Title: Interface to the Lake Multi-Scaled Geospatial and Temporal
Database
Description: Client for programmatic access to the Lake
Multi-scaled Geospatial and Temporal database <https://lagoslakes.org>, with functions
for accessing lake water quality and ecological context data for the US.
Author: Joseph Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>),
Samantha Oliver [aut] (<https://orcid.org/0000-0001-5668-1165>),
Farzan Masrour [aut]
Maintainer: Joseph Stachelek <stachel2@msu.edu>
Diff between LAGOSNE versions 2.0.1 dated 2019-07-29 and 2.0.2 dated 2020-11-28
LAGOSNE-2.0.1/LAGOSNE/man/source.Rd |only LAGOSNE-2.0.2/LAGOSNE/DESCRIPTION | 10 LAGOSNE-2.0.2/LAGOSNE/MD5 | 85 ++-- LAGOSNE-2.0.2/LAGOSNE/NAMESPACE | 2 LAGOSNE-2.0.2/LAGOSNE/NEWS.md | 16 LAGOSNE-2.0.2/LAGOSNE/R/LAGOSNE-package.R | 6 LAGOSNE-2.0.2/LAGOSNE/R/compile.R | 7 LAGOSNE-2.0.2/LAGOSNE/R/coordinates.R | 5 LAGOSNE-2.0.2/LAGOSNE/R/get.R | 2 LAGOSNE-2.0.2/LAGOSNE/R/ingest.R | 2 LAGOSNE-2.0.2/LAGOSNE/R/load.R | 16 LAGOSNE-2.0.2/LAGOSNE/R/names.R | 2 LAGOSNE-2.0.2/LAGOSNE/R/select.R | 6 LAGOSNE-2.0.2/LAGOSNE/R/utils.R | 69 +-- LAGOSNE-2.0.2/LAGOSNE/R/zzz.R | 6 LAGOSNE-2.0.2/LAGOSNE/README.md | 73 +-- LAGOSNE-2.0.2/LAGOSNE/build/vignette.rds |binary LAGOSNE-2.0.2/LAGOSNE/inst/CITATION | 9 LAGOSNE-2.0.2/LAGOSNE/inst/doc/lagosne_structure.html | 92 +++- LAGOSNE-2.0.2/LAGOSNE/inst/doc/working_with_lagosne.html | 305 +++++++++++++-- LAGOSNE-2.0.2/LAGOSNE/man/chag.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/classifications.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/conn.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/coordinatize.Rd | 5 LAGOSNE-2.0.2/LAGOSNE/man/display_names.Rd | 2 LAGOSNE-2.0.2/LAGOSNE/man/epi_nutr.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/info_table.Rd | 2 LAGOSNE-2.0.2/LAGOSNE/man/lagos_ingest.Rd | 5 LAGOSNE-2.0.2/LAGOSNE/man/lagos_load_oliver_2015.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/lagos_path.Rd | 2 LAGOSNE-2.0.2/LAGOSNE/man/lagos_source_program.Rd |only LAGOSNE-2.0.2/LAGOSNE/man/lagoslakes.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/lagosne_compile.Rd | 11 LAGOSNE-2.0.2/LAGOSNE/man/lagosne_get.Rd | 7 LAGOSNE-2.0.2/LAGOSNE/man/lagosne_load.Rd | 2 LAGOSNE-2.0.2/LAGOSNE/man/lagosne_select.Rd | 12 LAGOSNE-2.0.2/LAGOSNE/man/lake_info.Rd | 3 LAGOSNE-2.0.2/LAGOSNE/man/lakes_limno.Rd | 10 LAGOSNE-2.0.2/LAGOSNE/man/locus.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/lulc.Rd | 6 LAGOSNE-2.0.2/LAGOSNE/man/query_column_keywords.Rd | 2 LAGOSNE-2.0.2/LAGOSNE/man/query_column_names.Rd | 4 LAGOSNE-2.0.2/LAGOSNE/tests/testthat/test-info_table.R |only LAGOSNE-2.0.2/LAGOSNE/tests/testthat/test-lagos_get.R | 4 LAGOSNE-2.0.2/LAGOSNE/tests/testthat/test-lagos_load.R | 2 45 files changed, 584 insertions(+), 250 deletions(-)
Title: D-Score for Child Development
Description: The D-score is a quantitative measure of child development.
The D-score follows the Rasch model. See Jacobusse, van Buuren and
Verkerk (2006) <doi:10.1002/sim.2351>. The user can convert
milestone scores from 19 assessment instruments into the D-score
and the DAZ (D-score adjusted for age). Several tools assist in
mapping milestone names into the 9-position Global Scale of Early
Development (GSED) convention. Supports calculation of the D-score
using 'dutch' <doi:10.1177/0962280212473300>,
'gcdg' <doi:10.1136/bmjgh-2019-001724> and 'gsed' conversion keys.
