Title: NPLS Regression with L1 Penalization
Description: Tools for performing variable selection in three-way data using N-PLS
in combination with L1 penalization. The N-PLS model (Rasmus Bro, 1996
<DOI:10.1002/(SICI)1099-128X(199601)10:1%3C47::AID-CEM400%3E3.0.CO;2-C>) is the
natural extension of PLS (Partial Least Squares) to N-way structures, and tries
to maximize the covariance between X and Y data arrays. The package also adds
variable selection through L1 penalization.
Author: David Hervas
Maintainer: David Hervas <ddhervas@yahoo.es>
Diff between sNPLS versions 0.1.5 dated 2017-03-05 and 0.1.8 dated 2017-05-07
DESCRIPTION | 13 +++++++++---- MD5 | 7 ++++--- R/sNPLS_fit.R | 27 +++++++++++++++++++++------ README.md |only man/cv_snpls.Rd | 4 +++- 5 files changed, 37 insertions(+), 14 deletions(-)
Title: Estimating Dynamic Heritability and Twin Model Comparison
Description: Twin models that are able to estimate the dynamic behaviour of the variance components in the classical twin models with respect to age using B-splines and P-splines.
Author: Liang He
Maintainer: Liang He <lianghe@mit.edu>
Diff between ACEt versions 1.7.1 dated 2016-11-18 and 1.8.0 dated 2017-05-07
DESCRIPTION | 15 ++++----- MD5 | 25 ++++++++------- NAMESPACE | 2 - R/AtCtEt.R | 78 +++++++++++++++++++++++++++++++++++++------------ R/AtCtEt_boot.R | 10 +++--- R/plot_AtCtEt.R | 51 ++++++++++++++++---------------- R/plot_AtCtEt_h.R | 11 +++--- R/plot_acet.R | 4 +- R/test_acetp.R | 28 ++++++++++++++--- data/data_ace.rda |binary man/ACEt-package.Rd | 6 +-- man/AtCtEt.Rd | 6 +++ man/test_acetp.Rd | 8 +++-- src/packagename_init.c |only 14 files changed, 158 insertions(+), 86 deletions(-)
Title: Tables so Beautifully Fine-Tuned You Will Believe It's Magic
Description: The introduction of the 'broom' package has made converting model
objects into data frames as simple as a single function. While the 'broom'
package focuses on providing tidy data frames that can be used in advanced
analysis, it deliberately stops short of providing functionality for reporting
models in publication-ready tables. 'pixiedust' provides this functionality with
a programming interface intended to be similar to 'ggplot2's system of layers
with fine tuned control over each cell of the table. Options for output include
printing to the console and to the common markdown formats (markdown, HTML, and
LaTeX). With a little 'pixiedust' (and happy thoughts) tables can really fly.
Author: Benjamin Nutter [aut, cre]
Maintainer: Benjamin Nutter <nutter@battelle.org>
Diff between pixiedust versions 0.7.4 dated 2016-06-17 and 0.7.5 dated 2017-05-07
DESCRIPTION | 16 +- MD5 | 16 +- NEWS | 4 R/glance_foot.R | 3 R/tidy_levels_labels.R | 6 build/vignette.rds |binary inst/doc/advancedMagic.html | 284 +++++++++++++++++++------------------------- inst/doc/pixiedust.html | 4 inst/doc/sprinkles.html | 4 9 files changed, 156 insertions(+), 181 deletions(-)
Title: The Scott-Knott Effect Size Difference (ESD) Test
Description: An enhancement of the Scott-Knott test (which clusters distributions
into statistically distinct ranks) that takes effect size into consideration
[Tantithamthavorn et al., (2017) <doi:10.1109/TSE.2016.2584050>].
Author: Chakkrit Tantithamthavorn
Maintainer: Chakkrit Tantithamthavorn <kla@chakkrit.com>
Diff between ScottKnottESD versions 1.1 dated 2016-08-09 and 1.2.2 dated 2017-05-07
DESCRIPTION | 17 ++++---- MD5 | 20 +++++---- NAMESPACE | 3 + R/check.ANOVA.assumptions.R |only R/long2wide.R |only R/sk_esd.R | 26 +++++------- README.md | 85 ++++++++++++++++++++++++++++++----------- man/ScottKnottESD-package.Rd | 24 +++++++++-- man/check.ANOVA.assumptions.Rd |only man/example.Rd | 1 man/long2wide.Rd |only man/print.Rd | 1 man/sk_esd.Rd | 12 +++-- 13 files changed, 125 insertions(+), 64 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: An R implementation of Ken Ludwig's popular Isoplot add-in to Microsoft Excel. Currently plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using the 'York' approach. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith' plots). Constructs Re-Os, Sm-Nd and Rb-Sr isochrons. Future versions will include functionality for Lu-Hf, Pb-Pb and U-series dating methods.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 0.11 dated 2017-04-17 and 0.12 dated 2017-05-07
DESCRIPTION | 12 ++--- MD5 | 27 ++++++------ R/ArAr.R | 8 +-- R/botev.R | 5 +- R/documentation.R | 24 +++++++++-- R/io.R | 115 +++++++++++++++++++++-------------------------------- R/isochron.R | 9 ++-- R/kde.R | 2 R/peakfit.R | 22 +++------- data/examples.rda |binary inst/ArAr1.csv | 2 inst/ArAr2.csv | 2 inst/Namib.csv |only man/examples.Rd | 24 +++++++++-- man/read.data.Rd | 116 +++++++++++++++++++++--------------------------------- 15 files changed, 178 insertions(+), 190 deletions(-)
Title: Data and Methods Around Reference Values in Pediatrics
Description: Calculation of standard deviation scores adduced from different
growth standards (WHO, UK, Germany, Italy, China, etc). Therefore, the calculation of SDS-values
for different measures like BMI, weight, height, head circumference, different
ratios, etc. are easy to carry out. Also, references for laboratory values in
children are available: serum lipids, iron-related blood parameters. In the
new version, there are also functions combining the gamlss lms() function with
resampling methods for using with repeated measurements and family dependencies.
