 deletions(-)
Title: Bayesian Estimation Supersedes the t-Test
Description: An alternative to t-tests, producing posterior estimates
for group means and standard deviations and their differences and
effect sizes.
Author: John K. Kruschke and Mike Meredith
Maintainer: Mike Meredith <mmeredith@wcs.org>
Diff between BEST versions 0.5.0 dated 2017-05-27 and 0.5.1 dated 2018-04-19
DESCRIPTION | 8 ++-- MD5 | 24 ++++++------- NEWS | 8 ++++ R/justRunJags.R | 3 + R/plotAll.R | 95 ++++++++++++++++----------------------------------- R/plotDataPPC.R | 97 +++++++++++++++++++++++++++++++++++++++-------------- R/plotPost.R | 3 + R/plotPostPred.R | 57 ++++--------------------------- build/vignette.rds |binary inst/doc/BEST.R | 2 - inst/doc/BEST.Rnw | 68 ++++++++++--------------------------- inst/doc/BEST.pdf |binary vignettes/BEST.Rnw | 68 ++++++++++--------------------------- 13 files changed, 181 insertions(+), 252 deletions(-)
Title: Alternating Minimization Induced Active Set Algorithms
Description: An implementation of alternating minimization induced active set (AMIAS) method for solving the L0 regularized learning problems. It includes a piecewise smooth estimator by minimizing the least squares function with constraints on the number of kink points in the discrete derivatives. It also includes generalized structural sparsity via composite L0 penalty. Both time series and image segmentation can be handled by this package.
Author: Canhong Wen, Zelin Hong, Xueqin Wang, Aijun Zhang
Maintainer: Canhong Wen <wencanhong@gmail.com>
Diff between AMIAS versions 1.0.1 dated 2017-11-20 and 1.0.2 dated 2018-04-19
AMIAS-1.0.1/AMIAS/R/gentM.R |only AMIAS-1.0.2/AMIAS/DESCRIPTION | 8 ++++---- AMIAS-1.0.2/AMIAS/MD5 | 6 +++--- AMIAS-1.0.2/AMIAS/R/getM.R |only AMIAS-1.0.2/AMIAS/R/inv2d.R | 2 +- 5 files changed, 8 insertions(+), 8 deletions(-)
Title: Download Mexico City Pollution, Wind, and Temperature Data
Description: Tools for downloading hourly averages, daily maximums and minimums from each of the
pollution, wind, and temperature measuring stations or geographic zones in the Mexico City
metro area. The package also includes the locations of each of the stations and zones. See
<http://aire.cdmx.gob.mx/> for more information.
Author: Diego Valle-Jones [aut, cre]
Maintainer: Diego Valle-Jones <diego@diegovalle.net>
Diff between aire.zmvm versions 0.6.0 dated 2018-03-25 and 0.6.1 dated 2018-04-19
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NAMESPACE | 1 + NEWS.md | 6 +++++- R/get_station_data.R | 2 +- R/get_station_imeca.R | 6 ++++-- man/get_station_imeca.Rd | 2 ++ 7 files changed, 22 insertions(+), 13 deletions(-)
Title: HTML Widgets for R
Description: A framework for creating HTML widgets that render in various
contexts including the R console, 'R Markdown' documents, and 'Shiny'
web applications.
Author: Ramnath Vaidyanathan [aut, cph],
Yihui Xie [aut],
JJ Allaire [aut, cre],
Joe Cheng [aut],
Kenton Russell [aut, cph],
RStudio [cph]
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between htmlwidgets versions 1.0 dated 2018-01-20 and 1.2 dated 2018-04-19
DESCRIPTION | 10 MD5 | 28 +- R/htmlwidgets.R | 21 + R/savewidget.R | 7 R/sizing.R | 8 R/utils.R | 49 ++- build/vignette.rds |binary inst/NEWS | 25 + inst/doc/develop_advanced.html | 428 ++++++++++++++++++++++++--------- inst/doc/develop_intro.html | 530 ++++++++++++++++++++++++++++------------- inst/doc/develop_sizing.Rmd | 1 inst/doc/develop_sizing.html | 434 ++++++++++++++++++++++++--------- man/htmlwidgets-shiny.Rd | 5 man/sizingPolicy.Rd | 9 vignettes/develop_sizing.Rmd | 1 15 files changed, 1106 insertions(+), 450 deletions(-)
Title: Risk Regression Models and Prediction Scores for Survival
Analysis with Competing Risks
Description: Implementation of the following methods for event history analysis.