The user can calculate DAZ using 'dutch' and 'gcdg' age-conditional
references.
Author: Stef van Buuren [cre, aut],
Iris Eekhout [aut],
Arjan Huizing [aut]
Maintainer: Stef van Buuren <stef.vanbuuren@tno.nl>
Diff between dscore versions 1.3.0 dated 2020-05-12 and 1.4.0 dated 2020-11-28
DESCRIPTION | 17 - MD5 | 24 +- NEWS.md | 15 + README.md | 78 +++---- build/vignette.rds |binary data/builtin_itembank.rda |binary inst/CITATION | 2 inst/doc/start.R | 2 inst/doc/start.Rmd | 9 inst/doc/start.html | 474 ++++++++++++++++++++++++++++++++++++---------- man/builtin_itembank.Rd | 2 vignettes/references.bib | 32 +-- vignettes/start.Rmd | 9 13 files changed, 480 insertions(+), 184 deletions(-)
Title: A Versatile Toolkit for Copy Number Variation Relationship Data
Analysis and Visualization
Description: Provides the ability to create interaction maps, discover CNV map domains (edges), gene annotate interactions, and create interactive visualizations of these CNV interaction maps.
Author: James Dalgeish, Yonghong Wang, Jack Zhu, Paul Meltzer
Maintainer: James Dalgleish <james.dalgleish@nih.gov>
Diff between CNVScope versions 3.1.8 dated 2020-07-03 and 3.3.7 dated 2020-11-28
DESCRIPTION | 14 +-- MD5 | 26 +++--- NEWS.md | 29 +++++++ R/CNVScopeserver.R | 152 +++++++++++++++++++++++++++++-------- R/calcCNVKernelProbDist.R | 13 +-- R/runCNVScopeShiny.R | 20 ++-- build/vignette.rds |binary inst/doc/additonal_examples.R | 12 ++ inst/doc/additonal_examples.Rmd | 12 ++ inst/doc/additonal_examples.html | 114 ++++++++++++++++++--------- inst/doc/create_input_matrix.html | 50 +++++++++++- inst/doc/create_output_matrix.html | 50 +++++++++++- inst/doc/power_analysis.html | 50 +++++++++++- vignettes/additonal_examples.Rmd | 12 ++ 14 files changed, 443 insertions(+), 111 deletions(-)
Title: Microplots (Sparklines) in 'LaTeX', 'Word', 'HTML', 'Excel'
Description: The microplot function writes a set of R graphics files to be used as
microplots (sparklines) in tables in either 'LaTeX', 'HTML', 'Word',
or 'Excel' files. For 'LaTeX', we provide methods for the
Hmisc::latex() generic function to construct 'latex' tabular
environments which include the graphs. These can be used directly
with the operating system 'pdflatex' or 'latex' command, or by using
one of 'Sweave', 'knitr', 'rmarkdown', or 'Emacs org-mode' as an
intermediary. For 'MS Word', the msWord() function uses the
'flextable' package to construct 'Word' tables which include the
graphs. There are several distinct approaches for constructing HTML
files. The simplest is to use the msWord() function with argument
filetype="html". Alternatively, use either 'Emacs org-mode' or the
htmlTable::htmlTable() function to construct an 'HTML' file
containing tables which include the graphs. See the documentation
for our as.htmlimg() function. For 'Excel' use on 'Windows', the
file examples/irisExcel.xls includes 'VBA' code which brings the
individual panels into individual cells in the spreadsheet.
Examples in the examples and demo subdirectories are shown with
'lattice' graphics, 'ggplot2' graphics, and 'base' graphics.
Examples for 'LaTeX' include 'Sweave' (both 'LaTeX'-style and
'Noweb'-style), 'knitr', 'emacs org-mode', and 'rmarkdown' input
files and their 'pdf' output files. Examples for 'HTML' include
'org-mode' and 'Rmd' input files and their webarchive 'HTML' output
files. In addition, the as.orgtable() function can display a
data.frame in an 'org-mode' document. The examples for 'MS Word'
(with either filetype="docx" or filetype="html") work with all
operating systems. The package does not require the installation of
'LaTeX' or 'MS Word' to be able to write '.tex' or '.docx' files.
Author: Richard M. Heiberger, with contributions from Karen Byron and Nooreen Dabbish.