Author: Mandy Vogel [aut, cre]
Maintainer: Mandy Vogel <mandy.vogel@googlemail.com>
Diff between childsds versions 0.6 dated 2017-04-16 and 0.6.1 dated 2017-05-07
DESCRIPTION | 18 ++++-- MD5 | 54 +++++++++++++------ NAMESPACE | 2 NEWS.md |only R/createlms.R | 123 +++++++++++++++++++++++++++++++++++++-------- R/data.R | 84 ++++++++++++++++++++++++++++++ R/misc.R | 24 ++++++-- R/refsclass.r | 47 +++++++++++++++-- data/cdc.ref.rda |binary data/ethiop.ref.rda |only data/fredriks05.ref.rda |only data/italian.ref.rda |only data/japanese.ref.rda |only data/kiggs.ref.rda |binary data/lipids.ref.rda |binary data/nl4.ref.rda |only data/portug.ref.rda |only data/saudi.ref.rda |only data/turkish.ref.rda |only data/us.ref.rda |only data/who.ref.rda |binary data/zong13.ref.rda |only man/calc_confints.Rd |only man/do_iterations.Rd | 13 +++- man/ethiop.ref.Rd |only man/fredriks05.ref.Rd |only man/italian.ref.Rd |only man/japanese.ref.Rd |only man/lipids.ref.Rd | 2 man/make_percentile_tab.Rd | 16 ++++- man/nl4.ref.Rd |only man/one_iteration.Rd | 4 + man/portug.ref.Rd |only man/saudi.ref.Rd |only man/sds.Rd | 26 +++++++++ man/select_fams.Rd | 4 + man/turkish.ref.Rd |only man/us.ref.Rd |only man/zong13.ref.Rd |only 39 files changed, 354 insertions(+), 63 deletions(-)
Title: Extract Genotypes from a PLINK .bed File
Description: A matrix-like data structure that allows for efficient,
convenient, and scalable subsetting of binary genotype/phenotype files
generated by PLINK (<https://www.cog-genomics.org/plink2>), the whole
genome association analysis toolset, without loading the entire file into
memory.
Author: Alexander Grueneberg [aut, cre],
Lian Lian [ctb],
Gustavo de los Campos [ctb]
Maintainer: Alexander Grueneberg <alexander.grueneberg@googlemail.com>
Diff between BEDMatrix versions 1.3.0 dated 2016-09-28 and 1.4.0 dated 2017-05-07
BEDMatrix-1.3.0/BEDMatrix/inst/extdata/example.map |only BEDMatrix-1.3.0/BEDMatrix/inst/extdata/example.ped |only BEDMatrix-1.3.0/BEDMatrix/man/BEDMatrix.Rd |only BEDMatrix-1.4.0/BEDMatrix/DESCRIPTION | 16 BEDMatrix-1.4.0/BEDMatrix/MD5 | 39 BEDMatrix-1.4.0/BEDMatrix/NAMESPACE | 6 BEDMatrix-1.4.0/BEDMatrix/NEWS.md | 8 BEDMatrix-1.4.0/BEDMatrix/R/BEDMatrix.R | 313 +-- BEDMatrix-1.4.0/BEDMatrix/R/package.R | 47 BEDMatrix-1.4.0/BEDMatrix/README.md | 37 BEDMatrix-1.4.0/BEDMatrix/inst/extdata/example.bed |binary BEDMatrix-1.4.0/BEDMatrix/inst/extdata/example.bim | 1003 ++++++++++- BEDMatrix-1.4.0/BEDMatrix/inst/extdata/example.fam | 56 BEDMatrix-1.4.0/BEDMatrix/inst/extdata/example.raw | 58 BEDMatrix-1.4.0/BEDMatrix/man/BEDMatrix-class.Rd |only BEDMatrix-1.4.0/BEDMatrix/man/BEDMatrix-package.Rd | 38 BEDMatrix-1.4.0/BEDMatrix/man/examples/BEDMatrix.R | 30 BEDMatrix-1.4.0/BEDMatrix/man/examples/initialize.R |only BEDMatrix-1.4.0/BEDMatrix/man/initialize-BEDMatrix-method.Rd |only BEDMatrix-1.4.0/BEDMatrix/man/show-BEDMatrix-method.Rd |only BEDMatrix-1.4.0/BEDMatrix/src/BEDMatrix.cpp | 131 - BEDMatrix-1.4.0/BEDMatrix/src/init.c |only BEDMatrix-1.4.0/BEDMatrix/tests/testthat/helper.R |only BEDMatrix-1.4.0/BEDMatrix/tests/testthat/test-BEDMatrix.R | 154 - BEDMatrix-1.4.0/BEDMatrix/tests/testthat/test-extract.R |only BEDMatrix-1.4.0/BEDMatrix/tests/testthat/test-length.R |only 26 files changed, 1493 insertions(+), 443 deletions(-)
Title: Interactive Viewing of Spatial Objects in R
Description: Methods to view spatial objects interactively.