Risk regression models for survival endpoints also in the presence of competing
risks are fitted using binomial regression based on a time sequence of binary
event status variables. A formula interface for the Fine-Gray regression model
and an interface for the combination of cause-specific Cox regression models.
A toolbox for assessing and comparing performance of risk predictions (risk
markers and risk prediction models). Prediction performance is measured by the
Brier score and the area under the ROC curve for binary possibly time-dependent
outcome. Inverse probability of censoring weighting and pseudo values are used
to deal with right censored data. Lists of risk markers and lists of risk models
are assessed simultaneously. Cross-validation repeatedly splits the data, trains
the risk prediction models on one part of each split and then summarizes and
compares the performance across splits.
Author: Thomas Alexander Gerds [aut, cre],
Paul Blanche [ctb],
Ulla Brasch Mogensen [ctb],
Brice Ozenne [aut]
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 1.4.3 dated 2017-06-30 and 2018.04.21 dated 2018-04-19
riskRegression-1.4.3/riskRegression/man/CoxBaseEstimator.Rd |only riskRegression-1.4.3/riskRegression/man/CoxCenter.Rd |only riskRegression-1.4.3/riskRegression/man/CoxDesign.Rd |only riskRegression-1.4.3/riskRegression/man/CoxFormula.Rd |only riskRegression-1.4.3/riskRegression/man/CoxLP.Rd |only riskRegression-1.4.3/riskRegression/man/CoxN.Rd |only riskRegression-1.4.3/riskRegression/man/CoxSpecialStrata.Rd |only riskRegression-1.4.3/riskRegression/man/CoxStrata.Rd |only riskRegression-1.4.3/riskRegression/man/CoxVarCov.Rd |only riskRegression-1.4.3/riskRegression/man/CoxVariableName.Rd |only riskRegression-1.4.3/riskRegression/man/IFlambda2hazard.Rd |only riskRegression-1.4.3/riskRegression/man/findP1.Rd |only riskRegression-1.4.3/riskRegression/man/iid.Rd |only riskRegression-1.4.3/riskRegression/man/influenceTest.Rd |only riskRegression-1.4.3/riskRegression/src/declareRoutines.c |only riskRegression-1.4.3/riskRegression/src/itfit.c |only riskRegression-1.4.3/riskRegression/src/itfitsemi.c |only riskRegression-1.4.3/riskRegression/tests/test-predictCox-CSC-Risk_internal.R |only riskRegression-2018.04.21/riskRegression/DESCRIPTION | 26 riskRegression-2018.04.21/riskRegression/MD5 | 255 - riskRegression-2018.04.21/riskRegression/NAMESPACE | 94 riskRegression-2018.04.21/riskRegression/NEWS |only riskRegression-2018.04.21/riskRegression/R/CSC.R | 142 riskRegression-2018.04.21/riskRegression/R/FGR.R | 18 riskRegression-2018.04.21/riskRegression/R/RcppExports.R | 52 riskRegression-2018.04.21/riskRegression/R/Score.R | 1982 +++++++--- riskRegression-2018.04.21/riskRegression/R/as.data.table.predictCox.R | 5 riskRegression-2018.04.21/riskRegression/R/ate.R | 898 ++-- riskRegression-2018.04.21/riskRegression/R/autoplot.ate.R | 17 riskRegression-2018.04.21/riskRegression/R/autoplot.predictCSC.R | 32 riskRegression-2018.04.21/riskRegression/R/autoplot.predictCox.R | 75 riskRegression-2018.04.21/riskRegression/R/boxplot.Score.R | 42 riskRegression-2018.04.21/riskRegression/R/calcBootATE.R |only riskRegression-2018.04.21/riskRegression/R/calcSeATE.R |only riskRegression-2018.04.21/riskRegression/R/calcSeCSC.R | 120 riskRegression-2018.04.21/riskRegression/R/calcSeCox.R | 192 riskRegression-2018.04.21/riskRegression/R/confBandCox.R | 8 riskRegression-2018.04.21/riskRegression/R/discreteRoot.R |only riskRegression-2018.04.21/riskRegression/R/getCensoringWeights.R | 91 riskRegression-2018.04.21/riskRegression/R/getComparisons.R | 37 riskRegression-2018.04.21/riskRegression/R/getCoxInfo.R | 893 +--- riskRegression-2018.04.21/riskRegression/R/getInfluenceCurve.R | 343 + riskRegression-2018.04.21/riskRegression/R/getLegendData.R |only riskRegression-2018.04.21/riskRegression/R/getNullModel.R | 4 riskRegression-2018.04.21/riskRegression/R/getResponse.R | 3 riskRegression-2018.04.21/riskRegression/R/getSplitMethod.R | 206 - riskRegression-2018.04.21/riskRegression/R/getVcov.R |only riskRegression-2018.04.21/riskRegression/R/iidCox.R | 512 +- riskRegression-2018.04.21/riskRegression/R/influenceTest.R | 343 + riskRegression-2018.04.21/riskRegression/R/ipcw.R | 150 riskRegression-2018.04.21/riskRegression/R/plot.riskRegression.R | 37 riskRegression-2018.04.21/riskRegression/R/plotAUC.R | 37 riskRegression-2018.04.21/riskRegression/R/plotBrier.R | 32 riskRegression-2018.04.21/riskRegression/R/plotCalibration.R | 273 - riskRegression-2018.04.21/riskRegression/R/plotEffects.R | 27 riskRegression-2018.04.21/riskRegression/R/plotROC.R | 168 riskRegression-2018.04.21/riskRegression/R/plotRisk.R | 14 riskRegression-2018.04.21/riskRegression/R/predict.CauseSpecificCox.R | 193 riskRegression-2018.04.21/riskRegression/R/predict.riskRegression.R | 131 riskRegression-2018.04.21/riskRegression/R/predictCox.R | 877 ++-- riskRegression-2018.04.21/riskRegression/R/predictCoxPL.R |only riskRegression-2018.04.21/riskRegression/R/predictRisk.R | 137 riskRegression-2018.04.21/riskRegression/R/print.CauseSpecificCox.R | 4 riskRegression-2018.04.21/riskRegression/R/print.InfluenceCoxTest.R |only riskRegression-2018.04.21/riskRegression/R/print.Score.R | 39 riskRegression-2018.04.21/riskRegression/R/print.ate.R | 59 riskRegression-2018.04.21/riskRegression/R/print.predictCSC.R | 5 riskRegression-2018.04.21/riskRegression/R/print.predictCox.R | 9 riskRegression-2018.04.21/riskRegression/R/print.riskRegression.R | 214 - riskRegression-2018.04.21/riskRegression/R/riskQuantile.R | 41 riskRegression-2018.04.21/riskRegression/R/riskRegression-package.R | 43 riskRegression-2018.04.21/riskRegression/R/riskRegression.R | 289 - riskRegression-2018.04.21/riskRegression/R/rsquared.R |only riskRegression-2018.04.21/riskRegression/R/sampleData.R | 59 riskRegression-2018.04.21/riskRegression/R/selectCox.R |only riskRegression-2018.04.21/riskRegression/R/subjectWeights.R | 8 riskRegression-2018.04.21/riskRegression/R/summary.riskRegression.R | 7 riskRegression-2018.04.21/riskRegression/R/zzz.R |only riskRegression-2018.04.21/riskRegression/data/Paquid.rda |only riskRegression-2018.04.21/riskRegression/man/CSC.Rd | 24 riskRegression-2018.04.21/riskRegression/man/Paquid.Rd |only riskRegression-2018.04.21/riskRegression/man/Score.list.Rd | 205 - riskRegression-2018.04.21/riskRegression/man/SurvResponseVar.Rd | 21 riskRegression-2018.04.21/riskRegression/man/ate.Rd | 249 + riskRegression-2018.04.21/riskRegression/man/autoplot.ate.Rd | 7 riskRegression-2018.04.21/riskRegression/man/autoplot.predictCSC.Rd | 7 riskRegression-2018.04.21/riskRegression/man/autoplot.predictCox.Rd | 30 riskRegression-2018.04.21/riskRegression/man/boot2pvalue.Rd |only riskRegression-2018.04.21/riskRegression/man/boxplot.Score.Rd | 22 riskRegression-2018.04.21/riskRegression/man/calcSeCSC.Rd | 8 riskRegression-2018.04.21/riskRegression/man/calcSeCox.Rd | 4 riskRegression-2018.04.21/riskRegression/man/confBandCox.Rd | 4 riskRegression-2018.04.21/riskRegression/man/coxBaseEstimator.Rd |only riskRegression-2018.04.21/riskRegression/man/coxCenter.Rd |only riskRegression-2018.04.21/riskRegression/man/coxDesign.Rd |only riskRegression-2018.04.21/riskRegression/man/coxFormula.Rd |only riskRegression-2018.04.21/riskRegression/man/coxLP.Rd |only riskRegression-2018.04.21/riskRegression/man/coxN.Rd |only riskRegression-2018.04.21/riskRegression/man/coxSpecialStrata.Rd |only riskRegression-2018.04.21/riskRegression/man/coxStrata.Rd |only riskRegression-2018.04.21/riskRegression/man/coxVarCov.Rd |only riskRegression-2018.04.21/riskRegression/man/coxVariableName.Rd |only riskRegression-2018.04.21/riskRegression/man/dicreteRoot.Rd |only riskRegression-2018.04.21/riskRegression/man/extractStrata.Rd | 25 riskRegression-2018.04.21/riskRegression/man/getSplitMethod.Rd |only riskRegression-2018.04.21/riskRegression/man/iidCox.Rd |only riskRegression-2018.04.21/riskRegression/man/influenceCoxTest.Rd |only riskRegression-2018.04.21/riskRegression/man/ipcw.Rd | 26 riskRegression-2018.04.21/riskRegression/man/model.matrix.phreg.Rd | 10 riskRegression-2018.04.21/riskRegression/man/penalizedS3.Rd | 13 riskRegression-2018.04.21/riskRegression/man/plot.riskRegression.Rd | 2 riskRegression-2018.04.21/riskRegression/man/plotAUC.Rd | 14 riskRegression-2018.04.21/riskRegression/man/plotBrier.Rd | 4 riskRegression-2018.04.21/riskRegression/man/plotCalibration.Rd | 50 riskRegression-2018.04.21/riskRegression/man/plotEffects.Rd | 6 riskRegression-2018.04.21/riskRegression/man/plotROC.Rd | 29 riskRegression-2018.04.21/riskRegression/man/plotRisk.Rd | 4 riskRegression-2018.04.21/riskRegression/man/predict.CauseSpecificCox.Rd | 104 riskRegression-2018.04.21/riskRegression/man/predictCox.Rd | 111 riskRegression-2018.04.21/riskRegression/man/predictCoxPL.Rd |only riskRegression-2018.04.21/riskRegression/man/predictRisk.Rd | 24 riskRegression-2018.04.21/riskRegression/man/print.ate.Rd | 11 