Maintainer: Richard M. Heiberger <rmh@temple.edu>
Diff between microplot versions 1.0-42 dated 2018-08-19 and 1.0-44 dated 2020-11-28
DESCRIPTION | 12 +++--- MD5 | 30 +++++++-------- NAMESPACE | 6 ++- NEWS | 54 +++++++++++++++++++++++++++ R/as.includegraphics.R | 5 ++ R/dvi.latexConsole.R | 8 ++-- R/microplot.trellis.R | 35 +++++++++++------ R/msWord.microplotMatrix.R | 86 ++++++++++++++++++++------------------------ build/partial.rdb |binary build/vignette.rds |binary inst/doc/rmhPoster.pdf |binary inst/examples/irisExcel.xls |binary man/cc176.y.adj.Rd | 2 - man/latex.trellis.Rd | 2 - man/microplot.Rd | 10 ++--- man/show.latexConsole.Rd | 12 ++++-- 16 files changed, 167 insertions(+), 95 deletions(-)
Title: Kernel Density Estimation for Spatial Data
Description: Calculate Kernel Density Estimation (KDE) for spatial data.
The algorithm is inspired by the tool 'Heatmap' from 'QGIS'. The method is described by:
Hart, T., Zandbergen, P. (2014) <doi:10.1108/PIJPSM-04-2013-0039>,
Nelson, T. A., Boots, B. (2008) <doi:10.1111/j.0906-7590.2008.05548.x>,
Chainey, S., Tompson, L., Uhlig, S.(2008) <doi:10.1057/palgrave.sj.8350066>.
Author: Jan Caha [aut, cre] (<https://orcid.org/0000-0003-0165-0606>)
Maintainer: Jan Caha <jan.caha@outlook.com>
Diff between SpatialKDE versions 0.6.1 dated 2020-04-16 and 0.6.2 dated 2020-11-28
DESCRIPTION | 13 ++-- MD5 | 19 +++--- NAMESPACE | 2 NEWS.md | 6 + R/kde.R | 19 ++---- build/vignette.rds |binary inst/doc/SpatialKDE.html | 85 +++++++++++++++++++++++++--- man/kde.Rd | 2 tests/testthat/helper-data.R |only tests/testthat/test-create_grids_raster.R | 75 ++++++++++++++---------- tests/testthat/test-kde.R | 91 ++++++++++++++++-------------- 11 files changed, 205 insertions(+), 107 deletions(-)
Title: Zigzag Expanded Navigation Plots
Description: Graphical tools for visualizing high-dimensional data along a path
of alternating one- and two-dimensional plots. Note that this
includes interactive graphics plots based on 'loon' in turn based on 'tcltk'
(included as part of the standard R distribution). It also requires 'graph' from Bioconductor.
For more detail on use and algorithms, see <doi:10.18637/jss.v095.i04>.
Author: Marius Hofert [aut],
Wayne Oldford [aut, cre]
Maintainer: Wayne Oldford <rwoldford@uwaterloo.ca>
Diff between zenplots versions 1.0.2 dated 2020-10-03 and 1.0.3 dated 2020-11-28
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- NAMESPACE | 2 ++ R/tools.R | 8 ++++++++ R/zenplot.R | 4 ++-- R/zenplots.R | 2 +- inst/doc/intro.html | 36 ++++++++++++++++++------------------ inst/doc/selected_features.html | 36 ++++++++++++++++++------------------ man/plot_exists.Rd |only 9 files changed, 61 insertions(+), 50 deletions(-)
Title: Validate Function Arguments
Description: Lightweight validation tool for checking function arguments and
validating data analysis scripts. This is an alternative to stopifnot() from
the 'base' package and to assert_that() from the 'assertthat' package. It
provides more informative error messages and facilitates debugging.
Author: Olivier Binette [aut, cre, cph]
Maintainer: Olivier Binette <olivier.binette@gmail.com>
Diff between assert versions 1.0.0 dated 2020-10-24 and 1.0.1 dated 2020-11-28
assert-1.0.0/assert/README.md |only assert-1.0.1/assert/DESCRIPTION | 9 +++++---- assert-1.0.1/assert/MD5 | 7 +++---- assert-1.0.1/assert/NEWS.md | 3 +++ assert-1.0.1/assert/R/assert.R | 23 ++++++++++------------- 5 files changed, 21 insertions(+), 21 deletions(-)
Title: Reads Fixed-Width ASCII Data Files (.txt or .dat) that Have
Accompanying Setup Files (.sps or .sas)
Description: Lets you open a fixed-width ASCII file (.txt or
.dat) that has an accompanying setup file (.sps or .sas). These file
combinations are sometimes referred to as .txt+.sps, .txt+.sas,
.dat+.sps, or .dat+.sas. This will only run in a txt-sps or txt-sas
pair in which the setup file contains instructions to open that text
file. It will NOT open other text files, .sav, .sas, or .por data
files. Fixed-width ASCII files with setup files are common in older
(pre-2000) government data.
