Title: Data Import, Cleaning, and Conversions for Swimming Results
Description: The goal for of the 'SwimmeR' package is to provide means of acquiring, and then analyzing, data from swimming (and diving) competitions. To that end 'SwimmeR' allows results to be read in from .html sources, like 'Hy-Tek' real time results pages, '.pdf' files, 'ISL' results, and (on a development basis) '.hy3' files. Once read in, 'SwimmeR' can convert swimming times (performances) between the computationally useful format of seconds reported to the '100ths' place (e.g. 95.37), and the conventional reporting format (1:35.37) used in the swimming community. 'SwimmeR' can also score meets in a variety of formats with user defined point values, convert times between courses ('LCM', 'SCM', 'SCY') and draw single elimination brackets, as well as providing a suite of tools for working cleaning swimming data. This is a developmental package, not yet mature.
Author: Greg Pilgrim [aut, cre] (<https://orcid.org/0000-0001-7831-442X>),
Caitlin Baldwin [ctb]
Maintainer: Greg Pilgrim <gpilgrim2670@gmail.com>
Diff between SwimmeR versions 0.5.0 dated 2020-10-19 and 0.6.0 dated 2020-11-22
SwimmeR-0.5.0/SwimmeR/inst/extdata/ISL_2019_CollegePark_Day_1.pdf |only SwimmeR-0.5.0/SwimmeR/inst/extdata/ISL_2020_Match_1.pdf |only SwimmeR-0.5.0/SwimmeR/inst/extdata/Meet-Results-Nassau-County-Championships-09Feb2011-002.hy3 |only SwimmeR-0.5.0/SwimmeR/inst/extdata/TX_OH_Results.csv |only SwimmeR-0.5.0/SwimmeR/inst/extdata/df_standard.csv |only SwimmeR-0.5.0/SwimmeR/inst/extdata/hex_logo.png |only SwimmeR-0.5.0/SwimmeR/inst/extdata/logo.png |only SwimmeR-0.6.0/SwimmeR/DESCRIPTION | 6 SwimmeR-0.6.0/SwimmeR/LICENSE | 4 SwimmeR-0.6.0/SwimmeR/MD5 | 158 SwimmeR-0.6.0/SwimmeR/NAMESPACE | 147 SwimmeR-0.6.0/SwimmeR/NEWS.md | 97 SwimmeR-0.6.0/SwimmeR/R/Course_Convert.R | 182 SwimmeR-0.6.0/SwimmeR/R/Course_Convert_DF.R | 208 SwimmeR-0.6.0/SwimmeR/R/King200Breast.R | 28 SwimmeR-0.6.0/SwimmeR/R/Read_Results.R | 126 SwimmeR-0.6.0/SwimmeR/R/SwimR.R | 12 SwimmeR-0.6.0/SwimmeR/R/Swim_Parse.R | 2971 +++++----- SwimmeR-0.6.0/SwimmeR/R/add_row_numbers.R | 34 SwimmeR-0.6.0/SwimmeR/R/collect_relay_swimmers.R |only SwimmeR-0.6.0/SwimmeR/R/discard_errors.R |only SwimmeR-0.6.0/SwimmeR/R/dive_place.R | 76 SwimmeR-0.6.0/SwimmeR/R/draw_bracket.R | 632 +- SwimmeR-0.6.0/SwimmeR/R/event_parse.R | 118 SwimmeR-0.6.0/SwimmeR/R/event_parse_ISL.R | 118 SwimmeR-0.6.0/SwimmeR/R/fill_down.R |only SwimmeR-0.6.0/SwimmeR/R/fill_left.R |only SwimmeR-0.6.0/SwimmeR/R/fold.R | 60 SwimmeR-0.6.0/SwimmeR/R/get_mode.R | 92 SwimmeR-0.6.0/SwimmeR/R/globals.R | 123 SwimmeR-0.6.0/SwimmeR/R/hy3_places.R | 154 SwimmeR-0.6.0/SwimmeR/R/hy3_times.R | 158 SwimmeR-0.6.0/SwimmeR/R/interleave_results.R | 72 SwimmeR-0.6.0/SwimmeR/R/is_link_broken.R |only SwimmeR-0.6.0/SwimmeR/R/lines_sort.R |only SwimmeR-0.6.0/SwimmeR/R/list_transform.R |only SwimmeR-0.6.0/SwimmeR/R/mmss_format.R | 52 SwimmeR-0.6.0/SwimmeR/R/not_in.R | 48 SwimmeR-0.6.0/SwimmeR/R/parse_hy3.R | 991 +-- SwimmeR-0.6.0/SwimmeR/R/relay_aggregate.R | 17 SwimmeR-0.6.0/SwimmeR/R/results_score.R | 760 +- SwimmeR-0.6.0/SwimmeR/R/sec_format.R | 56 SwimmeR-0.6.0/SwimmeR/R/sec_format_helper.R | 56 SwimmeR-0.6.0/SwimmeR/R/splits_parse.R |only SwimmeR-0.6.0/SwimmeR/R/splits_parse_ISL.R |only SwimmeR-0.6.0/SwimmeR/R/splits_reform.R |only SwimmeR-0.6.0/SwimmeR/R/swim_parse_ISL.R | 720 +- SwimmeR-0.6.0/SwimmeR/R/swim_place.R | 70 SwimmeR-0.6.0/SwimmeR/R/tie_rescore.R | 82 SwimmeR-0.6.0/SwimmeR/R/utils-pipe.R | 22 SwimmeR-0.6.0/SwimmeR/README.md | 263 SwimmeR-0.6.0/SwimmeR/build/vignette.rds |binary SwimmeR-0.6.0/SwimmeR/inst/CITATION |only SwimmeR-0.6.0/SwimmeR/inst/doc/SwimmeR.R | 239 SwimmeR-0.6.0/SwimmeR/inst/doc/SwimmeR.Rmd | 464 - SwimmeR-0.6.0/SwimmeR/inst/doc/SwimmeR.html | 1209 ++-- SwimmeR-0.6.0/SwimmeR/inst/extdata/Meet-Results-2019-CIF-SWIMMING-AND-DIVING-CHAMPIONSHIPS-10May2019-001.hy3 |only SwimmeR-0.6.0/SwimmeR/inst/extdata/TX_OH_Results.rds |only SwimmeR-0.6.0/SwimmeR/inst/extdata/df_standard.rds |only SwimmeR-0.6.0/SwimmeR/inst/extdata/s2-results.pdf |only SwimmeR-0.6.0/SwimmeR/inst/extdata/ttsc10262018results-rev2.pdf |only SwimmeR-0.6.0/SwimmeR/man/King200Breast.Rd | 38 SwimmeR-0.6.0/SwimmeR/man/Read_Results.Rd | 64 SwimmeR-0.6.0/SwimmeR/man/Swim_Parse.Rd | 120 SwimmeR-0.6.0/SwimmeR/man/SwimmeR.Rd | 26 SwimmeR-0.6.0/SwimmeR/man/collect_relay_swimmers.Rd |only SwimmeR-0.6.0/SwimmeR/man/discard_errors.Rd |only SwimmeR-0.6.0/SwimmeR/man/event_parse_ISL.Rd | 46 SwimmeR-0.6.0/SwimmeR/man/fill_down.Rd |only SwimmeR-0.6.0/SwimmeR/man/fill_left.Rd |only SwimmeR-0.6.0/SwimmeR/man/get_mode.Rd | 82 SwimmeR-0.6.0/SwimmeR/man/hy3_places.Rd | 56 SwimmeR-0.6.0/SwimmeR/man/hy3_times.Rd | 50 SwimmeR-0.6.0/SwimmeR/man/interleave_results.Rd | 54 SwimmeR-0.6.0/SwimmeR/man/is_link_broken.Rd |only SwimmeR-0.6.0/SwimmeR/man/lines_sort.Rd |only SwimmeR-0.6.0/SwimmeR/man/list_transform.Rd |only SwimmeR-0.6.0/SwimmeR/man/mmss_format.Rd | 60 SwimmeR-0.6.0/SwimmeR/man/parse_hy3.Rd | 72 SwimmeR-0.6.0/SwimmeR/man/results_score.Rd | 174 SwimmeR-0.6.0/SwimmeR/man/sec_format.Rd | 62 SwimmeR-0.6.0/SwimmeR/man/sec_format_helper.Rd | 34 SwimmeR-0.6.0/SwimmeR/man/splits_parse.Rd |only SwimmeR-0.6.0/SwimmeR/man/splits_parse_ISL.Rd |only SwimmeR-0.6.0/SwimmeR/man/splits_reform.Rd |only SwimmeR-0.6.0/SwimmeR/man/swim_parse_ISL.Rd | 72 SwimmeR-0.6.0/SwimmeR/tests/testthat.R | 8 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-Course_Convert.R | 6 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-Course_Convert_DF.R | 22 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-ISL.R | 96 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-Read_Results_works.R | 44 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-Swim_Parse_works.R | 287 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-get_mode.R | 20 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-hy3_parse_works.R | 18 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-results_score_works.R | 177 SwimmeR-0.6.0/SwimmeR/tests/testthat/test-splits.R |only SwimmeR-0.6.0/SwimmeR/vignettes/SwimmeR.Rmd | 464 - 97 files changed, 6697 insertions(+), 6080 deletions(-)
Title: Nonparametric and Stochastic Efficiency and Productivity
Analysis
Description: Nonparametric efficiency measurement and statistical inference via DEA type estimators (see Färe, Grosskopf, and Lovell (1994) <doi:10.1017/CBO9780511551710>, Kneip, Simar, and Wilson (2008) <doi:10.1017/S0266466608080651> and Badunenko and Mozharovskyi (2020) <doi:10.1080/01605682.2019.1599778>) as well as Stochastic Frontier estimators for both cross-sectional data and 1st, 2nd, and 4th generation models for panel data (see Kumbhakar and Lovell (2003) <doi:10.1017/CBO9781139174411>, Badunenko and Kumbhakar (2016) <doi:10.1016/j.ejor.2016.04.049>). The stochastic frontier estimators can handle both half-normal and truncated normal models with conditional mean and heteroskedasticity. The marginal effects of determinants can be obtained.
Author: Oleg Badunenko [aut, cre],
Pavlo Mozharovskyi [aut],
Yaryna Kolomiytseva [aut]
Maintainer: Oleg Badunenko <oleg.badunenko@brunel.ac.uk>
Diff between npsf versions 0.7.1 dated 2020-06-24 and 0.8.0 dated 2020-11-22
ChangeLog | 13 ++- DESCRIPTION | 8 - MD5 | 32 +++---- R/npsf-internal.R | 214 +++++++++++++++++++++++++++++++++++++++++++++++++++ R/sf.R | 129 ++++++++++++++++++++++++++---- build/partial.rdb |binary man/ccr81.Rd | 2 man/mroz.Rd | 2 man/npsf-package.Rd | 40 ++++----- man/nptestind.Rd | 4 man/nptestrts.Rd | 6 - man/sf.Rd | 9 +- man/tenonradial.Rd | 10 +- man/tenonradialbc.Rd | 4 man/teradial.Rd | 8 - man/teradialbc.Rd | 12 +- man/usmanuf.Rd | 6 - 17 files changed, 409 insertions(+), 90 deletions(-)
Title: Easily Install and Load the 'Tidymodels' Packages
Description: The tidy modeling "verse" is a collection of packages for
modeling and statistical analysis that share the underlying design
philosophy, grammar, and data structures of the tidyverse.
Author: Max Kuhn [aut, cre],
Hadley Wickham [aut],
RStudio [cph, fnd]
Maintainer: Max Kuhn <max@rstudio.com>
Diff between tidymodels versions 0.1.1 dated 2020-07-14 and 0.1.2 dated 2020-11-22
DESCRIPTION | 24 +++++------ MD5 | 29 +++++++------- NAMESPACE | 1 NEWS.md | 8 +++ R/attach.R | 10 ++-- R/conflicts.R | 8 +-- R/emails.R |only R/imports.R | 1 R/tags.R | 14 ++++-- R/update.R | 2 R/utils.R | 11 ++--- R/zzz.R | 1 build/vignette.rds |binary inst/doc/Tags.html | 66 +++++++++++++++++++++++++++++--- man/tag_show.Rd | 8 +-- vignettes/extras/Functions.Rmd | 83 ----------------------------------------- 16 files changed, 126 insertions(+), 140 deletions(-)
Title: Cox Mixed-Effects Models for Genome-Wide Association Studies
Description: Fast algorithms for fitting a Cox mixed-effects model for e.g., genome-wide association studies. See Liang He and Alexander Kulminski (2019) <doi:10.1101/729285>.