riskRegression-2018.04.21/riskRegression/man/print.influenceCoxTest.Rd |only riskRegression-2018.04.21/riskRegression/man/print.predictCSC.Rd | 1 riskRegression-2018.04.21/riskRegression/man/print.riskRegression.Rd | 7 riskRegression-2018.04.21/riskRegression/man/reconstructData.Rd |only riskRegression-2018.04.21/riskRegression/man/riskRegression.Rd | 35 riskRegression-2018.04.21/riskRegression/man/rsquared.Rd |only riskRegression-2018.04.21/riskRegression/man/sampleData.Rd | 9 riskRegression-2018.04.21/riskRegression/man/selectCox.Rd |only riskRegression-2018.04.21/riskRegression/man/selectJump.Rd | 13 riskRegression-2018.04.21/riskRegression/man/splitStrataVar.Rd |only riskRegression-2018.04.21/riskRegression/man/subjectWeights.Rd | 4 riskRegression-2018.04.21/riskRegression/src/AUCijFun.cpp |only riskRegression-2018.04.21/riskRegression/src/RcppExports.cpp | 108 riskRegression-2018.04.21/riskRegression/src/baseHaz.cpp | 107 riskRegression-2018.04.21/riskRegression/src/calcSeHazardCif.cpp | 2 riskRegression-2018.04.21/riskRegression/src/confBand.cpp | 43 riskRegression-2018.04.21/riskRegression/src/iid.cpp | 13 riskRegression-2018.04.21/riskRegression/tests/test-AUC.R |only riskRegression-2018.04.21/riskRegression/tests/test-BinomialRegression.R | 57 riskRegression-2018.04.21/riskRegression/tests/test-BrierScore.R | 49 riskRegression-2018.04.21/riskRegression/tests/test-CauseSpecificCoxRegression.R | 10 riskRegression-2018.04.21/riskRegression/tests/test-FineGrayRegression.R | 6 riskRegression-2018.04.21/riskRegression/tests/test-ate.R | 408 +- riskRegression-2018.04.21/riskRegression/tests/test-boxplotScore.R | 14 riskRegression-2018.04.21/riskRegression/tests/test-confidenceBand_vs_timereg.R | 60 riskRegression-2018.04.21/riskRegression/tests/test-iidCox.R | 38 riskRegression-2018.04.21/riskRegression/tests/test-phreg.R | 26 riskRegression-2018.04.21/riskRegression/tests/test-predictCSC_vs_mstate.R | 234 - riskRegression-2018.04.21/riskRegression/tests/test-predictCox-CSC.R |only riskRegression-2018.04.21/riskRegression/tests/test-predictCox.R |only riskRegression-2018.04.21/riskRegression/tests/test-predictCox_vs_basehaz.R |only riskRegression-2018.04.21/riskRegression/tests/test-predictCox_vs_timereg.R | 177 riskRegression-2018.04.21/riskRegression/tests/test-predictRisk-TD.R |only riskRegression-2018.04.21/riskRegression/tests/test-predictRisk.R |only riskRegression-2018.04.21/riskRegression/tests/test-score.R | 223 - riskRegression-2018.04.21/riskRegression/tests/testScore.org | 46 158 files changed, 6914 insertions(+), 5033 deletions(-)
More information about riskRegression at CRAN
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Title: Geostatistical Modelling with Likelihood and Bayes
Description: Geostatistical modelling facilities using Raster and SpatialPoints
objects are provided. Non-Gaussian models are fit using INLA, and Gaussian
geostatistical models use Maximum Likelihood Estimation. For details see Brown (2015) <doi:10.18637/jss.v063.i12>.
