Title: Moment Condition Based Estimation of Linear Dynamic Panel Data
Models
Description: Linear dynamic panel data modeling based on linear and
nonlinear moment conditions as proposed by
Holtz-Eakin, Newey, and Rosen (1988) <doi:10.2307/1913103>,
Ahn and Schmidt (1995) <doi:10.1016/0304-4076(94)01641-C>,
and Arellano and Bover (1995) <doi:10.1016/0304-4076(94)01642-D>.
Estimation of the model parameters relies on numerical optimization
and the computation of closed form solutions. For inference and specification
testing, Windmeijer (2005) <doi:10.1016/j.jeconom.2004.02.005>
corrected standard errors, serial correlation tests, tests for overidentification,
and Wald tests are available.
Author: Markus Fritsch [aut, cre],
Joachim Schnurbus [aut],
Andrew Adrian Yu Pua [aut]
Maintainer: Markus Fritsch <Markus.Fritsch@uni-Passau.de>
Diff between pdynmc versions 0.9.1 dated 2020-07-26 and 0.9.2 dated 2020-09-16
DESCRIPTION | 8 - MD5 | 20 ++-- NEWS.md | 16 +++ R/pdynmc_estFct.R | 26 ++++- R/pdynmc_fitMethods.R | 2 R/pdynmc_instMatFcts.R | 25 +++-- build/partial.rdb |binary inst/REFERENCES.bib | 186 ++++++++++++++++++++-------------------- inst/doc/pdynmc.pdf |binary inst/tests/checkBCapplication.R | 35 ++++--- man/pdynmc.Rd | 5 + 11 files changed, 186 insertions(+), 137 deletions(-)
Title: Validation of Arguments and Objects in User-Defined Functions
Description: Utility functions that implement and automate common sets of validation tasks.
These functions are particularly useful to validate inputs, intermediate objects and output
values in user-defined functions, resulting in tidier and less verbose functions.
Author: Pedro Fonseca [aut, cre] (<https://orcid.org/0000-0002-5708-081X>),
FCT [fnd]
Maintainer: Pedro Fonseca <pedro.teles.fonseca@phd.iseg.ulisboa.pt>
Diff between inspector versions 1.0.0 dated 2020-09-09 and 1.0.1 dated 2020-09-16
DESCRIPTION | 9 +++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + NEWS.md | 6 +++++- R/inspector.R | 1 + R/internal.R | 5 +++-- README.md | 8 +++++--- inst/CITATION | 4 ++-- 8 files changed, 29 insertions(+), 19 deletions(-)
Title: Advanced Tables for Markdown/HTML
Description: Tables with state-of-the-art layout elements such as row spanners,
column spanners, table spanners, zebra striping, and more. While allowing
advanced layout, the underlying css-structure is simple in order to maximize
compatibility with word processors such as 'MS Word' or 'LibreOffice'. The package
also contains a few text formatting functions that help outputting text
compatible with HTML/LaTeX.
Author: Max Gordon [aut, cre],
Stephen Gragg [aut],
Peter Konings [aut]
Maintainer: Max Gordon <max@gforge.se>
Diff between htmlTable versions 2.0.1 dated 2020-07-05 and 2.1.0 dated 2020-09-16
DESCRIPTION | 9 MD5 | 92 NAMESPACE | 2 NEWS.md | 6 R/data-SCB.R | 4 R/htmlTable.R | 51 R/htmlTable_helpers_getAlign.R | 55 R/htmlTable_helpers_prepInputMatrixDimensions.R | 2 R/htmlTable_helpers_skipRownames.R | 2 R/htmlTable_render_addCells.R | 66 R/htmlTable_render_getCgroupHeader.R | 62 R/htmlTable_render_getRgroupLine.R | 3 R/htmlTable_render_getThead.R | 80 R/htmlTable_render_prAddEmptySpacerCell.R |only R/htmlTable_style_handlers.R | 81 R/htmlTable_theme.R | 34 README.md | 2 inst/doc/complex_tables.R | 8 inst/doc/complex_tables.Rmd | 14 inst/doc/complex_tables.html | 7694 +++++++++++++----------- inst/doc/general.R | 4 inst/doc/general.Rmd | 6 inst/doc/general.html | 2718 ++++---- inst/doc/tidyHtmlTable.html | 732 +- man/SCB.Rd | 4 man/addStyles.Rd | 37 man/getHtmlTableStyle.Rd |only man/hasHtmlTableStyle.Rd | 14 man/htmlTable.Rd | 11 man/prAddCells.Rd | 4 man/prAddEmptySpacerCell.Rd |only man/prAddSemicolon2StrEnd.Rd | 1 man/prEscapeHtml.Rd | 1 man/prGetAlign.Rd | 11 man/prGetCgroupHeader.Rd | 1 man/prGetRowlabelPos.Rd | 1 man/prGetStyle.Rd | 1 man/prPrepInputMatrixDimensions.Rd | 1 man/prPrepareAlign.Rd | 1 man/prPrepareCgroup.Rd | 1 man/prTblNo.Rd | 1 man/setHtmlTableTheme.Rd | 27 tests/testthat/htmlTable_addHtmlTableStyle.R |only tests/testthat/test-htmlTable.R | 15 tests/testthat/test-htmlTable_cgroup.R | 6 tests/visual_tests/htmlTable_vtests.R | 140 vignettes/complex_tables.Rmd | 14 vignettes/custom.css | 3 vignettes/general.Rmd | 6 49 files changed, 6562 insertions(+), 5466 deletions(-)
Title: Fast Creation of Dummy (Binary) Columns and Rows from
Categorical Variables
Description: Creates dummy columns from columns that have categorical variables (character or factor types). You can also specify which columns to make dummies out of, or which columns to ignore. Also creates dummy rows from character, factor, and Date columns. This package provides a significant speed increase from creating dummy variables through model.matrix().
Author: Jacob Kaplan [aut, cre] (<https://orcid.org/0000-0002-0601-0387>),
Benjamin Schlegel [ctb]
Maintainer: Jacob Kaplan <jkkaplan6@gmail.com>
Diff between fastDummies versions 1.6.1 dated 2020-03-07 and 1.6.2 dated 2020-09-16
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NAMESPACE | 2 +- NEWS.md | 4 ++++ R/dummy_cols.R | 5 ++++- build/vignette.rds |binary inst/doc/making-dummy-rows.html | 20 ++++++++++++++++++-- inst/doc/making-dummy-variables.html | 20 ++++++++++++++++++-- tests/testthat/test-columns-value-order.R | 11 +++++++++++ 9 files changed, 69 insertions(+), 19 deletions(-)
Title: Test Coverage for Packages
Description: Track and report code coverage for your package and (optionally)
upload the results to a coverage service like 'Codecov' <https://codecov.io> or
'Coveralls' <https://coveralls.io>. Code coverage is a measure of the amount of
code being exercised by a set of tests. It is an indirect measure of test
quality and completeness. This package is compatible with any testing
methodology or framework and tracks coverage of both R code and compiled
C/C++/FORTRAN code.
Author: Jim Hester [aut, cre],
Willem Ligtenberg [ctb],
Kirill Müller [ctb],
Henrik Bengtsson [ctb],
Steve Peak [ctb],
Kirill Sevastyanenko [ctb],
Jon Clayden [ctb],
Robert Flight [ctb],
Eric Brown [ctb],
Brodie Gaslam [ctb],
Will Beasley [ctb],
Robert Krzyzanowski [ctb],
Markus Wamser [ctb],
Karl Forner [ctb],
Gergely Daróczi [ctb],
Jouni Helske [ctb],
Kun Ren [ctb],
Jeroen Ooms [ctb],
Ken Williams [ctb],
Chris Campbell [ctb],
David Hugh-Jones [ctb],
Qin Wang [ctb],
Ivan Sagalaev [ctb, cph] (highlight.js library),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library)
Maintainer: Jim Hester <james.f.hester@gmail.com>
Diff between covr versions 3.5.0 dated 2020-03-06 and 3.5.1 dated 2020-09-16
DESCRIPTION | 14 +++++++------- MD5 | 24 ++++++++++++------------ NEWS.md | 6 ++++++ R/codecov.R | 7 ++++++- R/compiled.R | 10 ++++++---- R/coveralls.R | 2 +- R/covr.R | 23 +++++++++++++++-------- R/zzz.R | 2 ++ build/vignette.rds |binary inst/doc/how_it_works.html | 20 ++++++++++++++++++-- man/covr-package.Rd | 4 ++-- tests/testthat/test-codecov.R | 32 ++++++++++++++++---------------- tests/testthat/test-coveralls.R | 8 ++++---- 13 files changed, 95 insertions(+), 57 deletions(-)
Title: One-Step Estimation
Description: Provide principally an eponymic function that numerically computes the Le Cam one-step estimator which is asymptotically efficient (see e.g. L. Le Cam (1956) <https://projecteuclid.org/euclid.bsmsp/1200501652>) and can be computed faster than the maximum likelihood estimator for large observation samples.
Author: Alexandre Brouste, Darel Noutsa Mieniedou, Christophe Dutang
Maintainer: Christophe Dutang <christophe.dutang@ensimag.fr>
Diff between OneStep versions 0.9.0 dated 2020-07-13 and 0.9.1 dated 2020-09-16
DESCRIPTION | 10 +++++----- MD5 | 14 ++++++++------ R/onestep-closedform.R | 2 +- build/partial.rdb |binary inst |only man/OneStep-package.Rd | 3 +-- man/benchonestep.Rd | 2 +- man/onestep.Rd | 4 ++-- 8 files changed, 18 insertions(+), 17 deletions(-)
Title: Functions to Analyze Single System Data
Description: Functions to visually and statistically analyze single system data.
Author: Charles Auerbach [aut, cre],
Wendy Zeitlin [aut]
Maintainer: Charles Auerbach <auerbach@yu.edu>
Diff between SSDforR versions 1.5.17 dated 2020-06-26 and 1.5.18 dated 2020-09-16
DESCRIPTION | 10 +- MD5 | 180 +++++++++++++++++++++++++------------------------- R/metareg.R | 2 man/ABWilcox.Rd | 5 + man/ABanova.Rd | 8 +- man/ABarrow.Rd | 5 + man/ABautoacf.Rd | 5 + man/ABautopacf.Rd | 5 + man/ABbinomial.Rd | 5 + man/ABdescrip.Rd | 5 + man/ABiqr.Rd | 5 + man/ABlineD.Rd | 5 + man/ABlines.Rd | 5 + man/ABma.Rd | 5 + man/ABplot.Rd | 5 + man/ABplotm.Rd | 5 + man/ABregres.Rd | 5 + man/ABrf2.Rd | 5 + man/ABrobust.Rd | 5 + man/ABstat.Rd | 5 + man/ABtext.Rd | 5 + man/ABtsplot.Rd | 5 + man/ABttest.Rd | 5 + man/Aregres.Rd | 5 + man/Arimadiff.Rd | 5 + man/Arobust.Rd | 5 + man/Cchart.Rd | 5 + man/Effectsize.Rd | 5 + man/GABrf2.Rd | 5 + man/GABttest.Rd | 5 + man/Getcsv.Rd | 5 + man/Gindex.Rd | 5 + man/Gline.Rd | 5 + man/Gmedian.Rd | 5 + man/IQRbandgraph.Rd | 5 + man/IQRlegend.Rd | 5 + man/IQRline.Rd | 5 + man/IRDabove.Rd | 5 + man/IRDbelow.Rd | 5 + man/NAPabove.Rd | 5 + man/NAPbelow.Rd | 5 + man/PANDlegend.Rd | 5 + man/PEMabove.Rd | 5 + man/PEMbelow.Rd | 5 + man/PNDbelow.Rd | 5 + man/PNDlegend.Rd | 5 + man/Pchart.Rd | 5 + man/RMGline.Rd | 5 + man/RMarrow.Rd | 5 + man/RMlines.Rd | 5 + man/RMstat.Rd | 5 + man/RMtext.Rd | 6 + man/Rchart.Rd | 5 + man/Rchartsd.Rd | 5 + man/SD1.Rd | 5 + man/SD1legend.Rd | 5 + man/SD2.Rd | 5 + man/SD2legend.Rd | 5 + man/SDAband.Rd | 5 + man/SN.Rd | 5 + man/SPClegend.Rd | 5 + man/SPCline.Rd | 5 + man/SSDforR.Rd | 5 + man/Savecsv.Rd | 5 + man/Trimline.Rd | 5 + man/XRchart.Rd | 5 + man/Xmrchart.Rd | 5 + man/cdcabove.rd | 5 + man/cdcbelow.rd | 5 + man/diffchart.Rd | 5 + man/insert.rd | 5 + man/listnames.rd | 5 + man/meanES.Rd | 5 + man/meanNAP.Rd | 5 + man/meanabove.rd | 5 + man/meanbelow.rd | 5 + man/medabove.rd | 5 + man/medbelow.rd | 5 + man/pemlegend.rd | 5 + man/plotnum.Rd | 5 + man/pndabove.rd | 5 + man/regabove.Rd | 5 + man/regbelow.Rd | 5 + man/robregabove.Rd | 5 + man/robregbelow.Rd | 5 + man/robustCDCabove.Rd | 5 + man/robustCDCbelow.Rd | 5 + man/sd1bandgraph.rd | 5 + man/sd2bandgraph.rd | 5 + man/trimabove.Rd | 5 + man/trimbelow.Rd | 5 + 91 files changed, 449 insertions(+), 187 deletions(-)
Title: Exploring and Testing the Toolchain and System Libraries
Description: A collection of helper functions that interface with the appropriate
system utilities to learn about the build environment. Lets you explore 'make'
rules to test the local configuration, or query 'pkg-config' to find compiler
flags and libs needed for building packages with external dependencies. Also
contains tools to analyze which libraries that a installed R package linked to
by inspecting output from 'ldd' in combination with information from your
distribution package manager, e.g. 'rpm' or 'dpkg'. Finally the package provides
Windows-specific utilities to automatically find or install the suitable version
of the 'Rtools' build environment, and diagnose some common problems.
Author: Jeroen Ooms [aut, cre, cph] (<https://orcid.org/0000-0002-4035-0289>)
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between maketools versions 1.1.0 dated 2020-09-08 and 1.2.0 dated 2020-09-16
DESCRIPTION | 9 +++++---- MD5 | 9 +++++++-- build |only inst/doc |only tests/testthat/test-sysdeps.R | 2 +- vignettes |only 6 files changed, 13 insertions(+), 7 deletions(-)
Title: Structure for Organizing Monte Carlo Simulation Designs
Description: Provides tools to help safely and efficiently organize Monte Carlo simulations in R.
The package controls the structure and back-end of Monte Carlo simulations
by utilizing a general generate-analyse-summarise strategy. The functions provided control
common simulation issues such as re-simulating non-convergent results, support parallel
back-end and MPI distributed computations, save and restore temporary files,
aggregate results across independent nodes, and provide native support for debugging.
For a pedagogical introduction to the package refer to
Sigal and Chalmers (2016) <doi:10.1080/10691898.2016.1246953>, and for an in-depth overview of
the package and its design philosophy see Chalmers and Adkins (2020) <doi:10.20982/tqmp.16.4.p248>.