Author: Liang He
Maintainer: Liang He <liang.he@duke.edu>
Diff between coxmeg versions 1.0.11 dated 2020-05-05 and 1.0.12 dated 2020-11-22
DESCRIPTION | 14 - MD5 | 30 +- R/coxmeg.R | 2 R/coxmeg_m.R | 2 R/coxmeg_plink.R | 2 R/fit_ppl.R | 2 build/partial.rdb |binary inst/doc/COXMEG_example.Rmd | 4 inst/doc/COXMEG_example.html | 462 +++++++++++++++++++++++++------------------ src/RcppExports.cpp | 96 ++++---- src/cswei.cpp | 2 src/invsph.cpp | 8 src/logdeth.cpp | 9 src/pcg_dense.cpp | 6 src/score.cpp | 25 +- vignettes/COXMEG_example.Rmd | 4 16 files changed, 379 insertions(+), 289 deletions(-)
Title: Plastome Assembly Coverage Visualization
Description: Visualizes the coverage depth of a complete plastid genome as well as the equality of its inverted repeat regions in relation to the circular, quadripartite genome structure and the location of individual genes. For more information, please see Gruenstaeudl and Jenke (2020) <doi:10.1186/s12859-020-3475-0>.
Author: Michael Gruenstaeudl [aut, cre],
Nils Jenke [ctb]
Maintainer: Michael Gruenstaeudl <m.gruenstaeudl@fu-berlin.de>
Diff between PACVr versions 0.9.2 dated 2020-02-20 and 0.9.4 dated 2020-11-22
PACVr-0.9.2/PACVr/man/PACVr-complete.Rd |only PACVr-0.9.4/PACVr/DESCRIPTION | 15 - PACVr-0.9.4/PACVr/LICENSE | 2 PACVr-0.9.4/PACVr/MD5 | 34 +-- PACVr-0.9.4/PACVr/NAMESPACE | 15 - PACVr-0.9.4/PACVr/R/PACVr.R | 279 +++++++++++++------------ PACVr-0.9.4/PACVr/R/customizedRCircos.R | 88 +++---- PACVr-0.9.4/PACVr/R/generatePlotData.R | 39 --- PACVr-0.9.4/PACVr/R/helpers.R | 11 PACVr-0.9.4/PACVr/R/parseData.R | 2 PACVr-0.9.4/PACVr/R/visualizeWithRCircos.R | 82 +++---- PACVr-0.9.4/PACVr/build/vignette.rds |binary PACVr-0.9.4/PACVr/inst/CITATION | 12 - PACVr-0.9.4/PACVr/inst/doc/PACVr_Vignette.Rnw | 24 -- PACVr-0.9.4/PACVr/inst/doc/PACVr_Vignette.pdf |binary PACVr-0.9.4/PACVr/inst/extdata/PACVr_Rscript.R | 7 PACVr-0.9.4/PACVr/man/PACVr-package.Rd | 5 PACVr-0.9.4/PACVr/man/PACVr.complete.Rd |only PACVr-0.9.4/PACVr/vignettes/PACVr_Vignette.Rnw | 24 -- 19 files changed, 297 insertions(+), 342 deletions(-)
Title: Interactive Studio for Explanatory Model Analysis
Description: Automate the explanatory analysis of machine learning predictive models.
Generate advanced interactive model explanations in the form of a serverless HTML
site with only one line of code. This tool is model agnostic, therefore compatible
with most of the black box predictive models and frameworks. The main function
computes various (instance and dataset level) model explanations and produces
a customisable dashboard, which consists of multiple panels for plots with their
short descriptions. Easily save the dashboard and share it with others. Tools
for Explanatory Model Analysis unite with tools for Exploratory Data Analysis
to give a broad overview of the model behavior.
Author: Hubert Baniecki [aut, cre] (<https://orcid.org/0000-0001-6661-5364>),
Przemyslaw Biecek [aut] (<https://orcid.org/0000-0001-8423-1823>),
Piotr Piatyszek [ctb]
Maintainer: Hubert Baniecki <hbaniecki@gmail.com>
Diff between modelStudio versions 2.0.0 dated 2020-09-10 and 2.1.0 dated 2020-11-22
DESCRIPTION | 8 MD5 | 37 - NEWS.md | 8 R/modelStudio.R | 103 ++- R/ms_options.R | 5 inst/d3js/modelStudio.css | 8 inst/d3js/modelStudio.js | 16 inst/doc/ms-perks-features.R | 13 inst/doc/ms-perks-features.Rmd | 27 inst/doc/ms-perks-features.html | 440 ++++++++------ inst/doc/ms-r-python-examples.R | 18 inst/doc/ms-r-python-examples.Rmd | 18 inst/doc/ms-r-python-examples.html | 939 +++++++++++++++--------------- man/modelStudio.Rd | 21 man/ms_options.Rd | 2 man/ms_update_options.Rd | 2 tests/testthat/test_2_1.R |only tests/testthat/test_warnings_and_errors.R | 8 vignettes/ms-perks-features.Rmd | 27 vignettes/ms-r-python-examples.Rmd | 18 20 files changed, 973 insertions(+), 745 deletions(-)
Title: Random Cluster Generation (with Specified Degree of Separation)
Description: We developed the clusterGeneration package to provide functions
for generating random clusters, generating random
covariance/correlation matrices,
calculating a separation index (data and population version)
for pairs of clusters or cluster distributions, and 1-D and 2-D
projection plots to visualize clusters. The package also
contains a function to generate random clusters based on
factorial designs with factors such as degree of separation,
number of clusters, number of variables, number of noisy
variables.
Author: Weiliang Qiu <stwxq@channing.harvard.edu>, Harry Joe
<harry@stat.ubc.ca>.
Maintainer: Weiliang Qiu <weiliang.qiu@gmail.com>
Diff between clusterGeneration versions 1.3.5 dated 2020-10-05 and 1.3.6 dated 2020-11-22
DESCRIPTION | 8 MD5 | 32 - NEWS | 6 R/genCluster.R | 818 +++++++++++++++++++++++++++++++++---------- R/separation.R | 419 ++++++++++++++++------ R/simClustDesign.R | 105 +++-- R/visual.R | 326 +++++++++++++---- man/genPositiveDefMat.Rd | 9 man/genRandomClust.Rd | 105 +++-- man/getSepProj.Rd | 81 ++-- man/nearestNeighborSepVal.Rd | 39 +- man/plot1DProjection.Rd | 70 ++- man/plot2DProjection.Rd | 83 ++-- man/rcorrmatrix.Rd | 4 man/sepIndex.Rd | 28 + man/simClustDesign.Rd | 78 ++-- man/viewClusters.Rd | 60 +-- 17 files changed, 1651 insertions(+), 620 deletions(-)
More information about clusterGeneration at CRAN
Permanent link
Title: Identify Global Objects in R Expressions
Description: Identifies global ("unknown" or "free") objects in R expressions
by code inspection using various strategies (ordered, liberal, or
conservative). The objective of this package is to make it as simple as
possible to identify global objects for the purpose of exporting them in
parallel, distributed compute environments.