Author: Patrick Brown <patrick.brown@utoronto.ca>[aut, cre], Robert Hijmans
[ctb]
Maintainer: Patrick Brown <patrick.brown@utoronto.ca>
Diff between geostatsp versions 1.6.0 dated 2018-01-03 and 1.7.1 dated 2018-04-19
geostatsp-1.6.0/geostatsp/R/gmrfShape4.R |only geostatsp-1.6.0/geostatsp/src/geostatsp_init.c |only geostatsp-1.7.1/geostatsp/DESCRIPTION | 18 geostatsp-1.7.1/geostatsp/MD5 | 86 - geostatsp-1.7.1/geostatsp/NAMESPACE | 16 geostatsp-1.7.1/geostatsp/R/0gm.R | 551 ++++---- geostatsp-1.7.1/geostatsp/R/RFsimulate.R | 3 geostatsp-1.7.1/geostatsp/R/forInla.R | 16 geostatsp-1.7.1/geostatsp/R/glgm.R | 1505 +++++++++-------------- geostatsp-1.7.1/geostatsp/R/krige.R | 2 geostatsp-1.7.1/geostatsp/R/lgcp.R | 61 geostatsp-1.7.1/geostatsp/R/lgm.R | 638 ++++----- geostatsp-1.7.1/geostatsp/R/loglikGmrf.R | 6 geostatsp-1.7.1/geostatsp/R/loglikLgm.R | 1129 ++++++++--------- geostatsp-1.7.1/geostatsp/R/matern.R | 321 ++-- geostatsp-1.7.1/geostatsp/R/maternCholSolve.R | 3 geostatsp-1.7.1/geostatsp/R/maternGmrfPrec.R | 3 geostatsp-1.7.1/geostatsp/R/param.R | 8 geostatsp-1.7.1/geostatsp/R/pcPriorRange.R | 195 ++ geostatsp-1.7.1/geostatsp/R/priorInla.R |only geostatsp-1.7.1/geostatsp/R/priorLegacy.R |only geostatsp-1.7.1/geostatsp/R/squareRaster.R | 43 geostatsp-1.7.1/geostatsp/build/vignette.rds |binary geostatsp-1.7.1/geostatsp/data/gambiaUTM.RData |binary geostatsp-1.7.1/geostatsp/data/loaloa.RData |binary geostatsp-1.7.1/geostatsp/data/murder.RData |binary geostatsp-1.7.1/geostatsp/data/rongelapUTM.RData |binary geostatsp-1.7.1/geostatsp/data/swissRain.RData |binary geostatsp-1.7.1/geostatsp/data/swissRainR.RData |binary geostatsp-1.7.1/geostatsp/data/torontoPop.RData |binary geostatsp-1.7.1/geostatsp/data/wheat.RData |binary geostatsp-1.7.1/geostatsp/inst/doc/glgm.Rnw | 413 ++++-- geostatsp-1.7.1/geostatsp/inst/doc/glgm.pdf |binary geostatsp-1.7.1/geostatsp/inst/doc/lgcp.Rnw | 81 - geostatsp-1.7.1/geostatsp/inst/doc/lgcp.pdf |binary geostatsp-1.7.1/geostatsp/inst/extR |only geostatsp-1.7.1/geostatsp/man/glgm.Rd | 114 - geostatsp-1.7.1/geostatsp/man/loaloa.Rd | 2 geostatsp-1.7.1/geostatsp/man/pcPriorRange.Rd | 6 geostatsp-1.7.1/geostatsp/man/squareRaster.Rd | 35 geostatsp-1.7.1/geostatsp/src/geostatsp.h | 87 + geostatsp-1.7.1/geostatsp/src/matern.c | 15 geostatsp-1.7.1/geostatsp/src/register.c |only geostatsp-1.7.1/geostatsp/tests/lgm.R | 6 geostatsp-1.7.1/geostatsp/tests/lgmRaster.R | 33 geostatsp-1.7.1/geostatsp/vignettes/glgm.Rnw | 413 ++++-- geostatsp-1.7.1/geostatsp/vignettes/lgcp.Rnw | 81 - 47 files changed, 3119 insertions(+), 2771 deletions(-)
Title: Detrend Images
Description: Image series affected by bleaching must be corrected by
'detrending' prior to the performance of quantitative analysis.
'detrendr' is for correctly detrending images. It uses Nolan's algorithm
(Nolan et al., 2017 <doi:10.1093/bioinformatics/btx434>).
