Title: Row-by-Row Table Building
Description: Builds tables with customizable rows. Users can specify the type
of data to use for each row, as well as how to handle missing
data and the types of comparison tests to run on the table
columns.
Author: Andrew Guide [aut, cre],
Thomas Stewart [aut]
Maintainer: Andrew Guide <andrew.guide@vumc.org>
Diff between tangram.pipe versions 1.0.0 dated 2021-07-05 and 1.1.0 dated 2021-10-11
DESCRIPTION | 6 MD5 | 72 NAMESPACE | 8 R/binary_default.R | 129 - R/binary_jama.R |only R/binary_pct.R |only R/binary_row.R | 44 R/cat_default.R | 106 - R/cat_jama.R |only R/cat_pct.R |only R/cat_row.R | 35 R/n_row.R |only R/num_default.R | 196 +- R/num_mean_sd.R |only R/num_medianiqr.R |only R/num_minmax.R |only R/num_row.R | 35 R/print.tangram.pipe.R | 12 R/tangram_styling.R | 15 R/tbl_out.R | 26 R/tbl_start.R | 28 build/vignette.rds |binary inst/doc/Customizable-Table-Building.R | 258 +-- inst/doc/Customizable-Table-Building.Rmd | 390 +++- inst/doc/Customizable-Table-Building.html | 1544 ++++++++----------- inst/doc/Writing-User-Defined-Summary-Functions.R |only inst/doc/Writing-User-Defined-Summary-Functions.Rmd |only inst/doc/Writing-User-Defined-Summary-Functions.html |only man/binary_default.Rd | 26 man/binary_jama.Rd |only man/binary_pct.Rd |only man/binary_row.Rd | 21 man/cat_default.Rd | 20 man/cat_jama.Rd |only man/cat_pct.Rd |only man/cat_row.Rd | 18 man/n_row.Rd |only man/num_default.Rd | 20 man/num_mean_sd.Rd |only man/num_medianiqr.Rd |only man/num_minmax.Rd |only man/num_row.Rd | 18 man/print.tangram.pipe.Rd | 12 man/tbl_out.Rd | 12 man/tbl_start.Rd | 21 vignettes/Customizable-Table-Building.Rmd | 390 +++- vignettes/Writing-User-Defined-Summary-Functions.Rmd |only 47 files changed, 1897 insertions(+), 1565 deletions(-)
Title: Parameterized Unit Testing
Description: This is an extension of the 'testthat' package that
lets you add parameters to your unit tests. Parameterized unit tests
are often easier to read and more reliable, since they follow the DNRY
(do not repeat yourself) rule.
Author: Michael Quinn [aut, cre]
Maintainer: Michael Quinn <msquinn@google.com>
Diff between patrick versions 0.0.4 dated 2021-09-23 and 0.1.0 dated 2021-10-11
DESCRIPTION | 6 ++-- MD5 | 16 +++++------ NAMESPACE | 1 NEWS.md | 9 ++++++ R/with_parameters.R | 46 ++++++++++++++++++++++++++-------- README.md | 8 ++--- man/patrick-package.Rd | 13 +++++---- man/with_parameters_test_that.Rd | 21 +++++++++------ tests/testthat/test-with_parameters.R | 37 ++++++++++++++++++++++++--- 9 files changed, 114 insertions(+), 43 deletions(-)
Title: Species Distribution Modeling
Description: Methods for species distribution modeling, that is, predicting the environmental similarity of any site to that of the locations of known occurrences of a species.
Author: Robert J. Hijmans, Steven Phillips, John Leathwick and Jane Elith
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between dismo versions 1.3-3 dated 2020-11-17 and 1.3-5 dated 2021-10-11
dismo-1.3-3/dismo/inst/doc/brt.Rnw |only dismo-1.3-3/dismo/inst/doc/brt.pdf |only dismo-1.3-3/dismo/java/maxent.jar |only dismo-1.3-3/dismo/java/readme.txt |only dismo-1.3-3/dismo/man/voronoiHulll.Rd |only dismo-1.3-3/dismo/vignettes/brt.Rnw |only dismo-1.3-5/dismo/DESCRIPTION | 17 +++---- dismo-1.3-5/dismo/MD5 | 57 ++++++++++++-------------- dismo-1.3-5/dismo/NAMESPACE | 3 - dismo-1.3-5/dismo/R/bioclim.predict.R | 2 dismo-1.3-5/dismo/R/biogeomancer.R | 2 dismo-1.3-5/dismo/R/circleHull.predict.R | 2 dismo-1.3-5/dismo/R/circles.predict.R | 2 dismo-1.3-5/dismo/R/convHull.R | 22 +++++----- dismo-1.3-5/dismo/R/ecocrop.R | 2 dismo-1.3-5/dismo/R/evaluate.R | 2 dismo-1.3-5/dismo/R/gbif_old.R | 6 +- dismo-1.3-5/dismo/R/maxent.R | 4 - dismo-1.3-5/dismo/R/maxent.predict.R | 16 +++---- dismo-1.3-5/dismo/R/randomPoints.R | 9 ++-- dismo-1.3-5/dismo/R/voronoi.R | 23 ++++++---- dismo-1.3-5/dismo/build/partial.rdb |only dismo-1.3-5/dismo/build/vignette.rds |binary dismo-1.3-5/dismo/inst/doc/sdm.pdf |binary dismo-1.3-5/dismo/inst/java/maxent.jar |binary dismo-1.3-5/dismo/inst/java/maxent_readme.txt |only dismo-1.3-5/dismo/man/bioclim.Rd | 4 - dismo-1.3-5/dismo/man/convHull.Rd | 4 - dismo-1.3-5/dismo/man/domain.Rd | 4 - dismo-1.3-5/dismo/man/evaluate.Rd | 2 dismo-1.3-5/dismo/man/maxent.Rd | 2 dismo-1.3-5/dismo/man/mess.Rd | 2 dismo-1.3-5/dismo/man/voronoi.Rd | 5 +- dismo-1.3-5/dismo/man/voronoiHull.Rd |only 34 files changed, 99 insertions(+), 93 deletions(-)
Title: Normative Standards for Cognitive Tests
Description: Package test2norm contains functions to generate formulas for
normative standards applied to cognitive tests. It takes raw test scores
(e.g., number of correct responses) and converts them to scaled scores and
demographically adjusted scores, using methods described in Heaton et al.
(2003) <doi:10.1016/B978-012703570-3/50010-9> & Heaton et al. (2009,
ISBN:9780199702800). The scaled scores are calculated as quantiles of the
raw test scores, scaled to have the mean of 10 and standard deviation of 3,
such that higher values always correspond to better performance on the test.
The demographically adjusted scores are calculated from the residuals of a
model that regresses scaled scores on demographic predictors (e.g., age).
The norming procedure makes use of the mfp() function from the 'mfp' package
to explore nonlinear associations between cognition and demographic
variables.
Author: Anya Umlauf
Maintainer: Anya Umlauf <aumlauf@health.ucsd.edu>
Diff between test2norm versions 0.1.1 dated 2019-10-16 and 0.2.0 dated 2021-10-11
DESCRIPTION | 20 ++++++++++---------- MD5 | 17 +++++++++++------ NAMESPACE | 2 ++ NEWS.md |only R/Data_description.R | 1 - R/raw2scaled.R |only R/score2adjust.R |only R/test2norm.R | 3 +-- man/PsychTestData.Rd | 6 ++++-- man/raw2scaled.Rd |only man/score2adjust.Rd |only man/test2norm.Rd | 23 +++++++++++++++++------ 12 files changed, 45 insertions(+), 27 deletions(-)
Title: Raw Data Quality Control Tool for LC-MS System
Description: Assess LC–MS system performance by visualizing instrument log files and monitoring raw quality control samples within a project.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between RawHummus versions 0.1.8 dated 2021-09-22 and 0.2.0 dated 2021-10-11
DESCRIPTION | 6 MD5 | 6 inst/shiny/Gui/Report.Rmd | 1186 +++++++++++++++++++++++----------------------- inst/shiny/Gui/server.R | 52 +- 4 files changed, 625 insertions(+), 625 deletions(-)
Title: Geographic Data Analysis and Modeling
Description: Reading, writing, manipulating, analyzing and modeling of spatial data. The package implements basic and high-level functions for raster data and for vector data operations such as intersections. See the manual and tutorials on <https://rspatial.org/> to get started.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>),
Jacob van Etten [ctb],
Michael Sumner [ctb],
Joe Cheng [ctb],
Dan Baston [ctb],
Andrew Bevan [ctb],
Roger Bivand [ctb],
Lorenzo Busetto [ctb],
Mort Canty [ctb],
Ben Fasoli [ctb],
David Forrest [ctb],
Aniruddha Ghosh [ctb],
Duncan Golicher [ctb],
Josh Gray [ctb],
Jonathan A. Greenberg [ctb],
Paul Hiemstra [ctb],
Kassel Hingee [ctb],
Institute for Mathematics Applied Geosciences [cph],
Charles Karney [ctb],
Matteo Mattiuzzi [ctb],
Steven Mosher [ctb],
Babak Naimi [ctb],
Jakub Nowosad [ctb],
Edzer Pebesma [ctb],
Oscar Perpinan Lamigueiro [ctb],
Etienne B. Racine [ctb],
Barry Rowlingson [ctb],
Ashton Shortridge [ctb],
Bill Venables [ctb],
Rafael Wueest [ctb]
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between raster versions 3.4-13 dated 2021-06-18 and 3.5-2 dated 2021-10-11
raster-3.4-13/raster/man/coordinates.Rd |only raster-3.5-2/raster/DESCRIPTION | 12 - raster-3.5-2/raster/MD5 | 210 ++++++++++++++-------------- raster-3.5-2/raster/NAMESPACE | 12 - raster-3.5-2/raster/NEWS | 3 raster-3.5-2/raster/R/AAAClasses.R | 2 raster-3.5-2/raster/R/AAgeneric_functions.R | 9 + raster-3.5-2/raster/R/GDALtransient.R | 4 raster-3.5-2/raster/R/aggregate_sp.R | 23 +-- raster-3.5-2/raster/R/animate.R | 2 raster-3.5-2/raster/R/approxNA.R | 16 +- raster-3.5-2/raster/R/area.R | 2 raster-3.5-2/raster/R/as.character.R | 2 raster-3.5-2/raster/R/as.data.frame.R | 2 raster-3.5-2/raster/R/as.spatial.R | 24 +-- raster-3.5-2/raster/R/bbox.R | 4 raster-3.5-2/raster/R/bind.R | 16 +- raster-3.5-2/raster/R/boxplot.R | 2 raster-3.5-2/raster/R/brick.R | 2 raster-3.5-2/raster/R/buffer.R | 6 raster-3.5-2/raster/R/cellFromLine.R | 4 raster-3.5-2/raster/R/cellFromPolygon.R | 4 raster-3.5-2/raster/R/click.R | 8 - raster-3.5-2/raster/R/coerce.R | 74 ++++++++- raster-3.5-2/raster/R/col2RGB.R | 4 raster-3.5-2/raster/R/compare.R | 8 - raster-3.5-2/raster/R/compareCRS.R | 2 raster-3.5-2/raster/R/contour.R | 12 - raster-3.5-2/raster/R/coverPolygons.R | 14 - raster-3.5-2/raster/R/cropSpatial.R | 12 - raster-3.5-2/raster/R/dataProperties.R | 18 +- raster-3.5-2/raster/R/destair.R | 4 raster-3.5-2/raster/R/dotdens.R | 6 raster-3.5-2/raster/R/drawPoly.R | 4 raster-3.5-2/raster/R/erase.R | 18 +- raster-3.5-2/raster/R/extent.R | 21 ++ raster-3.5-2/raster/R/extractLines.R | 18 +- raster-3.5-2/raster/R/extractPoints.R | 10 - raster-3.5-2/raster/R/extractPoints_sp.R | 8 - raster-3.5-2/raster/R/extractPolygons.R | 12 - raster-3.5-2/raster/R/focalWeight.R | 4 raster-3.5-2/raster/R/geom.R | 2 raster-3.5-2/raster/R/getData.R | 6 raster-3.5-2/raster/R/hdrBIL.R | 2 raster-3.5-2/raster/R/hdrEnvi.R | 2 raster-3.5-2/raster/R/hdrErdasRaw.R | 2 raster-3.5-2/raster/R/hdrRaster.R | 2 raster-3.5-2/raster/R/hdrVRT.R | 2 raster-3.5-2/raster/R/idwValue.R | 2 raster-3.5-2/raster/R/index.R | 2 raster-3.5-2/raster/R/indexReplaceBrick.R | 2 raster-3.5-2/raster/R/interpolate.R | 2 raster-3.5-2/raster/R/intersect_sp.R | 66 ++++---- raster-3.5-2/raster/R/isLonLat.R | 4 raster-3.5-2/raster/R/kernelDensity.R | 2 raster-3.5-2/raster/R/kml.R | 8 - raster-3.5-2/raster/R/kml_multiple.R | 4 raster-3.5-2/raster/R/labels.R | 4 raster-3.5-2/raster/R/makeProjString.R | 12 - raster-3.5-2/raster/R/netCDFutil.R | 10 - raster-3.5-2/raster/R/netCDFwriteCD.R | 2 raster-3.5-2/raster/R/nsidcICE.R | 2 raster-3.5-2/raster/R/origin.R | 4 raster-3.5-2/raster/R/pairs.R | 2 raster-3.5-2/raster/R/pointdistance.R | 2 raster-3.5-2/raster/R/print.R | 2 raster-3.5-2/raster/R/project.R | 2 raster-3.5-2/raster/R/projectRaster.R | 20 +- raster-3.5-2/raster/R/projection.R | 46 +++--- raster-3.5-2/raster/R/quad.R | 2 raster-3.5-2/raster/R/raster.R | 24 +-- raster-3.5-2/raster/R/rasterFromASCII.R | 2 raster-3.5-2/raster/R/rasterFromGDAL.R | 4 raster-3.5-2/raster/R/rasterFromXYZ.R | 12 + raster-3.5-2/raster/R/rasterToPoints.R | 6 raster-3.5-2/raster/R/rasterToPolygons.R | 6 raster-3.5-2/raster/R/rasterizeLines.R | 2 raster-3.5-2/raster/R/rasterizePolygons.R | 37 ++-- raster-3.5-2/raster/R/rotate.R | 2 raster-3.5-2/raster/R/sampleRandom.R | 2 raster-3.5-2/raster/R/sampleRegular.R | 4 raster-3.5-2/raster/R/sampleStratified.R | 2 raster-3.5-2/raster/R/select.R | 8 - raster-3.5-2/raster/R/setValues.R | 9 - raster-3.5-2/raster/R/shift.R | 4 raster-3.5-2/raster/R/show.R | 8 - raster-3.5-2/raster/R/shp.R | 6 raster-3.5-2/raster/R/simplifyPols.R | 2 raster-3.5-2/raster/R/slopeAspect.R | 2 raster-3.5-2/raster/R/speasy.R | 18 +- raster-3.5-2/raster/R/spplot.R | 6 raster-3.5-2/raster/R/symdif.R | 4 raster-3.5-2/raster/R/terrain.R | 2 raster-3.5-2/raster/R/text.R | 10 - raster-3.5-2/raster/R/union_sp.R | 14 - raster-3.5-2/raster/R/xyCell.R | 4 raster-3.5-2/raster/R/zoom.R | 6 raster-3.5-2/raster/build/partial.rdb |binary raster-3.5-2/raster/inst/external/rlogo.grd | 40 ++--- raster-3.5-2/raster/man/cellFrom.Rd | 2 raster-3.5-2/raster/man/coords.Rd |only raster-3.5-2/raster/man/crop.Rd | 2 raster-3.5-2/raster/man/datasource.Rd | 10 - raster-3.5-2/raster/man/origin.Rd | 2 raster-3.5-2/raster/man/setValues.Rd | 8 - raster-3.5-2/raster/man/spEasy.Rd | 2 raster-3.5-2/raster/src/terrain.cpp | 4 107 files changed, 596 insertions(+), 518 deletions(-)
More information about processanimateR at CRAN
Permanent link
More information about heuristicsmineR at CRAN
Permanent link
Title: Amend, Augment and Aid Analysis of John Snow's Cholera Map
Description: Amends errors, augments data and aids analysis of John Snow's map
of the 1854 London cholera outbreak.