Author: Henrik Bengtsson [aut, cre, cph],
Davis Vaughan [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between globals versions 0.13.1 dated 2020-10-11 and 0.14.0 dated 2020-11-22
DESCRIPTION | 6 - MD5 | 14 +- NEWS | 15 ++ R/findGlobals.R | 265 ++++++++++++++++++++++++++++++++++++++++++---------- R/utils.R | 52 ++++++++++ tests/findGlobals.R | 27 ++++- tests/globalsOf.R | 59 +++++++++++ tests/utils.R | 2 8 files changed, 374 insertions(+), 66 deletions(-)
Title: Raw Accelerometer Data Analysis
Description: A tool to process and analyse data collected with wearable raw acceleration sensors as described in Migueles and colleagues (JMPB 2019), and van Hees and colleagues (JApplPhysiol 2014; PLoSONE 2015). The package has been developed and tested for binary data from 'GENEActiv' <https://www.activinsights.com/> and GENEA devices (not for sale), .csv-export data from 'Actigraph' <https://actigraphcorp.com> devices, and .cwa and .wav-format data from 'Axivity' <https://axivity.com>. These devices are currently widely used in research on human daily physical activity. Further, the package can handle accelerometer data file from any other sensor brand providing that the data is stored in csv format and has either no header or a two column header. Also the package allows for external function embedding.
Author: Vincent T van Hees [aut, cre],
Zhou Fang [ctb],
Jing Hua Zhao [ctb],
Joe Heywood [ctb],
Evgeny Mirkes [ctb],
Severine Sabia [ctb],
Joan Capdevila Pujol [ctb],
Jairo H Migueles [ctb],
Matthew R Patterson [ctb],
Dan Jackson [ctb]
Maintainer: Vincent T van Hees <v.vanhees@accelting.com>
Diff between GGIR versions 2.1-0 dated 2020-08-27 and 2.2-0 dated 2020-11-22
DESCRIPTION | 8 - MD5 | 103 +++++++------ NAMESPACE | 3 R/g.analyse.R | 95 +++++++----- R/g.analyse.avday.R | 8 - R/g.analyse.perday.R | 204 +++++++++++++++++++-------- R/g.analyse.perfile.R | 25 +-- R/g.calibrate.R | 1 R/g.conv.actlog.R |only R/g.convert.part2.long.R |only R/g.cwaread.R | 67 ++------ R/g.extractheadervars.R | 2 R/g.getM5L5.R | 66 ++++++-- R/g.getbout.R | 27 +++ R/g.getidfromheaderobject.R | 2 R/g.getmeta.R | 8 - R/g.getstarttime.R | 6 R/g.inspectfile.R | 10 + R/g.part1.R | 19 -- R/g.part2.R | 23 +-- R/g.part3.R | 14 - R/g.part4.R | 59 +++---- R/g.part5.R | 26 --- R/g.part5.addfirstwake.R | 8 - R/g.part5.definedays.R | 8 - R/g.part5.wakesleepwindows.R | 50 +++--- R/g.plot5.R | 42 ++--- R/g.readaccfile.R | 1 R/g.report.part2.R | 8 - R/g.shell.GGIR.R | 18 ++ R/g.sib.det.R | 39 ++--- R/g.sib.sum.R | 2 R/get_nw_clip_block_params.R | 8 - R/get_starttime_weekday_meantemp_truncdata.R | 16 -- build/vignette.rds |binary inst/NEWS.Rd | 35 ++++ inst/doc/ExternalFunction.pdf |binary inst/doc/GGIR.Rmd | 17 +- inst/doc/GGIR.html | 71 ++++++++- man/GGIR-package.Rd | 10 - man/g.analyse.Rd | 28 ++- man/g.analyse.avday.Rd | 3 man/g.analyse.perday.Rd | 5 man/g.conv.actlog.Rd |only man/g.convert.part2.long.Rd |only man/g.getM5L5.Rd | 10 + man/g.getbout.Rd | 13 + man/g.part2.Rd | 4 man/g.part4.Rd | 2 man/g.part5.definedays.Rd | 4 man/g.report.part2.Rd | 7 tests/testthat/test_chainof5parts.R | 3 tests/testthat/test_convert.part2.long.R |only tests/testthat/test_ggetbout.R | 10 + vignettes/GGIR.Rmd | 17 +- 55 files changed, 744 insertions(+), 471 deletions(-)
Title: Estimate Real-Time Case Counts and Time-Varying Epidemiological
Parameters
Description: Estimates the time-varying reproduction number, rate of spread,
and doubling time using a range of open-source tools (Abbott et al. (2020) <doi:10.12688/wellcomeopenres.16006.1>),
and current best practices (Gostic et al. (2020) <doi:10.1101/2020.06.18.20134858>).
It aims to help users avoid some of the limitations of naive implementations in a framework
that is informed by community feedback and is under active development.