Author: Phil Chalmers [aut, cre] (<https://orcid.org/0000-0001-5332-2810>),
Matthew Sigal [ctb],
Ogreden Oguzhan [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between SimDesign versions 2.0.1 dated 2020-01-20 and 2.1 dated 2020-09-16
SimDesign-2.0.1/SimDesign/man/SimBoot.Rd |only SimDesign-2.1/SimDesign/DESCRIPTION | 13 SimDesign-2.1/SimDesign/MD5 | 185 SimDesign-2.1/SimDesign/NAMESPACE | 109 SimDesign-2.1/SimDesign/R/Attach.R | 165 SimDesign-2.1/SimDesign/R/Design.R | 273 - SimDesign-2.1/SimDesign/R/Serlin2000.R | 167 SimDesign-2.1/SimDesign/R/SimAnova.R | 245 SimDesign-2.1/SimDesign/R/SimBoot.R | 156 SimDesign-2.1/SimDesign/R/SimClean.R | 170 SimDesign-2.1/SimDesign/R/SimDesign.R | 195 SimDesign-2.1/SimDesign/R/SimExtract.R | 227 SimDesign-2.1/SimDesign/R/SimFunctions.R | 303 - SimDesign-2.1/SimDesign/R/SimResults.R | 167 SimDesign-2.1/SimDesign/R/SimShiny.R | 353 - SimDesign-2.1/SimDesign/R/add_missing.R | 213 SimDesign-2.1/SimDesign/R/aggregate_simulations.R | 233 SimDesign-2.1/SimDesign/R/analysis.R | 317 - SimDesign-2.1/SimDesign/R/boot_predict.R | 265 - SimDesign-2.1/SimDesign/R/functions.R | 738 +-- SimDesign-2.1/SimDesign/R/rbind.SimDesign.R | 215 SimDesign-2.1/SimDesign/R/reSummarise.R | 244 SimDesign-2.1/SimDesign/R/rejectionSampling.R | 363 - SimDesign-2.1/SimDesign/R/rgenerate.R | 1895 +++---- SimDesign-2.1/SimDesign/R/rtruncate.R | 197 SimDesign-2.1/SimDesign/R/runSimulation.R | 2199 ++++---- SimDesign-2.1/SimDesign/R/summary_functions.R | 1883 ++++--- SimDesign-2.1/SimDesign/R/util.R | 237 SimDesign-2.1/SimDesign/R/zzz.R | 8 SimDesign-2.1/SimDesign/build/partial.rdb |binary SimDesign-2.1/SimDesign/build/vignette.rds |binary SimDesign-2.1/SimDesign/inst/CITATION |only SimDesign-2.1/SimDesign/inst/doc/Catch_errors.R | 144 SimDesign-2.1/SimDesign/inst/doc/Catch_errors.Rmd | 270 - SimDesign-2.1/SimDesign/inst/doc/Catch_errors.html | 3435 ++++++-------- SimDesign-2.1/SimDesign/inst/doc/Fixed_obj_fun.R | 172 SimDesign-2.1/SimDesign/inst/doc/Fixed_obj_fun.Rmd | 282 - SimDesign-2.1/SimDesign/inst/doc/Fixed_obj_fun.html | 3385 ++++++------- SimDesign-2.1/SimDesign/inst/doc/Parallel-computing.R | 94 SimDesign-2.1/SimDesign/inst/doc/Parallel-computing.Rmd | 304 - SimDesign-2.1/SimDesign/inst/doc/Parallel-computing.html | 3323 ++++++------- SimDesign-2.1/SimDesign/inst/doc/Saving-results.R | 219 SimDesign-2.1/SimDesign/inst/doc/Saving-results.Rmd | 385 - SimDesign-2.1/SimDesign/inst/doc/Saving-results.html | 3675 +++++++------- SimDesign-2.1/SimDesign/inst/doc/SimDesign-intro.R | 192 SimDesign-2.1/SimDesign/inst/doc/SimDesign-intro.Rmd | 552 +- SimDesign-2.1/SimDesign/inst/doc/SimDesign-intro.html | 3679 +++++++-------- SimDesign-2.1/SimDesign/man/Analyse.Rd | 154 SimDesign-2.1/SimDesign/man/Attach.Rd | 156 SimDesign-2.1/SimDesign/man/BF_sim.Rd | 75 SimDesign-2.1/SimDesign/man/BF_sim_alternative.Rd | 74 SimDesign-2.1/SimDesign/man/CC.Rd |only SimDesign-2.1/SimDesign/man/ECR.Rd | 208 SimDesign-2.1/SimDesign/man/EDR.Rd | 104 SimDesign-2.1/SimDesign/man/Generate.Rd | 190 SimDesign-2.1/SimDesign/man/IRMSE.Rd | 186 SimDesign-2.1/SimDesign/man/MAE.Rd | 150 SimDesign-2.1/SimDesign/man/MSRSE.Rd | 172 SimDesign-2.1/SimDesign/man/RAB.Rd | 96 SimDesign-2.1/SimDesign/man/RD.Rd | 118 SimDesign-2.1/SimDesign/man/RE.Rd | 110 SimDesign-2.1/SimDesign/man/RMSE.Rd | 214 SimDesign-2.1/SimDesign/man/Serlin2000.Rd | 120 SimDesign-2.1/SimDesign/man/SimAnova.Rd | 108 SimDesign-2.1/SimDesign/man/SimClean.Rd | 144 SimDesign-2.1/SimDesign/man/SimDesign.Rd | 67 SimDesign-2.1/SimDesign/man/SimExtract.Rd | 146 SimDesign-2.1/SimDesign/man/SimFunctions.Rd | 156 SimDesign-2.1/SimDesign/man/SimResults.Rd | 140 SimDesign-2.1/SimDesign/man/SimShiny.Rd | 194 SimDesign-2.1/SimDesign/man/Summarise.Rd | 112 SimDesign-2.1/SimDesign/man/add_missing.Rd | 210 SimDesign-2.1/SimDesign/man/aggregate_simulations.Rd | 132 SimDesign-2.1/SimDesign/man/bias.Rd | 218 SimDesign-2.1/SimDesign/man/boot_predict.Rd | 241 SimDesign-2.1/SimDesign/man/createDesign.Rd | 166 SimDesign-2.1/SimDesign/man/quiet.Rd | 96 SimDesign-2.1/SimDesign/man/rHeadrick.Rd | 195 SimDesign-2.1/SimDesign/man/rValeMaurelli.Rd | 136 SimDesign-2.1/SimDesign/man/rbind.SimDesign.Rd | 172 SimDesign-2.1/SimDesign/man/reSummarise.Rd | 201 SimDesign-2.1/SimDesign/man/rejectionSampling.Rd | 296 - SimDesign-2.1/SimDesign/man/rint.Rd | 114 SimDesign-2.1/SimDesign/man/rinvWishart.Rd | 98 SimDesign-2.1/SimDesign/man/rmgh.Rd | 118 SimDesign-2.1/SimDesign/man/rmvnorm.Rd | 94 SimDesign-2.1/SimDesign/man/rmvt.Rd | 106 SimDesign-2.1/SimDesign/man/rtruncate.Rd | 168 SimDesign-2.1/SimDesign/man/runSimulation.Rd | 1455 +++-- SimDesign-2.1/SimDesign/tests/tests/test-SimDesign.R | 1082 ++-- SimDesign-2.1/SimDesign/vignettes/Catch_errors.Rmd | 270 - SimDesign-2.1/SimDesign/vignettes/Fixed_obj_fun.Rmd | 282 - SimDesign-2.1/SimDesign/vignettes/Parallel-computing.Rmd | 304 - SimDesign-2.1/SimDesign/vignettes/Saving-results.Rmd | 385 - SimDesign-2.1/SimDesign/vignettes/SimDesign-intro.Rmd | 552 +- 95 files changed, 21284 insertions(+), 20847 deletions(-)
Title: Epistemic Network Analysis
Description: ENA (Shaffer, D. W. (2017) Quantitative Ethnography. ISBN: 0578191687) is a method used to identify meaningful and quantifiable patterns in discourse or reasoning. ENA moves beyond the traditional frequency-based assessments by examining the structure of the co-occurrence, or connections in coded data. Moreover, compared to other methodological approaches, ENA has the novelty of (1) modeling whole networks of connections and (2) affording both quantitative and qualitative comparisons between different network models. Shaffer, D.W., Collier, W., & Ruis, A.R. (2016) <https://learning-analytics.info/index.php/JLA/article/view/4329>.
Author: Cody L Marquart [aut, cre] (<https://orcid.org/0000-0002-3387-6792>),
Zachari Swiecki [aut],
Wesley Collier [aut],
Brendan Eagan [aut],
Roman Woodward [aut],
David Williamson Shaffer [aut]
Maintainer: Cody L Marquart <cody.marquart@wisc.edu>
Diff between rENA versions 0.2.0.1 dated 2019-12-17 and 0.2.1.0 dated 2020-09-16
rENA-0.2.0.1/rENA/R/ena.unit.group.R |only rENA-0.2.0.1/rENA/inst/scripts |only rENA-0.2.1.0/rENA/DESCRIPTION | 12 rENA-0.2.1.0/rENA/MD5 | 143 +-- rENA-0.2.1.0/rENA/NAMESPACE | 3 rENA-0.2.1.0/rENA/NEWS.md | 25 rENA-0.2.1.0/rENA/R/ENAdata.R | 128 +-- rENA-0.2.1.0/rENA/R/ENAplot.R | 96 +- rENA-0.2.1.0/rENA/R/ENArotation.set.R | 96 -- rENA-0.2.1.0/rENA/R/ENAset.R | 278 ++---- rENA-0.2.1.0/rENA/R/RcppExports.R | 15 rENA-0.2.1.0/rENA/R/accumulate.data.R | 6 rENA-0.2.1.0/rENA/R/center.projection.R |only rENA-0.2.1.0/rENA/R/ena.conversations.R | 5 rENA-0.2.1.0/rENA/R/ena.group.R | 68 + rENA-0.2.1.0/rENA/R/ena.make.set.R | 253 +++--- rENA-0.2.1.0/rENA/R/ena.plot.group.R | 7 rENA-0.2.1.0/rENA/R/ena.plot.points.R | 8 rENA-0.2.1.0/rENA/R/ena.rotate.by.mean.R | 4 rENA-0.2.1.0/rENA/R/ena.set.R | 16 rENA-0.2.1.0/rENA/R/ena.set.creator.R | 8 rENA-0.2.1.0/rENA/R/ena.writeup.R | 11 rENA-0.2.1.0/rENA/R/lws.positions.sq.R | 1 rENA-0.2.1.0/rENA/R/rENA.R | 1 rENA-0.2.1.0/rENA/R/utils.classes.R | 6 rENA-0.2.1.0/rENA/R/utils.plot.R | 1 rENA-0.2.1.0/rENA/R/zzz.R | 2 rENA-0.2.1.0/rENA/README.md | 14 rENA-0.2.1.0/rENA/build/vignette.rds |binary rENA-0.2.1.0/rENA/inst/CITATION | 2 rENA-0.2.1.0/rENA/inst/_pkgdown.yml | 11 rENA-0.2.1.0/rENA/inst/doc/getting-started.R | 28 rENA-0.2.1.0/rENA/inst/doc/getting-started.html | 421 +++++----- rENA-0.2.1.0/rENA/inst/doc/means-rotation.R | 10 rENA-0.2.1.0/rENA/inst/doc/means-rotation.html | 142 +-- rENA-0.2.1.0/rENA/inst/include/rENA_RcppExports.h | 29 rENA-0.2.1.0/rENA/inst/rmd/methods.rmd | 4 rENA-0.2.1.0/rENA/man/ENARotationSet.Rd | 71 + rENA-0.2.1.0/rENA/man/ENAdata.Rd | 158 +++ rENA-0.2.1.0/rENA/man/ENAplot.Rd | 124 ++ rENA-0.2.1.0/rENA/man/ENAset.Rd | 135 ++- rENA-0.2.1.0/rENA/man/RS.data.Rd | 4 rENA-0.2.1.0/rENA/man/add_points.Rd | 3 rENA-0.2.1.0/rENA/man/as.ena.co.occurrence.Rd |only rENA-0.2.1.0/rENA/man/as_trajectory.Rd | 8 rENA-0.2.1.0/rENA/man/ena.Rd | 30 rENA-0.2.1.0/rENA/man/ena.accumulate.data.Rd | 19 rENA-0.2.1.0/rENA/man/ena.conversations.Rd | 11 rENA-0.2.1.0/rENA/man/ena.group.Rd | 11 rENA-0.2.1.0/rENA/man/ena.make.set.Rd | 16 rENA-0.2.1.0/rENA/man/ena.plot.Rd | 13 rENA-0.2.1.0/rENA/man/ena.plot.group.Rd | 24 rENA-0.2.1.0/rENA/man/ena.plot.network.Rd | 29 rENA-0.2.1.0/rENA/man/ena.plot.points.Rd | 30 rENA-0.2.1.0/rENA/man/ena.plot.trajectory.Rd | 16 rENA-0.2.1.0/rENA/man/ena.plotter.Rd | 16 rENA-0.2.1.0/rENA/man/ena.set.creator.Rd | 19 rENA-0.2.1.0/rENA/man/ena.writeup.Rd | 22 rENA-0.2.1.0/rENA/man/ena_correlation.Rd |only rENA-0.2.1.0/rENA/man/methods_report.Rd | 12 rENA-0.2.1.0/rENA/man/prepare_trajectory_data.Rd | 11 rENA-0.2.1.0/rENA/man/with_trajectory.Rd | 12 rENA-0.2.1.0/rENA/src/RcppExports.cpp | 53 + rENA-0.2.1.0/rENA/src/ena.cpp | 197 ++++ rENA-0.2.1.0/rENA/tests/testthat/test-cohens.R |only rENA-0.2.1.0/rENA/tests/testthat/test-convs.R |only rENA-0.2.1.0/rENA/tests/testthat/test-ena_group.R |only rENA-0.2.1.0/rENA/tests/testthat/test-regular-plots.R |only rENA-0.2.1.0/rENA/tests/testthat/test-rotation_matrix.R | 2 rENA-0.2.1.0/rENA/tests/testthat/test-set_creator.R |only rENA-0.2.1.0/rENA/tests/testthat/test.connection.matrix.R | 3 rENA-0.2.1.0/rENA/tests/testthat/test.ena.accumulate.data.file.R | 90 +- rENA-0.2.1.0/rENA/tests/testthat/test.ena.accumulations.R | 15 rENA-0.2.1.0/rENA/tests/testthat/test.ena.get.conversation.R | 26 rENA-0.2.1.0/rENA/tests/testthat/test.ena.make.set.R | 102 +- rENA-0.2.1.0/rENA/tests/testthat/test.ena.make.set.old.R | 189 ++++ rENA-0.2.1.0/rENA/tests/testthat/test.utils.R | 38 77 files changed, 2174 insertions(+), 1189 deletions(-)
Title: Co-Tucker3 Analysis of Two Sequences of Matrices
Description: Provides a function called COTUCKER3() (Co-Inertia Analysis
+ Tucker3 method) which performs a Co-Tucker3 analysis of two sequences of
matrices, as well as other functions called PCA() (Principal Component Analysis)
and BGA() (Between-Groups Analysis), which perform analysis of one matrix,
COIA() (Co-Inertia Analysis), which performs analysis of two matrices, PTA()
(Partial Triadic Analysis), STATIS(), STATISDUAL() and TUCKER3(), which perform analysis of a sequence
of matrices, and BGCOIA() (Between-Groups Co-Inertia Analysis), STATICO()
(STATIS method + Co-Inertia Analysis), COSTATIS() (Co-Inertia Analysis + STATIS
method), which also perform analysis of two sequences of matrices.
Author: Miguel Rodriguez-Rosa <miguel_rosa90@usal.es> [aut, cre]
Maintainer: Miguel Rodriguez-Rosa <miguel_rosa90@usal.es>
Diff between KTensorGraphs versions 1.0 dated 2020-07-30 and 1.1 dated 2020-09-16
DESCRIPTION | 8 ++++---- MD5 | 3 ++- R |only 3 files changed, 6 insertions(+), 5 deletions(-)
Title: Tools and Data for the International Soil Radiocarbon Database
Description: This is the central location for data and tools for the development,
maintenance, analysis, and deployment of the International Soil Radiocarbon Database
(ISRaD). ISRaD was developed as a collaboration between the U.S. Geological Survey
Powell Center and the Max Planck Institute for Biogeochemistry. This R package provides
tools for accessing and manipulating ISRaD data, compiling local data using the ISRaD
data structure, and simple query and reporting functions for ISRaD. For more detailed
information visit the ISRaD website at: <https://soilradiocarbon.org/>.
Author: Alison Hoyt [aut],
Jeffrey Beem-Miller [aut, cre],
Shane Stoner [aut],
J. Grey Monroe [aut],
Caitlin Hicks-Pries [aut],
Paul A. Levine [aut]
Maintainer: Jeffrey Beem-Miller <jbeem@bgc-jena.mpg.de>
Diff between ISRaD versions 1.2.3 dated 2020-02-09 and 1.5.6 dated 2020-09-16
ISRaD-1.2.3/ISRaD/R/ISRaD.save.xlsx.R |only ISRaD-1.2.3/ISRaD/inst/www |only ISRaD-1.2.3/ISRaD/man/ISRaD.save.xlsx.Rd |only ISRaD-1.5.6/ISRaD/DESCRIPTION | 28 ISRaD-1.5.6/ISRaD/MD5 | 146 - ISRaD-1.5.6/ISRaD/NAMESPACE | 34 ISRaD-1.5.6/ISRaD/NEWS.md | 32 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.Cstocks.R | 44 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.R | 28 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.delta_delta.R | 115 - ISRaD-1.5.6/ISRaD/R/ISRaD.extra.fill_14c.R | 18 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.fill_coords.R | 13 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.fill_dates.R | 40 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.fill_fm.R | 16 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.geospatial.R | 64 ISRaD-1.5.6/ISRaD/R/ISRaD.extra.geospatial.keys.R | 33 ISRaD-1.5.6/ISRaD/R/ISRaD.flatten.R | 73 ISRaD-1.5.6/ISRaD/R/ISRaD.getdata.R | 88 - ISRaD-1.5.6/ISRaD/R/ISRaD.read.entry.R |only ISRaD-1.5.6/ISRaD/R/ISRaD.rep.count.all.R | 29 ISRaD-1.5.6/ISRaD/R/ISRaD.rep.count.frc.R | 27 ISRaD-1.5.6/ISRaD/R/ISRaD.rep.entry.stats.R | 29 ISRaD-1.5.6/ISRaD/R/ISRaD.rep.site.map.R | 22 ISRaD-1.5.6/ISRaD/R/ISRaD.report.R | 26 ISRaD-1.5.6/ISRaD/R/ISRaD.save.entry.R |only ISRaD-1.5.6/ISRaD/R/QAQC.R | 1075 +++++++------- ISRaD-1.5.6/ISRaD/R/checkTemplateFiles.R | 159 -- ISRaD-1.5.6/ISRaD/R/compile.R | 321 ++-- ISRaD-1.5.6/ISRaD/R/convert_fm_d14c.R |only ISRaD-1.5.6/ISRaD/R/future14C.R | 2 ISRaD-1.5.6/ISRaD/R/utils.R |only ISRaD-1.5.6/ISRaD/inst/extdata/ISRaD_Master_Template.xlsx |binary ISRaD-1.5.6/ISRaD/inst/extdata/ISRaD_Template_Info.xlsx |binary ISRaD-1.5.6/ISRaD/man/ISRaD.extra.Cstocks.Rd | 2 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.Rd | 5 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.delta_delta.Rd | 4 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.fill_14c.Rd | 10 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.fill_coords.Rd | 2 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.fill_dates.Rd | 2 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.fill_fm.Rd | 8 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.geospatial.Rd | 16 ISRaD-1.5.6/ISRaD/man/ISRaD.extra.geospatial.keys.Rd | 14 ISRaD-1.5.6/ISRaD/man/ISRaD.flatten.Rd | 11 ISRaD-1.5.6/ISRaD/man/ISRaD.getdata.Rd | 6 ISRaD-1.5.6/ISRaD/man/ISRaD.read.entry.Rd |only ISRaD-1.5.6/ISRaD/man/ISRaD.rep.count.all.Rd | 6 ISRaD-1.5.6/ISRaD/man/ISRaD.rep.count.frc.Rd | 4 ISRaD-1.5.6/ISRaD/man/ISRaD.rep.entry.stats.Rd | 2 ISRaD-1.5.6/ISRaD/man/ISRaD.rep.site.map.Rd | 3 ISRaD-1.5.6/ISRaD/man/ISRaD.report.Rd | 7 ISRaD-1.5.6/ISRaD/man/ISRaD.save.entry.Rd |only ISRaD-1.5.6/ISRaD/man/QAQC.Rd | 20 ISRaD-1.5.6/ISRaD/man/checkTemplateFiles.Rd | 6 ISRaD-1.5.6/ISRaD/man/check_numeric_minmax.Rd |only ISRaD-1.5.6/ISRaD/man/check_template_info_columns.Rd |only ISRaD-1.5.6/ISRaD/man/compile.Rd | 20 ISRaD-1.5.6/ISRaD/man/convert_fm_d14c.Rd |only ISRaD-1.5.6/ISRaD/man/future14C.Rd | 2 ISRaD-1.5.6/ISRaD/man/is_israd_database.Rd |only ISRaD-1.5.6/ISRaD/man/lapply_df.Rd |only ISRaD-1.5.6/ISRaD/man/read_template_file.Rd |only ISRaD-1.5.6/ISRaD/man/read_template_info_file.Rd |only ISRaD-1.5.6/ISRaD/tests |only 63 files changed, 1413 insertions(+), 1199 deletions(-)
Title: Turner Miscellaneous
Description: Miscellaneous utility functions for data manipulation,
data tidying, and working with gene expression data.