Author: Tim Appelhans [cre, aut],
Florian Detsch [aut],
Christoph Reudenbach [aut],
Stefan Woellauer [aut],
Spaska Forteva [ctb],
Thomas Nauss [ctb],
Edzer Pebesma [ctb],
Kenton Russell [ctb],
Michael Sumner [ctb],
Environmental Informatics Marburg [ctb]
Maintainer: Tim Appelhans <tim.appelhans@gmail.com>
Diff between mapview versions 1.2.0 dated 2016-09-18 and 2.0.1 dated 2017-05-07
mapview-1.2.0/mapview/NEWS |only mapview-1.2.0/mapview/R/brewControls.R |only mapview-1.2.0/mapview/R/createLegend.R |only mapview-1.2.0/mapview/R/latticeView.R |only mapview-1.2.0/mapview/R/mapViewPalette.R |only mapview-1.2.0/mapview/R/mapviewColors.R |only mapview-1.2.0/mapview/R/popupGraph.R |only mapview-1.2.0/mapview/R/popupImage.R |only mapview-1.2.0/mapview/R/popupTable.R |only mapview-1.2.0/mapview/R/print-methods.R |only mapview-1.2.0/mapview/R/rgb2spLayout.R |only mapview-1.2.0/mapview/R/show.R |only mapview-1.2.0/mapview/R/simpleControls.R |only mapview-1.2.0/mapview/R/sortableLayersControl.R |only mapview-1.2.0/mapview/R/spplot.R |only mapview-1.2.0/mapview/R/xvecControls.R |only mapview-1.2.0/mapview/R/xvecView.R |only mapview-1.2.0/mapview/data/atlStorms2005.rda |only mapview-1.2.0/mapview/data/breweries91.rda |only mapview-1.2.0/mapview/data/gadmCHE.rda |only mapview-1.2.0/mapview/inst/htmlwidgets/bView.js |only mapview-1.2.0/mapview/inst/htmlwidgets/bView.yaml |only mapview-1.2.0/mapview/inst/htmlwidgets/fpView.js |only mapview-1.2.0/mapview/inst/htmlwidgets/fpView.yaml |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/HomeButton/easy-button-src.js |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/TrackballControls-r74/TrackballControls.js |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/glify |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/jquery |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/leaflet |only mapview-1.2.0/mapview/inst/htmlwidgets/lib/sortable_layers_control |only mapview-1.2.0/mapview/man/atlStorms2005.Rd |only mapview-1.2.0/mapview/man/breweries91.Rd |only mapview-1.2.0/mapview/man/gadmCHE.Rd |only mapview-1.2.0/mapview/man/mapviewPalette.Rd |only mapview-1.2.0/mapview/man/polygonData.sf.Rd |only mapview-1.2.0/mapview/man/popupGraph.Rd |only mapview-1.2.0/mapview/man/popupImage.Rd |only mapview-1.2.0/mapview/man/popupTable.Rd |only mapview-1.2.0/mapview/man/rgb2spLayout.Rd |only mapview-2.0.1/mapview/DESCRIPTION | 28 mapview-2.0.1/mapview/MD5 | 245 mapview-2.0.1/mapview/NAMESPACE | 19 mapview-2.0.1/mapview/NEWS.md |only mapview-2.0.1/mapview/R/AAAmapviewClasses.R | 9 mapview-2.0.1/mapview/R/RcppExports.R | 8 mapview-2.0.1/mapview/R/addFeatures.R |only mapview-2.0.1/mapview/R/addHomeButton.R | 48 mapview-2.0.1/mapview/R/addLargeFeatures.R |only mapview-2.0.1/mapview/R/addLogo.R | 62 mapview-2.0.1/mapview/R/addMouseCoordinates.R | 77 mapview-2.0.1/mapview/R/addVeryLargeFeatures.R |only mapview-2.0.1/mapview/R/burst.R |only mapview-2.0.1/mapview/R/color.R |only mapview-2.0.1/mapview/R/coords2JSON.R | 12 mapview-2.0.1/mapview/R/cubeView.R | 89 mapview-2.0.1/mapview/R/garnishMap.R | 63 mapview-2.0.1/mapview/R/largeControls.R |only mapview-2.0.1/mapview/R/leafletControls.R | 179 mapview-2.0.1/mapview/R/leafletView.R | 2595 ++++------ mapview-2.0.1/mapview/R/legend.R |only mapview-2.0.1/mapview/R/mapView.R | 998 ++- mapview-2.0.1/mapview/R/mapshot.R | 45 mapview-2.0.1/mapview/R/mapview-package.R | 71 mapview-2.0.1/mapview/R/mapviewControls.R | 248 mapview-2.0.1/mapview/R/mapviewHighlightOptions.R |only mapview-2.0.1/mapview/R/mapviewOptions.R | 18 