Author: Sam Abbott [aut, cre] (<https://orcid.org/0000-0001-8057-8037>),
Joel Hellewell [aut] (<https://orcid.org/0000-0003-2683-0849>),
Robin Thompson [aut],
Katelyn Gostic [aut],
Katharine Sherratt [aut],
Hamada S. Badr [aut] (<https://orcid.org/0000-0002-9808-2344>),
Michael DeWitt [aut] (<https://orcid.org/0000-0001-8940-1967>),
Sophie Meakin [aut],
James Munday [aut],
Nikos Bosse [aut],
Joe Hickson [aut],
Paul Mee [ctb],
Peter Ellis [ctb],
EpiForecasts [aut],
Sebastian Funk [aut]
Maintainer: Sam Abbott <sam.abbott@lshtm.ac.uk>
Diff between EpiNow2 versions 1.2.1 dated 2020-10-20 and 1.3.1 dated 2020-11-22
EpiNow2-1.2.1/EpiNow2/inst/stan/functions/approximate_gp_functions.stan |only EpiNow2-1.2.1/EpiNow2/inst/stan/functions/discretised_gamma_pmf.stan |only EpiNow2-1.2.1/EpiNow2/inst/stan/functions/discretised_lognormal_pmf.stan |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-11-1.png |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-12-1.png |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-14-1.png |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-15-1.png |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-16-1.png |only EpiNow2-1.2.1/EpiNow2/man/figures/unnamed-chunk-18-1.png |only EpiNow2-1.2.1/EpiNow2/man/stop_timeout.Rd |only EpiNow2-1.3.1/EpiNow2/DESCRIPTION | 31 EpiNow2-1.3.1/EpiNow2/MD5 | 297 EpiNow2-1.3.1/EpiNow2/NAMESPACE | 36 EpiNow2-1.3.1/EpiNow2/NEWS.md | 39 EpiNow2-1.3.1/EpiNow2/R/EpiNow2-package.R |only EpiNow2-1.3.1/EpiNow2/R/adjust.R | 24 EpiNow2-1.3.1/EpiNow2/R/create.R | 514 - EpiNow2-1.3.1/EpiNow2/R/data.R | 11 EpiNow2-1.3.1/EpiNow2/R/dist.R | 50 EpiNow2-1.3.1/EpiNow2/R/epinow-internal.R | 25 EpiNow2-1.3.1/EpiNow2/R/epinow.R | 160 EpiNow2-1.3.1/EpiNow2/R/estimate_infections.R | 571 - EpiNow2-1.3.1/EpiNow2/R/estimate_truncation.R |only EpiNow2-1.3.1/EpiNow2/R/extract.R | 92 EpiNow2-1.3.1/EpiNow2/R/forecast_infections.R | 13 EpiNow2-1.3.1/EpiNow2/R/get.R | 72 EpiNow2-1.3.1/EpiNow2/R/map.R | 15 EpiNow2-1.3.1/EpiNow2/R/opts.R |only EpiNow2-1.3.1/EpiNow2/R/plot.R | 143 EpiNow2-1.3.1/EpiNow2/R/regional_epinow.R | 184 EpiNow2-1.3.1/EpiNow2/R/report.R | 72 EpiNow2-1.3.1/EpiNow2/R/setup.R | 29 EpiNow2-1.3.1/EpiNow2/R/simulate.R | 5 EpiNow2-1.3.1/EpiNow2/R/simulate_infections.R |only EpiNow2-1.3.1/EpiNow2/R/stanmodels.R | 4 EpiNow2-1.3.1/EpiNow2/R/summarise.R | 129 EpiNow2-1.3.1/EpiNow2/R/utilities.R | 167 EpiNow2-1.3.1/EpiNow2/README.md | 231 EpiNow2-1.3.1/EpiNow2/inst/WORDLIST | 57 EpiNow2-1.3.1/EpiNow2/inst/stan/data |only EpiNow2-1.3.1/EpiNow2/inst/stan/estimate_infections.stan | 365 EpiNow2-1.3.1/EpiNow2/inst/stan/estimate_truncation.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/convolve.stan | 51 EpiNow2-1.3.1/EpiNow2/inst/stan/functions/gaussian_process.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/generated_quantities.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/infections.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/observation_model.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/pmfs.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/functions/rt.stan |only EpiNow2-1.3.1/EpiNow2/inst/stan/simulate_infections.stan |only EpiNow2-1.3.1/EpiNow2/man/EpiNow2-package.Rd |only EpiNow2-1.3.1/EpiNow2/man/R_to_growth.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/adjust_infection_to_report.Rd | 22 EpiNow2-1.3.1/EpiNow2/man/allocate_delays.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/allocate_empty.Rd |only EpiNow2-1.3.1/EpiNow2/man/backcalc_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/bootstrapped_dist_fit.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/calc_CrI.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/calc_CrIs.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/calc_summary_measures.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/calc_summary_stats.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/clean_nowcasts.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/clean_regions.Rd | 9 EpiNow2-1.3.1/EpiNow2/man/construct_output.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/convert_to_logmean.Rd |only EpiNow2-1.3.1/EpiNow2/man/convert_to_logsd.Rd |only EpiNow2-1.3.1/EpiNow2/man/copy_results_to_latest.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/country_map.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/create_backcalc_data.Rd |only EpiNow2-1.3.1/EpiNow2/man/create_clean_reported_cases.Rd | 5 EpiNow2-1.3.1/EpiNow2/man/create_future_rt.Rd | 7 EpiNow2-1.3.1/EpiNow2/man/create_gp_data.Rd |only EpiNow2-1.3.1/EpiNow2/man/create_initial_conditions.Rd | 23 EpiNow2-1.3.1/EpiNow2/man/create_obs_model.Rd |only EpiNow2-1.3.1/EpiNow2/man/create_rt_data.Rd |only EpiNow2-1.3.1/EpiNow2/man/create_shifted_cases.Rd | 26 EpiNow2-1.3.1/EpiNow2/man/create_stan_args.Rd | 32 EpiNow2-1.3.1/EpiNow2/man/create_stan_data.Rd | 92 EpiNow2-1.3.1/EpiNow2/man/delay_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/dist_fit.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/dist_skel.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/epinow.Rd | 111 EpiNow2-1.3.1/EpiNow2/man/estimate_delay.Rd |only EpiNow2-1.3.1/EpiNow2/man/estimate_infections.Rd | 368 EpiNow2-1.3.1/EpiNow2/man/estimate_truncation.Rd |only EpiNow2-1.3.1/EpiNow2/man/estimates_by_report_date.Rd | 13 EpiNow2-1.3.1/EpiNow2/man/example_confirmed.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/expose_stan_fns.Rd |only EpiNow2-1.3.1/EpiNow2/man/extract_CrIs.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/extract_parameter.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/extract_parameter_samples.Rd | 19 EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-archived.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-defunct.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-deprecated.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-experimental.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-maturing.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-questioning.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-soft-deprecated.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-stable.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/lifecycle-superseded.svg |only EpiNow2-1.3.1/EpiNow2/man/figures/unnamed-chunk-13-1.png |binary EpiNow2-1.3.1/EpiNow2/man/figures/unnamed-chunk-17-1.png |binary EpiNow2-1.3.1/EpiNow2/man/filter_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/fit_model_with_nuts.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/fit_model_with_vb.