Author: Jacob Kaplan [aut, cre] (<https://orcid.org/0000-0002-0601-0387>)
Maintainer: Jacob Kaplan <jkkaplan6@gmail.com>
Diff between asciiSetupReader versions 2.3.1 dated 2020-03-21 and 2.3.2 dated 2020-11-28
DESCRIPTION | 8 +- MD5 | 39 +++++----- NAMESPACE | 3 NEWS.md | 4 + R/parse_setup.R | 14 +++ R/utils-data-table.R |only R/utils.R | 1 README.md | 30 ++++---- build/vignette.rds |binary inst/doc/Introduction_to_asciiSetupReader.Rmd | 3 inst/doc/Introduction_to_asciiSetupReader.html | 92 ++++++++++++++++++++++++- inst/doc/making-an-sps-file.html | 91 ++++++++++++++++++++++++ inst/doc/parsing-an-sps-or-sas-file.html | 91 ++++++++++++++++++++++++ inst/testdata/CA_SEDD_2005_AHAL.sps |only man/figures |only man/read_ascii_setup_addin.Rd | 36 ++++----- tests/testthat/setup.R | 5 + tests/testthat/test-parse-value-labels-sps.R | 1 tests/testthat/test-parser-missing-sps.R | 10 ++ tests/testthat/test-parser-sps.R | 25 ++++++ tests/testthat/test-silent.R | 1 vignettes/Introduction_to_asciiSetupReader.Rmd | 3 22 files changed, 395 insertions(+), 62 deletions(-)
More information about asciiSetupReader at CRAN
Permanent link
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Author: Jari Oksanen, F. Guillaume Blanchet, Michael Friendly, Roeland Kindt,
Pierre Legendre, Dan McGlinn, Peter R. Minchin, R. B. O'Hara,
Gavin L. Simpson, Peter Solymos, M. Henry H. Stevens, Eduard Szoecs,
Helene Wagner
Maintainer: Jari Oksanen <jhoksane@gmail.com>
Diff between vegan versions 2.5-6 dated 2019-09-01 and 2.5-7 dated 2020-11-28
DESCRIPTION | 8 +-- MD5 | 92 +++++++++++++++++++++---------------------- NAMESPACE | 1 R/SSarrhenius.R | 2 R/SSgitay.R | 2 R/SSgleason.R | 2 R/SSlomolino.R | 2 R/adonis.R | 4 - R/adonis2.R | 4 + R/betadisper.R | 4 + R/capscale.R | 2 R/isomap.R | 4 - R/monoMDS.R | 4 + R/ordiplot.R | 8 +-- R/ordistep.R | 3 - R/pcnm.R | 3 - R/permutest.betadisper.R | 10 +++- R/plot.envfit.R | 3 - R/rarecurve.R | 6 +- R/scores.default.R | 4 - R/text.cca.R | 47 ++++++++++++++++++--- R/vegdist.R | 20 +++++---- R/vegemite.R | 4 - R/wcmdscale.R | 6 +- build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 63 +++++++++++++++++++++++++++++ inst/doc/FAQ-vegan.R | 2 inst/doc/FAQ-vegan.Rmd | 12 ++--- inst/doc/FAQ-vegan.html | 12 ++--- inst/doc/decision-vegan.pdf |binary inst/doc/diversity-vegan.pdf |binary inst/doc/intro-vegan.pdf |binary inst/doc/partitioning.pdf |binary man/adonis.Rd | 29 ++++++++++--- man/avgdist.Rd | 3 - man/envfit.Rd | 16 ++++++- man/humpfit.Rd | 20 --------- man/mantel.Rd | 20 +++++---- man/monoMDS.Rd | 2 man/plot.cca.Rd | 9 +++- man/rarefy.Rd | 2 man/specpool.Rd | 2 man/vegdist.Rd | 26 +++++++++++- man/vegemite.Rd | 18 ++++---- src/vegdist.c | 4 + vignettes/FAQ-vegan.Rmd | 12 ++--- 47 files changed, 330 insertions(+), 167 deletions(-)
Title: Functional Data Analysis
Description: These functions were developed to support functional data
analysis as described in Ramsay, J. O. and Silverman, B. W.
(2005) Functional Data Analysis. New York: Springer and in
Ramsay, J. O., Hooker, Giles, and Graves, Spencer (2009).
Functional Data Analysis with R and Matlab (Springer).
The package includes data sets and script files working many examples
including all but one of the 76 figures in this latter book. Matlab versions
are available by ftp from
<http://www.psych.mcgill.ca/misc/fda/downloads/FDAfuns/>.