Author: Peter Li [aut, cre]
Maintainer: Peter Li <lindbrook@gmail.com>
Diff between cholera versions 0.7.5 dated 2021-04-21 and 0.7.9 dated 2021-10-11
cholera-0.7.5/cholera/R/addDelauny.R |only cholera-0.7.5/cholera/man/addDelauny.Rd |only cholera-0.7.9/cholera/DESCRIPTION | 16 - cholera-0.7.9/cholera/MD5 | 82 ++++--- cholera-0.7.9/cholera/NAMESPACE | 4 cholera-0.7.9/cholera/NEWS | 28 ++ cholera-0.7.9/cholera/R/addDelaunay.R |only cholera-0.7.9/cholera/R/addPump.R | 11 - cholera-0.7.9/cholera/R/addVoronoi.R | 4 cholera-0.7.9/cholera/R/data.R | 4 cholera-0.7.9/cholera/R/euclidean.R | 2 cholera-0.7.9/cholera/R/nearestPump.R | 21 + cholera-0.7.9/cholera/R/neighborhoodData.R | 12 - cholera-0.7.9/cholera/R/oxfordWeather.R | 128 +++++++----- cholera-0.7.9/cholera/R/pumpTokens.R | 124 +++++++---- cholera-0.7.9/cholera/R/roadSegments.R | 4 cholera-0.7.9/cholera/R/segmentHighlight.R | 11 - cholera-0.7.9/cholera/R/streetNames.R |only cholera-0.7.9/cholera/R/subsetRoadsSamples.R |only cholera-0.7.9/cholera/R/voronoi.R | 28 -- cholera-0.7.9/cholera/R/voronoiPolygons.R | 6 cholera-0.7.9/cholera/R/walking.R | 19 + cholera-0.7.9/cholera/README.md | 53 ++-- cholera-0.7.9/cholera/build/vignette.rds |binary cholera-0.7.9/cholera/data/oxford.weather.rda |binary cholera-0.7.9/cholera/inst/doc/duplicate.missing.cases.html | 5 cholera-0.7.9/cholera/inst/doc/kernel.density.html | 5 cholera-0.7.9/cholera/inst/doc/parallelization.html | 4 cholera-0.7.9/cholera/inst/doc/roads.html | 5 cholera-0.7.9/cholera/inst/doc/tiles.polygons.R | 4 cholera-0.7.9/cholera/inst/doc/tiles.polygons.Rmd | 6 cholera-0.7.9/cholera/inst/doc/tiles.polygons.html | 13 - cholera-0.7.9/cholera/inst/doc/time.series.html | 5 cholera-0.7.9/cholera/inst/doc/unstacking.bars.html | 9 cholera-0.7.9/cholera/man/addDelaunay.Rd |only cholera-0.7.9/cholera/man/addPump.Rd | 4 cholera-0.7.9/cholera/man/oxford.weather.Rd | 4 cholera-0.7.9/cholera/man/oxfordWeather.Rd | 3 cholera-0.7.9/cholera/man/plot.oxfordWeather.Rd | 8 cholera-0.7.9/cholera/man/plot.voronoi.Rd | 4 cholera-0.7.9/cholera/man/plot.walking.Rd | 4 cholera-0.7.9/cholera/man/segmentHighlight.Rd | 4 cholera-0.7.9/cholera/man/streetNames.Rd |only cholera-0.7.9/cholera/man/subsetRoadsSamples.Rd |only cholera-0.7.9/cholera/man/voronoiPolygons.Rd | 6 cholera-0.7.9/cholera/vignettes/tiles.polygons.Rmd | 6 46 files changed, 375 insertions(+), 281 deletions(-)
Title: Karl Broman's R Code
Description: Miscellaneous R functions, including functions related to
graphics (mostly for base graphics), permutation tests, running
mean/median, and general utilities.
Author: Karl W Broman [aut, cre] (<https://orcid.org/0000-0002-4914-6671>),
Aimee Teo Broman [ctb] (<https://orcid.org/0000-0003-3783-2807>)
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between broman versions 0.72-4 dated 2021-02-05 and 0.76 dated 2021-10-11
broman-0.72-4/broman/R/pushbullet.R |only broman-0.72-4/broman/man/done.Rd |only broman-0.72-4/broman/man/errors2pushbullet.Rd |only broman-0.72-4/broman/man/note.Rd |only broman-0.72-4/broman/man/pushbullet_devices.Rd |only broman-0.72-4/broman/man/stop_sending_errors.Rd |only broman-0.76/broman/DESCRIPTION | 15 +++++------- broman-0.76/broman/MD5 | 28 +++++++++-------------- broman-0.76/broman/NAMESPACE | 7 ----- broman-0.76/broman/NEWS | 11 +++++++++ broman-0.76/broman/R/convert2hex.R | 22 +++++++++--------- broman-0.76/broman/R/util.R | 8 ++++-- broman-0.76/broman/R/winsorize.R | 4 --- broman-0.76/broman/data/numbers-cap.RData |binary broman-0.76/broman/data/numbers.RData |binary broman-0.76/broman/man/convert2hex.Rd | 8 +----- broman-0.76/broman/man/hex2dec.Rd | 7 +---- broman-0.76/broman/tests/testthat/test-hex2dec.R | 4 +++ 18 files changed, 55 insertions(+), 59 deletions(-)
Title: 'SciViews' - Miscellaneous Functions
Description: Miscellaneous functions for 'SciViews' or general use: manage a
temporary environment attached to the search path for temporary variables you
do not want to save() or load(), test if 'Aqua', 'Mac', 'Win', ... Show
progress bar, etc.
Author: Philippe Grosjean [aut, cre] (<https://orcid.org/0000-0002-2694-9471>),
Romain Francois [ctb],
Kamil Barton [ctb]
Maintainer: Philippe Grosjean <phgrosjean@sciviews.org>
Diff between svMisc versions 1.1.4 dated 2021-04-16 and 1.2.3 dated 2021-10-11
DESCRIPTION | 13 MD5 | 42 +- NAMESPACE | 3 NEWS.md | 18 R/Install.R | 2 R/about.R | 2 R/batch.R | 2 R/capture_all.R | 22 - R/pcloud.R |only R/progress.R | 2 build/vignette.rds |binary inst/WORDLIST | 5 inst/doc/svMisc.Rmd | 2 inst/doc/svMisc.html | 718 +++++++++++++----------------------- inst/doc/temporary_environment.html | 197 --------- man/Install.Rd | 2 man/about.Rd | 2 man/batch.Rd | 2 man/capture_all.Rd | 8 man/pcloud.Rd |only man/progress.Rd | 2 tests/testthat.R | 3 vignettes/svMisc.Rmd | 2 23 files changed, 388 insertions(+), 661 deletions(-)
Title: Exploratory Data Analysis System
Description: Performs an exploratory data analysis through a 'shiny' interface. It includes basic methods such as the mean, median, mode, normality test, among others. It also includes clustering techniques such as Principal Components Analysis, Hierarchical Clustering and the K-Means Method.
Author: Oldemar Rodriguez [aut, cre],
Diego Jiménez [ctb, prg]
Maintainer: Oldemar Rodriguez <oldemar.rodriguez@ucr.ac.cr>
Diff between discoveR versions 2.2.2 dated 2021-03-12 and 2.2.6 dated 2021-10-11
DESCRIPTION | 18 +++++-------- MD5 | 37 ++++++++++++++------------- NAMESPACE | 3 ++ R/app_ui.R | 17 +++++------- R/discoveR.R | 4 +- R/golem_utils_ui.R | 6 ++-- R/mod_acercade.R | 7 ++--- R/mod_acp.R | 33 +++++------------------- R/mod_acp_utils.R | 2 - R/mod_cj.R | 8 ++--- R/mod_cj_utils.R | 32 ++++++++++++++--------- R/mod_cluster_utils.R | 2 - R/mod_correlacion.R | 24 ++++------------- R/mod_correlacion_utils.R | 62 +++++++++++++++++++++++++++++++++++++--------- R/mod_distribuciones.R | 2 - R/mod_normal.R | 2 + R/mod_normal_utils.R | 28 +++++++------------- man/discoveR.Rd | 4 +- man/e_cor.Rd |only man/gg_dendrograma.Rd | 8 ++--- 20 files changed, 156 insertions(+), 143 deletions(-)
Title: Bayesian Hierarchical Models for Basket Trials
Description: Provides functions for the evaluation of basket
trial designs with binary endpoints. Operating characteristics of a
basket trial design are assessed by simulating trial data according to
scenarios, analyzing the data with Bayesian hierarchical models (BHMs), and
assessing decision probabilities on stratum and trial-level based on Go / No-go decision making.
The package is build for high flexibility regarding decision rules,
number of interim analyses, number of strata, and recruitment.
The BHMs proposed by
Berry et al. (2013) <doi:10.1177/1740774513497539>
and Neuenschwander et al. (2016) <doi:10.1002/pst.1730>,
as well as a model that combines both approaches are implemented.
Functions are provided to implement Bayesian decision rules as for example
proposed by Fisch et al. (2015) <doi:10.1177/2168479014533970>.
In addition, posterior point estimates (mean/median) and credible intervals
for response rates and some model parameters can be calculated.
For simulated trial data, bias and mean squared errors of posterior
point estimates for response rates can be provided.
Author: Stephan Wojciekowski [aut, cre]
Maintainer: Stephan Wojciekowski <stephan.wojciekowski@boehringer-ingelheim.com>
Diff between bhmbasket versions 0.9.2 dated 2021-04-07 and 0.9.3 dated 2021-10-11
DESCRIPTION | 10 MD5 | 56 ++--- NAMESPACE | 1 NEWS.md | 32 ++- R/AnalysisFunctions.R | 174 ++++++++-------- R/CheckingFunctions.R | 39 +++ R/DataFunctions.R | 46 +++- R/Misc.R | 4 R/OCFunctions.R | 124 ++++++----- build/vignette.rds |binary inst/CITATION | 2 inst/doc/reproduceExNex.Rmd | 2 inst/doc/reproduceExNex.html | 457 +++++++++++++++++++------------------------ man/continueRecruitment.Rd | 132 ++++++------ man/createTrial.Rd | 78 +++---- man/getEstimates.Rd | 172 ++++++++-------- man/getGoProbabilities.Rd | 122 +++++------ man/getMuVar.Rd | 88 ++++---- man/invlogit.Rd | 2 man/loadAnalyses.Rd | 103 ++++----- man/loadScenarios.Rd | 76 +++---- man/logit.Rd | 60 ++--- man/negateGoDecisions.Rd | 6 man/performAnalyses.Rd | 244 +++++++++++----------- man/saveAnalyses.Rd | 99 ++++----- man/saveScenarios.Rd | 76 +++---- man/scaleRoundList.Rd | 90 ++++---- man/simulateScenarios.Rd | 122 +++++------ vignettes/reproduceExNex.Rmd | 2 29 files changed, 1246 insertions(+), 1173 deletions(-)
Title: Fit 'TabNet' Models for Classification and Regression
Description: Implements the 'TabNet' model by Sercan O. Arik et al (2019) <arXiv:1908.07442>
and provides a consistent interface for fitting and creating predictions. It's
also fully compatible with the 'tidymodels' ecosystem.
Author: Daniel Falbel [aut, cre],
RStudio [cph],
Christophe Regouby [ctb]
Maintainer: Daniel Falbel <daniel@rstudio.com>
Diff between tabnet versions 0.2.0 dated 2021-06-22 and 0.3.0 dated 2021-10-11
DESCRIPTION | 10 +++-- MD5 | 21 ++++++------ NAMESPACE | 2 + NEWS.md | 4 ++ R/parsnip.R | 33 +++++++++++++++++++ inst/doc/interpretation.html | 58 +++++++++++++++++----------------- tests/testthat/Rplots.pdf |only tests/testthat/_snaps/hardhat.md | 20 +++++------ tests/testthat/_snaps/unsupervised.md | 16 ++++----- tests/testthat/test-explain.R | 10 ++--- tests/testthat/test-hardhat.R | 23 +++++-------- tests/testthat/test-parsnip.R | 24 ++++++++++++++ 12 files changed, 142 insertions(+), 79 deletions(-)
Title: PX-Web Data by API
Description: Function to read PX-Web data into R via API. The example code reads data from the three national statistical institutes, Statistics Norway, Statistics Sweden and Statistics Finland.
Author: Øyvind Langsrud [aut, cre],
Jan Bruusgaard [aut],
Solveig Bjørkholt [ctb],
Susie Jentoft [ctb]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between PxWebApiData versions 0.6.0 dated 2021-07-18 and 0.7.0 dated 2021-10-11
DESCRIPTION | 10 - LICENSE | 382 +++++++++++++++++++++--------------------- MD5 | 19 +- NAMESPACE | 1 NEWS.md | 10 - R/ApiData.R | 22 +- R/fromJSONstatExtra.R |only build/vignette.rds |binary inst/doc/Introduction.html | 28 +-- man/ApiData.Rd | 13 + tests/testthat/test-ApiData.R | 9 11 files changed, 267 insertions(+), 227 deletions(-)
Title: Dynamic Hazard Models using State Space Models
Description: Contains functions that lets you fit dynamic hazard models using
state space models. The first implemented model is described in Fahrmeir
(1992) <doi:10.1080/01621459.1992.10475232> and Fahrmeir (1994)
<doi:10.1093/biomet/81.2.317>. Extensions hereof are available where the
Extended Kalman filter is replaced by an unscented Kalman filter.
See Christoffersen (2021) <doi:10.18637/jss.v099.i07> for more details.
Particle filters and smoothers are also supported more general state space
models.
Author: Benjamin Christoffersen [cre, aut]
(<https://orcid.org/0000-0002-7182-1346>),
Alan Miller [cph],
Anthony Williams [cph],
Boost developers [cph],
R-core [cph]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Diff between dynamichazard versions 1.0.0 dated 2021-09-07 and 1.0.1 dated 2021-10-11
DESCRIPTION | 6 +++--- MD5 | 16 ++++++++-------- NEWS.md | 6 ++++++ inst/doc/Bootstrap_illustration.pdf |binary inst/doc/Comparing_methods_for_logistic_models.pdf |binary inst/doc/Diagnostics.pdf |binary inst/doc/Particle_filtering.pdf |binary inst/doc/ddhazard.pdf |binary tests/testthat/test_design_mat_and_risk_obj.R | 4 ++-- 9 files changed, 19 insertions(+), 13 deletions(-)
Title: Perform Weighted Linear Regression for Calibration Curve
Description: Automated assessment and selection of weighting factors for accurate quantification using linear calibration curve.
In addition, a 'shiny' App is provided, allowing users to analyze their data using an interactive graphical user interface, without any programming requirements.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between CCWeights versions 0.1.3 dated 2021-06-11 and 0.1.5 dated 2021-10-11
DESCRIPTION | 6 MD5 | 19 - NAMESPACE | 1 R/doCalibration.R | 166 ++++----- R/doFtest.R | 153 ++++---- R/doWlm.R | 258 +++++++-------- README.md |only inst/shiny/Gui/rsconnect/shinyapps.io/dong/CCWeights.dcf | 6 inst/shiny/Gui/server-calibration.R | 2 inst/shiny/Gui/ui-tab-landing.R | 17 man/doFtest.Rd | 2 11 files changed, 315 insertions(+), 315 deletions(-)
Title: Exploratory Chemometrics for Spectroscopy
Description: A collection of functions for top-down exploratory data analysis
of spectral data including nuclear magnetic resonance (NMR), infrared (IR),
Raman, X-ray fluorescence (XRF) and other similar types of spectroscopy.