mapview-2.0.1/mapview/R/plainView.R | 47 mapview-2.0.1/mapview/R/plus.R | 118 mapview-2.0.1/mapview/R/popup.R |only mapview-2.0.1/mapview/R/print.R | 59 mapview-2.0.1/mapview/R/projection.R |only mapview-2.0.1/mapview/R/sf.R |only mapview-2.0.1/mapview/R/slideView.R | 244 mapview-2.0.1/mapview/R/sync.R |only mapview-2.0.1/mapview/R/viewExtent.R | 155 mapview-2.0.1/mapview/R/viewRGB.R | 30 mapview-2.0.1/mapview/README.md | 108 mapview-2.0.1/mapview/data/breweries.rda |only mapview-2.0.1/mapview/data/franconia.rda |only mapview-2.0.1/mapview/data/poppendorf.rda |binary mapview-2.0.1/mapview/data/trails.rda |only mapview-2.0.1/mapview/inst/extdata/kiliNDVI.tif |binary mapview-2.0.1/mapview/inst/htmlwidgets/cubeView.js | 28 mapview-2.0.1/mapview/inst/htmlwidgets/cubeView.yaml | 2 mapview-2.0.1/mapview/inst/htmlwidgets/lib/HomeButton/easy-button-src.min.js |only mapview-2.0.1/mapview/inst/htmlwidgets/lib/HomeButton/home-button.css | 28 mapview-2.0.1/mapview/inst/htmlwidgets/lib/TrackballControls-r74/TrackballControls.min.js |only mapview-2.0.1/mapview/inst/htmlwidgets/lib/cubeView_style/cubeView.css | 23 mapview-2.0.1/mapview/inst/htmlwidgets/lib/large |only mapview-2.0.1/mapview/inst/htmlwidgets/lib/slideView_style/style.css | 36 mapview-2.0.1/mapview/inst/htmlwidgets/plainView.js | 35 mapview-2.0.1/mapview/inst/htmlwidgets/slideView.js | 47 mapview-2.0.1/mapview/inst/templates/popup-graph.brew |only mapview-2.0.1/mapview/inst/templates/popup.brew | 90 mapview-2.0.1/mapview/man/addHomeButton.Rd | 13 mapview-2.0.1/mapview/man/addLargeFeatures.Rd |only mapview-2.0.1/mapview/man/addLogo.Rd | 25 mapview-2.0.1/mapview/man/addMouseCoordinates.Rd | 31 mapview-2.0.1/mapview/man/breweries.Rd |only mapview-2.0.1/mapview/man/coords2JSON.Rd | 3 mapview-2.0.1/mapview/man/coords2Lines.Rd | 3 mapview-2.0.1/mapview/man/coords2Polygons.Rd | 3 mapview-2.0.1/mapview/man/cubeView.Rd | 21 mapview-2.0.1/mapview/man/cubeViewOutput.Rd | 1 mapview-2.0.1/mapview/man/franconia.Rd |only mapview-2.0.1/mapview/man/garnishMap.Rd | 8 mapview-2.0.1/mapview/man/knit_print.mapview.Rd | 3 mapview-2.0.1/mapview/man/latticeView.Rd | 12 mapview-2.0.1/mapview/man/mapView.Rd | 370 - mapview-2.0.1/mapview/man/mapshot.Rd | 19 mapview-2.0.1/mapview/man/mapview-package.Rd | 1 mapview-2.0.1/mapview/man/mapviewColors.Rd | 27 mapview-2.0.1/mapview/man/mapviewOptions.Rd | 14 mapview-2.0.1/mapview/man/mapviewOutput.Rd | 3 mapview-2.0.1/mapview/man/npts.Rd |only mapview-2.0.1/mapview/man/plainView.Rd | 16 mapview-2.0.1/mapview/man/plus.Rd | 24 mapview-2.0.1/mapview/man/poppendorf.Rd | 3 mapview-2.0.1/mapview/man/popup.Rd |only mapview-2.0.1/mapview/man/print-mapview-method.Rd | 1 mapview-2.0.1/mapview/man/renderCubeView.Rd | 1 mapview-2.0.1/mapview/man/renderMapview.Rd | 3 mapview-2.0.1/mapview/man/show-mapview-method.Rd |only mapview-2.0.1/mapview/man/slideView.Rd | 60 mapview-2.0.1/mapview/man/trails.Rd |only mapview-2.0.1/mapview/man/viewExtent.Rd | 64 mapview-2.0.1/mapview/man/viewRGB.Rd | 28 mapview-2.0.1/mapview/src/RcppExports.cpp | 14 mapview-2.0.1/mapview/src/brewCppFun.cpp | 75 mapview-2.0.1/mapview/src/mapview_init.c |only 130 files changed, 3845 insertions(+), 2865 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-25 0.4.0
2016-01-14 0.3.4
2015-10-09 0.3.0
2015-07-01 0.2.0
2015-05-11 0.1.0
Title: R Bindings for the UCR Suite
Description: R bindings for functions from the UCR Suite by Rakthanmanon et al. (2012) <DOI:10.1145/2339530.2339576>, which enables ultrafast subsequence
search for a best match under Dynamic Time Warping and Euclidean Distance.