Author: Rory Nolan [aut, cre, cph],
Sergi Padilla-Parra [ths, cph]
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between detrendr versions 0.4.0 dated 2018-02-17 and 0.5.0 dated 2018-04-19
DESCRIPTION | 14 - MD5 | 95 +++++----- NAMESPACE | 10 + NEWS.md | 7 R/RcppExports.R | 84 +++++++++ R/best_degree.R | 43 ++-- R/best_l.R | 47 ++--- R/best_swaps.R |only R/best_tau.R | 45 ++-- R/class_constructors.R | 43 +++- R/detrend.R | 284 +++++++++++++++++++++---------- R/detrendr.R | 2 R/dir_detrend.R | 90 ++++++--- R/frame_stats.R |only R/myrs.R | 120 +++++++++++-- R/pillar_stats.R | 63 +++++- R/row_col_stats.R | 62 ++++++ R/utils.R | 32 +++ build/vignette.rds |binary inst/doc/detrendr.R | 6 inst/doc/detrendr.Rmd | 6 inst/doc/detrendr.html | 40 ++-- man/best_degree.Rd | 20 +- man/best_l.Rd | 22 +- man/best_swaps.Rd |only man/best_tau.Rd | 22 +- man/detrend-directory.Rd | 43 +++- man/detrended_img.Rd | 11 - man/detrending.Rd | 81 ++++---- man/mean_frames.Rd |only man/pillar-stats.Rd | 6 man/rfromboxes.Rd |only man/rtoboxes.Rd |only src/RcppExports.cpp | 272 +++++++++++++++++++++++++++++ src/anyNA.cpp |only src/col_stats_parallel.cpp | 111 ++++++++++++ src/frame_utils.cpp |only src/pillar_stats.cpp |only src/pillar_stats_parallel.cpp | 40 ++++ src/pillar_utils_rcpp.h |only src/rboxes.cpp |only src/rboxes.h |only src/row_stats_parallel.cpp | 112 ++++++++++++ src/smooth.h | 6 src/summary_stats.h | 21 ++ src/utils.cpp |only tests/testthat/test-best_params.R | 53 ++++- tests/testthat/test-class_constructors.R | 6 tests/testthat/test-detrend.R | 86 +++++---- tests/testthat/test-dir_detrend.R | 102 +++++++++-- tests/testthat/test-myrs.R | 140 ++++++++++++++- tests/testthat/test-pillar_stats.R | 44 ++-- tests/testthat/test-smooth.R | 4 tests/testthat/test-utils.R | 68 +++++++ vignettes/detrendr.Rmd | 6 55 files changed, 1900 insertions(+), 469 deletions(-)
Title: Composite Likelihood Inference for Spatial Ordinal Data with
Replications
Description: Composite likelihood parameter estimate and asymptotic covariance matrix are calculated for the spatial ordinal data with replications, where spatial ordinal response with covariate and both spatial exponential covariance within subject and independent and identically distributed measurement error. Parameter estimation can be performed by either solving the gradient function or maximizing composite log-likelihood. Parametric bootstrapping is used to estimate the Godambe information matrix and hence the asymptotic standard error and covariance matrix with parallel processing option.
Author: Ting Fung (Ralph) Ma [cre, aut],
Pingping Wang [aut],
Jun Zhu [aut],
Dipankar Bandyopadhyay [ctb],
Yincai Tang [ctb]
Maintainer: Ting Fung (Ralph) Ma <tingfung.ma@wisc.edu>
Diff between clordr versions 1.2.0 dated 2018-03-02 and 1.3.0 dated 2018-04-19
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- R/cl.R | 2 +- R/cl.rord.R | 2 +- R/cl_l.R | 2 +- R/cle.rord.R | 2 +- man/cl.Rd | 2 +- man/cl.rord.Rd | 2 +- man/cl_l.Rd | 2 +- 9 files changed, 18 insertions(+), 18 deletions(-)
Title: Text Cleaning Tools
Description: Tools to clean and process text. Tools are geared at checking for substrings that are not optimal for
analysis and replacing or removing them (normalizing) with more analysis friendly substrings (see Sproat,
Black, Chen, Kumar, Ostendorf, & Richards (2001) <doi:10.1006/csla.2001.0169>) or extracting them into new
variables. For example, emoticons are often used in text but not always easily handled by analysis
algorithms. The 'replace_emoticon()' function replaces emoticons with word equivalents.