Includes functions for plotting and inspecting spectra, peak alignment,
hierarchical cluster analysis (HCA), principal components analysis (PCA) and
model-based clustering. Robust methods appropriate for this type of
high-dimensional data are available. ChemoSpec is designed for structured
experiments, such as metabolomics investigations, where the samples fall into
treatment and control groups. Graphical output is formatted consistently for
publication quality plots. ChemoSpec is intended to be very user friendly and
to help you get usable results quickly. A vignette covering typical operations
is available.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>),
Mike Bostock [cph, ctb] (author of the d3.js library used by
plotSpectraJS, http://d3js.org),
Matt Keinsley [ctb] (author of initial AOV-PCA code),
Tejasvi Gupta [ctb] (author of ggplot2 and plotly graphics)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpec versions 5.3.21 dated 2021-07-06 and 6.0.1 dated 2021-10-11
ChemoSpec-5.3.21/ChemoSpec/R/plotScree2.R |only ChemoSpec-5.3.21/ChemoSpec/man/plotScree2.Rd |only ChemoSpec-6.0.1/ChemoSpec/DESCRIPTION | 25 ChemoSpec-6.0.1/ChemoSpec/MD5 | 198 +-- ChemoSpec-6.0.1/ChemoSpec/NAMESPACE | 44 ChemoSpec-6.0.1/ChemoSpec/NEWS | 2 ChemoSpec-6.0.1/ChemoSpec/NEWS.md | 29 ChemoSpec-6.0.1/ChemoSpec/R/ChemoSpec-package.R | 30 ChemoSpec-6.0.1/ChemoSpec/R/LoopThruSpectra.R | 42 ChemoSpec-6.0.1/ChemoSpec/R/MUD.R | 4 ChemoSpec-6.0.1/ChemoSpec/R/Spectra.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/aovPCAloadings.R | 85 - ChemoSpec-6.0.1/ChemoSpec/R/aovPCAscores.R | 82 - ChemoSpec-6.0.1/ChemoSpec/R/aov_pcaSpectra.R | 76 + ChemoSpec-6.0.1/ChemoSpec/R/avgFacLvls.R | 6 ChemoSpec-6.0.1/ChemoSpec/R/baselineSpectra.R | 7 ChemoSpec-6.0.1/ChemoSpec/R/binData.R | 6 ChemoSpec-6.0.1/ChemoSpec/R/binSpectra.R | 4 ChemoSpec-6.0.1/ChemoSpec/R/c_pcaSpectra.R | 29 ChemoSpec-6.0.1/ChemoSpec/R/chkGraphicsOptStub.R |only ChemoSpec-6.0.1/ChemoSpec/R/clupaSpectra.R | 25 ChemoSpec-6.0.1/ChemoSpec/R/cv_pcaSpectra.R | 5 ChemoSpec-6.0.1/ChemoSpec/R/evalClusters.R | 5 ChemoSpec-6.0.1/ChemoSpec/R/files2SpectraObject.R | 29 ChemoSpec-6.0.1/ChemoSpec/R/hcaSpectra.R | 4 ChemoSpec-6.0.1/ChemoSpec/R/hmapSpectra.R | 6 ChemoSpec-6.0.1/ChemoSpec/R/hypTestScores.R | 4 ChemoSpec-6.0.1/ChemoSpec/R/irlba_pcaSpectra.R | 29 ChemoSpec-6.0.1/ChemoSpec/R/labelExtremes3d.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/makeEllipsoid.R | 3 ChemoSpec-6.0.1/ChemoSpec/R/mclust3D.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/mclust3dSpectra.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/mclustSpectra.R | 12 ChemoSpec-6.0.1/ChemoSpec/R/normSpectra.R | 17 ChemoSpec-6.0.1/ChemoSpec/R/normVec.R | 3 ChemoSpec-6.0.1/ChemoSpec/R/onAttach.R | 9 ChemoSpec-6.0.1/ChemoSpec/R/pcaDiag.R | 217 +++ ChemoSpec-6.0.1/ChemoSpec/R/plot2Loadings.R | 121 +- ChemoSpec-6.0.1/ChemoSpec/R/plotLoadings.R | 136 +- ChemoSpec-6.0.1/ChemoSpec/R/plotScores3D.R | 5 ChemoSpec-6.0.1/ChemoSpec/R/plotScoresRGL.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/plotSpectra.R | 187 ++- ChemoSpec-6.0.1/ChemoSpec/R/plotSpectraDist.R | 91 + ChemoSpec-6.0.1/ChemoSpec/R/plotSpectraJS.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/q2rPCA.R | 2 ChemoSpec-6.0.1/ChemoSpec/R/r_pcaSpectra.R | 28 ChemoSpec-6.0.1/ChemoSpec/R/reviewAllSpectra.R |only ChemoSpec-6.0.1/ChemoSpec/R/sPlotSpectra.R | 123 +- ChemoSpec-6.0.1/ChemoSpec/R/s_pcaSpectra.R | 29 ChemoSpec-6.0.1/ChemoSpec/R/seXy.R | 13 ChemoSpec-6.0.1/ChemoSpec/R/sgfSpectra.R | 22 ChemoSpec-6.0.1/ChemoSpec/R/splitSpectraGroups.R | 4 ChemoSpec-6.0.1/ChemoSpec/R/surveySpectra.R | 597 ++++++---- ChemoSpec-6.0.1/ChemoSpec/R/surveySpectra2.R | 76 + ChemoSpec-6.0.1/ChemoSpec/build/vignette.rds |binary ChemoSpec-6.0.1/ChemoSpec/data/SrE.IR.RData |binary ChemoSpec-6.0.1/ChemoSpec/data/SrE.NMR.RData |binary ChemoSpec-6.0.1/ChemoSpec/data/alignMUD.RData |binary ChemoSpec-6.0.1/ChemoSpec/data/metMUD1.RData |binary ChemoSpec-6.0.1/ChemoSpec/data/metMUD2.RData |binary ChemoSpec-6.0.1/ChemoSpec/inst/doc/ChemoSpec.R | 200 +-- ChemoSpec-6.0.1/ChemoSpec/inst/doc/ChemoSpec.Rmd | 234 +-- ChemoSpec-6.0.1/ChemoSpec/inst/doc/ChemoSpec.pdf |binary ChemoSpec-6.0.1/ChemoSpec/inst/tinytest/test_files2SpectraObject_JDX.R | 1 ChemoSpec-6.0.1/ChemoSpec/man/ChemoSpec-package.Rd | 5 ChemoSpec-6.0.1/ChemoSpec/man/Spectra.Rd | 2 ChemoSpec-6.0.1/ChemoSpec/man/aovPCAloadings.Rd | 25 ChemoSpec-6.0.1/ChemoSpec/man/aovPCAscores.Rd | 61 - ChemoSpec-6.0.1/ChemoSpec/man/aov_pcaSpectra.Rd | 45 ChemoSpec-6.0.1/ChemoSpec/man/baselineSpectra.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/binSpectra.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/c_pcaSpectra.Rd | 28 ChemoSpec-6.0.1/ChemoSpec/man/chkGraphicsOpt.Rd |only ChemoSpec-6.0.1/ChemoSpec/man/clupaSpectra.Rd | 25 ChemoSpec-6.0.1/ChemoSpec/man/cv_pcaSpectra.Rd | 1 ChemoSpec-6.0.1/ChemoSpec/man/evalClusters.Rd | 4 ChemoSpec-6.0.1/ChemoSpec/man/files2SpectraObject.Rd | 29 ChemoSpec-6.0.1/ChemoSpec/man/hcaSpectra.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/hmapSpectra.Rd | 5 ChemoSpec-6.0.1/ChemoSpec/man/hypTestScores.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/irlba_pcaSpectra.Rd | 28 ChemoSpec-6.0.1/ChemoSpec/man/loopThruSpectra.Rd | 27 ChemoSpec-6.0.1/ChemoSpec/man/mclust3dSpectra.Rd | 2 ChemoSpec-6.0.1/ChemoSpec/man/mclustSpectra.Rd | 10 ChemoSpec-6.0.1/ChemoSpec/man/metMUD1.Rd | 2 ChemoSpec-6.0.1/ChemoSpec/man/normSpectra.Rd | 16 ChemoSpec-6.0.1/ChemoSpec/man/pcaDiag.Rd | 32 ChemoSpec-6.0.1/ChemoSpec/man/plot2Loadings.Rd | 30 ChemoSpec-6.0.1/ChemoSpec/man/plotLoadings.Rd | 11 ChemoSpec-6.0.1/ChemoSpec/man/plotScores3D.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/plotScoresRGL.Rd | 2 ChemoSpec-6.0.1/ChemoSpec/man/plotSpectra.Rd | 53 ChemoSpec-6.0.1/ChemoSpec/man/plotSpectraDist.Rd | 28 ChemoSpec-6.0.1/ChemoSpec/man/plotSpectraJS.Rd | 2 ChemoSpec-6.0.1/ChemoSpec/man/r_pcaSpectra.Rd | 26 ChemoSpec-6.0.1/ChemoSpec/man/reviewAllSpectra.Rd |only ChemoSpec-6.0.1/ChemoSpec/man/sPlotSpectra.Rd | 34 ChemoSpec-6.0.1/ChemoSpec/man/s_pcaSpectra.Rd | 28 ChemoSpec-6.0.1/ChemoSpec/man/sgfSpectra.Rd | 20 ChemoSpec-6.0.1/ChemoSpec/man/splitSpectraGroups.Rd | 3 ChemoSpec-6.0.1/ChemoSpec/man/surveySpectra.Rd | 24 ChemoSpec-6.0.1/ChemoSpec/vignettes/ChemoSpec.Rmd | 234 +-- ChemoSpec-6.0.1/ChemoSpec/vignettes/chemometrics.bib | 36 103 files changed, 2367 insertions(+), 1444 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-10-11 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-01 1.0
Title: Variance Components Testing for Linear and Nonlinear Mixed
Effects Models
Description: An implementation of the Likelihood ratio Test (LRT) for testing that,
in a (non)linear mixed effects model, the variances of a subset of the random
effects are equal to zero. There is no restriction on the subset of variances
that can be tested: for example, it is possible to test that all the variances
are equal to zero. Note that the implemented test is asymptotic.
This package should be used on model fits from packages 'nlme', 'lmer', and 'saemix'.
Charlotte Baey, Paul-Henry Cournède and Estelle Kuhn (2019) <doi:10.1016/j.csda.2019.01.014>.
Author: Charlotte Baey [aut, cre] (<https://orcid.org/0000-0002-1413-1058>),
Estelle Kuhn [aut]
Maintainer: Charlotte Baey <charlotte.baey@univ-lille.fr>
Diff between varTestnlme versions 1.0.0 dated 2021-01-07 and 1.1.0 dated 2021-10-11
DESCRIPTION | 7 - MD5 | 49 ++++---- NAMESPACE | 18 ++- NEWS.md | 5 R/chibarsquare.R | 37 ++---- R/generics.R | 14 +- R/lme4_utilities.R | 27 ++-- R/lme_utilities.R | 56 +++++---- R/methods.R |only R/pkgName.R | 9 - R/saemix_utilities.R | 17 +- R/utils.R |only R/varCompTest.lme.R | 49 +------- R/varCompTest.merMod.R | 62 ++-------- R/varCompTest.saemix.R | 52 +------- README.md | 1 inst/doc/varTestnlme.R | 5 inst/doc/varTestnlme.Rmd | 12 +- inst/doc/varTestnlme.html | 267 +++++++++++++++++---------------------------- man/alt.desc.Rd |only man/approxWeights.Rd | 6 - man/fim.vctest.Rd |only man/null.desc.Rd |only man/print.desc.message.Rd |only man/print.res.message.Rd |only man/print.vctest.Rd |only man/summary.vctest.Rd |only man/varCompTest.Rd | 17 +- man/weightsChiBarSquare.Rd | 9 + vignettes/varTestnlme.Rmd | 12 +- 30 files changed, 320 insertions(+), 411 deletions(-)
Title: Prediction Error Curves for Risk Prediction Models in Survival
Analysis
Description: Validation of risk predictions obtained from survival models and
competing risk models based on censored data using inverse weighting and
cross-validation. Most of the 'pec' functionality has been moved to 'riskRegression'.
Author: Thomas A. Gerds
Maintainer: Thomas A. Gerds <tag@biostat.ku.dk>
Diff between pec versions 2020.11.17 dated 2020-11-16 and 2021.10.11 dated 2021-10-11
DESCRIPTION | 6 +++--- MD5 | 36 ++++++++++++++++++------------------ R/cindex.R | 4 +++- R/pec.R | 4 ++-- R/plotPredictEventProb.R | 4 ++-- R/plotPredictSurvProb.R | 4 ++-- R/predictRestrictedMeanTime.R | 4 ++-- R/predictSurvProb.R | 4 ++-- R/predictSurvProb.cforest.R | 4 ++-- R/selectCox.R | 4 ++-- inst/CITATION | 2 +- man/cindex.Rd | 4 +++- man/pec.Rd | 4 ++-- man/pecCforest.Rd | 4 ++-- man/plotPredictEventProb.Rd | 4 ++-- man/plotPredictSurvProb.Rd | 4 ++-- man/predictRestrictedMeanTime.Rd | 4 ++-- man/predictSurvProb.Rd | 4 ++-- man/selectCox.Rd | 4 ++-- 19 files changed, 56 insertions(+), 52 deletions(-)
Title: Fitting Semi-Parametric Generalized log-Gamma Regression Models
Description: Set of tools to fit a linear multiple or semi-parametric regression
models with the possibility of non-informative random right-censoring.
Under this setup, the localization parameter of the response variable distribution is modeled by using linear multiple regression
or semi-parametric functions, whose non-parametric components may be approximated
by natural cubic spline or P-splines. The supported distribution for the model error is a generalized log-gamma distribution which includes
the generalized extreme value and standard normal distributions as important special cases.
Also, some numerical and graphical devices for diagnostic of the fitted models are offered.
Author: Carlos Alberto Cardozo Delgado <cardozorpackages@gmail.com> and G. Paula and L. Vanegas
Maintainer: Carlos Alberto Cardozo Delgado <cardozorpackages@gmail.com>
Diff between sglg versions 0.1.10 dated 2021-09-18 and 0.2.0 dated 2021-10-11
DESCRIPTION | 14 ++++++++------ MD5 | 6 +++--- R/sglg.R | 22 +++++++++++----------- man/sglg.Rd | 4 ++-- 4 files changed, 24 insertions(+), 22 deletions(-)
Title: Regression Analysis Linear and Nonlinear for Agriculture
Description: Linear and nonlinear regression analysis common in agricultural science articles (Archontoulis & Miguez (2015). <doi:10.2134/agronj2012.0506>). The package includes polynomial, exponential, gaussian, logistic, logarithmic, segmented, non-parametric models, among others. The functions return the model coefficients and their respective p values, coefficient of determination, root mean square error, AIC, BIC, as well as graphs with the equations automatically.
Author: Gabriel Danilo Shimizu [aut, cre]
(<https://orcid.org/0000-0001-8524-508X>),
Leandro Simoes Azeredo Goncalves [aut, ctb]
(<https://orcid.org/0000-0001-9700-9375>)
Maintainer: Gabriel Danilo Shimizu <shimizu@uel.br>
Diff between AgroReg versions 1.1.0 dated 2021-08-09 and 1.2.0 dated 2021-10-11
AgroReg-1.1.0/AgroReg/R/EXP_analysis.R |only AgroReg-1.1.0/AgroReg/R/EXP_sup_analysis.R |only AgroReg-1.1.0/AgroReg/R/GP_analysis.R |only AgroReg-1.1.0/AgroReg/R/SSasymp_analysis.R |only AgroReg-1.1.0/AgroReg/man/exponential.Rd |only AgroReg-1.1.0/AgroReg/man/exponential_neg.Rd |only AgroReg-1.2.0/AgroReg/DESCRIPTION | 12 - AgroReg-1.2.0/AgroReg/MD5 | 152 ++++++++++----- AgroReg-1.2.0/AgroReg/NAMESPACE | 42 +++- AgroReg-1.2.0/AgroReg/NEWS.md | 69 ++++++ AgroReg-1.2.0/AgroReg/R/AM_analysis.R |only AgroReg-1.2.0/AgroReg/R/BC_analysis.R | 82 ++++++-- AgroReg-1.2.0/AgroReg/R/BIEXP_analysis.R | 45 +++- AgroReg-1.2.0/AgroReg/R/CD_analysis.R | 92 +++++++-- AgroReg-1.2.0/AgroReg/R/IC_analysis.R |only AgroReg-1.2.0/AgroReg/R/LL_analysis.R | 122 ++++++++++-- AgroReg-1.2.0/AgroReg/R/LM13_analysis.R |only AgroReg-1.2.0/AgroReg/R/LM13i_analysis.R |only AgroReg-1.2.0/AgroReg/R/LM23_analysis.R |only AgroReg-1.2.0/AgroReg/R/LM23i_analysis.R |only AgroReg-1.2.0/AgroReg/R/LM2i3_analysis.R |only AgroReg-1.2.0/AgroReg/R/LM_analysis.R | 198 ++++++++++++++------ AgroReg-1.2.0/AgroReg/R/LM_i_analysis.R |only AgroReg-1.2.0/AgroReg/R/LNplt_analysis.R | 43 +++- AgroReg-1.2.0/AgroReg/R/LOG2_analysis.R |only AgroReg-1.2.0/AgroReg/R/LOG_analysis.R | 33 ++- AgroReg-1.2.0/AgroReg/R/MM_analysis.R | 97 ++++++++- AgroReg-1.2.0/AgroReg/R/N_analysis.R | 24 +- AgroReg-1.2.0/AgroReg/R/PAGE_analysis.R |only AgroReg-1.2.0/AgroReg/R/SH_function.R |only AgroReg-1.2.0/AgroReg/R/VB_analysis.R |only AgroReg-1.2.0/AgroReg/R/VG_analysis.R |only AgroReg-1.2.0/AgroReg/R/asymptotic_analysis.R |only AgroReg-1.2.0/AgroReg/R/asymptotic_i_analysis.R |only AgroReg-1.2.0/AgroReg/R/asymptotic_i_sup_analysis.R |only AgroReg-1.2.0/AgroReg/R/asymptotic_sup_analysis.R |only AgroReg-1.2.0/AgroReg/R/beta_analysis.R | 57 +++-- AgroReg-1.2.0/AgroReg/R/comparative_function.R |only AgroReg-1.2.0/AgroReg/R/gaussian_analysis.R | 181 +++++++++++++++--- AgroReg-1.2.0/AgroReg/R/gompertz_analysis.R |only AgroReg-1.2.0/AgroReg/R/hill_analysis.R |only AgroReg-1.2.0/AgroReg/R/linearlinear_analysis.R | 73 ++++--- AgroReg-1.2.0/AgroReg/R/loess_analysis.R | 10 - AgroReg-1.2.0/AgroReg/R/logistic_analysis.R |only AgroReg-1.2.0/AgroReg/R/lorentz_analysis.R |only AgroReg-1.2.0/AgroReg/R/midilli_analysis.R |only AgroReg-1.2.0/AgroReg/R/midillim_analysis.R |only AgroReg-1.2.0/AgroReg/R/mitscherlich_analysis.R | 61 ++++-- AgroReg-1.2.0/AgroReg/R/newton_analysis.R |only AgroReg-1.2.0/AgroReg/R/peleg_analysis.R |only AgroReg-1.2.0/AgroReg/R/plot_arrange.R | 96 ++++++++- AgroReg-1.2.0/AgroReg/R/pltLN_analysis.R |only AgroReg-1.2.0/AgroReg/R/pltQD_analysis.R |only AgroReg-1.2.0/AgroReg/R/potential_analysis.R |only AgroReg-1.2.0/AgroReg/R/quadraticplateau_analysis.R | 52 +++-- AgroReg-1.2.0/AgroReg/R/regression.R | 192 ++++++++++++++----- AgroReg-1.2.0/AgroReg/R/stat_param.R |only AgroReg-1.2.0/AgroReg/R/thompson_analysis.R |only AgroReg-1.2.0/AgroReg/R/valcam_analysis.R |only AgroReg-1.2.0/AgroReg/R/weibull_analysis.R |only AgroReg-1.2.0/AgroReg/R/yieldloss_analysis.R |only AgroReg-1.2.0/AgroReg/man/AM.Rd |only AgroReg-1.2.0/AgroReg/man/AgroReg-package.Rd | 2 AgroReg-1.2.0/AgroReg/man/BC.Rd | 28 ++ AgroReg-1.2.0/AgroReg/man/CD.Rd | 26 ++ AgroReg-1.2.0/AgroReg/man/GP.Rd | 37 +++ AgroReg-1.2.0/AgroReg/man/LL.Rd | 28 ++ AgroReg-1.2.0/AgroReg/man/LM.Rd | 34 ++- AgroReg-1.2.0/AgroReg/man/LM13.Rd |only AgroReg-1.2.0/AgroReg/man/LM13i.Rd |only AgroReg-1.2.0/AgroReg/man/LM23.Rd |only AgroReg-1.2.0/AgroReg/man/LM23i.Rd |only AgroReg-1.2.0/AgroReg/man/LM2i3.Rd |only AgroReg-1.2.0/AgroReg/man/LM_i.Rd |only AgroReg-1.2.0/AgroReg/man/LOG.Rd | 15 + AgroReg-1.2.0/AgroReg/man/LOG2.Rd |only AgroReg-1.2.0/AgroReg/man/MM.Rd | 34 ++- AgroReg-1.2.0/AgroReg/man/Nreg.Rd | 9 AgroReg-1.2.0/AgroReg/man/PAGE.Rd |only AgroReg-1.2.0/AgroReg/man/SH.Rd |only AgroReg-1.2.0/AgroReg/man/VB.Rd |only AgroReg-1.2.0/AgroReg/man/VG.Rd |only AgroReg-1.2.0/AgroReg/man/asymptotic.Rd | 25 +- AgroReg-1.2.0/AgroReg/man/asymptotic_i.Rd |only AgroReg-1.2.0/AgroReg/man/asymptotic_ineg.Rd |only AgroReg-1.2.0/AgroReg/man/asymptotic_neg.Rd |only AgroReg-1.2.0/AgroReg/man/beta_reg.Rd | 20 +- AgroReg-1.2.0/AgroReg/man/biexponential.Rd | 17 + AgroReg-1.2.0/AgroReg/man/comparative_model.Rd |only AgroReg-1.2.0/AgroReg/man/gaussianreg.Rd | 22 +- AgroReg-1.2.0/AgroReg/man/hill.Rd |only AgroReg-1.2.0/AgroReg/man/interval.confidence.Rd |only AgroReg-1.2.0/AgroReg/man/linear.linear.Rd | 15 + AgroReg-1.2.0/AgroReg/man/linear.plateau.Rd | 17 + AgroReg-1.2.0/AgroReg/man/loessreg.Rd | 5 AgroReg-1.2.0/AgroReg/man/logistic.Rd |only AgroReg-1.2.0/AgroReg/man/lorentz.Rd |only AgroReg-1.2.0/AgroReg/man/midilli.Rd |only AgroReg-1.2.0/AgroReg/man/midillim.Rd |only AgroReg-1.2.0/AgroReg/man/mitscherlich.Rd | 23 +- AgroReg-1.2.0/AgroReg/man/newton.Rd |only AgroReg-1.2.0/AgroReg/man/peleg.Rd |only AgroReg-1.2.0/AgroReg/man/plateau.linear.Rd |only AgroReg-1.2.0/AgroReg/man/plateau.quadratic.Rd |only AgroReg-1.2.0/AgroReg/man/plot_arrange.Rd | 12 - AgroReg-1.2.0/AgroReg/man/potential.Rd |only AgroReg-1.2.0/AgroReg/man/quadratic.plateau.Rd | 17 + AgroReg-1.2.0/AgroReg/man/regression.Rd | 92 ++++++--- AgroReg-1.2.0/AgroReg/man/stat_param.Rd |only AgroReg-1.2.0/AgroReg/man/thompson.Rd |only AgroReg-1.2.0/AgroReg/man/valcam.Rd |only AgroReg-1.2.0/AgroReg/man/weibull.Rd |only AgroReg-1.2.0/AgroReg/man/yieldloss.Rd |only 113 files changed, 1730 insertions(+), 481 deletions(-)
Title: R Bindings for Gtk 2.8.0 and Above
Description: Facilities in the R language for programming
graphical interfaces using Gtk, the Gimp Tool Kit.