Author: Stephen Turner [aut, cre] (<https://orcid.org/0000-0001-9140-9028>)
Maintainer: Stephen Turner <vustephen@gmail.com>
Diff between Tmisc versions 0.1.22 dated 2019-12-05 and 1.0.0 dated 2020-09-16
Tmisc-0.1.22/Tmisc/R/Cs.R |only Tmisc-0.1.22/Tmisc/R/Mode.R |only Tmisc-0.1.22/Tmisc/R/Thist.R |only Tmisc-0.1.22/Tmisc/R/Tpairs.R |only Tmisc-0.1.22/Tmisc/R/aliases.R |only Tmisc-0.1.22/Tmisc/R/are_all_equal.R |only Tmisc-0.1.22/Tmisc/R/corner.R |only Tmisc-0.1.22/Tmisc/R/counts2fpkm.R |only Tmisc-0.1.22/Tmisc/R/datasaurus.R |only Tmisc-0.1.22/Tmisc/R/deseqresult2tbl.R |only Tmisc-0.1.22/Tmisc/R/dfsigfig.R |only Tmisc-0.1.22/Tmisc/R/dokuwiki.R |only Tmisc-0.1.22/Tmisc/R/ellipses.R |only Tmisc-0.1.22/Tmisc/R/fisherp.R |only Tmisc-0.1.22/Tmisc/R/gg_na.R |only Tmisc-0.1.22/Tmisc/R/gghues.R |only Tmisc-0.1.22/Tmisc/R/grapes.R |only Tmisc-0.1.22/Tmisc/R/gt2refalt.R |only Tmisc-0.1.22/Tmisc/R/jsd.R |only Tmisc-0.1.22/Tmisc/R/keep_top_n.R |only Tmisc-0.1.22/Tmisc/R/lmp.R |only Tmisc-0.1.22/Tmisc/R/lowestnonzero.R |only Tmisc-0.1.22/Tmisc/R/lsa.R |only Tmisc-0.1.22/Tmisc/R/lsp.R |only Tmisc-0.1.22/Tmisc/R/mat2df.R |only Tmisc-0.1.22/Tmisc/R/nn.R |only Tmisc-0.1.22/Tmisc/R/o.R |only Tmisc-0.1.22/Tmisc/R/peek.R |only Tmisc-0.1.22/Tmisc/R/propmiss.R |only Tmisc-0.1.22/Tmisc/R/rownames_to_symprobe.R |only Tmisc-0.1.22/Tmisc/R/sicb.R |only Tmisc-0.1.22/Tmisc/R/strSort.R |only Tmisc-0.1.22/Tmisc/R/unfactor.R |only Tmisc-0.1.22/Tmisc/data/datasaurus.rda |only Tmisc-0.1.22/Tmisc/man/Cs.Rd |only Tmisc-0.1.22/Tmisc/man/aliases.Rd |only Tmisc-0.1.22/Tmisc/man/datasaurus.Rd |only Tmisc-0.1.22/Tmisc/man/dfsigfig.Rd |only Tmisc-0.1.22/Tmisc/man/keep_top_n.Rd |only Tmisc-0.1.22/Tmisc/man/lsp.Rd |only Tmisc-0.1.22/Tmisc/man/unfactor.Rd |only Tmisc-1.0.0/Tmisc/DESCRIPTION | 12 Tmisc-1.0.0/Tmisc/MD5 | 133 +++------- Tmisc-1.0.0/Tmisc/NAMESPACE | 33 -- Tmisc-1.0.0/Tmisc/NEWS.md | 10 Tmisc-1.0.0/Tmisc/R/Tcols.R | 1 Tmisc-1.0.0/Tmisc/R/geneexpression.R |only Tmisc-1.0.0/Tmisc/R/quartet.R | 3 Tmisc-1.0.0/Tmisc/R/read.cb.R | 6 Tmisc-1.0.0/Tmisc/R/saveit.R | 7 Tmisc-1.0.0/Tmisc/R/stats.R |only Tmisc-1.0.0/Tmisc/R/utils-grapes.R |only Tmisc-1.0.0/Tmisc/R/utils-pipe.R |only Tmisc-1.0.0/Tmisc/R/utils-tables.R |only Tmisc-1.0.0/Tmisc/R/utils.R |only Tmisc-1.0.0/Tmisc/R/viz.R |only Tmisc-1.0.0/Tmisc/README.md | 4 Tmisc-1.0.0/Tmisc/inst/rmarkdown/templates/Tmisc/skeleton/skeleton.Rmd | 65 ++++ Tmisc-1.0.0/Tmisc/inst/rmarkdown/templates/Tmisc/template.yaml | 2 Tmisc-1.0.0/Tmisc/man/Mode.Rd | 6 Tmisc-1.0.0/Tmisc/man/Tcols.Rd | 4 Tmisc-1.0.0/Tmisc/man/Thist.Rd | 6 Tmisc-1.0.0/Tmisc/man/Tpairs.Rd | 6 Tmisc-1.0.0/Tmisc/man/are_all_equal.Rd | 6 Tmisc-1.0.0/Tmisc/man/corner.Rd | 5 Tmisc-1.0.0/Tmisc/man/counts2fpkm.Rd | 7 Tmisc-1.0.0/Tmisc/man/deseqresult2tbl.Rd | 6 Tmisc-1.0.0/Tmisc/man/dokuwiki.Rd | 5 Tmisc-1.0.0/Tmisc/man/ellipses.Rd | 7 Tmisc-1.0.0/Tmisc/man/fisherp.Rd | 6 Tmisc-1.0.0/Tmisc/man/gg_na.Rd | 6 Tmisc-1.0.0/Tmisc/man/gghues.Rd | 6 Tmisc-1.0.0/Tmisc/man/grapes-like-grapes.Rd | 2 Tmisc-1.0.0/Tmisc/man/grapes-nin-grapes.Rd | 2 Tmisc-1.0.0/Tmisc/man/grapes-nlike-grapes.Rd | 2 Tmisc-1.0.0/Tmisc/man/gt2refalt.Rd | 2 Tmisc-1.0.0/Tmisc/man/jsd.Rd | 7 Tmisc-1.0.0/Tmisc/man/lmp.Rd | 4 Tmisc-1.0.0/Tmisc/man/lowestnonzero.Rd | 6 Tmisc-1.0.0/Tmisc/man/lsa.Rd | 5 Tmisc-1.0.0/Tmisc/man/mat2df.Rd | 5 Tmisc-1.0.0/Tmisc/man/nn.Rd | 2 Tmisc-1.0.0/Tmisc/man/o.Rd | 6 Tmisc-1.0.0/Tmisc/man/peek.Rd | 7 Tmisc-1.0.0/Tmisc/man/pipe.Rd |only Tmisc-1.0.0/Tmisc/man/propmiss.Rd | 8 Tmisc-1.0.0/Tmisc/man/quartet.Rd | 6 Tmisc-1.0.0/Tmisc/man/read.cb.Rd | 4 Tmisc-1.0.0/Tmisc/man/rownames_to_symprobe.Rd | 6 Tmisc-1.0.0/Tmisc/man/saveit.Rd | 16 - Tmisc-1.0.0/Tmisc/man/sicb.Rd | 6 Tmisc-1.0.0/Tmisc/man/strSort.Rd | 6 92 files changed, 185 insertions(+), 269 deletions(-)
Title: R Interface to Apache Spark
Description: R interface to Apache Spark, a fast and general engine for big data
processing, see <http://spark.apache.org>. This package supports connecting to
local and remote Apache Spark clusters, provides a 'dplyr' compatible back-end,
and provides an interface to Spark's built-in machine learning algorithms.
Author: Javier Luraschi [aut],
Kevin Kuo [aut] (<https://orcid.org/0000-0001-7803-7901>),
Kevin Ushey [aut],
JJ Allaire [aut],
Samuel Macedo [ctb],
Hossein Falaki [aut],
Lu Wang [aut],
Andy Zhang [aut],
Yitao Li [aut, cre] (<https://orcid.org/0000-0002-1261-905X>),
RStudio [cph],
The Apache Software Foundation [aut, cph]
Maintainer: Yitao Li <yitao@rstudio.com>
Diff between sparklyr versions 1.3.1 dated 2020-07-09 and 1.4.0 dated 2020-09-16
sparklyr-1.3.1/sparklyr/java/spark-1.5.2/derby.log |only sparklyr-1.3.1/sparklyr/java/spark-1.5.2/logs |only sparklyr-1.4.0/sparklyr/DESCRIPTION | 67 sparklyr-1.4.0/sparklyr/MD5 | 779 ++++++---- sparklyr-1.4.0/sparklyr/NAMESPACE | 47 sparklyr-1.4.0/sparklyr/NEWS.md | 70 sparklyr-1.4.0/sparklyr/R/arrow_data.R | 18 sparklyr-1.4.0/sparklyr/R/avro_utils.R | 22 sparklyr-1.4.0/sparklyr/R/config_settings.R | 4 sparklyr-1.4.0/sparklyr/R/config_spark.R | 107 + sparklyr-1.4.0/sparklyr/R/connection_instances.R | 7 sparklyr-1.4.0/sparklyr/R/connection_progress.R | 64 sparklyr-1.4.0/sparklyr/R/connection_shinyapp.R | 3 sparklyr-1.4.0/sparklyr/R/connection_spark.R | 171 +- sparklyr-1.4.0/sparklyr/R/connection_viewer.R | 169 +- sparklyr-1.4.0/sparklyr/R/core_config.R | 2 sparklyr-1.4.0/sparklyr/R/core_deserialize.R | 84 - sparklyr-1.4.0/sparklyr/R/core_gateway.R | 110 + sparklyr-1.4.0/sparklyr/R/core_invoke.R | 65 sparklyr-1.4.0/sparklyr/R/core_jobj.R | 48 sparklyr-1.4.0/sparklyr/R/core_serialize.R | 86 - sparklyr-1.4.0/sparklyr/R/core_utils.R | 5 sparklyr-1.4.0/sparklyr/R/data_copy.R | 70 sparklyr-1.4.0/sparklyr/R/data_csv.R | 23 sparklyr-1.4.0/sparklyr/R/data_interface.R | 141 - sparklyr-1.4.0/sparklyr/R/databricks_connection.R | 36 sparklyr-1.4.0/sparklyr/R/dbi_spark_connection.R | 19 sparklyr-1.4.0/sparklyr/R/dbi_spark_result.R | 92 - sparklyr-1.4.0/sparklyr/R/dbi_spark_table.R | 13 sparklyr-1.4.0/sparklyr/R/do_spark.R | 53 sparklyr-1.4.0/sparklyr/R/dplyr_do.R | 3 sparklyr-1.4.0/sparklyr/R/dplyr_hof.R | 446 ++++- sparklyr-1.4.0/sparklyr/R/dplyr_join.R |only sparklyr-1.4.0/sparklyr/R/dplyr_spark.R | 27 sparklyr-1.4.0/sparklyr/R/dplyr_spark_connection.R | 158 +- sparklyr-1.4.0/sparklyr/R/dplyr_spark_data.R | 11 sparklyr-1.4.0/sparklyr/R/dplyr_spark_table.R | 45 sparklyr-1.4.0/sparklyr/R/dplyr_sql.R | 108 + sparklyr-1.4.0/sparklyr/R/install_spark.R | 165 +- sparklyr-1.4.0/sparklyr/R/install_spark_versions.R | 58 sparklyr-1.4.0/sparklyr/R/install_spark_windows.R | 65 sparklyr-1.4.0/sparklyr/R/java.R | 70 sparklyr-1.4.0/sparklyr/R/jobs_api.R | 24 sparklyr-1.4.0/sparklyr/R/kubernetes_config.R | 51 sparklyr-1.4.0/sparklyr/R/livy_connection.R | 325 ++-- sparklyr-1.4.0/sparklyr/R/livy_install.R | 63 sparklyr-1.4.0/sparklyr/R/livy_invoke.R | 9 sparklyr-1.4.0/sparklyr/R/livy_service.R | 2 sparklyr-1.4.0/sparklyr/R/logs |only sparklyr-1.4.0/sparklyr/R/metastore_db |only sparklyr-1.4.0/sparklyr/R/ml_classification_decision_tree_classifier.R | 6 sparklyr-1.4.0/sparklyr/R/ml_classification_gbt_classifier.R | 64 sparklyr-1.4.0/sparklyr/R/ml_classification_linear_svc.R | 38 sparklyr-1.4.0/sparklyr/R/ml_classification_logistic_regression.R | 48 sparklyr-1.4.0/sparklyr/R/ml_classification_multilayer_perceptron_classifier.R | 30 sparklyr-1.4.0/sparklyr/R/ml_classification_naive_bayes.R | 4 sparklyr-1.4.0/sparklyr/R/ml_classification_one_vs_rest.R | 11 sparklyr-1.4.0/sparklyr/R/ml_classification_random_forest_classifier.R | 47 sparklyr-1.4.0/sparklyr/R/ml_clustering_bisecting_kmeans.R | 17 sparklyr-1.4.0/sparklyr/R/ml_clustering_gaussian_mixture.R | 28 sparklyr-1.4.0/sparklyr/R/ml_clustering_kmeans.R | 13 sparklyr-1.4.0/sparklyr/R/ml_clustering_lda.R | 41 sparklyr-1.4.0/sparklyr/R/ml_constructor_utils.R | 4 sparklyr-1.4.0/sparklyr/R/ml_evaluate.R | 16 sparklyr-1.4.0/sparklyr/R/ml_evaluation_prediction.R | 9 sparklyr-1.4.0/sparklyr/R/ml_evaluator.R | 2 sparklyr-1.4.0/sparklyr/R/ml_feature_binarizer.R | 8 sparklyr-1.4.0/sparklyr/R/ml_feature_bucketed_random_projection_lsh.R | 8 sparklyr-1.4.0/sparklyr/R/ml_feature_bucketizer.R | 27 sparklyr-1.4.0/sparklyr/R/ml_feature_chisq_selector.R | 40 sparklyr-1.4.0/sparklyr/R/ml_feature_count_vectorizer.R | 39 sparklyr-1.4.0/sparklyr/R/ml_feature_dct.R | 4 sparklyr-1.4.0/sparklyr/R/ml_feature_dplyr_transformer.R |only sparklyr-1.4.0/sparklyr/R/ml_feature_elementwise_product.R | 8 sparklyr-1.4.0/sparklyr/R/ml_feature_feature_hasher.R | 3 sparklyr-1.4.0/sparklyr/R/ml_feature_hashing_tf.R | 4 sparklyr-1.4.0/sparklyr/R/ml_feature_idf.R | 12 sparklyr-1.4.0/sparklyr/R/ml_feature_imputer.R | 8 sparklyr-1.4.0/sparklyr/R/ml_feature_index_to_string.R | 3 sparklyr-1.4.0/sparklyr/R/ml_feature_interaction.R | 5 sparklyr-1.4.0/sparklyr/R/ml_feature_lsh_utils.R | 18 sparklyr-1.4.0/sparklyr/R/ml_feature_max_abs_scaler.R | 20 sparklyr-1.4.0/sparklyr/R/ml_feature_min_max_scaler.R | 21 sparklyr-1.4.0/sparklyr/R/ml_feature_minhash_lsh.R | 11 sparklyr-1.4.0/sparklyr/R/ml_feature_ngram.R | 1 sparklyr-1.4.0/sparklyr/R/ml_feature_one_hot_encoder.R | 14 sparklyr-1.4.0/sparklyr/R/ml_feature_one_hot_encoder_estimator.R | 16 sparklyr-1.4.0/sparklyr/R/ml_feature_pca.R | 25 sparklyr-1.4.0/sparklyr/R/ml_feature_quantile_discretizer.R | 9 sparklyr-1.4.0/sparklyr/R/ml_feature_r_formula.R | 25 sparklyr-1.4.0/sparklyr/R/ml_feature_regex_tokenizer.R | 7 sparklyr-1.4.0/sparklyr/R/ml_feature_robust_scaler.R |only sparklyr-1.4.0/sparklyr/R/ml_feature_sql_transformer.R | 71 sparklyr-1.4.0/sparklyr/R/ml_feature_sql_transformer_utils.R |only sparklyr-1.4.0/sparklyr/R/ml_feature_standard_scaler.R | 32 sparklyr-1.4.0/sparklyr/R/ml_feature_stop_words_remover.R | 18 sparklyr-1.4.0/sparklyr/R/ml_feature_string_indexer.R | 22 sparklyr-1.4.0/sparklyr/R/ml_feature_tokenizer.R | 4 sparklyr-1.4.0/sparklyr/R/ml_feature_vector_indexer.R | 11 sparklyr-1.4.0/sparklyr/R/ml_feature_word2vec.R | 38 sparklyr-1.4.0/sparklyr/R/ml_fpm_fpgrowth.R | 22 sparklyr-1.4.0/sparklyr/R/ml_helpers.R | 26 sparklyr-1.4.0/sparklyr/R/ml_mapping_tables.R | 13 sparklyr-1.4.0/sparklyr/R/ml_model_aft_survival_regression.R | 9 sparklyr-1.4.0/sparklyr/R/ml_model_als.R | 13 sparklyr-1.4.0/sparklyr/R/ml_model_constructors.R | 7 sparklyr-1.4.0/sparklyr/R/ml_model_decision_tree.R | 21 sparklyr-1.4.0/sparklyr/R/ml_model_generalized_linear_regression.R | 65 sparklyr-1.4.0/sparklyr/R/ml_model_helpers.R | 8 sparklyr-1.4.0/sparklyr/R/ml_model_isotonic_regression.R | 5 sparklyr-1.4.0/sparklyr/R/ml_model_kmeans.R | 2 sparklyr-1.4.0/sparklyr/R/ml_model_lda.R | 1 sparklyr-1.4.0/sparklyr/R/ml_model_linear_regression.R | 14 sparklyr-1.4.0/sparklyr/R/ml_model_linear_svc.R | 6 sparklyr-1.4.0/sparklyr/R/ml_model_logistic_regression.R | 3 sparklyr-1.4.0/sparklyr/R/ml_model_naive_bayes.R | 7 sparklyr-1.4.0/sparklyr/R/ml_model_one_vs_rest.R | 3 sparklyr-1.4.0/sparklyr/R/ml_model_utils.R | 11 sparklyr-1.4.0/sparklyr/R/ml_param_utils.R | 38 sparklyr-1.4.0/sparklyr/R/ml_persistence.R | 9 sparklyr-1.4.0/sparklyr/R/ml_pipeline.R | 86 - sparklyr-1.4.0/sparklyr/R/ml_pipeline_utils.R | 117 - sparklyr-1.4.0/sparklyr/R/ml_print_utils.R | 49 sparklyr-1.4.0/sparklyr/R/ml_recommendation_als.R | 75 sparklyr-1.4.0/sparklyr/R/ml_regression_aft_survival_regression.R | 62 sparklyr-1.4.0/sparklyr/R/ml_regression_decision_tree_regressor.R | 35 sparklyr-1.4.0/sparklyr/R/ml_regression_gbt_regressor.R | 11 sparklyr-1.4.0/sparklyr/R/ml_regression_isotonic_regression.R | 5 sparklyr-1.4.0/sparklyr/R/ml_regression_linear_regression.R | 10 sparklyr-1.4.0/sparklyr/R/ml_regression_random_forest_regressor.R | 52 sparklyr-1.4.0/sparklyr/R/ml_stat.R | 60 sparklyr-1.4.0/sparklyr/R/ml_transformation_methods.R | 32 sparklyr-1.4.0/sparklyr/R/ml_tuning.R | 102 - sparklyr-1.4.0/sparklyr/R/ml_tuning_cross_validator.R | 3 sparklyr-1.4.0/sparklyr/R/ml_tuning_train_validation_split.R | 29 sparklyr-1.4.0/sparklyr/R/ml_utils.R | 37 sparklyr-1.4.0/sparklyr/R/ml_validator_utils.R | 14 sparklyr-1.4.0/sparklyr/R/mutation.R | 59 sparklyr-1.4.0/sparklyr/R/na_actions.R | 47 sparklyr-1.4.0/sparklyr/R/new_model_multilayer_perceptron.R | 5 sparklyr-1.4.0/sparklyr/R/precondition.R | 9 sparklyr-1.4.0/sparklyr/R/prng_utils.R |only sparklyr-1.4.0/sparklyr/R/qubole_connection.R | 17 sparklyr-1.4.0/sparklyr/R/reexports.R | 112 + sparklyr-1.4.0/sparklyr/R/sdf_interface.R | 126 + sparklyr-1.4.0/sparklyr/R/sdf_ml.R | 24 sparklyr-1.4.0/sparklyr/R/sdf_saveload.R | 4 sparklyr-1.4.0/sparklyr/R/sdf_sequence.R | 2 sparklyr-1.4.0/sparklyr/R/sdf_streaming.R | 3 sparklyr-1.4.0/sparklyr/R/sdf_utils.R | 23 sparklyr-1.4.0/sparklyr/R/sdf_wrapper.R | 95 - sparklyr-1.4.0/sparklyr/R/shell_connection.R | 515 +++--- sparklyr-1.4.0/sparklyr/R/spark_apply.R | 57 sparklyr-1.4.0/sparklyr/R/spark_apply_bundle.R | 35 sparklyr-1.4.0/sparklyr/R/spark_compile.R | 121 - sparklyr-1.4.0/sparklyr/R/spark_connection.R | 77 sparklyr-1.4.0/sparklyr/R/spark_context_config.R | 16 sparklyr-1.4.0/sparklyr/R/spark_data_build_types.R | 1 sparklyr-1.4.0/sparklyr/R/spark_dataframe.R | 5 sparklyr-1.4.0/sparklyr/R/spark_extensions.R | 47 sparklyr-1.4.0/sparklyr/R/spark_gateway.R | 62 sparklyr-1.4.0/sparklyr/R/spark_gen_embedded_sources.R | 3 sparklyr-1.4.0/sparklyr/R/spark_globals.R | 1 sparklyr-1.4.0/sparklyr/R/spark_hive.R | 4 sparklyr-1.4.0/sparklyr/R/spark_home.R | 22 sparklyr-1.4.0/sparklyr/R/spark_invoke.R | 3 sparklyr-1.4.0/sparklyr/R/spark_schema_from_rdd.R | 11 sparklyr-1.4.0/sparklyr/R/spark_submit.R | 26 sparklyr-1.4.0/sparklyr/R/spark_utils.R | 39 sparklyr-1.4.0/sparklyr/R/spark_verify_embedded_sources.R | 2 sparklyr-1.4.0/sparklyr/R/spark_version.R | 25 sparklyr-1.4.0/sparklyr/R/sql_utils.R |only sparklyr-1.4.0/sparklyr/R/stream_data.R | 378 ++-- sparklyr-1.4.0/sparklyr/R/stream_job.R | 7 sparklyr-1.4.0/sparklyr/R/stream_operations.R | 116 - sparklyr-1.4.0/sparklyr/R/stream_shiny.R | 6 sparklyr-1.4.0/sparklyr/R/stream_view.R | 23 sparklyr-1.4.0/sparklyr/R/tables_spark.R | 10 sparklyr-1.4.0/sparklyr/R/test_connection.R | 15 sparklyr-1.4.0/sparklyr/R/tidiers_ml_aft_survival_regression.R | 15 sparklyr-1.4.0/sparklyr/R/tidiers_ml_als.R | 14 sparklyr-1.4.0/sparklyr/R/tidiers_ml_isotonic_regression.R | 21 sparklyr-1.4.0/sparklyr/R/tidiers_ml_lda.R | 24 sparklyr-1.4.0/sparklyr/R/tidiers_ml_linear_models.R | 39 sparklyr-1.4.0/sparklyr/R/tidiers_ml_logistic_regression.R | 48 sparklyr-1.4.0/sparklyr/R/tidiers_ml_multilayer_perceptron.R | 31 sparklyr-1.4.0/sparklyr/R/tidiers_ml_naive_bayes.R | 14 sparklyr-1.4.0/sparklyr/R/tidiers_ml_svc_models.R | 22 sparklyr-1.4.0/sparklyr/R/tidiers_ml_tree_models.R | 89 - sparklyr-1.4.0/sparklyr/R/tidiers_ml_unsupervised_models.R | 61 sparklyr-1.4.0/sparklyr/R/tidiers_pca.R | 15 sparklyr-1.4.0/sparklyr/R/tidiers_utils.R | 24 sparklyr-1.4.0/sparklyr/R/tidyr_fill.R |only sparklyr-1.4.0/sparklyr/R/tidyr_nest.R |only sparklyr-1.4.0/sparklyr/R/tidyr_pivot_longer.R |only sparklyr-1.4.0/sparklyr/R/tidyr_pivot_utils.R |only sparklyr-1.4.0/sparklyr/R/tidyr_pivot_wider.R |only sparklyr-1.4.0/sparklyr/R/tidyr_separate.R |only sparklyr-1.4.0/sparklyr/R/tidyr_unite.R |only sparklyr-1.4.0/sparklyr/R/tidyr_unnest.R |only sparklyr-1.4.0/sparklyr/R/tidyr_utils.R |only sparklyr-1.4.0/sparklyr/R/utils.R | 86 - sparklyr-1.4.0/sparklyr/R/worker_apply.R | 77 sparklyr-1.4.0/sparklyr/R/worker_connect.R | 57 sparklyr-1.4.0/sparklyr/R/worker_connection.R | 11 sparklyr-1.4.0/sparklyr/R/worker_invoke.R | 3 sparklyr-1.4.0/sparklyr/R/worker_log.R | 12 sparklyr-1.4.0/sparklyr/R/worker_main.R | 105 - sparklyr-1.4.0/sparklyr/R/yarn_cluster.R | 53 sparklyr-1.4.0/sparklyr/R/yarn_config.R | 10 sparklyr-1.4.0/sparklyr/R/zzz.R | 3 sparklyr-1.4.0/sparklyr/README.md | 18 sparklyr-1.4.0/sparklyr/inst/java/sparklyr-1.5-2.10.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-1.6-2.10.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-2.0-2.11.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-2.3-2.11.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-2.4-2.11.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-2.4-2.12.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-3.0-2.12.jar |binary sparklyr-1.4.0/sparklyr/inst/java/sparklyr-master-2.12.jar |binary sparklyr-1.4.0/sparklyr/java/embedded_sources.R | 647 ++++---- sparklyr-1.4.0/sparklyr/java/spark-1.5.2/boundedpriorityqueue.scala |only sparklyr-1.4.0/sparklyr/java/spark-1.5.2/samplingutils.scala |only sparklyr-1.4.0/sparklyr/java/spark-1.5.2/udfutils.scala |only sparklyr-1.4.0/sparklyr/java/spark-2.0.0/transformers.scala |only sparklyr-1.4.0/sparklyr/man/fill.Rd |only sparklyr-1.4.0/sparklyr/man/ft_binarizer.Rd | 9 sparklyr-1.4.0/sparklyr/man/ft_bucketizer.Rd | 9 sparklyr-1.4.0/sparklyr/man/ft_chisq_selector.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_count_vectorizer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_dct.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_elementwise_product.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_feature_hasher.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_hashing_tf.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_idf.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_imputer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_index_to_string.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_interaction.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_lsh.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_max_abs_scaler.Rd | 13 sparklyr-1.4.0/sparklyr/man/ft_min_max_scaler.Rd | 13 sparklyr-1.4.0/sparklyr/man/ft_ngram.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_normalizer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_one_hot_encoder.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_one_hot_encoder_estimator.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_pca.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_polynomial_expansion.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_quantile_discretizer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_r_formula.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_regex_tokenizer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_robust_scaler.Rd |only sparklyr-1.4.0/sparklyr/man/ft_standard_scaler.Rd | 15 sparklyr-1.4.0/sparklyr/man/ft_stop_words_remover.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_string_indexer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_tokenizer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_vector_assembler.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_vector_indexer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_vector_slicer.Rd | 1 sparklyr-1.4.0/sparklyr/man/ft_word2vec.Rd | 1 sparklyr-1.4.0/sparklyr/man/full_join.Rd |only sparklyr-1.4.0/sparklyr/man/hof_aggregate.Rd | 2 sparklyr-1.4.0/sparklyr/man/hof_array_sort.Rd |only sparklyr-1.4.0/sparklyr/man/hof_filter.Rd | 2 sparklyr-1.4.0/sparklyr/man/hof_forall.Rd |only sparklyr-1.4.0/sparklyr/man/hof_map_filter.Rd |only sparklyr-1.4.0/sparklyr/man/hof_map_zip_with.Rd |only sparklyr-1.4.0/sparklyr/man/hof_transform.Rd | 2 sparklyr-1.4.0/sparklyr/man/hof_transform_keys.Rd |only sparklyr-1.4.0/sparklyr/man/hof_transform_values.Rd |only sparklyr-1.4.0/sparklyr/man/hof_zip_with.Rd | 5 sparklyr-1.4.0/sparklyr/man/inner_join.Rd |only sparklyr-1.4.0/sparklyr/man/invoke.Rd | 3 sparklyr-1.4.0/sparklyr/man/join.tbl_spark.Rd |only sparklyr-1.4.0/sparklyr/man/left_join.Rd |only sparklyr-1.4.0/sparklyr/man/livy_config.Rd | 8 sparklyr-1.4.0/sparklyr/man/ml-tuning.Rd | 10 sparklyr-1.4.0/sparklyr/man/ml_bisecting_kmeans.Rd | 2 sparklyr-1.4.0/sparklyr/man/ml_corr.Rd | 2 sparklyr-1.4.0/sparklyr/man/ml_default_stop_words.Rd | 2 sparklyr-1.4.0/sparklyr/man/ml_gaussian_mixture.Rd | 1 sparklyr-1.4.0/sparklyr/man/ml_linear_svc.Rd | 1 sparklyr-1.4.0/sparklyr/man/ml_multilayer_perceptron_classifier.Rd | 5 sparklyr-1.4.0/sparklyr/man/nest.Rd |only sparklyr-1.4.0/sparklyr/man/pivot_longer.Rd |only sparklyr-1.4.0/sparklyr/man/pivot_wider.Rd |only sparklyr-1.4.0/sparklyr/man/quote_sql_name.Rd |only sparklyr-1.4.0/sparklyr/man/right_join.Rd |only sparklyr-1.4.0/sparklyr/man/sdf_copy_to.Rd | 4 sparklyr-1.4.0/sparklyr/man/sdf_pivot.Rd | 10 sparklyr-1.4.0/sparklyr/man/sdf_random_split.Rd | 3 sparklyr-1.4.0/sparklyr/man/sdf_register.Rd | 3 sparklyr-1.4.0/sparklyr/man/sdf_sample.Rd | 3 sparklyr-1.4.0/sparklyr/man/sdf_schema.Rd | 5 sparklyr-1.4.0/sparklyr/man/sdf_sort.Rd | 3 sparklyr-1.4.0/sparklyr/man/sdf_weighted_sample.Rd |only sparklyr-1.4.0/sparklyr/man/separate.Rd |only sparklyr-1.4.0/sparklyr/man/spark-connections.Rd | 1 sparklyr-1.4.0/sparklyr/man/spark_config_packages.Rd | 4 sparklyr-1.4.0/sparklyr/man/spark_read_csv.Rd | 2 sparklyr-1.4.0/sparklyr/man/spark_read_json.Rd | 2 sparklyr-1.4.0/sparklyr/man/spark_read_parquet.Rd | 2 sparklyr-1.4.0/sparklyr/man/spark_read_text.Rd | 2 sparklyr-1.4.0/sparklyr/man/sql-transformer.Rd | 12 sparklyr-1.4.0/sparklyr/man/stream_find.Rd | 2 sparklyr-1.4.0/sparklyr/man/stream_read_csv.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_delta.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_json.Rd | 3 sparklyr-1.4.0/sparklyr/man/stream_read_kafka.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_orc.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_parquet.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_socket.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_read_text.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_stats.Rd | 2 sparklyr-1.4.0/sparklyr/man/stream_write_console.Rd | 5 sparklyr-1.4.0/sparklyr/man/stream_write_csv.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_delta.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_json.Rd | 3 sparklyr-1.4.0/sparklyr/man/stream_write_kafka.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_memory.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_orc.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_parquet.Rd | 1 sparklyr-1.4.0/sparklyr/man/stream_write_text.Rd | 1 sparklyr-1.4.0/sparklyr/man/unite.Rd |only sparklyr-1.4.0/sparklyr/man/unnest.Rd |only 324 files changed, 5908 insertions(+), 3937 deletions(-)
Title: Predict the Race of a Given Surname Using Census Data
Description: Predicts the most common race of a surname based on U.S. Census data.
Author: Jacob Kaplan [aut, cre] (<https://orcid.org/0000-0002-0601-0387>)
Maintainer: Jacob Kaplan <jkkaplan6@gmail.com>
Diff between predictrace versions 1.1.1 dated 2020-07-21 and 1.2.1 dated 2020-09-16
DESCRIPTION | 6 ++-- MD5 | 24 ++++++++-------- NAMESPACE | 4 ++ NEWS.md | 4 ++ R/data.R | 7 ++-- R/sysdata.rda |binary build/vignette.rds |binary data/surnames_race.rda |binary inst/doc/Predict-race-of-surname.Rmd | 2 - inst/doc/Predict-race-of-surname.html | 28 +++++++++---------- man/surnames_race.Rd | 6 ++-- tests/testthat/test-race.R | 50 +++++++++++++++++----------------- vignettes/Predict-race-of-surname.Rmd | 2 - 13 files changed, 70 insertions(+), 63 deletions(-)
Title: Population and Evolutionary Genetics Analysis System
Description: Functions for reading, writing, plotting, analysing, and manipulating allelic and haplotypic data, including from VCF files, and for the analysis of population nucleotide sequences and micro-satellites including coalescent analyses, linkage disequilibrium, population structure (Fst, Amova) and equilibrium (HWE), haplotype networks, minimum spanning tree and network, and median-joining networks.
Author: Emmanuel Paradis [aut, cre, cph]
(<https://orcid.org/0000-0003-3092-2199>),
Thibaut Jombart [aut, cph] (<https://orcid.org/0000-0003-2226-8692>),
Zhian N. Kamvar [aut, cph] (<https://orcid.org/0000-0003-1458-7108>),
Brian Knaus [aut, cph] (<https://orcid.org/0000-0003-1665-4343>),
Klaus Schliep [aut, cph],
Alastair Potts [aut, cph] (<https://orcid.org/0000-0003-0919-7279>),
David Winter [aut, cph] (<https://orcid.org/0000-0002-6165-0029>)
Maintainer: Emmanuel Paradis <Emmanuel.Paradis@ird.fr>
Diff between pegas versions 0.13 dated 2020-03-10 and 0.14 dated 2020-09-16
DESCRIPTION | 10 +++---- MD5 | 36 ++++++++++++++-------------- NAMESPACE | 4 +-- NEWS | 24 ++++++++++++++++++ R/IO.R | 4 +-- R/VCFloci.R | 22 ++++++++--------- R/haplotype.R | 51 +++++++++++++++++++++++++++------------ build/vignette.rds |binary inst/doc/ReadingFiles.R | 1 inst/doc/ReadingFiles.pdf |binary man/LDscan.Rd | 23 ++++++++++------- man/VCFloci.Rd | 4 +-- man/alleles2loci.Rd | 2 - man/conversion.Rd | 2 - man/geod.Rd | 4 +-- man/haploNet.Rd | 2 - man/haplotype.Rd | 37 ++++++++++++++++++++++++++-- man/jaguar.Rd | 2 - src/pegas.c | 59 +++++++++++++++++++++------------------------- 19 files changed, 181 insertions(+), 106 deletions(-)
Title: Funnel Plots for Comparing Institutional Performance
Description: An implementation of methods presented by Spiegelhalter (2005) <doi:10.1002/sim.1970> Funnel plots for comparing institutional performance, for standardised ratios, ratios of counts and proportions with additive overdispersion adjustment.