Author: J. O. Ramsay <ramsay@psych.mcgill.ca> [aut,cre],
Spencer Graves <spencer.graves@effectivedefense.org> [ctb],
Giles Hooker <gjh27@cornell.edu> [ctb]
Maintainer: J. O. Ramsay <ramsay@psych.mcgill.ca>
Diff between fda versions 5.1.5.1 dated 2020-08-02 and 5.1.7 dated 2020-11-28
fda-5.1.5.1/fda/R/fRegress.fdPar.R |only fda-5.1.5.1/fda/R/fRegress.numeric.R |only fda-5.1.5.1/fda/R/svd2.R |only fda-5.1.5.1/fda/man/svd2.Rd |only fda-5.1.7/fda/DESCRIPTION | 10 fda-5.1.7/fda/MD5 | 85 +- fda-5.1.7/fda/NAMESPACE | 14 fda-5.1.7/fda/NEWS |only fda-5.1.7/fda/R/CSTRfn.R | 4 fda-5.1.7/fda/R/bsplineS.R | 122 +-- fda-5.1.7/fda/R/density.fd.R | 7 fda-5.1.7/fda/R/eigchk.R |only fda-5.1.7/fda/R/fRegress.R | 931 ++++++++++++------------------ fda-5.1.7/fda/R/fRegress.double.R |only fda-5.1.7/fda/R/fRegress.formula.R | 748 ++++++++++++------------ fda-5.1.7/fda/R/fRegress.stderr.R | 359 +++++++---- fda-5.1.7/fda/R/fRegressArgCheck.R | 284 ++++----- fda-5.1.7/fda/R/geigen.R | 6 fda-5.1.7/fda/R/predict.fRegress.R | 156 ++++- fda-5.1.7/fda/R/smooth.basis1.R | 4 fda-5.1.7/fda/R/smooth.pos.R | 20 fda-5.1.7/fda/R/varmx.pca.fd.R | 5 fda-5.1.7/fda/demo/00Index | 25 fda-5.1.7/fda/demo/ElectricDemand.R |only fda-5.1.7/fda/man/CSTR.Rd | 4 fda-5.1.7/fda/man/CanadianWeather.Rd | 6 fda-5.1.7/fda/man/Data2fd.Rd | 2 fda-5.1.7/fda/man/Eigen.Rd | 2 fda-5.1.7/fda/man/ElectricDemand.Rd |only fda-5.1.7/fda/man/StatSciChinese.Rd | 4 fda-5.1.7/fda/man/as.fd.Rd | 2 fda-5.1.7/fda/man/create.basis.Rd | 2 fda-5.1.7/fda/man/create.bspline.basis.Rd | 6 fda-5.1.7/fda/man/df2lambda.Rd | 4 fda-5.1.7/fda/man/exponentiate.fd.Rd | 2 fda-5.1.7/fda/man/fRegress.CV.Rd | 138 ++-- fda-5.1.7/fda/man/fRegress.Rd | 213 +++--- fda-5.1.7/fda/man/fRegress.stderr.Rd | 163 ++--- fda-5.1.7/fda/man/fdlabels.Rd | 2 fda-5.1.7/fda/man/handwrit.Rd | 2 fda-5.1.7/fda/man/infantGrowth.Rd | 2 fda-5.1.7/fda/man/knots.fd.Rd | 2 fda-5.1.7/fda/man/lip.Rd | 4 fda-5.1.7/fda/man/predict.fRegress.Rd | 72 -- fda-5.1.7/fda/man/register.fd.Rd | 2 fda-5.1.7/fda/man/smooth.basis.Rd | 4 fda-5.1.7/fda/man/smooth.pos.Rd | 2 fda-5.1.7/fda/man/zerofind.Rd | 2 48 files changed, 1689 insertions(+), 1733 deletions(-)
Title: Downloads and Organizes Financial Data for Multiple Tickers
Description: Makes it easy to download financial data from Yahoo Finance <https://finance.yahoo.com/>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between BatchGetSymbols versions 2.6 dated 2020-11-22 and 2.6.1 dated 2020-11-28
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ R/BatchGetSymbols.R | 2 +- R/GetFTSE100Stocks.R | 6 ++++-- R/GetSP500Stocks.R | 6 ++++-- R/Get_Ibov_Stocks.R | 6 ++++-- inst/doc/BatchGetSymbols-vignette.html | 14 +++++++------- man/GetFTSE100Stocks.Rd | 5 ++++- man/GetIbovStocks.Rd | 6 +++++- man/GetSP500Stocks.Rd | 5 ++++- 11 files changed, 52 insertions(+), 31 deletions(-)
More information about BatchGetSymbols at CRAN
Permanent link
Title: Multi-Layer Group-Lasso
Description: It implements a new procedure of variable selection in the context of redundancy between explanatory variables, which holds true with high dimensional data (Grimonprez et al. (2018) <https://hal.inria.fr/hal-01857242>).