Author: Michael Lawrence <michafla@gene.com> and Duncan Temple Lang <duncan@wald.ucdavis.edu>
Maintainer: ORPHANED
Diff between RGtk2 versions 2.20.36 dated 2019-03-08 and 2.20.36.1 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/Makevars.in | 2 +- src/Makevars.win | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Optimal Distribution Preserving Down-Sampling of Bio-Medical
Data
Description: An optimized method for distribution-preserving class-proportional down-sampling of bio-medical data.
Author: Jorn Lotsch [aut,cre] (<https://orcid.org/0000-0002-5818-6958>),
Sebastian Malkusch [aut] (<https://orcid.org/0000-0001-6766-140X>),
Alfred Ultsch [aut] (<https://orcid.org/0000-0002-7845-3283>)
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
Diff between opdisDownsampling versions 0.6.0 dated 2021-08-08 and 0.6.1 dated 2021-10-11
DESCRIPTION | 6 ++--- MD5 | 6 ++--- R/opdisDownsampling.R | 55 +++++++++++++++++++---------------------------- man/opdisDownsampling.Rd | 2 - 4 files changed, 30 insertions(+), 39 deletions(-)
More information about opdisDownsampling at CRAN
Permanent link
Title: Embeddable Cairo Graphics Device Driver
Description: This device uses Cairo and GTK to draw to the screen,
file (png, svg, pdf, and ps) or memory (arbitrary GdkDrawable
or Cairo context). The screen device may be embedded into RGtk2
interfaces and supports all interactive features of other graphics
devices, including getGraphicsEvent().
Author: Michael Lawrence
Maintainer: ORPHANED
Diff between cairoDevice versions 2.28.2 dated 2020-07-07 and 2.28.2.1 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- src/Makevars.in | 2 +- src/Makevars.win | 2 +- 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Detecting Outliers in Network Meta-Analysis
Description: A set of functions providing several outlier (i.e., studies with extreme findings) and influential detection measures and methodologies in network meta-analysis :
- simple outlier and influential detection measures
- outlier and influential detection measures by considering study deletion (shift the mean)
- plots for outlier and influential detection measures
- Q-Q plot for network meta-analysis
- Forward Search algorithm in network meta-analysis.
- forward plots to monitor statistics in each step of the forward search algorithm
- forward plots for summary estimates and their confidence intervals in each step of forward search algorithm.
Author: Maria Petropoulou [aut, cre] (<https://orcid.org/0000-0002-7147-3644>),
Guido Schwarzer [aut] (<https://orcid.org/0000-0001-6214-9087>),
Agapios Panos [aut],
Dimitris Mavridis [aut] (<https://orcid.org/0000-0003-1041-4592>)
Maintainer: Maria Petropoulou <petropoulou@imbi.uni-freiburg.de>
Diff between NMAoutlier versions 0.1.17 dated 2021-02-01 and 0.1.18 dated 2021-10-11
NMAoutlier-0.1.17/NMAoutlier/NEWS |only NMAoutlier-0.1.17/NMAoutlier/R/NMAoutlier-internal.R |only NMAoutlier-0.1.18/NMAoutlier/COPYING | 680 +++--- NMAoutlier-0.1.18/NMAoutlier/DESCRIPTION | 34 NMAoutlier-0.1.18/NMAoutlier/MD5 | 89 NMAoutlier-0.1.18/NMAoutlier/NAMESPACE | 87 NMAoutlier-0.1.18/NMAoutlier/NEWS.md |only NMAoutlier-0.1.18/NMAoutlier/R/Gupta2013.R | 142 - NMAoutlier-0.1.18/NMAoutlier/R/InitialSubset.R | 290 +- NMAoutlier-0.1.18/NMAoutlier/R/Multi.R | 164 - NMAoutlier-0.1.18/NMAoutlier/R/NMAoutlier-package.R | 265 +- NMAoutlier-0.1.18/NMAoutlier/R/NMAoutlier.R | 1470 ++++++------- NMAoutlier-0.1.18/NMAoutlier/R/NMAoutlier.measures.R | 1282 +++++------ NMAoutlier-0.1.18/NMAoutlier/R/Qnetplot.R | 174 - NMAoutlier-0.1.18/NMAoutlier/R/Schoenberg2013.R | 106 NMAoutlier-0.1.18/NMAoutlier/R/fwdplot.R | 225 - NMAoutlier-0.1.18/NMAoutlier/R/fwdplotest.R | 137 - NMAoutlier-0.1.18/NMAoutlier/R/help_plot.R | 76 NMAoutlier-0.1.18/NMAoutlier/R/measplot.R | 553 ++-- NMAoutlier-0.1.18/NMAoutlier/R/meta-aux.R |only NMAoutlier-0.1.18/NMAoutlier/R/meta-chk.R |only NMAoutlier-0.1.18/NMAoutlier/R/meta-format.R |only NMAoutlier-0.1.18/NMAoutlier/R/meta-is.R |only NMAoutlier-0.1.18/NMAoutlier/R/meta-set.R |only NMAoutlier-0.1.18/NMAoutlier/R/mult.R | 168 - NMAoutlier-0.1.18/NMAoutlier/R/netmet.R | 211 - NMAoutlier-0.1.18/NMAoutlier/R/netmeta-aux.R |only NMAoutlier-0.1.18/NMAoutlier/R/nma.R | 112 NMAoutlier-0.1.18/NMAoutlier/R/plotesthelper.R | 138 - NMAoutlier-0.1.18/NMAoutlier/R/plothelper.R | 456 ++-- NMAoutlier-0.1.18/NMAoutlier/R/print.NMAoutlier.R | 128 - NMAoutlier-0.1.18/NMAoutlier/R/print.NMAoutlier.measures.R | 211 + NMAoutlier-0.1.18/NMAoutlier/R/res_multi.R | 150 - NMAoutlier-0.1.18/NMAoutlier/man/Gupta2013.Rd | 134 - NMAoutlier-0.1.18/NMAoutlier/man/InitialSubset.Rd | 129 - NMAoutlier-0.1.18/NMAoutlier/man/Multi.Rd | 44 NMAoutlier-0.1.18/NMAoutlier/man/NMAoutlier-package.Rd | 258 +- NMAoutlier-0.1.18/NMAoutlier/man/NMAoutlier.Rd | 582 ++--- NMAoutlier-0.1.18/NMAoutlier/man/NMAoutlier.measures.Rd | 376 +-- NMAoutlier-0.1.18/NMAoutlier/man/Qnetplot.Rd | 104 NMAoutlier-0.1.18/NMAoutlier/man/Schoenberg2013.Rd | 98 NMAoutlier-0.1.18/NMAoutlier/man/fwdplot.Rd | 5 NMAoutlier-0.1.18/NMAoutlier/man/fwdplotest.Rd | 129 - NMAoutlier-0.1.18/NMAoutlier/man/measplot.Rd | 175 - NMAoutlier-0.1.18/NMAoutlier/man/mult.Rd | 48 NMAoutlier-0.1.18/NMAoutlier/man/netmet.Rd | 102 NMAoutlier-0.1.18/NMAoutlier/man/nma.Rd | 68 NMAoutlier-0.1.18/NMAoutlier/man/plotesthelper.Rd | 66 NMAoutlier-0.1.18/NMAoutlier/man/plothelper.Rd | 56 NMAoutlier-0.1.18/NMAoutlier/man/res_multi.Rd | 42 50 files changed, 4946 insertions(+), 4818 deletions(-)
Title: Analysis of MHC Data in Non-Model Species
Description: Twelve tools for bioinformatical processing and analysis of major
histocompatibility complex (MHC) data. The functions are tailored for amplicon data
sets that have been filtered using the 'dada2' method (for more information on
'dada2', visit <https://benjjneb.github.io/dada2/> ), but even other types of data
sets can be analyzed.
The DistCalc() function calculates Grantham, Sandberg, or p-distances from pairwise
comparisons of all sequences in a data set, and mean distances of all pairwise
comparisons within each sample in a data set. The function additionally outputs five
tables with physico-chemical z-descriptor values (based on Sandberg et al. 1998) for
each amino acid position in all sequences in the data set. These tables may be useful
for further downstream analyses, such as estimation of MHC supertypes.
The BootKmeans() function is a wrapper for the kmeans() function of the 'stats'
package, which allows for bootstrapping. Bootstrapping k-estimates may be
desirable in data sets, where e.g. BIC- vs. k-values do not produce clear
inflection points ("elbows"). BootKmeans() performs multiple runs of kmeans() and
estimates optimal k-values based on a user-defined threshold of BIC reduction. The
method is an automated and bootstrapped version of visually inspecting elbow plots
of BIC- vs. k-values.
The ClusterMatch() function is a tool for evaluating whether different k-means()
clustering models identify similar clusters, and summarize bootstrap model stats as
means for different estimated values of k. It is designed to take files produced by
the BootKmeans() function as input, but other data can be analysed if the
descriptions of the required data formats are observed carefully.
The HpltFind() function infers putative haplotypes from families in the data
set.
The GetHpltTable() and GetHpltStats() functions evaluate the accuracy of
the haplotype inference.
The PapaDiv() function compares parent pairs in the data set and calculate their
joint MHC diversity, taking into account sequence variants that occur in both
parents.
The ReplMatch() function matches replicates in data sets in order to evaluate
genotyping success.
The GetReplTable() and GetReplStats() functions perform such an evaluation.
The CreateFas() function creates a fasta file with all the sequences in the data
set.
The CreateSamplesFas() function creates individual fasta files for each sample in
the data set.
Author: Jacob Roved [aut, cre]
Maintainer: Jacob Roved <jacob.roved@biol.lu.se>
Diff between MHCtools versions 1.4.0 dated 2021-09-14 and 1.4.1 dated 2021-10-11
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 6 ++++++ R/DistCalc_func_20200902.R | 8 ++++---- README.md | 1 + 5 files changed, 18 insertions(+), 11 deletions(-)
Title: Sets, Generalized Sets, Customizable Sets and Intervals
Description: Data structures and basic operations for ordinary sets,
generalizations such as fuzzy sets, multisets, and
fuzzy multisets, customizable sets, and intervals.
Author: David Meyer [aut, cre],
Kurt Hornik [aut],
Christian Buchta [ctb]
Maintainer: David Meyer <David.Meyer@R-project.org>
Diff between sets versions 1.0-18 dated 2017-12-12 and 1.0-19 dated 2021-10-11
DESCRIPTION | 6 +++--- MD5 | 23 +++++++++++++---------- build/partial.rdb |only build/vignette.rds |binary data/fuzzy_docs.rda |binary inst/NEWS.Rd | 6 ++++++ inst/doc/sets.pdf |binary inst/po |only man/cset.Rd | 2 +- man/fuzzy.Rd | 2 +- man/gset.Rd | 2 +- man/set.Rd | 2 +- po |only vignettes/sets.bib | 32 ++++++++++++++++---------------- 14 files changed, 42 insertions(+), 33 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],
Rikke Mortensen [ctb],
Marvin Wright [ctb],
Nikolaj Tollenaar [ctb],
John Muschelli [ctb],
Ulla Brasch Mogensen [ctb],
Johan Sebastian Ohlendorff [aut],
Brice Ozenne [aut] (<https://orcid.org/0000-0001-9694-2956>)
Maintainer: Thomas Alexander Gerds <tag@biostat.ku.dk>
Diff between riskRegression versions 2020.12.08 dated 2020-12-09 and 2021.10.10 dated 2021-10-11
riskRegression-2020.12.08/riskRegression/man/Score.list.Rd |only riskRegression-2020.12.08/riskRegression/man/transformCI.Rd |only riskRegression-2020.12.08/riskRegression/man/transformIID.Rd |only riskRegression-2020.12.08/riskRegression/man/transformSE.Rd |only riskRegression-2020.12.08/riskRegression/man/transformT.Rd |only riskRegression-2020.12.08/riskRegression/vignettes/k-fold-CV.html |only riskRegression-2021.10.10/riskRegression/DESCRIPTION | 10 riskRegression-2021.10.10/riskRegression/MD5 | 122 riskRegression-2021.10.10/riskRegression/NAMESPACE | 24 riskRegression-2021.10.10/riskRegression/R/IPA.R | 6 riskRegression-2021.10.10/riskRegression/R/RcppExports.R | 37 riskRegression-2021.10.10/riskRegression/R/Score.R | 134 - riskRegression-2021.10.10/riskRegression/R/ate-iid.R | 25 riskRegression-2021.10.10/riskRegression/R/ate-pointEstimate.R | 48 riskRegression-2021.10.10/riskRegression/R/ate.R | 92 riskRegression-2021.10.10/riskRegression/R/autoplot.ate.R | 14 riskRegression-2021.10.10/riskRegression/R/autoplot.predictCSC.R | 6 riskRegression-2021.10.10/riskRegression/R/autoplot.predictCox.R | 130 - riskRegression-2021.10.10/riskRegression/R/calcSeCSC.R | 22 riskRegression-2021.10.10/riskRegression/R/calcSeCox.R | 30 riskRegression-2021.10.10/riskRegression/R/confint.ate.R | 35 riskRegression-2021.10.10/riskRegression/R/getCensoringWeights.R | 5 riskRegression-2021.10.10/riskRegression/R/getComparisons.R | 4 riskRegression-2021.10.10/riskRegression/R/getInfluenceCurve.R | 101 riskRegression-2021.10.10/riskRegression/R/iidCox.R | 22 riskRegression-2021.10.10/riskRegression/R/plotCalibration.R | 6 riskRegression-2021.10.10/riskRegression/R/predict.CauseSpecificCox.R | 135 - riskRegression-2021.10.10/riskRegression/R/predictCox.R | 48 riskRegression-2021.10.10/riskRegression/R/predictRisk.R | 108 riskRegression-2021.10.10/riskRegression/R/predictRisk.party.R | 1 riskRegression-2021.10.10/riskRegression/R/print.ate.R | 8 riskRegression-2021.10.10/riskRegression/R/riskRegression-package.R | 30 riskRegression-2021.10.10/riskRegression/R/sampleData.R | 17 riskRegression-2021.10.10/riskRegression/R/summary.Score.R | 95 riskRegression-2021.10.10/riskRegression/R/transform.R | 117 riskRegression-2021.10.10/riskRegression/R/wglm.R | 1222 +++++----- riskRegression-2021.10.10/riskRegression/inst/CITATION |only riskRegression-2021.10.10/riskRegression/man/IC_Nelson_Aalen_cens_time.Rd |only riskRegression-2021.10.10/riskRegression/man/Melanoma.Rd | 2 riskRegression-2021.10.10/riskRegression/man/Paquid.Rd | 2 riskRegression-2021.10.10/riskRegression/man/Score.Rd |only riskRegression-2021.10.10/riskRegression/man/ate.Rd | 2 riskRegression-2021.10.10/riskRegression/man/autoplot.ate.Rd | 6 riskRegression-2021.10.10/riskRegression/man/autoplot.predictCox.Rd | 16 riskRegression-2021.10.10/riskRegression/man/baseHaz_cpp.Rd |only riskRegression-2021.10.10/riskRegression/man/calcSeCSC.Rd | 4 riskRegression-2021.10.10/riskRegression/man/calcSeCox.Rd | 4 riskRegression-2021.10.10/riskRegression/man/confint.ate.Rd | 3 riskRegression-2021.10.10/riskRegression/man/predict.CauseSpecificCox.Rd | 2 riskRegression-2021.10.10/riskRegression/man/predictRisk.Rd | 3 riskRegression-2021.10.10/riskRegression/man/sampleData.Rd | 8 riskRegression-2021.10.10/riskRegression/man/transformCIBP.Rd | 42 riskRegression-2021.10.10/riskRegression/man/wglm.Rd | 75 riskRegression-2021.10.10/riskRegression/src/IC-Nelson-Aalen-cens-time.cpp |only riskRegression-2021.10.10/riskRegression/src/RcppExports.cpp | 31 riskRegression-2021.10.10/riskRegression/src/baseHaz.cpp | 30 riskRegression-2021.10.10/riskRegression/src/calculateDelongCovarianceMatrix.cpp |only riskRegression-2021.10.10/riskRegression/src/iidCox.cpp | 4 riskRegression-2021.10.10/riskRegression/tests/test-BinomialRegression.R | 9 riskRegression-2021.10.10/riskRegression/tests/test-CauseSpecificCoxRegression.R | 1 riskRegression-2021.10.10/riskRegression/tests/test-ate.R | 141 - riskRegression-2021.10.10/riskRegression/tests/test-iidCox.R | 5 riskRegression-2021.10.10/riskRegression/tests/test-phreg.R | 37 riskRegression-2021.10.10/riskRegression/tests/test-predictCSC.R | 751 +++--- riskRegression-2021.10.10/riskRegression/tests/test-predictCox.R | 31 riskRegression-2021.10.10/riskRegression/tests/test-predictRisk-TD.R | 10 riskRegression-2021.10.10/riskRegression/tests/test-predictRisk.R | 43 riskRegression-2021.10.10/riskRegression/tests/test-summary-score.R | 108 68 files changed, 2400 insertions(+), 1624 deletions(-)
More information about riskRegression at CRAN
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Title: Easy Interface to the Statistical Disclosure Control Package
'sdcTable' Extended with the 'GaussSuppression' Method
Description: The main function, ProtectTable(), performs table suppression according to a
frequency rule with a data set as the only required input. Within this function,
protectTable(), protect_linked_tables() or runArgusBatchFile() in package 'sdcTable' is called.