Author: Chris Mainey [aut, cre] (<https://orcid.org/0000-0002-3018-6171>),
Matthew Bass [ctb]
Maintainer: Chris Mainey <chris.mainey@uhb.nhs.uk>
Diff between FunnelPlotR versions 0.2.3 dated 2020-02-25 and 0.3.1 dated 2020-09-16
FunnelPlotR-0.2.3/FunnelPlotR/R/OD_adjust_func.R |only FunnelPlotR-0.2.3/FunnelPlotR/man/OD_adjust_func.Rd |only FunnelPlotR-0.2.3/FunnelPlotR/tests/testthat/test-OD_adjust_func.R |only FunnelPlotR-0.3.1/FunnelPlotR/DESCRIPTION | 21 FunnelPlotR-0.3.1/FunnelPlotR/LICENSE | 4 FunnelPlotR-0.3.1/FunnelPlotR/MD5 | 85 FunnelPlotR-0.3.1/FunnelPlotR/NAMESPACE | 56 FunnelPlotR-0.3.1/FunnelPlotR/NEWS.md | 51 FunnelPlotR-0.3.1/FunnelPlotR/R/aggregate_func.R | 43 FunnelPlotR-0.3.1/FunnelPlotR/R/build_limits_lookup.R | 188 + FunnelPlotR-0.3.1/FunnelPlotR/R/classes_methods.R |only FunnelPlotR-0.3.1/FunnelPlotR/R/draw_plot.R | 354 +-- FunnelPlotR-0.3.1/FunnelPlotR/R/funnel_plot.R | 396 ++- FunnelPlotR-0.3.1/FunnelPlotR/R/funnel_themes.R |only FunnelPlotR-0.3.1/FunnelPlotR/R/od_adjustment.R |only FunnelPlotR-0.3.1/FunnelPlotR/R/od_limits.R |only FunnelPlotR-0.3.1/FunnelPlotR/R/outliers_func.R |only FunnelPlotR-0.3.1/FunnelPlotR/R/poisson_limits.R |only FunnelPlotR-0.3.1/FunnelPlotR/README.md | 359 +-- FunnelPlotR-0.3.1/FunnelPlotR/build/vignette.rds |binary FunnelPlotR-0.3.1/FunnelPlotR/inst/CITATION | 30 FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/changing_funnel_plot_options.R |only FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/changing_funnel_plot_options.Rmd |only FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/changing_funnel_plot_options.html |only FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/funnel_plots.R | 157 - FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/funnel_plots.Rmd | 380 +-- FunnelPlotR-0.3.1/FunnelPlotR/inst/doc/funnel_plots.html | 1025 +++++----- FunnelPlotR-0.3.1/FunnelPlotR/man/OD_limits.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/aggregate_func.Rd | 36 FunnelPlotR-0.3.1/FunnelPlotR/man/build_limits_lookup.Rd | 94 FunnelPlotR-0.3.1/FunnelPlotR/man/draw_plot.Rd | 122 - FunnelPlotR-0.3.1/FunnelPlotR/man/figures/README-funnel1-1.png |binary FunnelPlotR-0.3.1/FunnelPlotR/man/figures/README-funnel2-1.png |binary FunnelPlotR-0.3.1/FunnelPlotR/man/funnel_clean.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/funnel_grey.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/funnel_plot.Rd | 244 +- FunnelPlotR-0.3.1/FunnelPlotR/man/limits.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/new_funnel_plot.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/outliers.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/outliers_func.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/phi.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/phi_func.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/poisson_limits.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/source_data.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/tau2.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/tau_func.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/transformed_zscore.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/truncation.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/validate_funnel_plot.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/man/winsorisation.Rd |only FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat.R | 8 FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat/test-aggregate_fun.R | 18 FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat/test-build_limits_lookup.R | 22 FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat/test-funnel_plot.R | 105 - FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat/test-funnel_themes.R |only FunnelPlotR-0.3.1/FunnelPlotR/tests/testthat/test-poisson_limits.R |only FunnelPlotR-0.3.1/FunnelPlotR/vignettes/changing_funnel_plot_options.Rmd |only FunnelPlotR-0.3.1/FunnelPlotR/vignettes/funnel_plots.Rmd | 380 +-- FunnelPlotR-0.3.1/FunnelPlotR/vignettes/harvard.csl |only FunnelPlotR-0.3.1/FunnelPlotR/vignettes/references.bib | 251 +- 60 files changed, 2350 insertions(+), 2079 deletions(-)
Title: Parametric Mortality Models, Life Tables and HMD
Description: Fit the most popular human mortality 'laws', and construct
full and abridge life tables given various input indices. A mortality
law is a parametric function that describes the dying-out process of
individuals in a population during a significant portion of their
life spans. For a comprehensive review of the most important mortality
laws see Tabeau (2001) <doi:10.1007/0-306-47562-6_1>.
Practical functions for downloading data from various human mortality
databases are provided as well.
Author: Marius D. Pascariu [aut, cre, cph]
(<https://orcid.org/0000-0002-2568-6489>),
Vladimir Canudas-Romo [ctb]
Maintainer: Marius D. Pascariu <mpascariu@outlook.com>
Diff between MortalityLaws versions 1.8.4 dated 2020-03-16 and 1.8.5 dated 2020-09-16
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS | 4 ++++ R/readAHMD.R | 8 ++++---- R/readHMD.R | 34 +++++++++++++++++++++------------- README.md | 4 ++-- build/vignette.rds |binary inst/doc/Installation.R | 8 ++++---- inst/doc/Installation.pdf |binary inst/doc/Intro.R | 40 ++++++++++++++++++++-------------------- inst/doc/Intro.pdf |binary man/ReadAHMD.Rd | 2 +- man/ReadHMD.Rd | 8 ++++---- 13 files changed, 76 insertions(+), 64 deletions(-)
Title: Learn Computer and Data Science using Algorithmic Trading
Description: Provide sets of functions and methods to learn and practice data science using idea of algorithmic trading.
Main goal is to process information within "Decision Support System" to come up with analysis or predictions.
There are several utilities such as dynamic and adaptive risk management using reinforcement learning
and even functions to generate predictions of price changes using pattern recognition deep regression learning.
Summary of Methods used: Awesome H2O tutorials: <https://github.com/h2oai/awesome-h2o>,
Market Type research of Van Tharp Institute: <https://www.vantharp.com/>,
Reinforcement Learning R package: <https://CRAN.R-project.org/package=ReinforcementLearning>.
Author: Vladimir Zhbanko
Maintainer: Vladimir Zhbanko <vladimir.zhbanko@gmail.com>
Diff between lazytrade versions 0.3.11 dated 2020-08-10 and 0.4.0 dated 2020-09-16
lazytrade-0.3.11/lazytrade/data/macd_ML2_small.rda |only lazytrade-0.3.11/lazytrade/man/macd_ML2_small.Rd |only lazytrade-0.4.0/lazytrade/DESCRIPTION | 8 lazytrade-0.4.0/lazytrade/MD5 | 55 +- lazytrade-0.4.0/lazytrade/NEWS.md | 17 lazytrade-0.4.0/lazytrade/R/aml_collect_data.R | 125 ++--- lazytrade-0.4.0/lazytrade/R/aml_make_model.R | 92 ++-- lazytrade-0.4.0/lazytrade/R/aml_score_data.R | 41 + lazytrade-0.4.0/lazytrade/R/aml_test_model.R | 221 +++++++--- lazytrade-0.4.0/lazytrade/R/datasets.R | 48 +- lazytrade-0.4.0/lazytrade/R/evaluate_market_type.R | 31 - lazytrade-0.4.0/lazytrade/R/mt_make_model.R | 100 +++- lazytrade-0.4.0/lazytrade/R/zzz.R | 8 lazytrade-0.4.0/lazytrade/README.md | 34 + lazytrade-0.4.0/lazytrade/data/macd_ML2.rda |only lazytrade-0.4.0/lazytrade/data/result_R1.rda |only lazytrade-0.4.0/lazytrade/data/y.rda |only lazytrade-0.4.0/lazytrade/inst/extdata/AI_RSIADXUSDJPY60.csv |only lazytrade-0.4.0/lazytrade/man/DFR.Rd | 8 lazytrade-0.4.0/lazytrade/man/EURUSDM15X75.Rd | 4 lazytrade-0.4.0/lazytrade/man/aml_collect_data.Rd | 60 -- lazytrade-0.4.0/lazytrade/man/aml_make_model.Rd | 49 +- lazytrade-0.4.0/lazytrade/man/aml_score_data.Rd | 42 - lazytrade-0.4.0/lazytrade/man/aml_test_model.Rd | 73 ++- lazytrade-0.4.0/lazytrade/man/evaluate_market_type.Rd | 22 lazytrade-0.4.0/lazytrade/man/macd_100.Rd | 94 ++-- lazytrade-0.4.0/lazytrade/man/macd_ML2.Rd |only lazytrade-0.4.0/lazytrade/man/mt_make_model.Rd | 23 - lazytrade-0.4.0/lazytrade/man/result_R1.Rd |only lazytrade-0.4.0/lazytrade/man/x_test_model.Rd | 4 lazytrade-0.4.0/lazytrade/man/y.Rd |only lazytrade-0.4.0/lazytrade/tests/testthat/test-aml_collect_data.R | 59 -- lazytrade-0.4.0/lazytrade/tests/testthat/test-aml_test_model.R | 72 +-- 33 files changed, 772 insertions(+), 518 deletions(-)
Title: Continuous Time Structural Equation Modelling
Description: Hierarchical continuous time state space modelling, for linear
and nonlinear systems measured by continuous variables, with limited support for
binary data. The subject specific dynamic system is modelled as a stochastic
differential equation (SDE), measurement models are typically multivariate normal factor models.
Linear mixed effects SDE's estimated via maximum likelihood and optimization are the default.
Nonlinearities, (state dependent parameters) and random effects on all parameters
are possible, using either max likelihood / max a posteriori optimization
(with optional importance sampling) or
Stan's Hamiltonian Monte Carlo sampling. See <https://github.com/cdriveraus/ctsem/raw/master/vignettes/hierarchicalmanual.pdf>
for details. Priors may be used. For the conceptual
overview of the hierarchical Bayesian linear SDE approach, see <https://www.researchgate.net/publication/324093594_Hierarchical_Bayesian_Continuous_Time_Dynamic_Modeling>.
Exogenous inputs may also be included, for an overview of such possibilities see <https://www.researchgate.net/publication/328221807_Understanding_the_Time_Course_of_Interventions_with_Continuous_Time_Dynamic_Models> .
Stan based functions are not available on 32 bit Windows systems at present.
<https://cdriver.netlify.app/> contains some tutorial blog posts.
Author: Charles Driver [aut, cre, cph],
Manuel Voelkle [aut, cph],
Han Oud [aut, cph],
Trustees of Columbia University [cph]
Maintainer: Charles Driver <driver@mpib-berlin.mpg.de>
Diff between ctsem versions 3.3.8 dated 2020-07-16 and 3.3.11 dated 2020-09-16
DESCRIPTION | 16 ++++++++-------- MD5 | 20 ++++++++++---------- R/ctDataHelp.R | 2 +- R/ctDiscretePars.R | 10 +++++++--- R/ctModelLatex.R | 2 +- R/ctStanModelWriter.R | 18 +++++++++--------- inst/doc/hierarchicalmanual.pdf |binary man/Oscillating.Rd | 2 +- man/ctStanDiscretePars.Rd | 3 +++ src/stan_files/ctsm.stan | 14 +++++++------- src/stan_files/ctsmgen.stan | 12 ++++++------ 11 files changed, 53 insertions(+), 46 deletions(-)
Title: Formal Psychological Models of Categorization and Learning
Description: Formal psychological models of categorization and learning, independently-replicated data sets against which to test them, and simulation archives.
Author: Andy Wills, Lenard Dome, Charlotte Edmunds, Garrett Honke, Angus Inkster, René Schlegelmilch, Stuart Spicer
Maintainer: Andy Wills <andy@willslab.co.uk>
Diff between catlearn versions 0.7.1 dated 2019-10-10 and 0.8 dated 2020-09-16
DESCRIPTION | 14 ++--- MD5 | 28 +++++----- NAMESPACE | 4 - R/RcppExports.R | 16 +++-- R/nosof94sustain.R | 2 R/slpSUSTAIN.R | 107 ++++++++++++++++++++++++++++++++------- README.md | 2 man/nosof94sustain.Rd | 8 +- man/slpALCOVE.Rd | 5 + man/slpLMSnet.Rd |only man/slpSUSTAIN.Rd | 58 ++++++++++++++++++--- src/RcppExports.cpp | 15 +++++ src/slpLMSnet.cpp |only src/slpalcove.cpp | 26 +++++++++ tests/data/test_slpLMSnet.RData |only tests/testthat/test_slpLMSnet.R |only tests/testthat/test_slpSUSTAIN.R | 4 - 17 files changed, 226 insertions(+), 63 deletions(-)
Title: Functions for Working with Two- And Four-Parameter Beta
Probability Distributions
Description: Package providing a number of functions for working with the Two- and Four-
parameter Beta distributions, including alternative parameterizations and calculation
of moments. Includes functions for estimating classification accuracy, diagnostic
performance and consistency, using what's known as the Livingston and Lewis approach
in the educational-measurement literature as the base method.
Livingston and Lewis (1995) <doi:10.1111/j.1745-3984.1995.tb00462.x>.
Hanson (1991) <https://files.eric.ed.gov/fulltext/ED344945.pdf>.
Glas, Lijmer, Prins, Bonsel and Bossuyt (2003) <doi:10.1016/S0895-4356(03)00177-X>.
Author: Haakon Haakstad
Maintainer: Haakon Haakstad <h.t.haakstad@cemo.uio.no>
Diff between betafunctions versions 1.2.1 dated 2020-09-02 and 1.2.2 dated 2020-09-16
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 31 +++++++++++++++++++++++++++++++ R/betafunctions.R | 13 +++++++++---- R/classification.R | 25 +++++++------------------ man/Beta.2p.fit.Rd | 4 ++-- man/LL.CA.Rd | 5 +---- 7 files changed, 59 insertions(+), 37 deletions(-)
Title: Create Interactive Timeline Visualizations in R
Description: Create rich and fully interactive timeline visualizations.
Timelines can be included in Shiny apps and R markdown documents, or viewed
from the R console and 'RStudio' Viewer. 'timevis' includes an extensive API
to manipulate a timeline after creation, and supports getting data out of
the visualization into R. Based on the 'vis.js' Timeline module and the
'htmlwidgets' R package.
Author: Dean Attali [aut, cre] (R interface),
Almende B.V. [aut, cph] (vis.js library, https://visjs.org)
Maintainer: Dean Attali <daattali@gmail.com>
Diff between timevis versions 0.5 dated 2019-01-16 and 1.0.0 dated 2020-09-16
DESCRIPTION | 17 +-- MD5 | 77 ++++++++-------- NAMESPACE | 2 NEWS.md | 27 +++-- R/api.R | 79 +++++++++++++++- R/runExample.R | 2 R/timevis.R | 80 ++++++++++++++-- R/utils.R | 2 README.md | 84 ++++++++++------- build/vignette.rds |binary inst/doc/timevis.R | 14 +- inst/doc/timevis.Rmd | 37 +++++-- inst/doc/timevis.html | 132 ++++++++++++++++----------- inst/example/server.R | 3 inst/example/ui-helpers.R | 4 inst/example/ui.R | 53 ++++------- inst/example/www/help.md |only inst/example/www/style.css | 9 + inst/htmlwidgets/timevis.js | 31 ++++++ man/addCustomTime.Rd | 1 man/addItem.Rd | 1 man/addItems.Rd | 1 man/centerItem.Rd | 3 man/centerTime.Rd | 3 man/fitWindow.Rd | 3 man/reexports.Rd | 6 - man/removeCustomTime.Rd | 1 man/removeItem.Rd | 1 man/runExample.Rd | 3 man/setCurrentTime.Rd |only man/setCustomTime.Rd |only man/setGroups.Rd | 1 man/setItems.Rd | 1 man/setOptions.Rd | 1 man/setSelection.Rd | 3 man/setWindow.Rd | 3 man/timevis-shiny.Rd | 3 man/timevis.Rd | 211 ++++++++++++++++++++++++++++---------------- man/timevisData.Rd | 4 man/timevisDataGroups.Rd | 4 vignettes/timevis.Rmd | 37 +++++-- 41 files changed, 611 insertions(+), 333 deletions(-)
Title: Analysis of MHC Data in Non-Model Species
Description: Ten 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 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 1.2.1 dated 2019-08-11 and 1.3.0 dated 2020-09-16
MHCtools-1.2.1/MHCtools/R/CalcPdist_func_20171023.R |only MHCtools-1.2.1/MHCtools/R/GetHpltStats_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/GetHpltTable_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/GetReplStats_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/GetReplTable_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/HpltFind_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/PapaDiv_func_20170924.R |only MHCtools-1.2.1/MHCtools/R/ReplMatch_func_20170924.R |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest10_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest11_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest12_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest13_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest14_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest15_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest16_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest17_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest18_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest19_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest1_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest20_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest21_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest22_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest23_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest24_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest25_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest26_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest27_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest28_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest29_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest2_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest30_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest31_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest32_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest33_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest34_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest3_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest4_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest5_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest6_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest7_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest8_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest9_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_10_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_11_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_12_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_13_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_14_20170928.rdata |only 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MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_26_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_27_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_28_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_29_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_2_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_30_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_31_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_32_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_33_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_34_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_35_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_36_20170928.rdata |only 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MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_48_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_49_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_4_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_50_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_5_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_6_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_7_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_8_20170928.rdata |only MHCtools-1.2.1/MHCtools/inst/extdata/ReplMatchOut/Repl_set_9_20170928.rdata |only MHCtools-1.2.1/MHCtools/man/CalcPdist.Rd |only MHCtools-1.3.0/MHCtools/DESCRIPTION | 41 +- MHCtools-1.3.0/MHCtools/LICENSE | 2 MHCtools-1.3.0/MHCtools/MD5 | 166 +++------- MHCtools-1.3.0/MHCtools/NAMESPACE | 5 MHCtools-1.3.0/MHCtools/NEWS.md | 53 ++- MHCtools-1.3.0/MHCtools/R/CreateFas_func_20170924.R | 9 MHCtools-1.3.0/MHCtools/R/CreateSamplesFas_func_20170924.R | 9 MHCtools-1.3.0/MHCtools/R/DistCalc_func_20200902.R |only MHCtools-1.3.0/MHCtools/R/GetHpltStats_func_20200915.R |only MHCtools-1.3.0/MHCtools/R/GetHpltTable_func_20200915.R |only MHCtools-1.3.0/MHCtools/R/GetReplStats_func_20200914.R |only MHCtools-1.3.0/MHCtools/R/GetReplTable_func_20200914.R |only MHCtools-1.3.0/MHCtools/R/HpltFind_func_20200915.R |only MHCtools-1.3.0/MHCtools/R/PapaDiv_func_20200915.R |only MHCtools-1.3.0/MHCtools/R/ReplMatch_func_20200914.R |only MHCtools-1.3.0/MHCtools/README.md | 70 ++-- MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest10_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest1_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest2_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest3_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest4_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest5_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest6_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest7_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest8_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/HpltFindOut/Haplotypes_nest9_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_10_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_1_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_2_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_3_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_4_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_5_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_6_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_7_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_8_20200915.Rds |only MHCtools-1.3.0/MHCtools/inst/extdata/ReplMatchOut/Repl_set_9_20200915.Rds |only MHCtools-1.3.0/MHCtools/man/CreateFas.Rd | 10 MHCtools-1.3.0/MHCtools/man/CreateSamplesFas.Rd | 10 MHCtools-1.3.0/MHCtools/man/DistCalc.Rd |only MHCtools-1.3.0/MHCtools/man/GetHpltStats.Rd | 10 MHCtools-1.3.0/MHCtools/man/GetHpltTable.Rd | 10 MHCtools-1.3.0/MHCtools/man/GetReplStats.Rd | 10 MHCtools-1.3.0/MHCtools/man/GetReplTable.Rd | 10 MHCtools-1.3.0/MHCtools/man/HpltFind.Rd | 16 MHCtools-1.3.0/MHCtools/man/PapaDiv.Rd | 16 MHCtools-1.3.0/MHCtools/man/ReplMatch.Rd | 16 MHCtools-1.3.0/MHCtools/man/nest_table.Rd | 6 MHCtools-1.3.0/MHCtools/man/parents_table.Rd | 6 MHCtools-1.3.0/MHCtools/man/replicates_table.Rd | 6 MHCtools-1.3.0/MHCtools/man/sequence_table.Rd | 6 MHCtools-1.3.0/MHCtools/man/sequence_table_fas.Rd | 6 MHCtools-1.3.0/MHCtools/man/sequence_table_repl.Rd | 6 145 files changed, 277 insertions(+), 222 deletions(-)
Title: Isoscape Computation and Inference of Spatial Origins using
Mixed Models
Description: Building isoscapes using mixed models and inferring the geographic
origin of samples based on their isotopic ratios. This package is essentially a
simplified interface to several other packages which implements a new
statistical framework based on mixed models. It uses 'spaMM' for fitting and
predicting isoscapes, and assigning an organism's origin depending on its
isotopic ratio. 'IsoriX' also relies heavily on the package 'rasterVis' for
plotting the maps produced with 'raster' using 'lattice'.