Author: Philipp Boersch-Supan [aut, cre],
Thanawin Rakthanmanon [aut],
Bilson Campana [aut],
Abdullah Mueen [aut],
Gustavo Batista [aut],
Eamonn Keogh [aut]
Maintainer: Philipp Boersch-Supan <pboesu@gmail.com>
Diff between rucrdtw versions 0.1.1 dated 2016-11-07 and 0.1.2 dated 2017-05-07
DESCRIPTION | 12 MD5 | 82 NAMESPACE | 28 NEWS.md |only R/RcppExports.R | 396 R/data_doc.R | 42 R/rucrdtw-package.r | 54 R/ucrdtw.R | 218 README.md | 92 build/vignette.rds |binary inst/CITATION | 90 inst/doc/using_rucrdtw.R | 127 inst/doc/using_rucrdtw.Rmd | 222 inst/doc/using_rucrdtw.html | 363 inst/extdata/col_sc.txt |72000 ++++++++++++++++----------------- inst/extdata/first_sc.txt | 120 inst/extdata/last_sc.txt | 120 inst/extdata/mid_sc.txt | 120 inst/img/dtw-comparison-1.png |binary inst/include/rucrdtw.h | 18 inst/include/rucrdtw_RcppExports.h | 286 man/rucrdtw.Rd | 73 man/summary.ucrdtw.Rd | 39 man/summary.ucred.Rd | 39 man/synthetic_control.Rd | 51 man/ucrdtw_ff.Rd | 95 man/ucrdtw_fv.Rd | 91 man/ucrdtw_mv.Rd | 99 man/ucrdtw_vv.Rd | 95 man/ucred_ff.Rd | 71 man/ucred_fv.Rd | 63 man/ucred_mv.Rd | 77 man/ucred_vv.Rd | 67 src/dtw_functions.cpp | 6 src/ed_functions.cpp | 6 src/init.c |only tests/testthat.R | 8 tests/testthat/test-errors.R | 72 tests/testthat/test-match_known_ts.R | 234 tests/testthat/test-match_similar_ts.R | 180 tests/testthat/test-summaries.R | 40 vignettes/rucrdtw.bib | 110 vignettes/using_rucrdtw.Rmd | 265 43 files changed, 38148 insertions(+), 38023 deletions(-)
Title: Manage Google Spreadsheets from R
Description: Interact with Google Sheets from R.
Author: Jennifer Bryan [aut, cre],
Joanna Zhao [aut]
Maintainer: Jennifer Bryan <jenny@rstudio.com>
Diff between googlesheets versions 0.2.1 dated 2016-06-26 and 0.2.2 dated 2017-05-07
DESCRIPTION | 12 LICENSE | 2 MD5 | 160 ++--- NAMESPACE | 1 NEWS.md | 9 R/gd_drive_user.R | 2 R/googlesheets.R | 4 R/gs_auth.R | 5 R/gs_edit_cells.R | 13 R/gs_inspect.R | 6 R/gs_read_csv.R | 15 R/gs_reshape_cellfeed.R | 25 R/gs_upload.R | 35 - R/httr-helpers.R | 2 R/utils.R | 19 README.md | 72 +- build/vignette.rds |binary inst/doc/alternative-browser.R |only inst/doc/alternative-browser.Rmd |only inst/doc/alternative-browser.html |only inst/doc/basic-usage.R | 6 inst/doc/basic-usage.Rmd | 10 inst/doc/basic-usage.html | 521 ++++++++++++----- inst/doc/formulas-and-formatted-numbers.R | 10 inst/doc/formulas-and-formatted-numbers.Rmd | 10 inst/doc/formulas-and-formatted-numbers.html | 82 ++ inst/doc/managing-auth-tokens.Rmd | 6 inst/doc/managing-auth-tokens.html | 38 - man/cell-specification.Rd | 5 man/construct_url_from_key.Rd | 1 man/construct_ws_feed_from_key.Rd | 1 man/drive_user.Rd | 1 man/example-sheets.Rd | 14 man/extract_key_from_url.Rd | 1 man/gd_token.Rd | 1 man/gd_user.Rd | 5 man/google_token.Rd | 1 man/googlesheet.Rd | 5 man/googlesheets.Rd | 5 man/gs_add_row.Rd | 1 man/gs_auth.Rd | 5 man/gs_browse.Rd | 1 man/gs_copy.Rd | 1 man/gs_deauth.Rd | 5 man/gs_delete.Rd | 1 man/gs_download.Rd | 1 man/gs_edit_cells.Rd | 3 man/gs_grepdel.Rd | 1 man/gs_inspect.Rd | 1 man/gs_ls.Rd | 1 man/gs_new.Rd | 1 man/gs_perm_add.Rd | 1 man/gs_perm_delete.Rd | 1 man/gs_perm_edit.Rd | 1 man/gs_perm_ls.Rd | 1 man/gs_read.Rd | 1 man/gs_read_cellfeed.Rd | 1 man/gs_read_csv.Rd | 1 man/gs_read_listfeed.Rd | 2 man/gs_rename.Rd | 1 man/gs_reshape_cellfeed.Rd | 1 man/gs_simplify_cellfeed.Rd | 1 man/gs_upload.Rd | 5 man/gs_webapp_auth_url.Rd | 1 man/gs_webapp_get_token.Rd | 1 man/gs_ws.Rd | 1 man/gs_ws_delete.Rd | 1 man/gs_ws_ls.Rd | 1 man/gs_ws_modify.Rd | 1 man/gs_ws_new.Rd | 1 man/gs_ws_rename.Rd | 1 man/gs_ws_resize.Rd | 1 man/is_legit_token.Rd | 1 man/print.googlesheet.Rd | 1 man/token_available.Rd | 1 tests/testthat/test-cell-edit.R | 2 tests/testthat/test-gs-upload.R | 25 tests/testthat/test-yy-consume-data-public-selective.R | 34 + tests/testthat/test-yy-consume-data-public-tricky.R | 29 vignettes/alternative-browser.Rmd |only vignettes/basic-usage.Rmd | 10 vignettes/formulas-and-formatted-numbers.Rmd | 10 vignettes/managing-auth-tokens.Rmd | 6 83 files changed, 813 insertions(+), 459 deletions(-)
Title: Categorical Regression Splines
Description: Regression splines that handle a mix of continuous and categorical (discrete) data often encountered in applied settings. I would like to gratefully acknowledge support from the Natural Sciences and Engineering Research Council of Canada (NSERC, <http://www.nserc-crsng.gc.ca>), the Social Sciences and Humanities Research Council of Canada (SSHRC, <http://www.sshrc-crsh.gc.ca>), and the Shared Hierarchical Academic Research Computing Network (SHARCNET, <https://www.sharcnet.ca>).