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/forecast_infections.Rd | 13 EpiNow2-1.3.1/EpiNow2/man/format_fit.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/gamma_dist_def.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/generation_times.Rd | 5 EpiNow2-1.3.1/EpiNow2/man/get_dist.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/get_generation_time.Rd | 5 EpiNow2-1.3.1/EpiNow2/man/get_incubation_period.Rd | 5 EpiNow2-1.3.1/EpiNow2/man/get_raw_result.Rd | 2 EpiNow2-1.3.1/EpiNow2/man/get_regional_results.Rd | 31 EpiNow2-1.3.1/EpiNow2/man/get_regions.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/get_regions_with_most_reports.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/global_map.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/gp_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/growth_to_R.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/incubation_periods.Rd | 5 EpiNow2-1.3.1/EpiNow2/man/lognorm_dist_def.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/make_conf.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/map_prob_change.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/match_output_arguments.Rd | 14 EpiNow2-1.3.1/EpiNow2/man/obs_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/opts_list.Rd |only EpiNow2-1.3.1/EpiNow2/man/plot.epinow.Rd |only EpiNow2-1.3.1/EpiNow2/man/plot.estimate_infections.Rd |only EpiNow2-1.3.1/EpiNow2/man/plot.estimate_truncation.Rd |only EpiNow2-1.3.1/EpiNow2/man/plot_CrIs.Rd |only EpiNow2-1.3.1/EpiNow2/man/plot_estimates.Rd | 14 EpiNow2-1.3.1/EpiNow2/man/plot_summary.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/process_region.Rd | 7 EpiNow2-1.3.1/EpiNow2/man/process_regions.Rd | 7 EpiNow2-1.3.1/EpiNow2/man/regional_epinow.Rd | 101 EpiNow2-1.3.1/EpiNow2/man/regional_runtimes.Rd | 12 EpiNow2-1.3.1/EpiNow2/man/regional_summary.Rd | 20 EpiNow2-1.3.1/EpiNow2/man/report_cases.Rd | 31 EpiNow2-1.3.1/EpiNow2/man/report_plots.Rd | 16 EpiNow2-1.3.1/EpiNow2/man/report_summary.Rd | 13 EpiNow2-1.3.1/EpiNow2/man/rstan_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/rstan_sampling_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/rstan_vb_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/rt_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/run_region.Rd | 55 EpiNow2-1.3.1/EpiNow2/man/sample_approx_dist.Rd | 6 EpiNow2-1.3.1/EpiNow2/man/save_estimate_infections.Rd | 9 EpiNow2-1.3.1/EpiNow2/man/save_forecast_infections.Rd | 6 EpiNow2-1.3.1/EpiNow2/man/save_input.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/setup_default_logging.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/setup_dt.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/setup_future.Rd | 1 EpiNow2-1.3.1/EpiNow2/man/setup_logging.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/setup_target_folder.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/simulate_cases.Rd | 8 EpiNow2-1.3.1/EpiNow2/man/simulate_infections.Rd |only EpiNow2-1.3.1/EpiNow2/man/stan_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/summarise_key_measures.Rd | 6 EpiNow2-1.3.1/EpiNow2/man/summarise_results.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/summary.epinow.Rd |only EpiNow2-1.3.1/EpiNow2/man/summary.estimate_infections.Rd |only EpiNow2-1.3.1/EpiNow2/man/theme_map.Rd | 4 EpiNow2-1.3.1/EpiNow2/man/trunc_opts.Rd |only EpiNow2-1.3.1/EpiNow2/man/tune_inv_gamma.Rd | 7 EpiNow2-1.3.1/EpiNow2/man/update_horizon.Rd | 3 EpiNow2-1.3.1/EpiNow2/man/update_list.Rd |only EpiNow2-1.3.1/EpiNow2/src/RcppExports.cpp | 4 EpiNow2-1.3.1/EpiNow2/src/stanExports_estimate_infections.h | 4582 +++++++--- EpiNow2-1.3.1/EpiNow2/src/stanExports_estimate_truncation.cc |only EpiNow2-1.3.1/EpiNow2/src/stanExports_estimate_truncation.h |only EpiNow2-1.3.1/EpiNow2/src/stanExports_simulate_infections.cc |only EpiNow2-1.3.1/EpiNow2/src/stanExports_simulate_infections.h |only EpiNow2-1.3.1/EpiNow2/tests/testthat/test-create_future-rt.R | 3 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-create_stan_args.R | 17 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-epinow.R | 74 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-estimate_infections.R | 133 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-get_dist.R | 2 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-regional_epinow.R | 69 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-regional_runtimes.R | 6 EpiNow2-1.3.1/EpiNow2/tests/testthat/test-simulate_infections.R |only EpiNow2-1.3.1/EpiNow2/tests/testthat/test-stan-infections.R |only EpiNow2-1.3.1/EpiNow2/tests/testthat/test-stan-rt.R |only 182 files changed, 6136 insertions(+), 3394 deletions(-)
Title: Continuous Analog of a Binomial Distribution
Description: Implementation of the d/p/q/r family of functions for a continuous analog to the standard discrete binomial with continuous size parameter and continuous support with x in [0, size + 1], following Ilienko (2013) <arXiv:1303.5990>.
Author: Dan Dalthorp
Maintainer: Dan Dalthorp <ddalthorp@protonmail.com>
Diff between cbinom versions 1.3 dated 2018-06-27 and 1.5 dated 2020-11-22
DESCRIPTION | 12 ++++++------ MD5 | 4 ++-- R/RcppExports.R | 30 +++++++++++++++--------------- 3 files changed, 23 insertions(+), 23 deletions(-)
Title: Bayesian Synthetic Likelihood
Description: Bayesian synthetic likelihood (BSL, Price et al. (2018) <doi:10.1080/10618600.2017.1302882>)
is an alternative to standard, non-parametric approximate Bayesian
computation (ABC). BSL assumes a multivariate normal distribution
for the summary statistic likelihood and it is suitable when the
distribution of the model summary statistics is sufficiently regular.
This package provides a Metropolis Hastings Markov chain Monte Carlo
implementation of four methods (BSL, uBSL, semiBSL and BSLmisspec) and two
shrinkage estimators (graphical lasso and Warton's estimator).
uBSL (Price et al. (2018) <doi:10.1080/10618600.2017.1302882>) uses
an unbiased estimator to the normal density. A semi-parametric version
of BSL (semiBSL, An et al. (2018) <arXiv:1809.05800>) is more robust
to non-normal summary statistics. BSLmisspec (Frazier et al. 2019
<arXiv:1904.04551>) estimates the Gaussian synthetic likelihood whilst
acknowledging that there may be incompatibility between the model and the
observed summary statistic. Shrinkage estimation can help to decrease the
number of model simulations when the dimension of the summary statistic is
high (e.g., BSLasso, An et al. (2019) <doi:10.1080/10618600.2018.1537928>).