Author: Quentin Grimonprez [aut, cre],
Samuel Blanck [ctb],
Alain Celisse [ths],
Guillemette Marot [ths],
Yi Yang [ctb],
Hui Zou [ctb]
Maintainer: Quentin Grimonprez <quentingrim@yahoo.fr>
Diff between MLGL versions 0.6.1 dated 2020-01-16 and 0.6.5 dated 2020-11-28
MLGL-0.6.1/MLGL/TODO |only MLGL-0.6.5/MLGL/DESCRIPTION | 20 MLGL-0.6.5/MLGL/MD5 | 101 ++-- MLGL-0.6.5/MLGL/NEWS | 14 MLGL-0.6.5/MLGL/R/HMT.R | 132 +++--- MLGL-0.6.5/MLGL/R/MLGL-package.R | 41 - MLGL-0.6.5/MLGL/R/MLGL.R | 537 +++++++++++++------------ MLGL-0.6.5/MLGL/R/cv.MLGL.R | 141 +++--- MLGL-0.6.5/MLGL/R/fullProcess.R | 171 ++++--- MLGL-0.6.5/MLGL/R/hierarchicalFDR.R | 290 ++++++------- MLGL-0.6.5/MLGL/R/hierarchicalFWER.R | 556 +++++++++++++------------- MLGL-0.6.5/MLGL/R/hierarchicalTestClassical.R | 89 +--- MLGL-0.6.5/MLGL/R/overlap.R | 224 +++++----- MLGL-0.6.5/MLGL/R/plot.R | 277 ++++++------ MLGL-0.6.5/MLGL/R/predict.R | 147 +++--- MLGL-0.6.5/MLGL/R/print.R | 130 ++---- MLGL-0.6.5/MLGL/R/simuBlockGaussian.R | 80 ++- MLGL-0.6.5/MLGL/R/stability.R | 257 ++++++------ MLGL-0.6.5/MLGL/R/testFunction.R | 181 ++++---- MLGL-0.6.5/MLGL/R/trash.R | 54 +- MLGL-0.6.5/MLGL/R/treeFunction.R | 309 ++++++-------- MLGL-0.6.5/MLGL/R/uniqueGroupHclust.R | 76 +-- MLGL-0.6.5/MLGL/R/utilities.R | 45 -- MLGL-0.6.5/MLGL/man/Ftest.Rd | 8 MLGL-0.6.5/MLGL/man/HMT.Rd | 15 MLGL-0.6.5/MLGL/man/MLGL-package.Rd | 11 MLGL-0.6.5/MLGL/man/MLGL.Rd | 13 MLGL-0.6.5/MLGL/man/bootstrapHclust.Rd | 1 MLGL-0.6.5/MLGL/man/computeGroupSizeWeight.Rd | 5 MLGL-0.6.5/MLGL/man/cv.MLGL.Rd | 9 MLGL-0.6.5/MLGL/man/fullProcess.Rd | 22 - MLGL-0.6.5/MLGL/man/hierarchicalFDR.Rd | 22 - MLGL-0.6.5/MLGL/man/hierarchicalFWER.Rd | 34 - MLGL-0.6.5/MLGL/man/listToMatrix.Rd | 11 MLGL-0.6.5/MLGL/man/overlapgglasso.Rd | 18 MLGL-0.6.5/MLGL/man/partialFtest.Rd | 8 MLGL-0.6.5/MLGL/man/plot.HMT.Rd | 6 MLGL-0.6.5/MLGL/man/plot.MLGL.Rd | 6 MLGL-0.6.5/MLGL/man/plot.cv.MLGL.Rd | 8 MLGL-0.6.5/MLGL/man/plot.fullProcess.Rd | 6 MLGL-0.6.5/MLGL/man/plot.stability.MLGL.Rd | 4 MLGL-0.6.5/MLGL/man/print.HMT.Rd | 3 MLGL-0.6.5/MLGL/man/print.MLGL.Rd | 5 MLGL-0.6.5/MLGL/man/print.fullProcess.Rd | 3 MLGL-0.6.5/MLGL/man/selFDR.Rd | 22 - MLGL-0.6.5/MLGL/man/selFWER.Rd | 16 MLGL-0.6.5/MLGL/man/simuBlockGaussian.Rd | 8 MLGL-0.6.5/MLGL/man/stability.MLGL.Rd | 10 MLGL-0.6.5/MLGL/man/summary.HMT.Rd | 3 MLGL-0.6.5/MLGL/man/summary.MLGL.Rd | 5 MLGL-0.6.5/MLGL/man/summary.fullProcess.Rd | 3 MLGL-0.6.5/MLGL/man/uniqueGroupHclust.Rd | 12 52 files changed, 2107 insertions(+), 2062 deletions(-)
Title: Power Analysis and Sample Size Calculation
Description: Power analysis and sample size calculation for Welch and Hsu (Hedderich and Sachs (2018), ISBN:978-3-662-56657-2) t-tests including Monte-Carlo simulations of empirical power and type-I-error. Power and sample size calculation for Wilcoxon rank sum and signed rank tests via Monte-Carlo simulations. Power and sample size required for the evaluation of a diagnostic test(-system) (Flahault et al. (2005), <doi:10.1016/j.jclinepi.2004.12.009>; Dobbin and Simon (2007), <doi:10.1093/biostatistics/kxj036>) as well as for a single proportion (Fleiss et al. (2003), ISBN:978-0-471-52629-2; Piegorsch (2004), <doi:10.1016/j.csda.2003.10.002>; Thulin (2014), <doi:10.1214/14-ejs909>) and comparing two negative binomial rates (Zhu and Lakkis (2014), <doi:10.1002/sim.5947>).