Author: Jeffrey S. Racine [aut, cre],
Zhenghua Nie [aut],
Brian D. Ripley [ctb] (stepCV.R)
Maintainer: Jeffrey S. Racine <racinej@mcmaster.ca>
Diff between crs versions 0.15-26 dated 2017-05-03 and 0.15-27 dated 2017-05-07
CHANGELOG | 8 + DESCRIPTION | 8 - MD5 | 74 ++++----- R/mgcv.R | 45 +++-- R/util.R | 65 ++++---- R/zzz.R | 2 inst/doc/crs.pdf |binary inst/doc/crs_faq.Rnw | 18 ++ inst/doc/crs_faq.pdf |binary inst/doc/spline_primer.pdf |binary src/Makevars | 2 src/crs_init.c | 2 src/mgcv.c |only src/mgcv.h |only src/nomad_src/Clock.cpp | 2 src/nomad_src/Clock.hpp | 14 - src/nomad_src/Eval_Point.cpp | 12 - src/nomad_src/Eval_Point.hpp | 12 - src/nomad_src/GMesh.cpp | 90 +++++------ src/nomad_src/GMesh.hpp | 8 - src/nomad_src/Mads.cpp | 32 ++-- src/nomad_src/Mads.hpp | 12 - src/nomad_src/Model_Stats.cpp | 152 +++++++++---------- src/nomad_src/Model_Stats.hpp | 94 ++++++------ src/nomad_src/OrthogonalMesh.cpp | 46 ++--- src/nomad_src/OrthogonalMesh.hpp | 20 +- src/nomad_src/Parameters.cpp | 66 ++++---- src/nomad_src/Parameters.hpp | 10 - src/nomad_src/Quad_Model.cpp | 102 ++++++------- src/nomad_src/Quad_Model.hpp | 8 - src/nomad_src/SMesh.cpp | 20 +- src/nomad_src/SMesh.hpp | 4 src/nomad_src/Stats.cpp | 76 ++++----- src/nomad_src/Stats.hpp | 62 ++++---- src/nomad_src/XMesh.cpp | 16 +- src/nomad_src/XMesh.hpp | 4 src/sgtelib_src/TrainingSet.cpp | 302 +++++++++++++++++++-------------------- src/sgtelib_src/TrainingSet.hpp | 62 ++++---- vignettes/crs_faq.Rnw | 18 ++ 39 files changed, 764 insertions(+), 704 deletions(-)
Title: Maximal Biclique Enumeration in Bipartite Graphs
Description: A tool for enumerating maximal complete bipartite graphs. The input should be a edge list file or a binary matrix file.
The output are maximal complete bipartite graphs. Algorithms used can be found in this paper Y Zhang et al. BMC Bioinformatics 2014 15:110 <doi:10.1186/1471-2105-15-110>.
Author: Yuping Lu [aut, cre],
Charles Phillips [aut],
Michael Langston [aut]
Maintainer: Yuping Lu <yupinglu@utk.edu>
Diff between biclique versions 1.0.0 dated 2017-05-03 and 1.0.1 dated 2017-05-07
DESCRIPTION | 10 +++++----- MD5 | 19 ++++++++++--------- NEWS.md |only R/package-biclique.R | 2 +- README.md | 19 ++++++++++++++++--- man/biclique.Rd | 2 +- src/R_biclique_driver.c | 7 +++---- src/R_biclique_driver.h | 1 - src/biclique.h | 1 - src/bigraph.h | 1 - src/utility.h | 7 +++---- 11 files changed, 39 insertions(+), 30 deletions(-)
Title: Bayesian Analysis of Heterogeneous Treatment Effect
Description: It is vital to assess the heterogeneity of treatment effects
(HTE) when making health care decisions for an individual patient or a group
of patients. Nevertheless, it remains challenging to evaluate HTE based
on information collected from clinical studies that are often designed and
conducted to evaluate the efficacy of a treatment for the overall population.
The Bayesian framework offers a principled and flexible approach to estimate
and compare treatment effects across subgroups of patients defined by their
characteristics. This package allows users to explore a wide range of Bayesian
HTE analysis models, and produce posterior inferences about HTE.
Author: Chenguang Wang [aut, cre],
Ravi Varadhan [aut],
Trustees of Columbia University [cph] (tools/make_cpp.R, R/stanmodels.R)
Maintainer: Chenguang Wang <cwang68@jhmi.edu>
Diff between beanz versions 2.0 dated 2017-04-23 and 2.1 dated 2017-05-07
DESCRIPTION | 16 +-- MD5 | 32 +++---- R/beanz_present.R | 5 - R/beanz_stan.R | 3 build/vignette.rds |binary inst/doc/beanz_vignettes.html | 172 +++++++++++++++++++++--------------------- man/beanz-package.Rd | 4 man/bzCallStan.Rd | 4 man/bzComp.Rd | 10 +- man/bzGailSimon.Rd | 1 man/bzGetSubgrp.Rd | 1 man/bzGetSubgrpRaw.Rd | 1 man/bzPredSubgrp.Rd | 1 man/bzRptTbl.Rd | 1 man/bzShiny.Rd | 1 man/bzSummary.Rd | 6 - man/solvd.sub.Rd | 1 17 files changed, 134 insertions(+), 125 deletions(-)
Title: R Interface to a 'PostGIS' Database
Description: Provides an interface between R and
'PostGIS'-enabled 'PostgreSQL' databases to transparently transfer
spatial data. Both vector (points, lines, polygons) and raster
data are supported in read and write modes. Also provides
convenience functions to execute common procedures in
'PostgreSQL/PostGIS'.