Author: Alexandre Courtiol [aut, cre] (<https://orcid.org/0000-0003-0637-2959>),
François Rousset [aut] (<https://orcid.org/0000-0003-4670-0371>),
Marie-Sophie Rohwaeder [aut],
Stephanie Kramer-Schadt [aut] (<https://orcid.org/0000-0002-9269-4446>)
Maintainer: Alexandre Courtiol <alexandre.courtiol@gmail.com>
Diff between IsoriX versions 0.8.1 dated 2018-08-29 and 0.8.2 dated 2020-09-16
IsoriX-0.8.1/IsoriX/data/datalist |only IsoriX-0.8.2/IsoriX/DESCRIPTION | 12 +- IsoriX-0.8.2/IsoriX/MD5 | 92 +++++++++--------- IsoriX-0.8.2/IsoriX/NAMESPACE | 13 -- IsoriX-0.8.2/IsoriX/R/IsoriX-dataset.R | 12 +- IsoriX-0.8.2/IsoriX/R/IsoriX-package.R | 2 IsoriX-0.8.2/IsoriX/R/calibfit.R | 10 + IsoriX-0.8.2/IsoriX/R/defunct.R | 89 +---------------- IsoriX-0.8.2/IsoriX/R/getelev.R | 6 - IsoriX-0.8.2/IsoriX/R/isofind.R | 4 IsoriX-0.8.2/IsoriX/R/isofit.R | 4 IsoriX-0.8.2/IsoriX/R/isoscape.R | 2 IsoriX-0.8.2/IsoriX/R/plots.R | 35 +++++- IsoriX-0.8.2/IsoriX/R/prepraster.R | 10 - IsoriX-0.8.2/IsoriX/R/zzz.R | 13 -- IsoriX-0.8.2/IsoriX/data/CountryBorders.rda |binary IsoriX-0.8.2/IsoriX/data/OceanMask.rda |binary IsoriX-0.8.2/IsoriX/inst/NEWS.Rd | 30 +++++ IsoriX-0.8.2/IsoriX/man/AssignDataAlien.Rd | 6 - IsoriX-0.8.2/IsoriX/man/AssignDataBat.Rd | 6 - IsoriX-0.8.2/IsoriX/man/AssignDataBat2.Rd | 6 - IsoriX-0.8.2/IsoriX/man/CalibDataAlien.Rd | 6 - IsoriX-0.8.2/IsoriX/man/CalibDataBat.Rd | 6 - IsoriX-0.8.2/IsoriX/man/CalibDataBat2.Rd | 6 - IsoriX-0.8.2/IsoriX/man/CountryBorders.Rd | 6 - IsoriX-0.8.2/IsoriX/man/ElevRasterDE.Rd | 8 - IsoriX-0.8.2/IsoriX/man/GNIPDataDE.Rd | 8 - IsoriX-0.8.2/IsoriX/man/GNIPDataEUagg.Rd | 8 - IsoriX-0.8.2/IsoriX/man/IsoriX-defunct.Rd | 33 ------ IsoriX-0.8.2/IsoriX/man/IsoriX-package.Rd | 2 IsoriX-0.8.2/IsoriX/man/OceanMask.Rd | 4 IsoriX-0.8.2/IsoriX/man/PrecipBrickDE.Rd | 6 - IsoriX-0.8.2/IsoriX/man/create_aliens.Rd | 12 +- IsoriX-0.8.2/IsoriX/man/downloadfile.Rd | 10 + IsoriX-0.8.2/IsoriX/man/getelev.Rd | 4 IsoriX-0.8.2/IsoriX/man/getprecip.Rd | 2 IsoriX-0.8.2/IsoriX/man/isofind.Rd | 3 IsoriX-0.8.2/IsoriX/man/isofit.Rd | 20 ++- IsoriX-0.8.2/IsoriX/man/isomultifit.Rd | 21 ++-- IsoriX-0.8.2/IsoriX/man/isomultiscape.Rd | 3 IsoriX-0.8.2/IsoriX/man/isopalette2.Rd | 4 IsoriX-0.8.2/IsoriX/man/isoscape.Rd | 2 IsoriX-0.8.2/IsoriX/man/isosim.Rd | 24 ++-- IsoriX-0.8.2/IsoriX/man/plots.Rd | 63 +++++++----- IsoriX-0.8.2/IsoriX/man/prepraster.Rd | 18 ++- IsoriX-0.8.2/IsoriX/man/prepsources.Rd | 24 +++- IsoriX-0.8.2/IsoriX/man/reexports.Rd | 8 - IsoriX-0.8.2/IsoriX/tests/testthat/test_na_handling.R |only 48 files changed, 345 insertions(+), 318 deletions(-)
Title: Domain Specific MetaData Scheme
Description: Forms the core for developing own domain specific metadata schemes.
It contains the basic functionality needed for all metadata schemes based on the
'dmdScheme'. See R.M. Krug and O.L. Petchey (2019) <DOI:10.5281/zenodo.3581970>.
Author: Rainer M. Krug [aut, cre] (<https://orcid.org/0000-0002-7490-0066>),
Owen L. Petchey [ctb] (<https://orcid.org/0000-0002-7724-1633>)
Maintainer: Rainer M. Krug <Rainer.Krug@uzh.ch>
Diff between dmdScheme versions 1.2.4 dated 2020-09-14 and 1.2.6 dated 2020-09-16
dmdScheme-1.2.4/dmdScheme/inst/reports/validation_report.md |only dmdScheme-1.2.6/dmdScheme/DESCRIPTION | 6 +-- dmdScheme-1.2.6/dmdScheme/MD5 | 11 ++---- dmdScheme-1.2.6/dmdScheme/R/report.character.R | 8 +++- dmdScheme-1.2.6/dmdScheme/R/report.dmdScheme_validation.R | 4 +- dmdScheme-1.2.6/dmdScheme/inst/doc/Develop_and_Use_the_dmdScheme.html | 18 +++++----- dmdScheme-1.2.6/dmdScheme/man/report.Rd | 4 ++ 7 files changed, 30 insertions(+), 21 deletions(-)
Title: Supervised Tensor Decomposition with Interactive Side
Information
Description: Implement the alternating algorithm for supervised tensor decomposition with interactive side information.
Author: Jiaxin Hu [aut, cre, cph],
Zhuoyan Xu [aut, cph],
Chanwoo Lee [aut, cph],
Miaoyan Wang [aut, cph]
Maintainer: Jiaxin Hu <jhu267@wisc.edu>
Diff between tensorregress versions 2.0 dated 2020-03-17 and 3.0 dated 2020-09-16
DESCRIPTION | 25 ++++---- MD5 | 20 ++++-- NAMESPACE | 4 - R/HCP.R |only R/bricks.R | 30 ++++++++-- R/nations.R |only R/tensor_regress.R | 148 ++++++++++++++++++++++++++------------------------ data |only man/HCP.Rd |only man/nations.Rd |only man/sele_rank.Rd | 14 ++-- man/sim_data.Rd | 18 +++--- man/tensor_regress.Rd | 27 ++++----- 13 files changed, 161 insertions(+), 125 deletions(-)
Title: An IMAP Client for R
Description: An easy-to-use IMAP client that provides tools for message searching,
selective fetching of message attributes, mailbox management, attachment extraction,
and several other IMAP features, paving the way for email data analysis.
Author: Allan Quadros [aut, cre] (<https://orcid.org/0000-0003-3250-5380>)
Maintainer: Allan Quadros <allanvcq@gmail.com>
Diff between mRpostman versions 0.3.1 dated 2020-04-20 and 0.9.0.0 dated 2020-09-16
mRpostman-0.3.1/mRpostman/R/add-flags.R |only mRpostman-0.3.1/mRpostman/R/check-args-add-replace-flags.R |only mRpostman-0.3.1/mRpostman/R/check-args-copy-msg.R |only mRpostman-0.3.1/mRpostman/R/check-args-custom-search.R |only mRpostman-0.3.1/mRpostman/R/check-args-date.R |only mRpostman-0.3.1/mRpostman/R/check-args-delete-msg.R |only mRpostman-0.3.1/mRpostman/R/check-args-expunge.R |only mRpostman-0.3.1/mRpostman/R/check-args-fetch-full-msg.R |only mRpostman-0.3.1/mRpostman/R/check-args-fetch-msg-header.R |only mRpostman-0.3.1/mRpostman/R/check-args-fetch-msg-metadata.R |only mRpostman-0.3.1/mRpostman/R/check-args-fetch-msg-text.R |only mRpostman-0.3.1/mRpostman/R/check-args-flag.R |only mRpostman-0.3.1/mRpostman/R/check-args-get-attachments.R |only mRpostman-0.3.1/mRpostman/R/check-args-get-max-min-id.R |only mRpostman-0.3.1/mRpostman/R/check-args-list-attachments.R |only mRpostman-0.3.1/mRpostman/R/check-args-move-msg.R |only mRpostman-0.3.1/mRpostman/R/check-args-remove-flags.R |only mRpostman-0.3.1/mRpostman/R/check-args-search-date.R |only mRpostman-0.3.1/mRpostman/R/check-args-search-flag.R |only mRpostman-0.3.1/mRpostman/R/check-args-search-period.R |only mRpostman-0.3.1/mRpostman/R/check-args-search-size.R |only mRpostman-0.3.1/mRpostman/R/check-args-search-string.R |only mRpostman-0.3.1/mRpostman/R/check-args-search_within.R |only mRpostman-0.3.1/mRpostman/R/check-args-size.R |only mRpostman-0.3.1/mRpostman/R/check-args-string.R |only mRpostman-0.3.1/mRpostman/R/check-args-within.R |only mRpostman-0.3.1/mRpostman/R/config-handle.R |only mRpostman-0.3.1/mRpostman/R/configure-imap.R |only mRpostman-0.3.1/mRpostman/R/copy-msg.R |only mRpostman-0.3.1/mRpostman/R/count-msgs.R |only mRpostman-0.3.1/mRpostman/R/custom-search.R |only mRpostman-0.3.1/mRpostman/R/delete-msg.R |only mRpostman-0.3.1/mRpostman/R/examine-mailbox.R |only mRpostman-0.3.1/mRpostman/R/expunge.R |only mRpostman-0.3.1/mRpostman/R/fetch-full-msg.R |only mRpostman-0.3.1/mRpostman/R/fetch-msg-header.R |only mRpostman-0.3.1/mRpostman/R/fetch-msg-metadata.R |only mRpostman-0.3.1/mRpostman/R/fetch-msg-text.R |only mRpostman-0.3.1/mRpostman/R/flag-options.R |only mRpostman-0.3.1/mRpostman/R/get-attachments.R |only mRpostman-0.3.1/mRpostman/R/get-max-id.R |only mRpostman-0.3.1/mRpostman/R/get-min-id.R |only mRpostman-0.3.1/mRpostman/R/list-mailboxes.R |only mRpostman-0.3.1/mRpostman/R/list-server-capabilities.R |only mRpostman-0.3.1/mRpostman/R/loop-fetch-full-msg.R |only mRpostman-0.3.1/mRpostman/R/loop-fetch-msg-header.R |only mRpostman-0.3.1/mRpostman/R/loop-fetch-msg-metadata.R |only mRpostman-0.3.1/mRpostman/R/loop-fetch-msg-text.R |only mRpostman-0.3.1/mRpostman/R/move-msg.R |only mRpostman-0.3.1/mRpostman/R/pipes.R |only mRpostman-0.3.1/mRpostman/R/remove-flags.R |only mRpostman-0.3.1/mRpostman/R/rename-mailbox.R |only mRpostman-0.3.1/mRpostman/R/replace-flags.R |only mRpostman-0.3.1/mRpostman/R/search-before.R |only mRpostman-0.3.1/mRpostman/R/search-flag.R |only mRpostman-0.3.1/mRpostman/R/search-larger-than.R |only mRpostman-0.3.1/mRpostman/R/search-older-than.R |only mRpostman-0.3.1/mRpostman/R/search-on.R |only mRpostman-0.3.1/mRpostman/R/search-period.R |only mRpostman-0.3.1/mRpostman/R/search-sent-before.R |only mRpostman-0.3.1/mRpostman/R/search-sent-on.R |only mRpostman-0.3.1/mRpostman/R/search-sent-period.R |only mRpostman-0.3.1/mRpostman/R/search-sent-since.R |only mRpostman-0.3.1/mRpostman/R/search-since.R |only mRpostman-0.3.1/mRpostman/R/search-smaller-than.R |only mRpostman-0.3.1/mRpostman/R/search-string.R |only mRpostman-0.3.1/mRpostman/R/search-younger-than.R |only mRpostman-0.3.1/mRpostman/R/section-or-field-options.R |only mRpostman-0.3.1/mRpostman/R/select-mailbox.R |only mRpostman-0.3.1/mRpostman/man/add_flags.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_add_replace_flags.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_copy_msg.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_custom_search.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_date.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_delete_msg.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_expunge.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_fetch_full_msg.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_fetch_msg_header.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_fetch_msg_metadata.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_fetch_msg_text.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_flag.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_get_attachments.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_get_max_min_id.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_list_attachments.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_move_msg.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_remove_flags.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_date.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_flag.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_period.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_size.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_string.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_search_within.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_size.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_string.Rd |only mRpostman-0.3.1/mRpostman/man/check_args_within.Rd |only mRpostman-0.3.1/mRpostman/man/clean_fetch_results.Rd |only mRpostman-0.3.1/mRpostman/man/config_handle.Rd |only mRpostman-0.3.1/mRpostman/man/copy_msg.Rd |only mRpostman-0.3.1/mRpostman/man/count_msgs.Rd |only mRpostman-0.3.1/mRpostman/man/custom_search.Rd |only mRpostman-0.3.1/mRpostman/man/decode_base64_text_if_needed.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_custom.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_date.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_flag.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_period.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_size.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_string.Rd |only mRpostman-0.3.1/mRpostman/man/define_searchrequest_within.Rd |only mRpostman-0.3.1/mRpostman/man/delete_msg.Rd |only mRpostman-0.3.1/mRpostman/man/examine_mailbox.Rd |only mRpostman-0.3.1/mRpostman/man/exposition.Rd |only mRpostman-0.3.1/mRpostman/man/expunge.Rd |only mRpostman-0.3.1/mRpostman/man/fetch_full_msg.Rd |only mRpostman-0.3.1/mRpostman/man/fetch_msg_header.Rd |only mRpostman-0.3.1/mRpostman/man/fetch_msg_metadata.Rd |only mRpostman-0.3.1/mRpostman/man/fetch_msg_text.Rd |only mRpostman-0.3.1/mRpostman/man/fix_search_stripping.Rd |only mRpostman-0.3.1/mRpostman/man/flag_options.Rd |only mRpostman-0.3.1/mRpostman/man/get_attachments.Rd |only mRpostman-0.3.1/mRpostman/man/get_max_id.Rd |only mRpostman-0.3.1/mRpostman/man/get_min_id.Rd |only mRpostman-0.3.1/mRpostman/man/has_attachment.Rd |only mRpostman-0.3.1/mRpostman/man/list_mailboxes.Rd |only mRpostman-0.3.1/mRpostman/man/list_server_capabilities.Rd |only mRpostman-0.3.1/mRpostman/man/loop_fetch_full_msg.Rd |only mRpostman-0.3.1/mRpostman/man/loop_fetch_msg_header.Rd |only mRpostman-0.3.1/mRpostman/man/loop_fetch_msg_metadata.Rd |only mRpostman-0.3.1/mRpostman/man/loop_fetch_msg_text.Rd |only mRpostman-0.3.1/mRpostman/man/move_msg.Rd |only mRpostman-0.3.1/mRpostman/man/remove_flags.Rd |only mRpostman-0.3.1/mRpostman/man/rename_mailbox.Rd |only mRpostman-0.3.1/mRpostman/man/replace_flags.Rd |only mRpostman-0.3.1/mRpostman/man/search_before.Rd |only mRpostman-0.3.1/mRpostman/man/search_flag.Rd |only mRpostman-0.3.1/mRpostman/man/search_larger_than.Rd |only mRpostman-0.3.1/mRpostman/man/search_older_than.Rd |only mRpostman-0.3.1/mRpostman/man/search_on.Rd |only mRpostman-0.3.1/mRpostman/man/search_period.Rd |only mRpostman-0.3.1/mRpostman/man/search_sent_before.Rd |only mRpostman-0.3.1/mRpostman/man/search_sent_on.Rd |only mRpostman-0.3.1/mRpostman/man/search_sent_period.Rd |only mRpostman-0.3.1/mRpostman/man/search_sent_since.Rd |only mRpostman-0.3.1/mRpostman/man/search_since.Rd |only mRpostman-0.3.1/mRpostman/man/search_smaller_than.Rd |only mRpostman-0.3.1/mRpostman/man/search_string.Rd |only mRpostman-0.3.1/mRpostman/man/search_younger_than.Rd |only mRpostman-0.3.1/mRpostman/man/section_or_field_options.Rd |only mRpostman-0.3.1/mRpostman/man/select_mailbox.Rd |only mRpostman-0.3.1/mRpostman/vignettes/figures/INBOX.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/INBOX2.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/aol1.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/aol2.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/aol3.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/gmail1.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/yahoo1.