Author: Matthias Kohl [aut, cre] (<https://orcid.org/0000-0001-9514-8910>)
Maintainer: Matthias Kohl <Matthias.Kohl@stamats.de>
Diff between MKpower versions 0.4 dated 2020-02-02 and 0.5 dated 2020-11-28
DESCRIPTION | 10 ++-- MD5 | 16 +++---- NEWS | 11 ++++- R/ssizePropCI.R | 14 ++++++ build/vignette.rds |binary inst/doc/MKpower.html | 97 ++++++++++++++++++++++++++---------------------- man/0MKpower-package.Rd | 9 ++-- man/ssize.pcc.Rd | 2 man/ssize.propCI.Rd | 16 +++++++ 9 files changed, 111 insertions(+), 64 deletions(-)
Title: Outlier Detection Tools for Functional Data Analysis
Description: A collection of functions for outlier detection in functional data analysis. Methods implemented include directional outlyingness, MS-plot, total variation depth, and sequential transformations among others.
Author: Oluwasegun Taiwo Ojo [aut, cre, cph]
(<https://orcid.org/0000-0001-9629-6990>),
Rosa Elvira Lillo [aut],
Antonio Fernandez Anta [aut, fnd]
Maintainer: Oluwasegun Taiwo Ojo <seguntaiwoojo@gmail.com>
Diff between fdaoutlier versions 0.1.0 dated 2020-11-26 and 0.1.1 dated 2020-11-28
DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- R/sequential_transformations.R | 2 +- man/seq_transform.Rd | 2 +- src/jumpstart.h | 1 + 5 files changed, 13 insertions(+), 11 deletions(-)
Title: Geographically Weighted Partial Correlation Coefficient
Description: Implements a geographically weighted partial correlation which is an extension from gwss() function in the 'GWmodel' package (Percival and Tsutsumida (2017) <doi:10.1553/giscience2017_01_s36>).
Author: Narumasa Tsutsumida [aut, cre]
(<https://orcid.org/0000-0002-6333-0301>),
Joseph Percival [aut]
Maintainer: Narumasa Tsutsumida <rsnaru.jp@gmail.com>
Diff between GWpcor versions 0.1.4 dated 2020-11-14 and 0.1.5 dated 2020-11-28
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/gwpcor.R | 4 ++++ 3 files changed, 9 insertions(+), 5 deletions(-)
Title: Various R Programming Tools for Plotting Data
Description: Various R programming tools for plotting data, including:
- calculating and plotting locally smoothed summary function as
('bandplot', 'wapply'),
- enhanced versions of standard plots ('barplot2', 'boxplot2',
'heatmap.2', 'smartlegend'),
- manipulating colors ('col2hex', 'colorpanel', 'redgreen',
'greenred', 'bluered', 'redblue', 'rich.colors'),
- calculating and plotting two-dimensional data summaries ('ci2d',
'hist2d'),
- enhanced regression diagnostic plots ('lmplot2', 'residplot'),
- formula-enabled interface to 'stats::lowess' function ('lowess'),
- displaying textual data in plots ('textplot', 'sinkplot'),
- plotting a matrix where each cell contains a dot whose size
reflects the relative magnitude of the elements ('balloonplot'),
- plotting "Venn" diagrams ('venn'),
- displaying Open-Office style plots ('ooplot'),
- plotting multiple data on same region, with separate axes
('overplot'),
- plotting means and confidence intervals ('plotCI', 'plotmeans'),
- spacing points in an x-y plot so they don't overlap ('space').
Author: Gregory R. Warnes [aut],
Ben Bolker [aut],
Lodewijk Bonebakker [aut],
Robert Gentleman [aut],
Wolfgang Huber [aut],
Andy Liaw [aut],
Thomas Lumley [aut],
Martin Maechler [aut],
Arni Magnusson [aut],
Steffen Moeller [aut],
Marc Schwartz [aut],
Bill Venables [aut],
Tal Galili [ctb, cre]
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between gplots versions 3.1.0 dated 2020-09-18 and 3.1.1 dated 2020-11-28
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 8 ++++++++ inst/doc/venn.pdf |binary man/plotmeans.Rd | 3 ++- 5 files changed, 18 insertions(+), 9 deletions(-)
Title: Fit, Predict and Plot 2D Gaussians
Description: Functions to fit two-dimensional Gaussian functions, predict values from
fits, and produce plots of predicted data via either 'ggplot2' or base R
plotting.