Author: Tyler Rinker [aut, cre],
ctwheels StackOverflow [ctb]
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between textclean versions 0.6.3 dated 2018-01-14 and 0.7.2 dated 2018-04-19
DESCRIPTION | 29 ++-- MD5 | 52 ++++---- NAMESPACE | 13 ++ NEWS | 38 ++++++ R/drop_element.R | 54 ++++++++ R/glue-reexports.R |only R/match_tokens.R |only R/mgsub.R | 56 ++++++++ R/replace_date.R |only R/replace_html.R | 63 +++++++--- R/replace_kerning.R | 2 R/replace_money.R |only R/replace_names.R | 6 R/replace_number.R | 18 ++ R/replace_time.R |only R/replace_tokens.R | 2 R/sysdata.rda |binary R/utils.R | 2 README.md | 315 ++++++++++++++++++++++++++++++++++---------------- data/DATA.rda |binary inst/CITATION | 4 man/drop_element.Rd | 27 +++- man/match_tokens.Rd |only man/mgsub.Rd | 44 ++++++ man/reexports.Rd |only man/replace_date.Rd |only man/replace_html.Rd | 41 ++++-- man/replace_money.Rd |only man/replace_names.Rd | 5 man/replace_number.Rd | 18 ++ man/replace_time.Rd |only man/replace_tokens.Rd | 2 32 files changed, 602 insertions(+), 189 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2009-05-18 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-01-17 0.8.4
2012-11-19 0.8.2
2012-06-23 0.8.1
2010-12-22 0.7.17
2010-06-25 0.7.14
2010-04-16 0.7.11
2009-01-26 0.7.10
2008-08-31 0.7.9
2008-08-27 0.7.8
2008-08-24 0.7.7
2008-08-07 0.7.6
2008-05-09 0.7.5
2008-05-05 0.7.4
2008-02-13 0.7.3
2007-08-09 0.6.0
2007-06-21 0.5.9
Title: Calculating Proportionality Between Vectors of Compositional
Data
Description: The bioinformatic evaluation of gene co-expression often begins with
correlation-based analyses. However, this approach lacks statistical validity
when applied to relative data. This includes, for example, biological count data
generated by high-throughput RNA-sequencing, chromatin immunoprecipitation (ChIP),
ChIP-sequencing, Methyl-Capture sequencing, and other techniques. This package
implements several metrics for proportionality, including
phi [Lovell et al (2015) <DOI:10.1371/journal.pcbi.1004075>] and
rho [Erb and Notredame (2016) <DOI:10.1007/s12064-015-0220-8>]. This package also
implements several metrics for differential proportionality. Unlike correlation,
these measures give the same result for both relative and absolute data.
Author: Thomas Quinn [aut, cre],
David Lovell [aut],
Ionas Erb [aut],
Anders Bilgrau [ctb],
Greg Gloor [ctb]
Maintainer: Thomas Quinn <contacttomquinn@gmail.com>
Diff between propr versions 3.1.8 dated 2018-03-21 and 3.1.9 dated 2018-04-19
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ inst/doc/a_introduction.html | 4 ++-- inst/doc/b_visualization.html | 4 ++-- inst/doc/c_indexing.html | 4 ++-- inst/doc/d_advanced.html | 4 ++-- inst/doc/e_differential.html | 4 ++-- inst/doc/f_moderation.html | 4 ++-- inst/doc/g_questions.html | 4 ++-- src/backend.cpp | 6 +++--- 11 files changed, 34 insertions(+), 30 deletions(-)
Title: Primal or Dual Cone Projections with Routines for Constrained
Regression
Description: Routines doing cone projection and quadratic programming, as well as doing estimation and inference for constrained parametric regression and shape-restricted regression problems. See Mary C. Meyer (2013)<doi:10.1080/03610918.2012.659820> for more details.
Author: Mary C. Meyer and Xiyue Liao
Maintainer: Xiyue Liao <liaoxiyue2011@gmail.com>
Diff between coneproj versions 1.13 dated 2018-03-26 and 1.14 dated 2018-04-19
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/coneproj.R | 36 ++++++++++++++++++------------------ src/coneproj.cpp | 6 +++--- 4 files changed, 29 insertions(+), 29 deletions(-)