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/yahoo2.png |only mRpostman-0.3.1/mRpostman/vignettes/figures/yahoo3.png |only mRpostman-0.9.0.0/mRpostman/DESCRIPTION | 30 mRpostman-0.9.0.0/mRpostman/MD5 | 353 +-- mRpostman-0.9.0.0/mRpostman/NAMESPACE | 41 mRpostman-0.9.0.0/mRpostman/R/AND.R | 46 mRpostman-0.9.0.0/mRpostman/R/OR.R | 27 mRpostman-0.9.0.0/mRpostman/R/R6.R |only mRpostman-0.9.0.0/mRpostman/R/add-flags-int.R |only mRpostman-0.9.0.0/mRpostman/R/adjust-folder-name.R |only mRpostman-0.9.0.0/mRpostman/R/adjust_repeated_filenames.R |only mRpostman-0.9.0.0/mRpostman/R/before.R | 46 mRpostman-0.9.0.0/mRpostman/R/check-args.R |only mRpostman-0.9.0.0/mRpostman/R/clean-fetch-results.R | 38 mRpostman-0.9.0.0/mRpostman/R/config-con-handle-and-params.R |only mRpostman-0.9.0.0/mRpostman/R/configure_imap.R |only mRpostman-0.9.0.0/mRpostman/R/copy-msg-int.R |only mRpostman-0.9.0.0/mRpostman/R/create-folder-int.R |only mRpostman-0.9.0.0/mRpostman/R/decode-base64-text-if-needed.R | 16 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-custom.R | 72 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-date.R | 72 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-flag.R | 67 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-period.R | 75 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-size.R | 78 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-string.R | 79 mRpostman-0.9.0.0/mRpostman/R/define-searchrequest-within.R | 69 mRpostman-0.9.0.0/mRpostman/R/delete-msg-int-new.R |only mRpostman-0.9.0.0/mRpostman/R/delete-msg-int.R |only mRpostman-0.9.0.0/mRpostman/R/esearch-count-int.R |only mRpostman-0.9.0.0/mRpostman/R/esearch-max-id-int.R |only mRpostman-0.9.0.0/mRpostman/R/esearch-min-id-int.R |only mRpostman-0.9.0.0/mRpostman/R/examine-folder-int.R |only mRpostman-0.9.0.0/mRpostman/R/execute-attachment-fetch.R |only mRpostman-0.9.0.0/mRpostman/R/execute-complementary-operations.R |only mRpostman-0.9.0.0/mRpostman/R/execute-fetch-loop.R |only mRpostman-0.9.0.0/mRpostman/R/execute-search.R |only mRpostman-0.9.0.0/mRpostman/R/expunge-int.R |only mRpostman-0.9.0.0/mRpostman/R/extract-MIME-level-and-filenames.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-attachments-int.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-attachments-list-int.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-body-int.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-header-int.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-metadata-int.R |only mRpostman-0.9.0.0/mRpostman/R/fetch-text-int.R |only mRpostman-0.9.0.0/mRpostman/R/fix-search-stripping.R | 24 mRpostman-0.9.0.0/mRpostman/R/flag.R | 54 mRpostman-0.9.0.0/mRpostman/R/get-attachments-int.R |only mRpostman-0.9.0.0/mRpostman/R/has-attachment.R | 37 mRpostman-0.9.0.0/mRpostman/R/larger-than.R | 35 mRpostman-0.9.0.0/mRpostman/R/list-attachments.R | 65 mRpostman-0.9.0.0/mRpostman/R/list-flags-int.R |only mRpostman-0.9.0.0/mRpostman/R/list-mail-folders-int.R |only mRpostman-0.9.0.0/mRpostman/R/list-server-capabilities-int.R |only mRpostman-0.9.0.0/mRpostman/R/modify-con-handle.R |only mRpostman-0.9.0.0/mRpostman/R/move-msg-int.R |only mRpostman-0.9.0.0/mRpostman/R/older-than.R | 44 mRpostman-0.9.0.0/mRpostman/R/on.R | 28 mRpostman-0.9.0.0/mRpostman/R/pipe.R |only mRpostman-0.9.0.0/mRpostman/R/remove-flags-int.R |only mRpostman-0.9.0.0/mRpostman/R/rename-folder-int.R |only mRpostman-0.9.0.0/mRpostman/R/replace-flags-int.R |only mRpostman-0.9.0.0/mRpostman/R/response-error-handling.R |only mRpostman-0.9.0.0/mRpostman/R/search-before-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-flag-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-larger-than-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-older-than-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-on-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-period-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-sent-before-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-sent-on-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-sent-period-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-sent-since-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-since-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-smaller-than-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-string-int.R |only mRpostman-0.9.0.0/mRpostman/R/search-younger-than-int.R |only mRpostman-0.9.0.0/mRpostman/R/select-folder-int.R |only mRpostman-0.9.0.0/mRpostman/R/sent-before.R | 29 mRpostman-0.9.0.0/mRpostman/R/sent-on.R | 29 mRpostman-0.9.0.0/mRpostman/R/sent-since.R | 31 mRpostman-0.9.0.0/mRpostman/R/serialize-filename.R |only mRpostman-0.9.0.0/mRpostman/R/since.R | 29 mRpostman-0.9.0.0/mRpostman/R/smaller-than.R | 43 mRpostman-0.9.0.0/mRpostman/R/string.R | 59 mRpostman-0.9.0.0/mRpostman/R/younger-than.R | 41 mRpostman-0.9.0.0/mRpostman/R/zzz.R |only mRpostman-0.9.0.0/mRpostman/README.md | 385 ++- mRpostman-0.9.0.0/mRpostman/build/partial.rdb |binary mRpostman-0.9.0.0/mRpostman/build/vignette.rds |binary mRpostman-0.9.0.0/mRpostman/inst/doc/basics.R | 580 ++--- mRpostman-0.9.0.0/mRpostman/inst/doc/basics.Rmd | 875 ++++---- mRpostman-0.9.0.0/mRpostman/inst/doc/basics.html | 989 +++++----- mRpostman-0.9.0.0/mRpostman/inst/doc/code_migration.R |only mRpostman-0.9.0.0/mRpostman/inst/doc/code_migration.Rmd |only mRpostman-0.9.0.0/mRpostman/inst/doc/code_migration.html |only mRpostman-0.9.0.0/mRpostman/inst/doc/xoauth2.0.R |only mRpostman-0.9.0.0/mRpostman/inst/doc/xoauth2.0.Rmd |only mRpostman-0.9.0.0/mRpostman/inst/doc/xoauth2.0.html |only mRpostman-0.9.0.0/mRpostman/man/AND.Rd | 62 mRpostman-0.9.0.0/mRpostman/man/ImapCon.Rd |only mRpostman-0.9.0.0/mRpostman/man/OR.Rd | 62 mRpostman-0.9.0.0/mRpostman/man/before.Rd | 66 mRpostman-0.9.0.0/mRpostman/man/configure_imap.Rd | 81 mRpostman-0.9.0.0/mRpostman/man/execute_attachment_fetch.Rd |only mRpostman-0.9.0.0/mRpostman/man/execute_complementary_operations.Rd |only mRpostman-0.9.0.0/mRpostman/man/execute_fetch_loop.Rd |only mRpostman-0.9.0.0/mRpostman/man/flag.Rd | 67 mRpostman-0.9.0.0/mRpostman/man/larger_than.Rd | 70 mRpostman-0.9.0.0/mRpostman/man/list_attachments.Rd | 44 mRpostman-0.9.0.0/mRpostman/man/mRpostman-package.Rd | 21 mRpostman-0.9.0.0/mRpostman/man/metadata_options.Rd | 4 mRpostman-0.9.0.0/mRpostman/man/older_than.Rd | 73 mRpostman-0.9.0.0/mRpostman/man/on.Rd | 65 mRpostman-0.9.0.0/mRpostman/man/pipe.Rd | 2 mRpostman-0.9.0.0/mRpostman/man/sent_before.Rd | 66 mRpostman-0.9.0.0/mRpostman/man/sent_on.Rd | 66 mRpostman-0.9.0.0/mRpostman/man/sent_since.Rd | 68 mRpostman-0.9.0.0/mRpostman/man/since.Rd | 66 mRpostman-0.9.0.0/mRpostman/man/smaller_than.Rd | 70 mRpostman-0.9.0.0/mRpostman/man/string.Rd | 78 mRpostman-0.9.0.0/mRpostman/man/younger_than.Rd | 72 mRpostman-0.9.0.0/mRpostman/vignettes/basics.Rmd | 875 ++++---- mRpostman-0.9.0.0/mRpostman/vignettes/code_migration.Rmd |only mRpostman-0.9.0.0/mRpostman/vignettes/figures/basics |only mRpostman-0.9.0.0/mRpostman/vignettes/figures/xoauth |only mRpostman-0.9.0.0/mRpostman/vignettes/xoauth2.0 |only mRpostman-0.9.0.0/mRpostman/vignettes/xoauth2.0.Rmd |only 283 files changed, 3105 insertions(+), 3359 deletions(-)
Title: Project MOSAIC Statistics and Mathematics Teaching Utilities
Description: Data sets and utilities from Project MOSAIC (<http://mosaic-web.org>) used
to teach mathematics, statistics, computation and modeling. Funded by the
NSF, Project MOSAIC is a community of educators working to tie together
aspects of quantitative work that students in science, technology,
engineering and mathematics will need in their professional lives, but
which are usually taught in isolation, if at all.
Author: Randall Pruim [aut, cre],
Daniel T. Kaplan [aut],
Nicholas J. Horton [aut]
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between mosaic versions 1.7.0 dated 2020-05-18 and 1.8.2 dated 2020-09-16
mosaic-1.7.0/mosaic/tests/figs |only mosaic-1.8.2/mosaic/DESCRIPTION | 21 mosaic-1.8.2/mosaic/MD5 | 191 +-- mosaic-1.8.2/mosaic/NAMESPACE | 2 mosaic-1.8.2/mosaic/NEWS.md | 2 mosaic-1.8.2/mosaic/R/aggregatingAux.R | 115 +- mosaic-1.8.2/mosaic/R/aggregatingMeta.R | 13 mosaic-1.8.2/mosaic/R/bargraph.R | 11 mosaic-1.8.2/mosaic/R/confint.R | 2 mosaic-1.8.2/mosaic/R/favstats.R | 5 mosaic-1.8.2/mosaic/R/mPlots.R | 90 + mosaic-1.8.2/mosaic/R/mosaic-package.R | 1 mosaic-1.8.2/mosaic/R/mplot.R | 32 mosaic-1.8.2/mosaic/R/pqrdata.R | 70 - mosaic-1.8.2/mosaic/R/prop.test.R | 4 mosaic-1.8.2/mosaic/R/resample.R | 19 mosaic-1.8.2/mosaic/R/ttest.R | 4 mosaic-1.8.2/mosaic/R/utils.R | 1 mosaic-1.8.2/mosaic/R/zscore.R | 7 mosaic-1.8.2/mosaic/R/zzz.R | 25 mosaic-1.8.2/mosaic/README.md | 11 mosaic-1.8.2/mosaic/build/vignette.rds |binary mosaic-1.8.2/mosaic/inst/doc/MinimalRgg.Rnw | 4 mosaic-1.8.2/mosaic/inst/doc/MinimalRgg.pdf |binary mosaic-1.8.2/mosaic/inst/doc/Resampling.R | 141 +- mosaic-1.8.2/mosaic/inst/doc/Resampling.Rmd | 238 ++-- mosaic-1.8.2/mosaic/inst/doc/Resampling.html | 514 ++++++---- mosaic-1.8.2/mosaic/inst/doc/mosaic-resources.Rmd | 43 mosaic-1.8.2/mosaic/inst/doc/mosaic-resources.html | 55 - mosaic-1.8.2/mosaic/inst/rmarkdown/templates/mosaic-fancy/skeleton/skeleton.Rmd | 2 mosaic-1.8.2/mosaic/inst/rmarkdown/templates/mosaic-shiny/skeleton/skeleton.Rmd | 2 mosaic-1.8.2/mosaic/man/aggregatingAux.Rd | 16 mosaic-1.8.2/mosaic/man/bargraph.Rd | 12 mosaic-1.8.2/mosaic/man/binom.test.Rd | 2 mosaic-1.8.2/mosaic/man/cdist.Rd | 2 mosaic-1.8.2/mosaic/man/cnorm.Rd | 2 mosaic-1.8.2/mosaic/man/confint.Rd | 2 mosaic-1.8.2/mosaic/man/diffmean.Rd | 2 mosaic-1.8.2/mosaic/man/fav_stats.Rd | 5 mosaic-1.8.2/mosaic/man/leaflet_map.Rd | 2 mosaic-1.8.2/mosaic/man/mPlotting.Rd | 8 mosaic-1.8.2/mosaic/man/mplot.Rd | 8 mosaic-1.8.2/mosaic/man/pdist.Rd | 2 mosaic-1.8.2/mosaic/man/pqrdata.Rd | 42 mosaic-1.8.2/mosaic/man/prop.test.Rd | 2 mosaic-1.8.2/mosaic/man/qdist.Rd | 2 mosaic-1.8.2/mosaic/man/read.file.Rd | 4 mosaic-1.8.2/mosaic/man/reexports.Rd | 2 mosaic-1.8.2/mosaic/man/resample.Rd | 31 mosaic-1.8.2/mosaic/man/themes.Rd | 2 mosaic-1.8.2/mosaic/man/ttest.Rd | 2 mosaic-1.8.2/mosaic/man/update_ci.Rd | 2 mosaic-1.8.2/mosaic/man/value.Rd | 2 mosaic-1.8.2/mosaic/man/xhistogram.Rd | 2 mosaic-1.8.2/mosaic/man/zscore.Rd | 7 mosaic-1.8.2/mosaic/vignettes/MinimalRgg.Rnw | 4 mosaic-1.8.2/mosaic/vignettes/Resampling.Rmd | 238 ++-- mosaic-1.8.2/mosaic/vignettes/mosaic-resources.Rmd | 43 mosaic-1.8.2/mosaic/vignettes/web-only/ggformula-lattice.Rmd | 2 59 files changed, 1191 insertions(+), 884 deletions(-)
Title: Firth's Bias-Reduced Logistic Regression
Description: Fit a logistic regression model using Firth's bias reduction method, equivalent to penalization of the log-likelihood by the Jeffreys
prior. Confidence intervals for regression coefficients can be computed by penalized profile likelihood. Firth's method was proposed as ideal
solution to the problem of separation in logistic regression, see Heinze and Schemper (2002) <doi:10.1002/sim.1047>. If needed, the bias reduction can be turned off such that ordinary
maximum likelihood logistic regression is obtained. Two new modifications of Firth's method, FLIC and FLAC, lead to unbiased predictions and are now available
in the package as well, see Puhr, Heinze, Nold, Lusa and Geroldinger (2017) <doi:10.1002/sim.7273>.
Author: Georg Heinze [aut, cre],
Meinhard Ploner [aut],
Daniela Dunkler [ctb],
Harry Southworth [ctb],
Lena Jiricka [aut]
Maintainer: Georg Heinze <georg.heinze@meduniwien.ac.at>
Diff between logistf versions 1.23.1 dated 2020-09-04 and 1.24 dated 2020-09-16
logistf-1.23.1/logistf/R/extractAIC.logistf.r |only logistf-1.23.1/logistf/data/sex2.txt.gz |only logistf-1.23.1/logistf/data/sexagg.txt.gz |only logistf-1.23.1/logistf/man/add1.logistf.Rd |only logistf-1.23.1/logistf/man/anova.logistf.Rd |only logistf-1.23.1/logistf/man/is.logistf.Rd |only logistf-1.23.1/logistf/man/logistf-package.Rd |only logistf-1.23.1/logistf/man/logistpl.control.rd |only logistf-1.23.1/logistf/man/print.logistf.Rd |only logistf-1.23.1/logistf/man/print.logistftest.Rd |only logistf-1.23.1/logistf/man/summary.logistf.Rd |only logistf-1.23.1/logistf/man/vcov.logistf.Rd |only logistf-1.24/logistf/DESCRIPTION | 26 logistf-1.24/logistf/MD5 | 105 ++- logistf-1.24/logistf/NAMESPACE | 148 +++-- logistf-1.24/logistf/R/CLIP.confint.r | 656 ++++++++++++----------- logistf-1.24/logistf/R/CLIP.profile.r | 373 +++++++------ logistf-1.24/logistf/R/PVR.confint.r | 59 ++ logistf-1.24/logistf/R/add1.R |only logistf-1.24/logistf/R/anova.logistf.r | 263 +++++++-- logistf-1.24/logistf/R/backward.r |only logistf-1.24/logistf/R/cholLinpack.R | 13 logistf-1.24/logistf/R/confint.flac.R |only logistf-1.24/logistf/R/confint.flic.R |only logistf-1.24/logistf/R/data.R |only logistf-1.24/logistf/R/extractAIC.R |only logistf-1.24/logistf/R/flac.R |only logistf-1.24/logistf/R/flic.R |only logistf-1.24/logistf/R/helpfunc.R |only logistf-1.24/logistf/R/logistf-package.R |only logistf-1.24/logistf/R/logistf.R | 292 ++++++++-- logistf-1.24/logistf/R/logistf.control.R | 37 + logistf-1.24/logistf/R/logistf.fit.R | 168 +++-- logistf-1.24/logistf/R/logistf.fit.old.R | 268 ++++----- logistf-1.24/logistf/R/logistf.pdf.R | 5 logistf-1.24/logistf/R/logistftest.R | 140 +++- logistf-1.24/logistf/R/logistpl.R | 59 +- logistf-1.24/logistf/R/logistpl.control.r | 39 + logistf-1.24/logistf/R/plot.logistf.profile.r | 193 ++++-- logistf-1.24/logistf/R/predict.flac.R |only logistf-1.24/logistf/R/predict.flic.R |only logistf-1.24/logistf/R/predict.logistf.R |only logistf-1.24/logistf/R/print.flac.R |only logistf-1.24/logistf/R/print.flic.R |only logistf-1.24/logistf/R/print.logistf.R | 11 logistf-1.24/logistf/R/print.logistftest.R | 1 logistf-1.24/logistf/R/profile.logistf.r | 345 ++++++------ logistf-1.24/logistf/R/summary.flac.R |only logistf-1.24/logistf/R/summary.flic.R |only logistf-1.24/logistf/R/summary.logistf.R | 89 ++- logistf-1.24/logistf/README.md |only logistf-1.24/logistf/data/sex2.rda |only logistf-1.24/logistf/data/sexagg.rda |only logistf-1.24/logistf/man/CLIP.confint.Rd | 170 ++--- logistf-1.24/logistf/man/CLIP.profile.Rd | 151 ++--- logistf-1.24/logistf/man/PVR.confint.Rd | 77 +- logistf-1.24/logistf/man/add1.Rd |only logistf-1.24/logistf/man/anova.Rd |only logistf-1.24/logistf/man/backward.Rd | 145 +++-- logistf-1.24/logistf/man/flac.Rd |only logistf-1.24/logistf/man/flic.Rd |only logistf-1.24/logistf/man/logistf.Rd | 268 ++++----- logistf-1.24/logistf/man/logistf.control.Rd | 78 +- logistf-1.24/logistf/man/logistftest.Rd | 149 ++--- logistf-1.24/logistf/man/logistpl.control.Rd |only logistf-1.24/logistf/man/plot.logistf.profile.Rd | 127 +--- logistf-1.24/logistf/man/predict.flac.Rd |only logistf-1.24/logistf/man/predict.flic.Rd |only logistf-1.24/logistf/man/predict.logistf.Rd |only logistf-1.24/logistf/man/profile.logistf.Rd | 137 ++-- logistf-1.24/logistf/man/sex2.Rd | 51 + logistf-1.24/logistf/man/sexagg.Rd |only logistf-1.24/logistf/src/logistf.c | 90 ++- logistf-1.24/logistf/src/veclib.h | 7 74 files changed, 2885 insertions(+), 1855 deletions(-)
Title: Highly Adaptive Lasso Conditional Density Estimation
Description: Conditional density estimation is a longstanding and challenging
problem in statistical theory, and numerous proposals exist for optimally
estimating such complex functions. Algorithms for nonparametric estimation
of conditional densities based on a pooled hazard regression formulation and
semiparametric estimation via conditional hazards modeling are implemented
based on the highly adaptive lasso, a nonparametric regression function for
efficient estimation with fast convergence under mild assumptions. The
pooled hazards formulation implemented was first described by Díaz and
van der Laan (2011) <doi:10.2202/1557-4679.1356>.