Author: Mathieu Basille [aut],
David Bucklin [aut, cre]
Maintainer: David Bucklin <dbucklin@ufl.edu>
Diff between rpostgis versions 1.2.0 dated 2017-03-14 and 1.2.1 dated 2017-05-07
DESCRIPTION | 10 +++++----- MD5 | 33 +++++++++++++++++---------------- NEWS | 24 ++++++++++++++++++++++++ R/dbUtils_notExported.R | 45 ++++++++++++++++++++++++++++++++++++++++++++- R/pgGetBoundary.R | 25 ++++++++++++++++--------- R/pgGetGeom.R | 44 ++++++++++++++++++++------------------------ R/pgGetRast.R | 26 +++++++++++++++++++++----- R/pgInsert.R | 9 ++++++--- R/pgInsertize.R | 36 ++++++++++++++++++++++-------------- R/pgListGeom.R | 16 ++++++++++++---- R/pgWriteRast.R | 2 +- man/pgCheckGeom.Rd |only man/pgGetBoundary.Rd | 2 +- man/pgGetGeom.Rd | 2 +- man/pgGetRast.Rd | 10 ++++++---- man/pgInsert.Rd | 7 +++++-- man/pgInsertizeGeom.Rd | 6 +++++- man/pgListGeom.Rd | 9 ++++++--- 18 files changed, 212 insertions(+), 94 deletions(-)
Title: Regularized Autoregressive Hidden Semi Markov Model
Description: Fit Gaussian hidden Markov (or semi-Markov) models with / without autoregressive coefficients and with / without regularization. The fitting algorithm for the hidden Markov model is illustrated by Rabiner (1989) <doi:10.1109/5.18626>. The shrinkage estimation on the covariance matrices is based on the method by Ledoit et al. (2004) <doi:10.1016/S0047-259X(03)00096-4>. The shrinkage estimation on the autoregressive coefficients uses the elastic net shrinkage detailed in Zou et al. (2005) <doi:10.1111/j.1467-9868.2005.00503.x>.
Author: Zekun (Jack) Xu, Ye Liu
Maintainer: Zekun Xu <zekunxu@gmail.com>
Diff between rarhsmm versions 1.0.3 dated 2017-05-01 and 1.0.4 dated 2017-05-07
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/em.hmm.R | 6 +++--- R/em.semi.R | 8 ++++---- R/package.R | 4 ++-- man/em.hmm.Rd | 6 +++--- man/em.semi.Rd | 6 +++--- man/package-rarhsmm.Rd | 4 ++-- 8 files changed, 28 insertions(+), 28 deletions(-)
Title: Symbolic Computation and More with Multivariate Polynomials
Description: Symbolic computing with multivariate polynomials in R.
Author: David Kahle [aut, cre]
Maintainer: David Kahle <david.kahle@gmail.com>
Diff between mpoly versions 1.0.3 dated 2016-07-13 and 1.0.4 dated 2017-05-07
DESCRIPTION | 8 +-- MD5 | 103 ++++++++++++++++++++++++------------------- NEWS | 10 ++++ R/mp.R | 6 +- README.md | 43 ++++++++--------- inst/CITATION | 4 - man/LCM.Rd | 1 man/as.function.mpoly.Rd | 1 man/as.function.mpolyList.Rd | 3 - man/as.mpoly.Rd | 7 +- man/bernstein.Rd | 1 man/bernsteinApprox.Rd | 1 man/bezier.Rd | 7 +- man/bezierFunction.Rd | 7 +- man/burst.Rd | 1 man/chebyshev.Rd | 7 +- man/components.Rd | 11 ++-- man/deriv.mpoly.Rd | 1 man/gradient.Rd | 1 man/grobner.Rd | 1 man/hermite.Rd | 7 +- man/homogenize.Rd | 5 -- man/insert.Rd | 1 man/is.wholenumber.Rd | 1 man/jacobi.Rd | 7 +- man/laguerre.Rd | 7 +- man/legendre.Rd | 7 +- man/mp.Rd | 7 +- man/mpoly.Rd | 10 ++-- man/mpolyArithmetic.Rd | 5 -- man/mpolyEqual.Rd | 5 -- man/mpolyList.Rd | 1 man/mpolyListArithmetic.Rd | 5 -- man/partitions.Rd | 1 man/permutations.Rd | 1 man/plug.Rd | 1 man/predicates.Rd | 9 +-- man/print.mpoly.Rd | 1 man/print.mpolyList.Rd | 1 man/reorder.mpoly.Rd | 1 man/round.mpoly.Rd | 7 +- man/swap.Rd | 1 man/terms.mpoly.Rd | 1 man/tuples.Rd | 1 man/vars.Rd | 1 tests/testthat/test-mp.r | 14 +++++ tools |only 47 files changed, 165 insertions(+), 167 deletions(-)
Title: The Inverse Gamma Distribution
Description: Light weight implementation of the standard distribution
functions for the inverse gamma distribution, wrapping those for the gamma
distribution in the stats package.
Author: David Kahle [aut, cre, cph],
James Stamey [aut, cph]
Maintainer: David Kahle <david.kahle@gmail.com>
Diff between invgamma versions 1.0 dated 2016-07-03 and 1.1 dated 2017-05-07
DESCRIPTION | 8 ++++---- MD5 | 16 +++++++++------- NEWS | 13 +++++++++++++ R/invgamma.R | 8 ++++---- README.md | 4 ++-- man/invchisq.Rd | 3 +-- man/invexp.Rd | 3 +-- man/invgamma.Rd | 11 +++++------ tools |only 9 files changed, 39 insertions(+), 27 deletions(-)
Title: Plot a Correlogram
Description: Calculates correlation of variables and displays the results
graphically. Included panel functions can display points, shading, ellipses, and
correlation values with confidence intervals.