Lists of level-hierarchy (parameter 'dimList') and other required input to these functions
are created automatically.
The suppression method Gauss (default) is an additional method that is not available in 'sdcTable'.
The function, PTgui(), starts a graphical user interface based on the 'shiny' package.
Author: Øyvind Langsrud [aut, cre]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between easySdcTable versions 0.9.0 dated 2021-09-10 and 1.0.0 dated 2021-10-11
DESCRIPTION | 10 LICENSE | 382 ++++++++++++++++++------------------- MD5 | 28 +- NEWS.md | 10 R/PTwrap.R | 10 R/ProtectTable.R | 12 - R/PtGui.R | 14 - build/vignette.rds |binary inst/doc/singletonsAndZeros.html | 28 +- man/IncDefault.Rd | 42 ++-- man/PTgui.Rd | 178 ++++++++--------- man/PTwrap.Rd | 138 ++++++------- man/ProtectTable.Rd | 10 man/ReplaceDimList.Rd | 88 ++++---- tests/testthat/test-ProtectTable.R | 11 + 15 files changed, 497 insertions(+), 464 deletions(-)
Title: Cluster Ensembles
Description: CLUster Ensembles.
Author: Kurt Hornik [aut, cre] (<https://orcid.org/0000-0003-4198-9911>),
Walter Böhm [ctb]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between clue versions 0.3-59 dated 2021-04-16 and 0.3-60 dated 2021-10-11
DESCRIPTION | 6 +++--- MD5 | 24 ++++++++++++------------ build/partial.rdb |binary build/vignette.rds |binary data/CKME.rda |binary data/Cassini.rda |binary data/GVME.rda |binary data/GVME_Consensus.rda |binary data/Kinship82.rda |binary data/Kinship82_Consensus.rda |binary data/Phonemes.rda |binary inst/doc/clue.pdf |binary vignettes/cluster.bib | 17 +++++++---------- 13 files changed, 22 insertions(+), 25 deletions(-)
Title: Subject Weighted Support Vector Machines
Description: Functions for subject/instance weighted support vector machines (SVM).
It uses a modified version of 'libsvm' and is compatible with package 'e1071'.
Author: Tianchen Xu [aut, cre] (<https://orcid.org/0000-0002-0102-7630>),
Chih-Chung Chang [ctb, cph] (libsvm C++-code),
Chih-Chen Lin [ctb, cph] (libsvm C++-code),
Ming-Wei Chang [ctb, cph] (libsvm C++-code),
Hsuan-Tien Lin [ctb, cph] (libsvm C++-code),
Ming-Hen Tsai [ctb, cph] (libsvm C++-code),
Chia-Hua Ho [ctb, cph] (libsvm C++-code),
Hsiang-Fu Yu [ctb, cph] (libsvm C++-code),
David Meyer [ctb],
Evgenia Dimitriadou [ctb],
Kurt Hornik [ctb],
Andreas Weingessel [ctb],
Friedrich Leisch [ctb]
Maintainer: Tianchen Xu <tx2155@columbia.edu>
Diff between WeightSVM versions 1.7-5 dated 2020-05-28 and 1.7-9 dated 2021-10-11
WeightSVM-1.7-5/WeightSVM/cleanup |only WeightSVM-1.7-5/WeightSVM/configure |only WeightSVM-1.7-5/WeightSVM/configure.ac |only WeightSVM-1.7-9/WeightSVM/DESCRIPTION | 6 +++--- WeightSVM-1.7-9/WeightSVM/MD5 | 22 ++++++++++------------ WeightSVM-1.7-9/WeightSVM/README.md |only WeightSVM-1.7-9/WeightSVM/inst/NEWS.Rd | 5 +++++ WeightSVM-1.7-9/WeightSVM/inst/doc/wsvmdoc.pdf |binary WeightSVM-1.7-9/WeightSVM/man/plot.tune_wsvm.Rd | 3 +-- WeightSVM-1.7-9/WeightSVM/man/plot.wsvm.Rd | 2 +- WeightSVM-1.7-9/WeightSVM/man/predict.wsvm.Rd | 2 +- WeightSVM-1.7-9/WeightSVM/man/tune.control.Rd | 3 +-- WeightSVM-1.7-9/WeightSVM/man/tune_wsvm.Rd | 2 +- WeightSVM-1.7-9/WeightSVM/man/wsvm.Rd | 8 ++++---- 14 files changed, 27 insertions(+), 26 deletions(-)
Title: Power Calculation for Stepped Wedge Cluster Randomized Trials
Description: To meet the needs of statistical power calculation for stepped wedge cluster randomized trials, we developed this software. Different parameters can be specified by users for different scenarios, including: cross-sectional and cohort designs, binary and continuous outcomes, marginal (GEE) and conditional models (mixed effects model), three link functions (identity, log, logit links), with and without time effects under exchangeable, nested exchangeable and block exchangeable correlation structures. Unequal numbers of clusters per sequence are also allowed. The methods included in this package: Zhou et al. (2020) <doi:10.1093/biostatistics/kxy031>, Li et al. (2018) <doi:10.1111/biom.12918>. Supplementary documents can be found at: <https://ysph.yale.edu/cmips/research/software/swdpwr/>. The Shiny app for swdpwr can be accessed at: <https://jiachenchen322.shinyapps.io/swdpwr_shinyapp/>. The package also includes functions that perform calculations for the intra-cluster correlation coefficients based on the random effects variances as input variables for continuous and binary outcomes, respectively.
Author: Jiachen Chen [cre, aut], Xin Zhou [aut], Fan Li [aut] and Donna Spiegelman [aut].
Maintainer: Jiachen Chen <jiachen.chen322@gmail.com>
Diff between swdpwr versions 1.5 dated 2021-05-16 and 1.6 dated 2021-10-11
DESCRIPTION | 11 ++++++----- MD5 | 16 ++++++++++------ NAMESPACE | 3 +++ R/BinICC.R |only R/ContICC.R |only R/print.swdpower.R | 2 +- R/swdpower.R | 18 +++++++++--------- man/BinICC.Rd |only man/ContICC.Rd |only man/swdpower.Rd | 10 +++++----- man/swdpwr-package.Rd | 4 ++-- 11 files changed, 36 insertions(+), 28 deletions(-)
Title: Access 'Piwik Pro' Website Statistics
Description: Run Queries against the API of 'Piwik Pro' <https://developers.piwik.pro/en/latest/custom_reports/http_api/http_api.html>. The result is a tibble.
Author: Martin Stingl <martin.stingl@dfv.de>
Maintainer: Martin Stingl <martin.stingl@dfv.de>
Diff between piwikproR versions 0.2.0 dated 2021-06-08 and 0.3.1 dated 2021-10-11
DESCRIPTION | 14 +++++++------- MD5 | 26 ++++++++++++++------------ NEWS.md | 6 ++++++ R/apply_types.R | 17 ++++++++++++----- R/cran_release_questions.R | 12 ++++++++++++ R/send_query.R | 20 ++++++++++++++------ README.md | 21 +++++++++++++++++++-- build/vignette.rds |binary inst/doc/piwikproR.Rmd | 4 ++-- inst/doc/piwikproR.html | 2 +- man/apply_types.Rd | 4 +++- man/get_column_type.Rd | 4 +++- tests/testthat/test-send_query-events.R |only vignettes/figures |only vignettes/piwikproR.Rmd | 4 ++-- 15 files changed, 95 insertions(+), 39 deletions(-)
Title: Trust Region Optimization for Nonlinear Functions with Sparse
Hessians
Description: Trust region algorithm for nonlinear optimization. Efficient when
the Hessian of the objective function is sparse (i.e., relatively few nonzero
cross-partial derivatives). See Braun, M. (2014) <doi:10.18637/jss.v060.i04>.
Author: Michael Braun [aut, cre, cph] (<https://orcid.org/0000-0003-4774-2119>)
Maintainer: Michael Braun <braunm@smu.edu>
Diff between trustOptim versions 0.8.7.2 dated 2021-09-26 and 0.8.7.3 dated 2021-10-11
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NEWS | 7 +++++++ inst/CITATION | 4 ++-- inst/doc/trustOptim-demo.html | 4 ++-- inst/doc/trustOptim-quick.html | 4 ++-- tests/testthat/test_binary.R | 3 ++- tests/testthat/test_rosenbrock.R | 2 +- 8 files changed, 28 insertions(+), 20 deletions(-)
Title: Bivariate Segmentation/Clustering Methods and Tools
Description: Provides two methods for segmentation and joint segmentation/clustering of
bivariate time-series. Originally intended for ecological segmentation
(home-range and behavioural modes) but easily applied on other series,
the package also provides tools for analysing outputs from R packages 'moveHMM' and 'marcher'.
The segmentation method is a bivariate extension of Lavielle's method available in 'adehabitatLT'
(Lavielle, 1999 <doi:10.1016/S0304-4149(99)00023-X> and 2005 <doi:10.1016/j.sigpro.2005.01.012>).
This method rely on dynamic programming for efficient segmentation.
The segmentation/clustering method alternates steps of dynamic programming with an Expectation-Maximization algorithm.
This is an extension of Picard et al (2007) <doi:10.1111/j.1541-0420.2006.00729.x> method
(formerly available in 'cghseg' package) to the bivariate case.
The method is fully described in Patin et al (2018) <doi:10.1101/444794>.
Author: Remi Patin [aut, cre],
Marie-Pierre Etienne [aut],
Emilie Lebarbier [aut],
Simon Benhamou [aut]
Maintainer: Remi Patin <remi.patin@normale.fr>
Diff between segclust2d versions 0.2.0 dated 2019-02-27 and 0.3.0 dated 2021-10-11
segclust2d-0.2.0/segclust2d/inst/doc/segclust.R |only segclust2d-0.2.0/segclust2d/inst/doc/segclust.Rmd |only segclust2d-0.2.0/segclust2d/inst/doc/segclust.html |only segclust2d-0.2.0/segclust2d/man/segmentation_internal.Rd |only segclust2d-0.2.0/segclust2d/man/subsample.Rd |only segclust2d-0.2.0/segclust2d/vignettes/segclust.Rmd |only segclust2d-0.3.0/segclust2d/DESCRIPTION | 18 segclust2d-0.3.0/segclust2d/MD5 | 194 +- segclust2d-0.3.0/segclust2d/NAMESPACE | 2 segclust2d-0.3.0/segclust2d/R/Ex_data.R | 104 - segclust2d-0.3.0/segclust2d/R/RcppExports.R | 196 +- segclust2d-0.3.0/segclust2d/R/SegTraj_EM_cpp.R | 250 +- segclust2d-0.3.0/segclust2d/R/choose_Kmax.R | 115 - segclust2d-0.3.0/segclust2d/R/function_checks.R |only segclust2d-0.3.0/segclust2d/R/function_map_plot.R | 362 ++- segclust2d-0.3.0/segclust2d/R/function_prepare.R | 502 +++-- segclust2d-0.3.0/segclust2d/R/function_series_plot.R | 294 +-- segclust2d-0.3.0/segclust2d/R/function_states_plot.R | 116 - segclust2d-0.3.0/segclust2d/R/prepare_HMM.R | 203 +- segclust2d-0.3.0/segclust2d/R/prepare_covariates.R | 622 +++--- segclust2d-0.3.0/segclust2d/R/prepare_shiftfit.R | 169 - segclust2d-0.3.0/segclust2d/R/segTraj_DynProg.R | 156 - segclust2d-0.3.0/segclust2d/R/segTraj_EM.algo_simultanee.R | 114 - segclust2d-0.3.0/segclust2d/R/segTraj_EM.init_simultanee.R | 163 - segclust2d-0.3.0/segclust2d/R/segTraj_Estep_simultanee.R | 53 segclust2d-0.3.0/segclust2d/R/segTraj_Gmean_simultanee.R | 154 - segclust2d-0.3.0/segclust2d/R/segTraj_Gmixt_simultanee.R | 184 +- segclust2d-0.3.0/segclust2d/R/segTraj_Mstep_simultanee.R | 127 - segclust2d-0.3.0/segclust2d/R/segTraj_hybrid_simultanee.R | 500 +++-- segclust2d-0.3.0/segclust2d/R/segTraj_initialisePhi.R | 20 segclust2d-0.3.0/segclust2d/R/segTraj_logdens_simultanee.R | 32 segclust2d-0.3.0/segclust2d/R/segTraj_neighborsbis.R | 131 - segclust2d-0.3.0/segclust2d/R/segTraj_plot_simultanee.R | 149 - segclust2d-0.3.0/segclust2d/R/segTraj_repmat.R | 6 segclust2d-0.3.0/segclust2d/R/segTraj_ruptAsMat.R | 6 segclust2d-0.3.0/segclust2d/R/segclust.R | 683 +++---- segclust2d-0.3.0/segclust2d/R/segclust2d.R | 86 segclust2d-0.3.0/segclust2d/R/segmentation.R | 660 +++---- segclust2d-0.3.0/segclust2d/R/segmentation_class.R | 906 +++++----- segclust2d-0.3.0/segclust2d/R/test_functions.R | 74 segclust2d-0.3.0/segclust2d/R/tools.R | 163 + segclust2d-0.3.0/segclust2d/README.md | 347 --- segclust2d-0.3.0/segclust2d/build/vignette.rds |binary segclust2d-0.3.0/segclust2d/inst/CITATION |only segclust2d-0.3.0/segclust2d/inst/WORDLIST |only segclust2d-0.3.0/segclust2d/inst/doc/v01_preparing_data.R |only segclust2d-0.3.0/segclust2d/inst/doc/v01_preparing_data.Rmd |only segclust2d-0.3.0/segclust2d/inst/doc/v01_preparing_data.html |only segclust2d-0.3.0/segclust2d/inst/doc/v02_run_segclust2d.R |only segclust2d-0.3.0/segclust2d/inst/doc/v02_run_segclust2d.Rmd |only segclust2d-0.3.0/segclust2d/inst/doc/v02_run_segclust2d.html |only segclust2d-0.3.0/segclust2d/inst/doc/v03_explore_outputs.R |only segclust2d-0.3.0/segclust2d/inst/doc/v03_explore_outputs.Rmd |only segclust2d-0.3.0/segclust2d/inst/doc/v03_explore_outputs.html |only segclust2d-0.3.0/segclust2d/man/DynProg.Rd | 5 segclust2d-0.3.0/segclust2d/man/EM.algo_simultanee.Rd | 9 segclust2d-0.3.0/segclust2d/man/EM.algo_simultanee_Cpp.Rd | 9 segclust2d-0.3.0/segclust2d/man/EM.init_simultanee.Rd | 6 segclust2d-0.3.0/segclust2d/man/Estep_simultanee.Rd | 13 segclust2d-0.3.0/segclust2d/man/Gmean_simultanee.Rd | 9 segclust2d-0.3.0/segclust2d/man/Gmixt_simultanee.Rd | 15 segclust2d-0.3.0/segclust2d/man/Gmixt_simultanee_fullcpp.Rd | 2 segclust2d-0.3.0/segclust2d/man/Mstep_simultanee.Rd | 5 segclust2d-0.3.0/segclust2d/man/Mstep_simultanee_cpp.Rd | 5 segclust2d-0.3.0/segclust2d/man/add_covariates.Rd | 112 - segclust2d-0.3.0/segclust2d/man/apply_subsampling.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_Kmax.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_diag.var.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_lmin.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_ncluster.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_order.var.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_ordering.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_scale.variable.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_seg.var.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_segclust.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_segmentation.Rd |only segclust2d-0.3.0/segclust2d/man/argcheck_type_coord.Rd |only segclust2d-0.3.0/segclust2d/man/bisig_plot.Rd | 16 segclust2d-0.3.0/segclust2d/man/calc_BIC.Rd | 3 segclust2d-0.3.0/segclust2d/man/calc_dist.Rd | 6 segclust2d-0.3.0/segclust2d/man/calc_speed.Rd | 13 segclust2d-0.3.0/segclust2d/man/check_repetition.Rd | 11 segclust2d-0.3.0/segclust2d/man/choose_kmax.Rd | 10 segclust2d-0.3.0/segclust2d/man/chooseseg_lavielle.Rd | 4 segclust2d-0.3.0/segclust2d/man/hybrid_simultanee.Rd | 24 segclust2d-0.3.0/segclust2d/man/initialisePhi.Rd | 2 segclust2d-0.3.0/segclust2d/man/logdens_simultanee.Rd | 2 segclust2d-0.3.0/segclust2d/man/map_segm.Rd | 27 segclust2d-0.3.0/segclust2d/man/matrixRupt.Rd | 6 segclust2d-0.3.0/segclust2d/man/neighborsbis.Rd | 25 segclust2d-0.3.0/segclust2d/man/plot_segm.Rd | 18 segclust2d-0.3.0/segclust2d/man/plot_states.Rd | 12 segclust2d-0.3.0/segclust2d/man/prepare_HMM.Rd | 3 segclust2d-0.3.0/segclust2d/man/prepare_shiftfit.Rd | 11 segclust2d-0.3.0/segclust2d/man/repmat.Rd | 6 segclust2d-0.3.0/segclust2d/man/ruptAsMat.Rd | 10 segclust2d-0.3.0/segclust2d/man/segclust.Rd | 53 segclust2d-0.3.0/segclust2d/man/segclust2d.Rd | 90 segclust2d-0.3.0/segclust2d/man/segclust_internal.Rd | 43 segclust2d-0.3.0/segclust2d/man/segmap_list.Rd | 10 segclust2d-0.3.0/segclust2d/man/segmentation-class.Rd | 68 segclust2d-0.3.0/segclust2d/man/segmentation.Rd | 82 segclust2d-0.3.0/segclust2d/man/simulmode.Rd | 6 segclust2d-0.3.0/segclust2d/man/simulshift.Rd | 6 segclust2d-0.3.0/segclust2d/man/spatial_angle.Rd | 5 segclust2d-0.3.0/segclust2d/man/stat_segm.Rd | 12 segclust2d-0.3.0/segclust2d/man/stat_segm_shiftfit.Rd | 3 segclust2d-0.3.0/segclust2d/man/wrap_dynprog_cpp.Rd | 4 segclust2d-0.3.0/segclust2d/src/RcppExports.cpp | 5 segclust2d-0.3.0/segclust2d/src/SegTraj_Gmixt.cpp | 2 segclust2d-0.3.0/segclust2d/tests/spelling.R |only segclust2d-0.3.0/segclust2d/tests/testthat/test_segclust.R | 52 segclust2d-0.3.0/segclust2d/vignettes/v01_preparing_data.Rmd |only segclust2d-0.3.0/segclust2d/vignettes/v02_run_segclust2d.Rmd |only segclust2d-0.3.0/segclust2d/vignettes/v03_explore_outputs.Rmd |only 115 files changed, 4553 insertions(+), 4148 deletions(-)
Title: Fitting RT-MPT Models
Description: Fit response-time extended multinomial processing tree (RT-MPT) models by Klauer and
Kellen (2018) <doi:10.1016/j.jmp.2017.12.003>. The RT-MPT class not only incorporate
frequencies like traditional multinomial processing tree (MPT) models, but also latencies. This enables it
to estimate process completion times and encoding plus motor execution times next to the process probabilities
of traditional MPTs. 'rtmpt' is a Bayesian framework and posterior samples are sampled using a Metropolis-Gibbs
sampler like the one described in the Klauer and Kellen (2018), but with some modifications. Other than in
the original C++ program we use the free and open source GNU Scientific Library (GSL). There is also the
possibility to suppress single process completion times.