Extensions to this package are planned.
Author: Ziwen An [aut, cre] (<https://orcid.org/0000-0002-9947-5182>),
Leah F. South [aut] (<https://orcid.org/0000-0002-5646-2963>),
Christopher C. Drovandi [aut] (<https://orcid.org/0000-0001-9222-8763>)
Maintainer: Ziwen An <ziwen.an@hdr.qut.edu.au>
Diff between BSL versions 3.0.0 dated 2019-07-10 and 3.2.0 dated 2020-11-22
BSL-3.0.0/BSL/R/BSL_model.R |only BSL-3.0.0/BSL/R/BSL_package.R |only BSL-3.0.0/BSL/R/S3_penbsl.R |only BSL-3.0.0/BSL/R/S4.R |only BSL-3.0.0/BSL/R/S4Functions.R |only BSL-3.0.0/BSL/R/multignk.R |only BSL-3.0.0/BSL/man/BSLMODEL-class.Rd |only BSL-3.0.0/BSL/man/bsl-class.Rd |only BSL-3.0.0/BSL/man/fn.Rd |only BSL-3.0.0/BSL/man/penbsl.Rd |only BSL-3.0.0/BSL/man/plot.bsl.Rd |only BSL-3.0.0/BSL/man/setns.Rd |only BSL-3.0.0/BSL/man/show.bsl.Rd |only BSL-3.0.0/BSL/man/summary.bsl.Rd |only BSL-3.2.0/BSL/DESCRIPTION | 51 - BSL-3.2.0/BSL/MD5 | 119 +-- BSL-3.2.0/BSL/NAMESPACE | 185 ++-- BSL-3.2.0/BSL/NEWS.md | 18 BSL-3.2.0/BSL/R/BSL-package.R |only BSL-3.2.0/BSL/R/RcppExports.R | 55 + BSL-3.2.0/BSL/R/bsl.R | 898 ++++++++++++++---------- BSL-3.2.0/BSL/R/cell.R | 442 ++++++----- BSL-3.2.0/BSL/R/combinePlotsBSL.R | 505 +++++++------ BSL-3.2.0/BSL/R/covWarton.R | 32 BSL-3.2.0/BSL/R/estimateLoglike.R |only BSL-3.2.0/BSL/R/estimateWhiteningMatrix.R |only BSL-3.2.0/BSL/R/gaussianRankCorr.R | 111 +- BSL-3.2.0/BSL/R/gaussianSynLike.R | 292 ++++--- BSL-3.2.0/BSL/R/gaussianSynLikeGhuryeOlkin.R | 144 +-- BSL-3.2.0/BSL/R/imports.R | 49 - BSL-3.2.0/BSL/R/kernelCDF.R | 84 +- BSL-3.2.0/BSL/R/logitTransform.R | 122 +-- BSL-3.2.0/BSL/R/ma2.R | 413 +++++------ BSL-3.2.0/BSL/R/mgnk.R |only BSL-3.2.0/BSL/R/myMiniProgressBar.R |only BSL-3.2.0/BSL/R/s4-BSL.R |only BSL-3.2.0/BSL/R/s4-MODEL.R |only BSL-3.2.0/BSL/R/s4-PENALTY.R |only BSL-3.2.0/BSL/R/selectPenalty.R | 273 ++++--- BSL-3.2.0/BSL/R/semiparaKernelEstimate.R | 200 ++--- BSL-3.2.0/BSL/R/sliceGammaMean.R |only BSL-3.2.0/BSL/R/sliceGammaVariance.R |only BSL-3.2.0/BSL/R/synLikeMisspec.R |only BSL-3.2.0/BSL/R/toad.R |only BSL-3.2.0/BSL/build |only BSL-3.2.0/BSL/data/cell.rda |binary BSL-3.2.0/BSL/data/ma2.rda |binary BSL-3.2.0/BSL/data/mgnk.rda |binary BSL-3.2.0/BSL/data/toad.rda |only BSL-3.2.0/BSL/inst |only BSL-3.2.0/BSL/man/BSL-class.Rd |only BSL-3.2.0/BSL/man/BSL-package.Rd | 160 ++-- BSL-3.2.0/BSL/man/MODEL-class.Rd |only BSL-3.2.0/BSL/man/PENALTY-class.Rd |only BSL-3.2.0/BSL/man/bsl.Rd | 378 +++++----- BSL-3.2.0/BSL/man/cell.Rd | 425 ++++++----- BSL-3.2.0/BSL/man/combinePlotsBSL.Rd | 214 +++-- BSL-3.2.0/BSL/man/cor2cov.Rd | 38 - BSL-3.2.0/BSL/man/estimateLoglike.Rd |only BSL-3.2.0/BSL/man/estimateWhiteningMatrix.Rd |only BSL-3.2.0/BSL/man/gaussianRankCorr.Rd | 95 +- BSL-3.2.0/BSL/man/gaussianSynLike.Rd | 194 ++--- BSL-3.2.0/BSL/man/gaussianSynLikeGhuryeOlkin.Rd | 107 +- BSL-3.2.0/BSL/man/getGamma.Rd |only BSL-3.2.0/BSL/man/getLoglike.Rd |only BSL-3.2.0/BSL/man/getPenalty.Rd |only BSL-3.2.0/BSL/man/getTheta.Rd |only BSL-3.2.0/BSL/man/ma2.Rd | 411 +++++----- BSL-3.2.0/BSL/man/mgnk.Rd | 316 ++++---- BSL-3.2.0/BSL/man/myMiniProgressBar.Rd |only BSL-3.2.0/BSL/man/obsMat2deltax.Rd |only BSL-3.2.0/BSL/man/rstable.Rd |only BSL-3.2.0/BSL/man/selectPenalty.Rd | 221 +++-- BSL-3.2.0/BSL/man/semiparaKernelEstimate.Rd | 154 ++-- BSL-3.2.0/BSL/man/sim_toad.Rd |only BSL-3.2.0/BSL/man/simulate_cell.Rd |only BSL-3.2.0/BSL/man/simulation.Rd |only BSL-3.2.0/BSL/man/sliceGammaMean.Rd |only BSL-3.2.0/BSL/man/sliceGammaVariance.Rd |only BSL-3.2.0/BSL/man/summStat.Rd |only BSL-3.2.0/BSL/man/synLikeMisspec.Rd |only BSL-3.2.0/BSL/man/toad.Rd |only BSL-3.2.0/BSL/src/Makevars.win |only BSL-3.2.0/BSL/src/RcppExports.cpp | 42 + BSL-3.2.0/BSL/src/simulate_cell.cpp | 43 - BSL-3.2.0/BSL/src/simulate_toad.cpp |only 86 files changed, 3799 insertions(+), 2992 deletions(-)
Title: Downloads and Organizes Financial Data for Multiple Tickers
Description: Makes it easy to download financial data from Yahoo Finance <https://finance.yahoo.com/>.