Author: Kevin Wright [aut, cre]
Maintainer: Kevin Wright <kw.stat@gmail.com>
Diff between corrgram versions 1.11 dated 2017-04-03 and 1.12 dated 2017-05-07
corrgram-1.11/corrgram/tests/testthat/test_outer.R |only corrgram-1.11/corrgram/tests/testthat/test_spearman.R |only corrgram-1.12/corrgram/DESCRIPTION | 10 - corrgram-1.12/corrgram/MD5 | 22 ++-- corrgram-1.12/corrgram/R/corrgram.R | 76 +++++++-------- corrgram-1.12/corrgram/build/vignette.rds |binary corrgram-1.12/corrgram/inst/doc/corrgram_cov2cor.R |only corrgram-1.12/corrgram/inst/doc/corrgram_cov2cor.Rmd |only corrgram-1.12/corrgram/inst/doc/corrgram_cov2cor.html |only corrgram-1.12/corrgram/inst/doc/corrgram_examples.html | 45 ++++---- corrgram-1.12/corrgram/man/corrgram.Rd | 2 corrgram-1.12/corrgram/tests/testthat/test_bounds.R |only corrgram-1.12/corrgram/tests/testthat/test_misc.R | 10 + corrgram-1.12/corrgram/tests/testthat/test_order.R | 48 +++++---- corrgram-1.12/corrgram/tests/testthat/test_outerlabels.R |only corrgram-1.12/corrgram/vignettes/corrgram_cov2cor.Rmd |only 16 files changed, 111 insertions(+), 102 deletions(-)
Title: The Chi Distribution
Description: Light weight implementation of the standard distribution
functions for the chi distribution, wrapping those for the chi-squared
distribution in the stats package.
Author: David Kahle [aut, cre, cph]
Maintainer: David Kahle <david.kahle@gmail.com>
Diff between chi versions 0.0 dated 2016-07-03 and 0.1 dated 2017-05-07
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++++----- NEWS | 7 +++++++ README.md | 57 +++++++++++++++++++++++++++++++++++++++++++++++---------- man/chi.Rd | 1 - man/invchi.Rd | 3 +-- tools |only 7 files changed, 68 insertions(+), 22 deletions(-)
Title: Binary Choice Models with Fixed Effects
Description: Estimates fixed effects binary choice models (logit and probit) with potentially many individual fixed effects and computes average partial effects. Incidental parameter bias can be reduced with a bias-correction proposed by Hahn and Newey (2004) <doi:10.1111/j.1468-0262.2004.00533.x>.
Author: Amrei Stammann [aut, cre],
Daniel Czarnowske [aut],
Florian Heiss [aut],
Daniel McFadden [ctb]
Maintainer: Amrei Stammann <amrei.stammann@hhu.de>
Diff between bife versions 0.3 dated 2017-05-04 and 0.4 dated 2017-05-07
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 6 ++++++ build/partial.rdb |binary inst/doc/bife_introduction.html | 4 ++-- src/bife.cpp | 2 +- 6 files changed, 18 insertions(+), 12 deletions(-)
Title: Another Object Orientation System
Description: Another implementation of object-orientation in R. It provides
syntactic sugar for the S4 class system and two alternative new
implementations. One is an experimental version built around S4
and the other one makes it more convenient to work with lists as objects.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>
Diff between aoos versions 0.4.0 dated 2015-10-11 and 0.5.0 dated 2017-05-07
DESCRIPTION | 13 +- LICENSE | 15 --- MD5 | 72 +++++++------- NAMESPACE | 2 NEWS | 4 R/RL-envHelper.R | 2 build/vignette.rds |binary inst/doc/Introduction.html | 72 +++++++++----- inst/doc/S4SyntacticSugar.html | 132 +++++++++++++++------------ inst/doc/aoosClasses.html | 108 ++++++++++++---------- inst/doc/performance.R | 12 -- inst/doc/performance.Rmd | 18 +-- inst/doc/performance.html | 119 ++++++++++++++---------- inst/doc/referenceClasses.Rmd | 17 ++- inst/doc/referenceClasses.html | 104 ++++++++++++--------- inst/doc/retListClasses.html | 100 +++++++++++--------- man/Accessor.Rd | 5 - man/Binary.Rd | 15 +-- man/Infix.Rd | 17 +-- man/Private.Rd | 10 +- man/S4generics.Rd | 10 +- man/Show.Rd | 3 man/aoos.Rd | 9 - man/defineClass.Rd | 3 man/defineRefClass.Rd | 3 man/envHelper.Rd | 3 man/genericTest.Rd | 3 man/grapes-type-grapes.Rd | 18 +-- man/parser.Rd | 5 - man/publicInterface.Rd | 5 - man/retList.Rd | 9 - tests/testthat/test-00-S4RC-defineRefClass.R | 8 - tests/testthat/test-RL-retList.R | 4 tests/testthat/test-S4-types.R | 76 +++++++-------- tests/testthat/test-S4RC-Accessor.R | 2 vignettes/performance.Rmd | 18 +-- vignettes/referenceClasses.Rmd | 17 ++- 37 files changed, 565 insertions(+), 468 deletions(-)