Author: Raphael Hartmann [aut, cre],
Karl C. Klauer [cph, aut, ctb, ths],
Henrik Singmann [ctb, aut],
Jean Marie Linhart [ctb],
Frederick Novomestky [ctb]
Maintainer: Raphael Hartmann <raphael.hartmann@protonmail.com>
Diff between rtmpt versions 0.2-1 dated 2021-06-03 and 0.2-2 dated 2021-10-11
DESCRIPTION | 6 MD5 | 8 R/print_RTMPT.R | 724 +++++++++++++++++++++++----------------------- build/partial.rdb |binary inst/doc/rtmpt_intro.html | 2 5 files changed, 371 insertions(+), 369 deletions(-)
Title: Read 'Bibtex' Files and Convert Between Bibliography Formats
Description: Read and write 'Bibtex' files. Convert between bibliography
formats, including 'Bibtex', 'Biblatex', 'PubMed', 'Endnote', and
'Bibentry'. Includes a port of the 'bibutils' utilities by Chris
Putnam <https://sourceforge.net/projects/bibutils/>. Supports all
bibliography formats and character encodings implemented in
'bibutils'.
Author: Georgi N. Boshnakov [aut, cre] (R port, R code, new C code and
modifications to bibutils' C code, conversion to Bibentry (R and C
code)),
Chris Putman [aut] (src/*, author of the bibutils libraries,
https://sourceforge.net/projects/bibutils/),
Richard Mathar [ctb] (src/addsout.c),
Johannes Wilm [ctb] (src/biblatexin.c, src/bltypes.c)
Maintainer: Georgi N. Boshnakov <georgi.boshnakov@manchester.ac.uk>
Diff between rbibutils versions 2.2.3 dated 2021-08-09 and 2.2.4 dated 2021-10-11
DESCRIPTION | 14 - MD5 | 23 +-- NEWS.md | 23 +++ build/partial.rdb |binary inst/bib/issue_5.bib |only inst/bib/xeCJK_gb18030.bib |only inst/bib/xeCJK_utf8.bib |only man/bibConvert.Rd | 17 ++ man/readBib.Rd | 10 + src/bibentrydirectout.c | 4 src/bibtexdirectin.c | 39 +++-- src/name.c | 299 +++++++++++++++++++++++++++------------- tests/testthat/issue_5_utf8.rds |only tests/testthat/issue_5a.rds |only tests/testthat/test-bib.R | 32 +++- 15 files changed, 332 insertions(+), 129 deletions(-)
Title: Visualization Methods for Raster Data
Description: Methods for enhanced visualization and interaction with raster data. It implements visualization methods for quantitative data and categorical data, both for univariate and multivariate rasters. It also provides methods to display spatiotemporal rasters, and vector fields. See the website for examples.
Author: Oscar Perpinan Lamigueiro [cre, aut]
(<https://orcid.org/0000-0002-4134-7196>),
Robert Hijmans [aut]
Maintainer: Oscar Perpinan Lamigueiro <oscar.perpinan@upm.es>
Diff between rasterVis versions 0.50.3 dated 2021-07-22 and 0.51.0 dated 2021-10-11
DESCRIPTION | 14 +++++----- MD5 | 60 ++++++++++++++++++++++----------------------- NAMESPACE | 29 ++++++++++++++++++--- R/dataframe.R | 4 +-- R/gplot.R | 43 ++++++++++++++++++-------------- R/horizonplot.R | 18 +++++++------ R/hovmoller.R | 39 ++++++++++++++++------------- R/interactRaster.R | 6 ++-- R/levelplot.R | 32 +++++++++++++----------- R/plot3d.R | 8 +++--- R/raster2dat.R | 21 +++++++++------ R/splom.R | 8 +++--- R/streamplot.R | 18 ++++++------- R/vectorplot.R | 22 ++++++++-------- R/xyLayer.R | 27 +++++++++++++------- R/xyplot.R | 30 ++++++++++------------ build/partial.rdb |binary man/bwplot-methods.Rd | 3 ++ man/chooseRegion.Rd | 17 ++++++++---- man/densityplot-methods.Rd | 3 ++ man/gplot-methods.Rd | 3 ++ man/hexbinplot.Rd | 3 ++ man/histogram-methods.Rd | 3 ++ man/horizonplot-methods.Rd | 2 + man/hovmoller-methods.Rd | 3 ++ man/levelplot-methods.Rd | 11 ++++++-- man/plot3d.Rd | 2 + man/splom-methods.Rd | 3 ++ man/vectorplot.Rd | 6 +++- man/xyLayer.Rd | 4 ++- man/xyplot-methods.Rd | 3 ++ 31 files changed, 269 insertions(+), 176 deletions(-)
Title: Fixed Rank Kriging
Description: Fixed Rank Kriging is a tool for spatial/spatio-temporal modelling and prediction with large datasets. The approach models the field, and hence the covariance function, using a set of r basis functions, where r is typically much smaller than the number of data points (or polygons) m. This low-rank basis-function representation facilitates the modelling of 'big' spatial/spatio-temporal data. The method naturally allows for non-stationary, anisotropic covariance functions. Discretisation of the spatial domain into so-called basic areal units (BAUs) facilitates the use of observations with varying support (i.e., both point-referenced and areal supports, potentially simultaneously), and prediction over arbitrary user-specified regions. `FRK` also supports inference over various manifolds, including the 2D plane and 3D sphere, and it provides helper functions to model, fit, predict, and plot with relative ease. Version 2.0.0 and above of the package `FRK` also supports modelling of non-Gaussian data, by employing a spatial generalised linear mixed model (GLMM) framework to cater for Poisson, binomial, negative-binomial, gamma, and inverse-Gaussian distributions. Zammit-Mangion and Cressie <doi:10.18637/jss.v098.i04> describe `FRK` in a Gaussian setting, and detail its use of basis functions and BAUs.
Author: Andrew Zammit-Mangion [aut, cre],
Matthew Sainsbury-Dale [aut]
Maintainer: Andrew Zammit-Mangion <andrewzm@gmail.com>
Diff between FRK versions 2.0.0 dated 2021-05-28 and 2.0.1 dated 2021-10-11
FRK-2.0.0/FRK/data/datalist |only FRK-2.0.0/FRK/man/figures |only FRK-2.0.1/FRK/DESCRIPTION | 10 FRK-2.0.1/FRK/MD5 | 70 FRK-2.0.1/FRK/NAMESPACE | 1 FRK-2.0.1/FRK/R/AllClass.R | 4 FRK-2.0.1/FRK/R/AllGeneric.R | 27 FRK-2.0.1/FRK/R/FRK_wrapper.R | 526 +-- FRK-2.0.1/FRK/R/SRE.R | 346 +- FRK-2.0.1/FRK/R/SREfit.R | 2452 ++++++++-------- FRK-2.0.1/FRK/R/SREpredict.R | 1777 ++++++----- FRK-2.0.1/FRK/R/basisfns.R | 56 FRK-2.0.1/FRK/R/check_args.R | 582 +-- FRK-2.0.1/FRK/R/geometryfns.R | 4043 +++++++++++++-------------- FRK-2.0.1/FRK/R/misc.R | 24 FRK-2.0.1/FRK/R/plottingfns.R | 84 FRK-2.0.1/FRK/build/vignette.rds |binary FRK-2.0.1/FRK/data/AIRS_05_2003.rda |binary FRK-2.0.1/FRK/data/Am_data.rda |binary FRK-2.0.1/FRK/data/MODIS_cloud_df.rda |binary FRK-2.0.1/FRK/data/NOAA_df_1990.rda |binary FRK-2.0.1/FRK/data/isea3h.rda |binary FRK-2.0.1/FRK/data/worldmap.rda |binary FRK-2.0.1/FRK/inst/CITATION | 48 FRK-2.0.1/FRK/inst/doc/FRK_intro.Rnw | 2 FRK-2.0.1/FRK/inst/doc/FRK_intro.pdf |binary FRK-2.0.1/FRK/inst/doc/FRK_non-Gaussian.Rnw | 2 FRK-2.0.1/FRK/inst/doc/FRK_non-Gaussian.pdf |binary FRK-2.0.1/FRK/man/SRE-class.Rd | 2 FRK-2.0.1/FRK/man/SRE.Rd | 197 - FRK-2.0.1/FRK/man/combine_basis.Rd |only FRK-2.0.1/FRK/man/plot_spatial_or_ST.Rd | 7 FRK-2.0.1/FRK/src/FRK.cpp | 4 FRK-2.0.1/FRK/vignettes/FRK_intro.Rnw | 2 FRK-2.0.1/FRK/vignettes/FRK_non-Gaussian.Rnw | 2 35 files changed, 5384 insertions(+), 4884 deletions(-)
Title: Statistical Methods for Anthropometric Data
Description: Statistical methodologies especially developed to analyze anthropometric data. These methods are aimed at providing effective solutions to some commons problems related to Ergonomics and Anthropometry. They are based on clustering, the statistical concept of data depth, statistical shape analysis and archetypal analysis. Please see Vinue (2017) <doi:10.18637/jss.v077.i06>.
Author: Guillermo Vinue, Irene Epifanio, Amelia Simo, M. Victoria Ibanez, Juan Domingo, Guillermo Ayala
Maintainer: Guillermo Vinue <Guillermo.Vinue@uv.es>
Diff between Anthropometry versions 1.15 dated 2021-04-19 and 1.16 dated 2021-10-11
DESCRIPTION | 8 ++-- MD5 | 23 ++++++------ NEWS | 4 ++ build/partial.rdb |only inst/doc/Anthropometry.R | 54 +++++++++++++++--------------- inst/doc/Anthropometry.pdf |binary man/Anthropometry-internalArchetypoids.Rd | 2 - man/Anthropometry-package.Rd | 2 - man/archetypesBoundary.Rd | 2 - man/archetypoids.Rd | 2 - man/screeArchetypal.Rd | 2 - man/stepArchetypesRawData.Rd | 2 - man/stepArchetypoids.Rd | 2 - 13 files changed, 54 insertions(+), 49 deletions(-)
Title: Spatial Data Analysis
Description: Methods for spatial data analysis with raster and vector data. Raster methods allow for low-level data manipulation as well as high-level global, local, zonal, and focal computation. The predict and interpolate methods facilitate the use of regression type (interpolation, machine learning) models for spatial prediction, including with satellite remote sensing data. Processing of very large files is supported. See the manual and tutorials on <https://rspatial.org/terra/> to get started. 'terra' is very similar to the 'raster' package; but 'terra' can do more, is easier to use, and it is faster.
Author: Robert J. Hijmans [cre, aut] (<https://orcid.org/0000-0001-5872-2872>),
Roger Bivand [ctb] (<https://orcid.org/0000-0003-2392-6140>),
Karl Forner [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Edzer Pebesma [ctb] (<https://orcid.org/0000-0001-8049-7069>)
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between terra versions 1.4-9 dated 2021-10-07 and 1.4-11 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 6 ++++++ R/Agenerics.R | 2 +- R/crs.R | 18 ++++++++++++++---- man/crs.Rd | 1 + 6 files changed, 31 insertions(+), 14 deletions(-)
Title: Simulate Stock-Flow Consistent Models
Description: Routines to write, simulate, and validate stock-flow consistent (SFC) models. The accounting structure of SFC models are described in Godley and Lavoie (2007, ISBN:978-1-137-08599-3). The algorithms implemented to solve the models (Gauss-Seidel and Broyden) are described in Kinsella and O'Shea (2010) <doi:10.2139/ssrn.1729205> and Peressini and Sullivan (1988, ISBN:0-387-96614-5).
Author: Joao Macalos [aut, cre] (<https://orcid.org/0000-0001-6050-6394>)
Maintainer: Joao Macalos <joaomacalos@gmail.com>
Diff between sfcr versions 0.2.0 dated 2021-10-05 and 0.2.1 dated 2021-10-11
sfcr-0.2.0/sfcr/tests/testthat/test-sfcr_shock.R |only sfcr-0.2.1/sfcr/DESCRIPTION | 6 sfcr-0.2.1/sfcr/MD5 | 50 - sfcr-0.2.1/sfcr/NAMESPACE | 1 sfcr-0.2.1/sfcr/NEWS.md | 16 sfcr-0.2.1/sfcr/R/sfcr_baseline.R | 687 +++++++++------- sfcr-0.2.1/sfcr/R/sfcr_portfolio.R | 380 ++++----- sfcr-0.2.1/sfcr/R/sfcr_sankey.R | 222 ++--- sfcr-0.2.1/sfcr/R/sfcr_scenario.R | 528 +++++++----- sfcr-0.2.1/sfcr/R/sfcr_set.R | 290 +++---- sfcr-0.2.1/sfcr/R/sfcr_shock.R | 86 +- sfcr-0.2.1/sfcr/R/sfcr_validate.R | 734 +++++++++--------- sfcr-0.2.1/sfcr/R/utils-pipe.R | 11 sfcr-0.2.1/sfcr/R/utils-solvers.R | 355 +++++--- sfcr-0.2.1/sfcr/README.md | 114 ++ sfcr-0.2.1/sfcr/build/partial.rdb |binary sfcr-0.2.1/sfcr/inst/doc/sfcr_multis.Rmd | 291 +++---- sfcr-0.2.1/sfcr/inst/doc/sfcr_multis.html | 11 sfcr-0.2.1/sfcr/man/dot-check_external_consistency.Rd |only sfcr-0.2.1/sfcr/man/dot-make_matrix.Rd | 6 sfcr-0.2.1/sfcr/man/sfcr_baseline.Rd | 2 sfcr-0.2.1/sfcr/man/sfcr_random.Rd |only sfcr-0.2.1/sfcr/man/sfcr_set.Rd | 12 sfcr-0.2.1/sfcr/man/sfcr_set_index.Rd | 2 sfcr-0.2.1/sfcr/tests/testthat/test-sfcr_baseline.R | 210 ++--- sfcr-0.2.1/sfcr/tests/testthat/test-sfcr_random.R |only sfcr-0.2.1/sfcr/tests/testthat/test-sfcr_scenario.R | 369 ++++----- sfcr-0.2.1/sfcr/vignettes/sfcr_multis.Rmd | 291 +++---- 28 files changed, 2511 insertions(+), 2163 deletions(-)
Title: Customizing Structural Equation Modelling Plots
Description: Most function focus on specific ways to customize a graph.
They use a 'qgraph' output as the first argument, and return a
modified 'qgraph' object. This allows the functions to be chained
by a pipe operator.