Author: Nima Hejazi [aut, cre, cph] (<https://orcid.org/0000-0002-7127-2789>),
David Benkeser [aut] (<https://orcid.org/0000-0002-1019-8343>),
Mark van der Laan [aut, ths] (<https://orcid.org/0000-0003-1432-5511>)
Maintainer: Nima Hejazi <nh@nimahejazi.org>
Diff between haldensify versions 0.0.5 dated 2020-03-14 and 0.0.6 dated 2020-09-16
DESCRIPTION | 13 - MD5 | 32 ++-- NAMESPACE | 3 NEWS.md | 13 + R/haldensify.R | 325 ++++++++++++++++++++++++++----------------- R/predict.R | 89 +++++++---- R/utils.R | 11 - README.md | 111 +++++--------- build/partial.rdb |binary build/vignette.rds |only inst/REFERENCES.bib | 34 ++++ inst/doc |only man/fit_haldensify.Rd |only man/format_long_hazards.Rd | 4 man/haldensify.Rd | 72 +++++---- man/map_hazard_to_density.Rd | 7 man/predict.haldensify.Rd | 21 +- vignettes |only 18 files changed, 433 insertions(+), 302 deletions(-)
Title: Handy File and String Manipulation
Description: This started out as a package for file and string
manipulation. Since then, the 'fs' and 'strex' packages emerged,
offering functionality previously given by this package (but it's done
better in these new ones). Those packages have hence almost pushed
'filesstrings' into extinction. However, it still has a small number
of unique, handy file manipulation functions which can be seen in the
vignette. One example is a function to remove spaces from all file
names in a directory.
Author: Rory Nolan [aut, cre, cph] (<https://orcid.org/0000-0002-5239-4043>),
Sergi Padilla-Parra [ths] (<https://orcid.org/0000-0002-8010-9481>)
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between filesstrings versions 3.1.5 dated 2019-06-27 and 3.1.6 dated 2020-09-16
filesstrings-3.1.5/filesstrings/tests/testthat/test_files.R |only filesstrings-3.1.5/filesstrings/tests/testthat/test_strings.R |only filesstrings-3.1.5/filesstrings/tests/testthat/test_utils.R |only filesstrings-3.1.6/filesstrings/DESCRIPTION | 59 +- filesstrings-3.1.6/filesstrings/MD5 | 64 +- filesstrings-3.1.6/filesstrings/NAMESPACE | 3 filesstrings-3.1.6/filesstrings/NEWS.md | 6 filesstrings-3.1.6/filesstrings/R/all-equal.R | 6 filesstrings-3.1.6/filesstrings/R/files.R | 48 - filesstrings-3.1.6/filesstrings/R/filesstrings-package.R | 3 filesstrings-3.1.6/filesstrings/build/partial.rdb |binary filesstrings-3.1.6/filesstrings/build/vignette.rds |binary filesstrings-3.1.6/filesstrings/inst/doc/files.R | 18 filesstrings-3.1.6/filesstrings/inst/doc/files.html | 21 filesstrings-3.1.6/filesstrings/man/create_dir.Rd | 3 filesstrings-3.1.6/filesstrings/man/currency.Rd | 2 filesstrings-3.1.6/filesstrings/man/extract_non_numerics.Rd | 103 ++- filesstrings-3.1.6/filesstrings/man/extract_numbers.Rd | 112 ++- filesstrings-3.1.6/filesstrings/man/match_arg.Rd | 20 filesstrings-3.1.6/filesstrings/man/move_files.Rd | 3 filesstrings-3.1.6/filesstrings/man/nice_file_nums.Rd | 3 filesstrings-3.1.6/filesstrings/man/nth_number_after_mth.Rd | 284 +++++++--- filesstrings-3.1.6/filesstrings/man/nth_number_before_mth.Rd | 284 +++++++--- filesstrings-3.1.6/filesstrings/man/remove_dir.Rd | 3 filesstrings-3.1.6/filesstrings/man/remove_filename_spaces.Rd | 3 filesstrings-3.1.6/filesstrings/man/rename_with_nums.Rd | 3 filesstrings-3.1.6/filesstrings/man/singleize.Rd | 4 filesstrings-3.1.6/filesstrings/man/str_after_nth.Rd | 6 filesstrings-3.1.6/filesstrings/man/str_before_nth.Rd | 6 filesstrings-3.1.6/filesstrings/man/str_locate_nth.Rd | 4 filesstrings-3.1.6/filesstrings/man/str_split_by_nums.Rd | 41 + filesstrings-3.1.6/filesstrings/man/trim_anything.Rd | 4 filesstrings-3.1.6/filesstrings/man/unitize_dirs.Rd | 15 filesstrings-3.1.6/filesstrings/tests/testthat/test-files.R |only filesstrings-3.1.6/filesstrings/tests/testthat/test-strings.R |only filesstrings-3.1.6/filesstrings/tests/testthat/test-utils.R |only 36 files changed, 785 insertions(+), 346 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines" <doi:10.1214/aos/1176347963>.
(The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow. Derived from mda:mars by Trevor Hastie and
Rob Tibshirani. Uses Alan Miller's Fortran utilities
with Thomas Lumley's leaps wrapper.
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 5.1.2 dated 2019-11-09 and 5.2.0 dated 2020-09-16
DESCRIPTION | 10 MD5 | 191 +-- NEWS | 38 R/as.char.R | 15 R/call.dots.R | 4 R/check.index.R | 29 R/dotlib.R | 2 R/earth.R | 1446 ++++------------------------ R/earth.cv.R | 50 R/earth.fit.R |only R/earth.prune.R |only R/earth.regress.R | 2 R/evimp.R | 24 R/expand.arg.R | 154 +- R/lib.R | 159 +-- R/mars.to.earth.R | 34 R/model.matrix.earth.R | 264 +++-- R/naken.R |only R/offset.R | 60 - R/plot.earth.R | 210 ++-- R/plotd.R | 24 R/plotmo.methods.earth.R | 243 +++- R/predict.earth.R | 1 R/print.earth.R | 16 R/residuals.earth.R | 1 R/varmod.R | 75 - build/partial.rdb |binary inst/doc/earth-notes.pdf |binary inst/doc/earth-varmod.pdf |binary inst/doc/index.html | 4 inst/slowtests/check.earth.matches.glm.R | 10 inst/slowtests/earth.times.R | 44 inst/slowtests/earth.times.bat | 2 inst/slowtests/earth.times.txt | 82 + inst/slowtests/make.bat | 18 inst/slowtests/test.allowedfunc.Rout.save | 10 inst/slowtests/test.allowedfunc.bat | 2 inst/slowtests/test.big.Rout.save | 43 inst/slowtests/test.big.bat | 13 inst/slowtests/test.bpairs.R | 58 - inst/slowtests/test.bpairs.Rout.save | 337 +++--- inst/slowtests/test.bpairs.bat | 2 inst/slowtests/test.cv.R | 4 inst/slowtests/test.cv.Rout.save | 877 ++++++++-------- inst/slowtests/test.cv.bat | 2 inst/slowtests/test.earthc.bat | 25 inst/slowtests/test.earthc.mak | 16 inst/slowtests/test.earthmain.clang.bat | 32 inst/slowtests/test.earthmain.gcc.bat | 33 inst/slowtests/test.earthmain.gcc64.bat | 18 inst/slowtests/test.earthmain.vc.bat | 36 inst/slowtests/test.emma.R |only inst/slowtests/test.emma.Rout.save |only inst/slowtests/test.emma.bat |only inst/slowtests/test.expand.bpairs.R | 37 inst/slowtests/test.expand.bpairs.Rout.save | 83 - inst/slowtests/test.expand.bpairs.bat | 2 inst/slowtests/test.full.R | 164 ++- inst/slowtests/test.full.Rout.save | 1187 +++++++++++++++++++--- inst/slowtests/test.full.bat | 2 inst/slowtests/test.glm.R | 76 + inst/slowtests/test.glm.Rout.save | 578 ++++++----- inst/slowtests/test.glm.bat | 2 inst/slowtests/test.incorrect.Rout.save | 22 inst/slowtests/test.incorrect.bat | 13 inst/slowtests/test.mem.R | 2 inst/slowtests/test.mem.Rout.save | 157 +-- inst/slowtests/test.mem.bat | 2 inst/slowtests/test.mods.Rout.save | 92 - inst/slowtests/test.mods.bat | 15 inst/slowtests/test.multresp.R | 73 - inst/slowtests/test.multresp.Rout.save | 225 ++-- inst/slowtests/test.multresp.bat | 2 inst/slowtests/test.offset.R | 11 inst/slowtests/test.offset.Rout.save | 46 inst/slowtests/test.offset.bat | 2 inst/slowtests/test.ordinal.R |only inst/slowtests/test.ordinal.Rout.save |only inst/slowtests/test.ordinal.bat |only inst/slowtests/test.plotd.R | 3 inst/slowtests/test.plotd.Rout.save | 13 inst/slowtests/test.plotd.bat | 2 inst/slowtests/test.pmethod.cv.R | 56 - inst/slowtests/test.pmethod.cv.Rout.save | 222 ++-- inst/slowtests/test.pmethod.cv.bat | 13 inst/slowtests/test.prolog.R | 15 inst/slowtests/test.varmod.R | 45 inst/slowtests/test.varmod.Rout.save | 173 +-- inst/slowtests/test.varmod.bat | 2 inst/slowtests/test.varmod.mgcv.R | 5 inst/slowtests/test.varmod.mgcv.Rout.save | 7 inst/slowtests/test.varmod.mgcv.bat | 2 inst/slowtests/test.weights.R | 9 inst/slowtests/test.weights.Rout.save | 37 inst/slowtests/test.weights.bat | 2 man/earth.Rd | 4 man/earth.object.Rd | 72 - man/etitanic.Rd | 6 man/model.matrix.earth.Rd | 25 src/earth.h | 2 src/rentries.c | 2 101 files changed, 4476 insertions(+), 3754 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-13 1.1.1
2020-05-03 1.1
2020-04-13 1.0.1
2020-04-06 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-01 0.9.0
Title: Normalized Stochasticity Ratio
Description: To estimate ecological stochasticity in community assembly. Understanding the community assembly mechanisms controlling biodiversity patterns is a central issue in ecology. Although it is generally accepted that both deterministic and stochastic processes play important roles in community assembly, quantifying their relative importance is challenging. The new index, normalized stochasticity ratio (NST), is to estimate ecological stochasticity, i.e. relative importance of stochastic processes, in community assembly. With functions in this package, NST can be calculated based on different similarity metrics and/or different null model algorithms, as well as some previous indexes, e.g. previous Stochasticity Ratio (ST), Standard Effect Size (SES), modified Raup-Crick metrics (RC). Functions for permutational test and bootstrapping analysis are also included. Previous ST is published by Zhou et al (2014) <doi:10.1073/pnas.1324044111>. NST is modified from ST by considering two alternative situations and normalizing the index to range from 0 to 1 (Ning et al 2019) <doi:10.1073/pnas.1904623116>. A modified version, MST, is a special case of NST, used in some recent or upcoming publications, e.g. Liang et al (2019) <doi:10.1101/638908>. SES is calculated as described in Kraft et al (2011) <doi:10.1126/science.1208584>. RC is calculated as reported by Chase et al (2011) <doi:10.1890/es10-00117.1> and Stegen et al (2013) <doi:10.1038/ismej.2013.93>. Version 3 added NST based on phylogenetic beta diversity, used by Ning et al (2020) <doi:10.1101/2020.02.22.960872>.
Author: Daliang Ning
Maintainer: Daliang Ning <ningdaliang@ou.edu>
Diff between NST versions 2.0.4 dated 2019-10-08 and 3.0.3 dated 2020-09-16
DESCRIPTION | 12 ++++++------ MD5 | 16 ++++++++++------ R/bmntd.big.r |only R/pNST.r |only R/tNST.r | 14 ++++++++++++++ data/tda.rda |binary man/NST-package.Rd | 10 +++++++--- man/bmntd.big.Rd |only man/pNST.Rd |only man/tNST.Rd | 4 ++-- man/tda.Rd | 1 + 11 files changed, 40 insertions(+), 17 deletions(-)
Title: Tools for Creating Tuning Parameter Values
Description: Many models contain tuning parameters (i.e. parameters that cannot be directly estimated from the data). These tools can be used to define objects for creating, simulating, or validating values for such parameters.
Author: Max Kuhn [aut, cre],
RStudio [cph]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between dials versions 0.0.8 dated 2020-07-08 and 0.0.9 dated 2020-09-16
DESCRIPTION | 11 +--- MD5 | 83 +++++++++++++++++--------------- NAMESPACE | 6 ++ NEWS.md | 17 ++++++ R/constructors.R | 57 +++++++++++++++------ R/encode_unit.R | 2 R/finalize.R | 6 +- R/grids.R | 7 ++ R/misc.R | 12 ++++ R/param_all_neighbors.R |only R/param_degree.R | 2 R/param_mixture.R | 2 R/param_network.R | 2 R/param_num_tokens.R | 2 R/param_penalty.R | 2 R/param_svm.R | 2 R/param_trees.R | 4 - R/parameters.R | 8 +-- R/pull_dials_object.R |only R/space_filling.R | 5 + README.md | 21 ++++++++ build/vignette.rds |binary inst/doc/Basics.Rmd | 2 inst/doc/Basics.html | 35 ++++++------- man/all_neighbors.Rd |only man/cost.Rd | 2 man/degree.Rd | 2 man/dials-package.Rd | 2 man/dropout.Rd | 2 man/encode_unit.Rd | 2 man/finalize.Rd | 6 +- man/grid_max_entropy.Rd | 5 + man/grid_regular.Rd | 3 - man/mixture.Rd | 2 man/new-param.Rd | 2 man/penalty.Rd | 2 man/pull_dials_object.Rd |only man/trees.Rd | 4 - tests/testthat/print_quant.txt |only tests/testthat/test_construction.R | 4 + tests/testthat/test_grid.R | 13 +++++ tests/testthat/test_object.RData |only tests/testthat/test_params.R | 4 - tests/testthat/test_pull_dials_object.R |only tests/testthat/test_space_filling.R | 13 +++-- vignettes/Basics.Rmd | 2 46 files changed, 238 insertions(+), 120 deletions(-)
Title: Download Australian Bureau of Meteorology Water Data
Description: An R interface to the Australian Bureau of Meteorology Water Data Online web service.
Author: Alexander Buzacott
Maintainer: Alexander Buzacott <abuz5257@uni.sydney.edu.au>
Diff between bomWater versions 0.4.0 dated 2020-08-19 and 0.4.1 dated 2020-09-16
DESCRIPTION | 8 MD5 | 72 +++++-- NAMESPACE | 1 NEWS.md | 9 R/bomWater.R | 152 ++++++++++++++ R/getSeries.R | 114 ++++++++--- inst/doc/bomWater.R | 5 inst/doc/bomWater.Rmd | 10 inst/doc/bomWater.html | 419 ++++++++++++++++++++++------------------- man/get_as_stored.Rd | 26 ++ man/get_daily.Rd | 35 +++ man/get_hourly.Rd | 26 ++ man/get_monthly.Rd | 27 ++ man/get_parameter_list.Rd |only man/get_station_list.Rd | 66 ++++++ man/get_timeseries.Rd | 38 +++ man/get_yearly.Rd | 28 ++ man/parameters.Rd | 2 tests/testthat/helper.R |only tests/testthat/test-bomWater.R | 162 ++++++++++++--- tests/testthat/www.bom.gov.au |only vignettes/bomWater |only vignettes/bomWater.Rmd | 10 23 files changed, 898 insertions(+), 312 deletions(-)
Title: Response Probability Functions
Description: The purpose of this package is to factor out logic
and math common to Item Factor Analysis fitting, diagnostics, and
analysis. It is envisioned as core support code suitable for more
specialized IRT packages to build upon. Complete access to optimized C
functions are made available with R_RegisterCCallable().
This software is described in Pritikin & Falk (2020) <doi:10.1177/0146621620929431>.
Author: Joshua Pritikin [cre, aut],
Jonathan Weeks [ctb],
Li Cai [ctb],
Carrie Houts [ctb],
Phil Chalmers [ctb],
Michael D. Hunter [ctb],
Carl F. Falk [ctb]
Maintainer: Joshua Pritikin <jpritikin@pobox.com>
Diff between rpf versions 1.0.4 dated 2020-05-07 and 1.0.5 dated 2020-09-16
DESCRIPTION | 13 +++++++------ MD5 | 15 ++++++++------- README.md | 4 ++-- build/rpf.pdf |binary build/vignette.rds |binary inst/CITATION |only inst/doc/diagnostics.html | 44 ++++++++++++++++++++++---------------------- man/rpf.ogive.Rd | 4 +++- tools/rox | 2 +- 9 files changed, 43 insertions(+), 39 deletions(-)
Title: Download and Tidy Time Series Data from the Australian Bureau of
Statistics
Description: Downloads, imports, and tidies time series data from the
Australian Bureau of Statistics <https://www.abs.gov.au/>.
Author: Matt Cowgill [aut, cre],
Zoe Meers [aut],
Jaron Lee [aut],
David Diviny [ctb],
Hugh Parsonage [ctb]
Maintainer: Matt Cowgill <mattcowgill@gmail.com>
Diff between readabs versions 0.4.3.2 dated 2020-08-29 and 0.4.3.3 dated 2020-09-16
DESCRIPTION | 10 +++--- MD5 | 26 ++++++++--------- NAMESPACE | 1 NEWS.md | 3 + R/download_data_cube.r | 4 +- R/read_abs.R | 1 README.md | 12 ++++--- build/vignette.rds |binary inst/doc/readabs_vignette.Rmd | 2 - inst/doc/readabs_vignette.html | 47 +++++++++++++++++++------------ tests/testthat/test-download-data-cube.r | 23 ++------------- tests/testthat/test-fst.R | 26 +++++++---------- tests/testthat/test-readabs.R | 10 +++--- vignettes/readabs_vignette.Rmd | 2 - 14 files changed, 84 insertions(+), 83 deletions(-)