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between BatchGetSymbols versions 2.5.9 dated 2020-11-17 and 2.6 dated 2020-11-22
DESCRIPTION | 10 ++--- MD5 | 20 +++++----- NEWS.md | 5 ++ R/BatchGetSymbols.R | 66 +++++++++++++++++++++++++++------ README.md | 17 +++++--- inst/doc/BatchGetSymbols-vignette.html | 18 ++++----- man/BatchGetSymbols.Rd | 22 +++++++---- man/GetFTSE100Stocks.Rd | 4 +- man/GetIbovStocks.Rd | 4 +- man/GetSP500Stocks.Rd | 4 +- man/myGetSymbols.Rd | 4 +- 11 files changed, 115 insertions(+), 59 deletions(-)
More information about BatchGetSymbols at CRAN
Permanent link
Title: The Gaussian Covariate Method for Variable Selection
Description: Given the standard linear model the traditional way of deciding whether to include the jth covariate is to apply the F-test to decide whether the corresponding beta coefficient is zero. The Gaussian covariate method is completely different. The question as to whether the beta coefficient is or is not zero is replaced by the question as to whether the covariate is better or worse than i.i.d. Gaussian noise. The P-value for the covariate is the probability that Gaussian noise is better. Surprisingly this can be given exactly and it is the same a the P-value for the classical model based on the F-distribution. The Gaussian covariate P-value is model free, it is the same for any data set. Using the idea it is possible to do covariate selection for a small number of covariates 25 by considering all subsets. Post selection inference causes no problems as the P-values hold whatever the data. The idea extends to stepwise regression again with exact probabilities. In the simplest version the only parameter is a specified cut-off P-value which can be interpreted as the probability of a false positive being included in the final selection. For more information see the website below and the accompanying papers: L. Davies and L. Duembgen, "Covariate Selection Based on a Model-free Approach to Linear Regression with Exact Probabilities", 2020, <arXiv:1906.01990>. L. Davies, "Lasso, Knockoff and Gaussian covariates: A comparison", 2018, <arXiv:1807.09633>.
Author: Laurie Davies [aut, cre]
Maintainer: Laurie Davies <laurie.davies@uni-due.de>
Diff between gausscov versions 0.0.9 dated 2020-11-07 and 0.0.10 dated 2020-11-22
DESCRIPTION | 8 ++++---- MD5 | 34 +++++++++++++++++----------------- R/f1st.R | 2 ++ R/f2st.R | 14 ++++++++++---- R/fgr1st.R | 39 ++++++++++++++++++++------------------- R/fgr2st.R | 27 ++++++++++++++------------- R/fmch.R | 2 +- R/frmch.R | 5 ++--- R/frobreg.R | 2 +- R/frobregp.R | 2 +- R/frst.R | 8 +++++--- R/fselect.R | 4 ++-- man/frmch.Rd | 2 +- man/frobreg.Rd | 2 +- man/frobregp.Rd | 2 +- man/frst.Rd | 2 +- man/fselect.Rd | 4 ++-- src/gaucov.f | 22 +++++++++++----------- 18 files changed, 96 insertions(+), 85 deletions(-)
Title: Annotate Statistical Tests for 'ggplot2'
Description: Automatically performs desired statistical tests (e.g. wilcox.test(), t.test()) to compare between groups,
and adds the resulting p-values to the plot with an annotation bar.
Visualizing group differences are frequently performed by boxplots, bar plots, etc.
Statistical test results are often needed to be annotated on these plots.
This package provides a convenient function that works on 'ggplot2' objects,
performs the desired statistical test between groups of interest and annotates the test results on the plot.
Author: Jun Cheng [aut, cre]
Maintainer: Jun Cheng <s6juncheng@gmail.com>
Diff between ggpval versions 0.2.3 dated 2019-09-10 and 0.2.4 dated 2020-11-22
ggpval-0.2.3/ggpval/inst/image |only ggpval-0.2.4/ggpval/DESCRIPTION | 10 +++--- ggpval-0.2.4/ggpval/MD5 | 31 ++++++++++---------- ggpval-0.2.4/ggpval/NEWS.md | 5 +-- ggpval-0.2.4/ggpval/R/add_pval_ggplot.R | 47 ++++++++++++++++++++++++------- ggpval-0.2.4/ggpval/build/vignette.rds |binary ggpval-0.2.4/ggpval/inst/doc/ggpval.R | 23 +++++++-------- ggpval-0.2.4/ggpval/inst/doc/ggpval.Rmd | 13 +++----- ggpval-0.2.4/ggpval/inst/doc/ggpval.html | 14 ++++----- ggpval-0.2.4/ggpval/man/add_pval.Rd | 24 ++++++++++++--- ggpval-0.2.4/ggpval/man/figures |only ggpval-0.2.4/ggpval/vignettes/ggpval.Rmd | 13 +++----- 12 files changed, 110 insertions(+), 70 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-05 0.0.11
2019-10-07 0.0.10
2019-09-09 0.0.9
2019-07-18 0.0.8
2019-05-13 0.0.6
2019-04-08 0.0.5
2019-02-07 0.0.4
2018-12-13 0.0.3
2018-09-14 0.0.2
2018-07-28 0.0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-27 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-30 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-10 0.1.44
2020-11-07 0.1.43
2020-02-01 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-11-19 2.0-1
2018-08-17 1.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-14 1.0.1
2019-11-13 1.0.0
Title: Facilitates ODBC Database Interaction
Description: Facilitates interaction with ODBC data sources, by remembering and hiding communication settings and supporting parameterised multi-statement SQL with embedded R.
Author: Mike Lee
Maintainer: Mike Lee <random.deviate@gmail.com>
Diff between SQRL versions 0.7.3 dated 2020-08-27 and 0.7.4 dated 2020-11-22
DESCRIPTION | 10 MD5 | 8 R/SQRL.R | 850 ++++++++++++++++++++++++++++++++-------------------- man/SQRL-package.Rd | 7 man/sqrlUsage.Rd | 1 5 files changed, 538 insertions(+), 338 deletions(-)