Author: Shu Fai Cheung [aut, cre] (<https://orcid.org/0000-0002-9871-9448>),
Mark Hok Chio Lai [aut] (<https://orcid.org/0000-0002-9196-7406>)
Maintainer: Shu Fai Cheung <shufai.cheung@gmail.com>
Diff between semptools versions 0.2.9.2 dated 2021-09-27 and 0.2.9.3 dated 2021-10-11
DESCRIPTION | 10 +++++----- MD5 | 34 +++++++++++++++++----------------- NEWS.md | 4 ++++ inst/doc/keep_or_drop_nodes.html | 4 ++-- inst/doc/layout_matrix.html | 4 ++-- inst/doc/quick_start_cfa.R | 12 ++++++------ inst/doc/quick_start_cfa.Rmd | 12 ++++++------ inst/doc/quick_start_cfa.html | 5 +++-- inst/doc/quick_start_sem.R | 28 ++++++++++++++-------------- inst/doc/quick_start_sem.Rmd | 28 ++++++++++++++-------------- inst/doc/quick_start_sem.html | 4 ++-- inst/doc/semptools.R | 16 ++++++++-------- inst/doc/semptools.Rmd | 16 ++++++++-------- inst/doc/semptools.html | 4 ++-- tests/testthat/test-change-node.R | 18 +++++++++++------- vignettes/quick_start_cfa.Rmd | 12 ++++++------ vignettes/quick_start_sem.Rmd | 28 ++++++++++++++-------------- vignettes/semptools.Rmd | 16 ++++++++-------- 18 files changed, 132 insertions(+), 123 deletions(-)
Title: A Toolbox for Public Health and Epidemiology
Description: A toolbox for making R functions and capabilities more
accessible to students and professionals from Epidemiology and
Public Health related disciplines. Includes a function to report
coefficients and confidence intervals from models using robust
standard errors (when available), functions that expand 'ggplot2'
plots and functions relevant for introductory papers in Epidemiology
or Public Health. Please note that use of the
provided data sets is for educational purposes only.
Author: Josie Athens [aut, cre],
Frank Harell [ctb],
John Fox [ctb],
R-Core [ctb]
Maintainer: Josie Athens <josie.athens@gmail.com>
Diff between pubh versions 1.1.20 dated 2021-02-16 and 1.2.5 dated 2021-10-11
DESCRIPTION | 29 MD5 | 121 - NAMESPACE | 56 R/data.R | 98 - R/descriptive_functions.R | 272 +- R/display_functions.R | 252 +- R/epi_functions.R | 181 + R/misc_functions.R | 372 ++- R/plot_functions.R | 460 ++-- README.md | 9 build/vignette.rds |binary inst/doc/introduction.R | 93 inst/doc/introduction.Rmd | 149 - inst/doc/introduction.html | 914 +++------ inst/doc/regression.R | 215 -- inst/doc/regression.Rmd | 267 -- inst/doc/regression.html | 1688 +++++------------- inst/rmarkdown/templates/report/skeleton/skeleton.Rmd | 9 man/Bernard.Rd | 5 man/Brenner.Rd | 4 man/Fentress.Rd | 3 man/Hodgkin.Rd | 14 man/Kirkwood.Rd | 3 man/Macmahon.Rd | 7 man/Oncho.Rd | 6 man/Roberts.Rd | 4 man/Rothman.Rd | 22 man/Sandler.Rd | 8 man/Thall.Rd | 8 man/Tuzson.Rd | 3 man/Vanderpump.Rd | 11 man/axis_labs.Rd | 18 man/bar_error.Rd | 17 man/bland_altman.Rd | 16 man/box_plot.Rd | 24 man/coef_det.Rd | 8 man/contingency.Rd | 11 man/contingency2.Rd | 4 man/cosm_reg.Rd |only man/cosm_sum.Rd |only man/cross_tab.Rd | 32 man/cross_tbl.Rd |only man/diag_test.Rd | 4 man/estat.Rd | 24 man/expand_df.Rd | 4 man/freq_cont.Rd | 4 man/gen_bst_df.Rd | 27 man/geo_mean.Rd | 2 man/get_r2.Rd | 12 man/gf_star.Rd | 35 man/glm_coef.Rd | 8 man/harm_mean.Rd | 2 man/hist_norm.Rd | 12 man/mhor.Rd | 9 man/model_labels.Rd | 10 man/multiple.Rd | 10 man/odds_trend.Rd | 13 man/predict_inv.Rd | 4 man/qq_plot.Rd | 22 man/strip_error.Rd | 36 man/theme_pubh.Rd | 17 vignettes/introduction.Rmd | 149 - vignettes/regression.Rmd | 267 -- 63 files changed, 2558 insertions(+), 3526 deletions(-)
Title: General Package for Meta-Analysis
Description: User-friendly general package providing standard methods for meta-analysis and supporting Schwarzer, Carpenter, and Rücker <DOI:10.1007/978-3-319-21416-0>, "Meta-Analysis with R" (2015):
- fixed effect and random effects meta-analysis;
- several plots (forest, funnel, Galbraith / radial, L'Abbe, Baujat, bubble);
- statistical tests and trim-and-fill method to evaluate bias in meta-analysis;
- import data from 'RevMan 5';
- prediction interval, Hartung-Knapp method for random effects model;
- cumulative meta-analysis and leave-one-out meta-analysis;
- meta-regression;
- generalised linear mixed models;
- produce forest plot summarising several (subgroup) meta-analyses.
Author: Guido Schwarzer [cre, aut] (<https://orcid.org/0000-0001-6214-9087>)
Maintainer: Guido Schwarzer <sc@imbi.uni-freiburg.de>
Diff between meta versions 4.19-2 dated 2021-09-30 and 5.0-0 dated 2021-10-11
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Title: Efficient Simulation-Based Power and Sample Size Calculations
for a Broad Class of Late-Stage Clinical Trials
Description: The following modules are included in the package:
Adaptive designs with data-driven sample size or event count re-estimation,
Adaptive designs with data-driven treatment selection,
Adaptive designs with data-driven population selection,
Optimal selection of a futility stopping rule,
Event prediction in event-driven trials,
Adaptive trials with response-adaptive randomization (experimental module),
Traditional trials with multiple objectives (experimental module).
Author: Alex Dmitrienko [aut, cre]
Maintainer: Alex Dmitrienko <admitrienko@mediana.us>
Diff between MedianaDesigner versions 0.4 dated 2021-10-05 and 0.5 dated 2021-10-11
DESCRIPTION | 6 +-- MD5 | 16 ++++----- tests/testthat/test-ADPopSel.r | 68 +++++++++++++++++++++------------------ tests/testthat/test-ADRand.r | 7 ++++ tests/testthat/test-ADSSMod.r | 6 +++ tests/testthat/test-ADTreatSel.r | 6 +++ tests/testthat/test-EventPred.r | 6 +++ tests/testthat/test-FutRule.r | 6 +++ tests/testthat/test-MultAdj.r | 9 ++++- 9 files changed, 87 insertions(+), 43 deletions(-)
More information about MedianaDesigner at CRAN
Permanent link
Title: May All Data be Reproducible and Transparent (MADRaT) *
Description: Provides a framework which should improve reproducibility and transparency in data processing. It provides functionality such as automatic meta data creation and management, rudimentary quality management, data caching, work-flow management and data aggregation.
* The title is a wish not a promise. By no means we expect this package to deliver everything what is needed to achieve full reproducibility and transparency, but we believe that it supports efforts in this direction.
Author: Jan Philipp Dietrich [aut, cre],
Lavinia Baumstark [aut],
Stephen Wirth [aut],
Anastasis Giannousakis [aut],
Renato Rodrigues [aut],
Benjamin Leon Bodirsky [aut],
Ulrich Kreidenweis [aut],
David Klein [aut],
Pascal Führlich [aut]
Maintainer: Jan Philipp Dietrich <dietrich@pik-potsdam.de>
Diff between madrat versions 2.3.1 dated 2021-10-05 and 2.3.2 dated 2021-10-11
DESCRIPTION | 8 ++--- MD5 | 18 +++++------ NAMESPACE | 1 R/cacheName.R | 59 ++++++++++++++++++------------------- R/retrieveData.R | 4 +- README.md | 6 +-- inst/doc/madrat-caching.html | 6 +-- inst/doc/madrat.html | 14 ++++---- man/cacheName.Rd | 16 +++++----- tests/testthat/test-variousTools.R | 8 ++--- 10 files changed, 71 insertions(+), 69 deletions(-)
Title: GSL Nonlinear Least-Squares Fitting
Description: An R interface to nonlinear least-squares optimization with the GNU Scientific Library (GSL), see M. Galassi et al. (2009, ISBN:0954612078). The available trust region methods include the Levenberg-Marquadt algorithm with and without geodesic acceleration, and several variants of Powell's dogleg algorithm. Bindings are provided to tune a number of parameters affecting the low-level aspects of the trust region algorithms. The interface mimics R's nls() function and returns model objects inheriting from the same class.
Author: Joris Chau [aut, cre]
Maintainer: Joris Chau <joris.chau@openanalytics.eu>
Diff between gslnls versions 1.0.0 dated 2021-10-07 and 1.0.1 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NEWS.md | 2 +- R/nls.R | 5 ++--- configure | 18 +++++++++--------- configure.ac | 2 +- man/gsl_nls.Rd | 4 +--- src/nls.c | 48 +++++++++++++++++++++++++++--------------------- 8 files changed, 52 insertions(+), 49 deletions(-)
More information about factset.protobuf.stach.v2 at CRAN
Permanent link
Title: Exact Distributions for Rank and Permutation Tests
Description: Computes exact conditional p-values and quantiles using an
implementation of the Shift-Algorithm by Streitberg & Roehmel.
Author: Torsten Hothorn [aut, cre],
Kurt Hornik [aut]
Maintainer: Torsten Hothorn <Torsten.Hothorn@R-project.org>
Diff between exactRankTests versions 0.8-32 dated 2021-04-16 and 0.8-34 dated 2021-10-11
DESCRIPTION | 8 +++---- MD5 | 32 ++++++++++++++--------------- data/ASAT.rda |binary data/bloodp.rda |binary data/ears.rda |binary data/glioma.rda |binary data/globulin.rda |binary data/lungcancer.rda |binary data/neuropathy.rda |binary data/ocarcinoma.rda |binary data/rotarod.rda |binary data/sal.rda |binary inst/NEWS | 4 +++ man/ASAT.Rd | 2 + man/bloodp.Rd | 2 + man/lungcancer.Rd | 6 +---- tests/Examples/exactRankTests-Ex.Rout.save | 18 +++++++--------- 17 files changed, 38 insertions(+), 34 deletions(-)
More information about exactRankTests at CRAN
Permanent link
Title: Tools for the Analysis of Epidemiological Data
Description: Tools for the analysis of epidemiological and surveillance data. Contains functions for directly and indirectly adjusting measures of disease frequency, quantifying measures of association on the basis of single or multiple strata of count data presented in a contingency table, computation of confidence intervals around incidence risk and incidence rate estimates and sample size calculations for cross-sectional, case-control and cohort studies. Surveillance tools include functions to calculate an appropriate sample size for 1- and 2-stage representative freedom surveys, functions to estimate surveillance system sensitivity and functions to support scenario tree modelling analyses.
Author: Mark Stevenson <mark.stevenson1@unimelb.edu.au> and Evan Sergeant <evansergeant@gmail.com> with contributions from Telmo Nunes, Cord Heuer, Jonathon Marshall, Javier Sanchez, Ron Thornton, Jeno Reiczigel, Jim Robison-Cox, Paola Sebastiani, Peter Solymos, Kazuki Yoshida, Geoff Jones, Sarah Pirikahu, Simon Firestone, Ryan Kyle, Johann Popp, Mathew Jay, Charles Reynard, Allison Cheung, Nagendra Singanallur and Aniko Szabo.
Maintainer: Mark Stevenson <mark.stevenson1@unimelb.edu.au>
Diff between epiR versions 2.0.36 dated 2021-09-26 and 2.0.38 dated 2021-10-11
DESCRIPTION | 8 ++--- MD5 | 26 ++++++++-------- NEWS | 16 ++++++++++ R/epi.2by2.R | 39 ++++++++++++++++++------ R/rsu.sep.R | 5 --- inst/doc/epiR_RSurveillance.html | 4 +- inst/doc/epiR_descriptive.html | 46 ++++++++++++++--------------- inst/doc/epiR_measures_of_association.html | 4 +- inst/doc/epiR_sample_size.html | 4 +- inst/doc/epiR_surveillance.html | 6 +-- man/epi.2by2.Rd | 2 - man/rsu.pfree.rs.Rd | 2 - man/rsu.pstar.Rd | 4 +- man/rsu.sep.Rd | 27 ++++++++++++++++- 14 files changed, 125 insertions(+), 68 deletions(-)
Title: Exploratory Chemometrics for 2D Spectroscopy
Description: A collection of functions for exploratory chemometrics of 2D spectroscopic data sets such as COSY (correlated spectroscopy) and HSQC (heteronuclear single quantum coherence) 2D NMR (nuclear magnetic resonance) spectra. 'ChemoSpec2D' deploys methods aimed primarily at classification of samples and the identification of spectral features which are important in distinguishing samples from each other. Each 2D spectrum (a matrix) is treated as the unit of observation, and thus the physical sample in the spectrometer corresponds to the sample from a statistical perspective. In addition to chemometric tools, a few tools are provided for plotting 2D spectra, but these are not intended to replace the functionality typically available on the spectrometer. 'ChemoSpec2D' takes many of its cues from 'ChemoSpec' and tries to create consistent graphical output and to be very user friendly.
Author: Bryan A. Hanson [aut, cre] (<https://orcid.org/0000-0003-3536-8246>)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between ChemoSpec2D versions 0.4.187 dated 2021-03-16 and 0.5.0 dated 2021-10-11
DESCRIPTION | 16 ++++++++-------- MD5 | 33 +++++++++++++++++---------------- NAMESPACE | 3 +++ NEWS.md | 16 ++++++++++++++++ R/ChemoSpec2D-package.R | 10 +++++----- R/hats_alignSpectra2D.R | 1 + R/miaSpectra2D.R | 17 ++++++++++++++--- R/onAttach.R |only R/pfacSpectra2D.R | 26 ++++++++++++++------------ R/popSpectra2D.R | 19 +++++++++++++++---- build/vignette.rds |binary data/MUD1.RData |binary data/MUD2.RData |binary inst/doc/ChemoSpec2D.pdf |binary man/hats_alignSpectra2D.Rd | 1 + man/miaSpectra2D.Rd | 15 ++++++++++++--- man/pfacSpectra2D.Rd | 25 ++++++++++++++----------- man/popSpectra2D.Rd | 19 +++++++++++++++---- 18 files changed, 135 insertions(+), 66 deletions(-)
Title: Bayesian Time-Stratified Population Analysis
Description: Provides advanced Bayesian methods to estimate
abundance and run-timing from temporally-stratified
Petersen mark-recapture experiments. Methods include
hierarchical modelling of the capture probabilities
and spline smoothing of the daily run size. Theory
described in Bonner and Schwarz (2011)
<doi:10.1111/j.1541-0420.2011.01599.x>.
Author: Carl J Schwarz <cschwarz.stat.sfu.ca@gmail.com> and
Simon J Bonner <sbonner6@uwo.ca>
Maintainer: Carl J Schwarz <cschwarz.stat.sfu.ca@gmail.com>
Diff between BTSPAS versions 2021.1.1 dated 2020-12-16 and 2021.11.1 dated 2021-10-11
BTSPAS-2021.1.1/BTSPAS/inst/NEWS.Rd |only BTSPAS-2021.11.1/BTSPAS/DESCRIPTION | 14 BTSPAS-2021.11.1/BTSPAS/MD5 | 113 BTSPAS-2021.11.1/BTSPAS/NAMESPACE | 19 BTSPAS-2021.11.1/BTSPAS/NEWS.md |only BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPDE.R | 15 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPDE_WHChinook.R | 11 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPDE_WHChinook2.r | 17 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPDE_WHSteel.R | 11 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPNDE.R | 20 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPNDENP.R | 24 BTSPAS-2021.11.1/BTSPAS/R/PredictivePosterior_TSPNDENPMarkAvail.R | 14 BTSPAS-2021.11.1/BTSPAS/R/RunTime.R | 14 BTSPAS-2021.11.1/BTSPAS/R/SimplePetersen.R | 4 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagError.R | 25 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHChinook.R | 13 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHChinook2.R | 27 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHChinook2_fit.R | 9 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHChinook_fit.R | 37 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHSteel.R | 29 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagErrorWHSteel_fit.R | 38 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenDiagError_fit.R | 43 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagError.R | 11 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagErrorNP.R | 11 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagErrorNPMarkAvail.R | 26 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagErrorNPMarkAvail_fit.R | 38 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagErrorNP_fit.R | 42 BTSPAS-2021.11.1/BTSPAS/R/TimeStratPetersenNonDiagError_fit.R | 38 BTSPAS-2021.11.1/BTSPAS/R/TimeToTargetRunSize.r | 18 BTSPAS-2021.11.1/BTSPAS/R/initial_values.R | 59 BTSPAS-2021.11.1/BTSPAS/R/plot_acf.R | 8 BTSPAS-2021.11.1/BTSPAS/R/plot_posterior.R | 7 BTSPAS-2021.11.1/BTSPAS/R/plot_trace.R | 2 BTSPAS-2021.11.1/BTSPAS/R/prior.muTT.functions.R | 3 BTSPAS-2021.11.1/BTSPAS/R/run_jags.R | 3 BTSPAS-2021.11.1/BTSPAS/R/zzz.R | 2 BTSPAS-2021.11.1/BTSPAS/README.md | 25 BTSPAS-2021.11.1/BTSPAS/build/partial.rdb |only BTSPAS-2021.11.1/BTSPAS/build/vignette.rds |binary BTSPAS-2021.11.1/BTSPAS/inst/doc/a-Diagonal-model.html | 4102 ++++------ BTSPAS-2021.11.1/BTSPAS/inst/doc/b-Diagonal-model-with-multiple-ages.html | 1876 ++-- BTSPAS-2021.11.1/BTSPAS/inst/doc/c-Non-diagonal-model.html | 1700 +--- BTSPAS-2021.11.1/BTSPAS/inst/doc/d-Non-diagonal-with-fall-back-model.html | 778 - BTSPAS-2021.11.1/BTSPAS/inst/doc/e-Bias-from-incomplete-sampling.html | 419 - BTSPAS-2021.11.1/BTSPAS/inst/doc/f-Interpolating-run-earlier-and-later.html | 258 BTSPAS-2021.11.1/BTSPAS/man/RunTime.Rd | 6 BTSPAS-2021.11.1/BTSPAS/man/SimplePetersen.Rd | 1 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenDiagErrorWHChinook_fit.Rd | 10 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenDiagErrorWHSteel_fit.Rd | 10 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenDiagError_fit.Rd | 6 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenNonDiagErrorNPMarkAvail_fit.Rd | 8 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenNonDiagErrorNP_fit.Rd | 8 BTSPAS-2021.11.1/BTSPAS/man/TimeStratPetersenNonDiagError_fit.Rd | 8 BTSPAS-2021.11.1/BTSPAS/man/TimeToTargetRunSize.Rd | 3 BTSPAS-2021.11.1/BTSPAS/vignettes/a-Diagonal-model.Rmd | 16 BTSPAS-2021.11.1/BTSPAS/vignettes/b-Diagonal-model-with-multiple-ages.Rmd | 6 BTSPAS-2021.11.1/BTSPAS/vignettes/c-Non-diagonal-model.Rmd | 24 BTSPAS-2021.11.1/BTSPAS/vignettes/d-Non-diagonal-with-fall-back-model.Rmd | 9 BTSPAS-2021.11.1/BTSPAS/vignettes/e-Bias-from-incomplete-sampling.Rmd | 29 59 files changed, 4255 insertions(+), 5812 deletions(-)
Title: Automatic Time Series Analysis and Forecasting Using the Ata
Method
Description: The Ata method (Yapar et al. (2019) <doi:10.15672/hujms.461032>), an alternative to exponential smoothing (described in Yapar (2016) <doi:10.15672/HJMS.201614320580>,
Yapar et al. (2017) <doi:10.15672/HJMS.2017.493>), is a new univariate time series forecasting method which provides innovative solutions to issues faced during the
initialization and optimization stages of existing forecasting methods. Forecasting performance of the Ata method is superior to existing methods both in terms of easy
implementation and accurate forecasting. It can be applied to non-seasonal or seasonal time series which can be decomposed into four components (remainder, level, trend
and seasonal). This methodology performed well on the M3 and M4-competition data. This package was written based on Ali Sabri Taylan’s PhD dissertation.