Author: Vikram B. Baliga [aut, cre, cph]
(<https://orcid.org/0000-0002-9367-8974>)
Maintainer: Vikram B. Baliga <vbaliga87@gmail.com>
Diff between gaussplotR versions 0.1.6 dated 2020-11-03 and 0.2.0 dated 2020-11-28
gaussplotR-0.1.6/gaussplotR/man/compute_gaussian_volume.Rd |only gaussplotR-0.2.0/gaussplotR/DESCRIPTION | 13 - gaussplotR-0.2.0/gaussplotR/MD5 | 28 +- gaussplotR-0.2.0/gaussplotR/NAMESPACE | 3 gaussplotR-0.2.0/gaussplotR/NEWS.md | 9 gaussplotR-0.2.0/gaussplotR/R/compute_gaussian_volume.R | 82 +++--- gaussplotR-0.2.0/gaussplotR/R/fit_gaussian_2D.R |only gaussplotR-0.2.0/gaussplotR/R/ggplot_gaussian_2D.R | 2 gaussplotR-0.2.0/gaussplotR/R/predict_gaussian_2D.R | 136 +++++++---- gaussplotR-0.2.0/gaussplotR/README.md | 86 +++++- gaussplotR-0.2.0/gaussplotR/man/figures/README-example-1.png |binary gaussplotR-0.2.0/gaussplotR/man/figures/README-example-2.png |binary gaussplotR-0.2.0/gaussplotR/man/figures/README-example-3.png |only gaussplotR-0.2.0/gaussplotR/man/figures/logo.png |only gaussplotR-0.2.0/gaussplotR/man/fit_gaussian_2D.Rd |only gaussplotR-0.2.0/gaussplotR/man/get_volume_gaussian_2D.Rd |only gaussplotR-0.2.0/gaussplotR/man/ggplot_gaussian_2D.Rd | 46 +++ gaussplotR-0.2.0/gaussplotR/man/predict_gaussian_2D.Rd | 66 +++-- 18 files changed, 313 insertions(+), 158 deletions(-)
Title: Global Sensitivity Analysis of Model Outputs
Description: A collection of functions for factor screening, global sensitivity analysis and robustness analysis. Most of the functions have to be applied on model with scalar output, but several functions support multi-dimensional outputs.
Author: Bertrand Iooss, Sebastien Da Veiga, Alexandre Janon and Gilles Pujol, with contributions from Baptiste Broto, Khalid Boumhaout, Thibault Delage, Reda El Amri, Jana Fruth, Laurent Gilquin, Joseph Guillaume, Loic Le Gratiet, Paul Lemaitre, Amandine Marrel, Anouar Meynaoui, Barry L. Nelson, Filippo Monari, Roelof Oomen, Oldrich Rakovec, Bernardo Ramos, Olivier Roustant, Eunhye Song, Jeremy Staum, Roman Sueur, Taieb Touati, Frank Weber
Maintainer: Bertrand Iooss <biooss@yahoo.fr>
Diff between sensitivity versions 1.22.2 dated 2020-10-25 and 1.23.0 dated 2020-11-28
DESCRIPTION | 6 MD5 | 26 NAMESPACE | 6 NEWS | 15 R/PLIsuperquantile.r | 4 R/bootstats.R | 5 R/qosa.R |only R/sensiHSIC.R | 2481 ++++++++++++++++++++++----------------------- R/sobolshap_knn.R | 25 man/PLIsuperquantile.Rd | 9 man/qosa.Rd |only man/sensiHSIC.Rd | 70 - man/sensitivity-package.Rd | 3 man/sobolrank.Rd | 14 man/sobolshap_knn.Rd | 392 +++---- 15 files changed, 1541 insertions(+), 1515 deletions(-)
Title: Statistical Analysis and Data Display: Heiberger and Holland
Description: Support software for Statistical Analysis and Data Display (Second Edition, Springer, ISBN 978-1-4939-2121-8, 2015) and (First Edition, Springer, ISBN 0-387-40270-5, 2004) by Richard M. Heiberger and Burt Holland. This contemporary presentation of statistical methods features extensive use of graphical displays for exploring data and for displaying the analysis. The second edition includes redesigned graphics and additional chapters. The authors emphasize how to construct and interpret graphs, discuss principles of graphical design, and show how accompanying traditional tabular results are used to confirm the visual impressions derived directly from the graphs. Many of the graphical formats are novel and appear here for the first time in print. All chapters have exercises. All functions introduced in the book are in the package. R code for all examples, both graphs and tables, in the book is included in the scripts directory of the package.
Author: Richard M. Heiberger
Maintainer: Richard M. Heiberger <rmh@temple.edu>
Diff between HH versions 3.1-42 dated 2020-09-07 and 3.1-43 dated 2020-11-28
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 14 ++++++++++++++ build/partial.rdb |binary man/interaction2wt.Rd | 5 +++-- 5 files changed, 25 insertions(+), 10 deletions(-)