Author: Ali Sabri Taylan [aut, cre, cph]
(<https://orcid.org/0000-0001-9514-934X>),
Hanife Taylan Selamlar [aut, cph]
(<https://orcid.org/0000-0002-4091-884X>),
Guckan Yapar [aut, ths, cph] (<https://orcid.org/0000-0002-0971-6676>)
Maintainer: Ali Sabri Taylan <alisabritaylan@gmail.com>
Diff between ATAforecasting versions 0.0.52 dated 2021-03-08 and 0.0.53 dated 2021-10-11
ATAforecasting-0.0.52/ATAforecasting/R/ATA_BoxCoxAttributes.R |only ATAforecasting-0.0.52/ATAforecasting/R/ATA_CI.R |only ATAforecasting-0.0.52/ATAforecasting/R/ATA_Decomposition.R |only ATAforecasting-0.0.52/ATAforecasting/R/ATA_Seasonality.R |only ATAforecasting-0.0.52/ATAforecasting/R/ATA_Shift.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Accuracy.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Accuracy_Holdin.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Accuracy_Holdout.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Core.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Core_Holdout.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Damped.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Forecast.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Multiple.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_MultipleO.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Single.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_SingleO.R |only ATAforecasting-0.0.52/ATAforecasting/R/AutoATA_Transform.R |only ATAforecasting-0.0.53/ATAforecasting/DESCRIPTION | 12 ATAforecasting-0.0.53/ATAforecasting/MD5 | 111 +-- ATAforecasting-0.0.53/ATAforecasting/NAMESPACE | 1 ATAforecasting-0.0.53/ATAforecasting/R/ATA.R | 230 ++++--- ATAforecasting-0.0.53/ATAforecasting/R/ATA_Accuracy.R | 157 +++-- ATAforecasting-0.0.53/ATAforecasting/R/ATA_BoxCoxAttributes.r |only ATAforecasting-0.0.53/ATAforecasting/R/ATA_CI.r |only ATAforecasting-0.0.53/ATAforecasting/R/ATA_Core.R | 72 ++ ATAforecasting-0.0.53/ATAforecasting/R/ATA_Decomposition.r |only ATAforecasting-0.0.53/ATAforecasting/R/ATA_Find_Freq.R | 66 +- ATAforecasting-0.0.53/ATAforecasting/R/ATA_Find_Freq_Fourier.R | 44 - ATAforecasting-0.0.53/ATAforecasting/R/ATA_Find_Multi_Freq.R | 64 +- ATAforecasting-0.0.53/ATAforecasting/R/ATA_Forecast.R | 34 - ATAforecasting-0.0.53/ATAforecasting/R/ATA_SeasAttributes.R | 6 ATAforecasting-0.0.53/ATAforecasting/R/ATA_Seasonality.r |only ATAforecasting-0.0.53/ATAforecasting/R/ATA_Shift.r |only ATAforecasting-0.0.53/ATAforecasting/R/ATA_Transform.R | 20 ATAforecasting-0.0.53/ATAforecasting/R/ATAforecasting-package.R | 37 - ATAforecasting-0.0.53/ATAforecasting/R/RcppExports.R | 134 ++-- ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Accuracy.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Accuracy_Holdin.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Accuracy_Holdout.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Core.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Core_Holdout.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Damped.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Forecast.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Multiple.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_MultipleO.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Single.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_SingleO.R |only ATAforecasting-0.0.53/ATAforecasting/R/SubATA_Transform.R |only ATAforecasting-0.0.53/ATAforecasting/R/data.R | 60 +- ATAforecasting-0.0.53/ATAforecasting/README.md | 79 +- ATAforecasting-0.0.53/ATAforecasting/build/partial.rdb |binary ATAforecasting-0.0.53/ATAforecasting/man/ATA.Accuracy.Rd | 31 - ATAforecasting-0.0.53/ATAforecasting/man/ATA.BackTransform.Rd | 4 ATAforecasting-0.0.53/ATAforecasting/man/ATA.BoxCoxAttr.Rd | 2 ATAforecasting-0.0.53/ATAforecasting/man/ATA.CI.Rd | 38 - ATAforecasting-0.0.53/ATAforecasting/man/ATA.Core.Rd | 4 ATAforecasting-0.0.53/ATAforecasting/man/ATA.Decomposition.Rd | 2 ATAforecasting-0.0.53/ATAforecasting/man/ATA.Forecast.Rd | 5 ATAforecasting-0.0.53/ATAforecasting/man/ATA.Rd | 45 - ATAforecasting-0.0.53/ATAforecasting/man/ATA.SeasAttr.Rd | 6 ATAforecasting-0.0.53/ATAforecasting/man/ATA.Seasonality.Rd | 2 ATAforecasting-0.0.53/ATAforecasting/man/ATA.Shift.Rd | 38 - ATAforecasting-0.0.53/ATAforecasting/man/ATA.Transform.Rd | 6 ATAforecasting-0.0.53/ATAforecasting/man/ATAforecasting-package.Rd | 8 ATAforecasting-0.0.53/ATAforecasting/man/figures |only ATAforecasting-0.0.53/ATAforecasting/man/find.freq.Rd | 34 - ATAforecasting-0.0.53/ATAforecasting/man/find.freq.fourier.Rd | 34 - ATAforecasting-0.0.53/ATAforecasting/man/find.multi.freq.Rd | 34 - ATAforecasting-0.0.53/ATAforecasting/man/ndiffs.tseries.Rd | 2 ATAforecasting-0.0.53/ATAforecasting/man/stR_seasadj.Rd | 2 ATAforecasting-0.0.53/ATAforecasting/src/ATA.cpp | 295 ++++++++-- ATAforecasting-0.0.53/ATAforecasting/src/ATAforecasting_init.c | 38 - ATAforecasting-0.0.53/ATAforecasting/src/Makevars |only ATAforecasting-0.0.53/ATAforecasting/src/Makevars.win |only ATAforecasting-0.0.53/ATAforecasting/src/RcppExports.cpp | 83 +- 75 files changed, 1122 insertions(+), 718 deletions(-)
More information about ATAforecasting at CRAN
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Title: Read Spectral and Logged Data from Foreign Files
Description: Functions for reading, and in some cases writing, foreign files
containing spectral data from spectrometers and their associated software,
output from daylight simulation models in common use, and some spectral
data repositories. As well as functions for exchange of spectral data with
other R packages. Part of the 'r4photobiology' suite,
Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Titta K. Kotilainen [ctb] (<https://orcid.org/0000-0002-2822-9734>),
Glenn Davis [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyInOut versions 0.4.22-1 dated 2020-04-14 and 0.4.23 dated 2021-10-11
photobiologyInOut-0.4.22-1/photobiologyInOut/NEWS |only photobiologyInOut-0.4.23/photobiologyInOut/DESCRIPTION | 29 photobiologyInOut-0.4.23/photobiologyInOut/MD5 | 104 photobiologyInOut-0.4.23/photobiologyInOut/NAMESPACE | 3 photobiologyInOut-0.4.23/photobiologyInOut/NEWS.md |only photobiologyInOut-0.4.23/photobiologyInOut/R/foreign-conversion.r | 38 photobiologyInOut-0.4.23/photobiologyInOut/R/photobiologyInOut.r | 12 photobiologyInOut-0.4.23/photobiologyInOut/R/read-aster-file.r | 31 photobiologyInOut-0.4.23/photobiologyInOut/R/read-avaspec-csv.r | 19 photobiologyInOut-0.4.23/photobiologyInOut/R/read-csi-dat.r | 24 photobiologyInOut-0.4.23/photobiologyInOut/R/read-fmi-cum.R | 7 photobiologyInOut-0.4.23/photobiologyInOut/R/read-fred-csv.r | 18 photobiologyInOut-0.4.23/photobiologyInOut/R/read-libradtran.r | 40 photobiologyInOut-0.4.23/photobiologyInOut/R/read-licor-prn.r | 32 photobiologyInOut-0.4.23/photobiologyInOut/R/read-licor-txt.r |only photobiologyInOut-0.4.23/photobiologyInOut/R/read-macam-dta.r | 25 photobiologyInOut-0.4.23/photobiologyInOut/R/read-oojaz-file.r | 73 photobiologyInOut-0.4.23/photobiologyInOut/R/read-oopi-file.r | 40 photobiologyInOut-0.4.23/photobiologyInOut/R/read-ooss-file.r | 44 photobiologyInOut-0.4.23/photobiologyInOut/R/read-tuv-file.r | 54 photobiologyInOut-0.4.23/photobiologyInOut/R/read-wasatch-csv.r |only photobiologyInOut-0.4.23/photobiologyInOut/R/read-yoctopuce-csv.r | 41 photobiologyInOut-0.4.23/photobiologyInOut/README.md | 30 photobiologyInOut-0.4.23/photobiologyInOut/build/partial.rdb |only photobiologyInOut-0.4.23/photobiologyInOut/build/vignette.rds |binary photobiologyInOut-0.4.23/photobiologyInOut/inst/doc/user-guide.R | 52 photobiologyInOut-0.4.23/photobiologyInOut/inst/doc/user-guide.Rmd | 242 + photobiologyInOut-0.4.23/photobiologyInOut/inst/doc/user-guide.html | 1223 +++++----- photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/LI-180-irradiance.txt |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-absorbance.csv |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-absorbance.json |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-raman.csv |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-scope.csv |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-scope.json |only photobiologyInOut-0.4.23/photobiologyInOut/inst/extdata/enlighten-wasatch-transmission.csv |only photobiologyInOut-0.4.23/photobiologyInOut/man/figures |only photobiologyInOut-0.4.23/photobiologyInOut/man/photobiologyInOut-package.Rd | 25 photobiologyInOut-0.4.23/photobiologyInOut/man/read_ASTER_txt.Rd | 28 photobiologyInOut-0.4.23/photobiologyInOut/man/read_FReD_csv.Rd | 15 photobiologyInOut-0.4.23/photobiologyInOut/man/read_avaspec_csv.Rd | 15 photobiologyInOut-0.4.23/photobiologyInOut/man/read_csi_dat.Rd | 11 photobiologyInOut-0.4.23/photobiologyInOut/man/read_li180_txt.Rd |only photobiologyInOut-0.4.23/photobiologyInOut/man/read_licor_prn.Rd | 28 photobiologyInOut-0.4.23/photobiologyInOut/man/read_macam_dta.Rd | 19 photobiologyInOut-0.4.23/photobiologyInOut/man/read_oo_jazirrad.Rd | 23 photobiologyInOut-0.4.23/photobiologyInOut/man/read_oo_pidata.Rd | 33 photobiologyInOut-0.4.23/photobiologyInOut/man/read_oo_ssirrad.Rd | 19 photobiologyInOut-0.4.23/photobiologyInOut/man/read_qtuv_txt.Rd | 8 photobiologyInOut-0.4.23/photobiologyInOut/man/read_tuv_usrout.Rd | 4 photobiologyInOut-0.4.23/photobiologyInOut/man/read_uvspec_disort_vesa.Rd | 2 photobiologyInOut-0.4.23/photobiologyInOut/man/read_wasatch_csv.Rd |only photobiologyInOut-0.4.23/photobiologyInOut/man/read_yoctopuce_csv.Rd | 35 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-avantes.R | 2 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-fred.R | 2 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-licor.R | 6 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-macam.R | 2 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-oo.R | 24 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-tuv.R | 12 photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-wasatch.R |only photobiologyInOut-0.4.23/photobiologyInOut/tests/testthat/test-yoctopuce.R | 4 photobiologyInOut-0.4.23/photobiologyInOut/vignettes/user-guide.Rmd | 242 + 61 files changed, 1826 insertions(+), 914 deletions(-)
More information about photobiologyInOut at CRAN
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Title: A Multivariate Emulator
Description: A multivariate generalization of the emulator package.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between multivator versions 1.1-9 dated 2017-05-28 and 1.1-10 dated 2021-10-11
multivator-1.1-10/multivator/DESCRIPTION | 15 ++++---- multivator-1.1-10/multivator/MD5 | 31 ++++++++--------- multivator-1.1-10/multivator/NAMESPACE | 2 - multivator-1.1-10/multivator/build/multivator.pdf |only multivator-1.1-10/multivator/build/partial.rdb |only multivator-1.1-10/multivator/build/vignette.rds |binary multivator-1.1-10/multivator/data/e3mg.rda |binary multivator-1.1-10/multivator/data/mcneall.rda |binary multivator-1.1-10/multivator/data/mtoys.rda |binary multivator-1.1-10/multivator/inst/CITATION | 7 +-- multivator-1.1-10/multivator/inst/doc/cias.pdf |binary multivator-1.1-10/multivator/inst/doc/multivator.pdf |binary multivator-1.1-10/multivator/man/betahat.Rd | 9 ++-- multivator-1.1-10/multivator/man/experiment.Rd | 2 - multivator-1.1-10/multivator/man/multivator-package.Rd | 2 - multivator-1.1-10/multivator/man/ss.Rd | 4 +- multivator-1.1-10/multivator/vignettes/multivator.bib | 4 +- multivator-1.1-9/multivator/data/datalist |only 18 files changed, 40 insertions(+), 36 deletions(-)
Title: 'RStudio' Addins and 'Shiny' Modules for Medical Research
Description: 'RStudio' addins and 'Shiny' modules for descriptive statistics, regression and survival analysis.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>),
Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jsmodule versions 1.1.9 dated 2021-09-23 and 1.2.0 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ NEWS.md | 10 ++++++++++ R/coxph.R | 15 ++++++++------- R/kaplan.R | 2 +- inst/doc/jsmodule.html | 4 ++-- man/coxModule.Rd | 5 ++++- 7 files changed, 35 insertions(+), 21 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>),
Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.4.2 dated 2020-11-24 and 0.4.3 dated 2021-10-11
DESCRIPTION | 9 - MD5 | 12 - NEWS.md | 4 R/svyjskm.R | 4 README.md | 2 build/vignette.rds |binary inst/doc/jskm.html | 363 ++++++++++------------------------------------------- 7 files changed, 87 insertions(+), 307 deletions(-)
Title: Importing Vector Graphics
Description: Functions for converting, importing, and drawing PostScript
pictures in R plots.
Author: Paul Murrell [aut, cre],
Richard Walton [aut],
Simon Potter [ctb]
Maintainer: Paul Murrell <p.murrell@auckland.ac.nz>
Diff between grImport versions 0.9-3 dated 2019-11-27 and 0.9-4 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- build/vignette.rds |binary inst/CITATION | 4 ++-- inst/doc/changes.txt | 6 ++++++ inst/doc/import.pdf |binary inst/doc/importText.pdf |binary man/PostScriptTrace.Rd | 2 +- 8 files changed, 20 insertions(+), 14 deletions(-)
Title: Binscatter Estimation and Inference
Description: Provides tools for statistical analysis using the binscatter methods developed by Cattaneo, Crump, Farrell and Feng (2021a) <arXiv:1902.09608> and Cattaneo, Crump, Farrell and Feng (2021b) <arXiv:1902.09615>. Binscatter provides a flexible way of describing the relationship between two variables based on partitioning/binning of the independent variable of interest. binsreg(), binsqreg() and binsglm() implement binscatter least squares regression, quantile regression and generalized linear regression respectively, with particular focus on constructing binned scatter plots. They also implement robust (pointwise and uniform) inference of regression functions and derivatives thereof. binstest() implements hypothesis testing procedures for parametric functional forms of and nonparametric shape restrictions on the regression function. binspwc() implements hypothesis testing procedures for pairwise group comparison of binscatter estimators. binsregselect() implements data-driven procedures for selecting the number of bins for binscatter estimation. All the commands allow for covariate adjustment, smoothness restrictions and clustering.
Author: Matias D. Cattaneo, Richard K. Crump, Max H. Farrell, Yingjie Feng
Maintainer: Yingjie Feng <fengyingjiepku@gmail.com>
Diff between binsreg versions 0.6 dated 2021-08-07 and 0.7 dated 2021-10-11
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/binsreg_functions.R | 11 ++++++++--- 3 files changed, 14 insertions(+), 9 deletions(-)