Title: Versatile Curation of Table Metadata
Description: A YAML-based
mechanism for working with table metadata. It supports
compact syntax for creating, modifying, exporting,
importing, displaying, and plotting metadata coded as column
attributes. The 'yamlet' dialect is valid 'YAML' with
defaults and conventions chosen to improve readability.
See ?yamlet, ?decorate.data.frame and ?modify.default.
See ?read_yamlet ?write_yamlet, ?io_csv, and ?ggplot.decorated.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between yamlet versions 0.5.2 dated 2020-11-25 and 0.5.3 dated 2021-01-21
yamlet-0.5.2/yamlet/tests/testthat/Rplots.pdf |only yamlet-0.5.3/yamlet/DESCRIPTION | 26 +-- yamlet-0.5.3/yamlet/MD5 | 20 +- yamlet-0.5.3/yamlet/NAMESPACE | 7 yamlet-0.5.3/yamlet/R/codelist.R |only yamlet-0.5.3/yamlet/R/dplyr.R | 4 yamlet-0.5.3/yamlet/R/factorize_codelist.R | 4 yamlet-0.5.3/yamlet/R/gather.R |only yamlet-0.5.3/yamlet/build/vignette.rds |binary yamlet-0.5.3/yamlet/inst/doc/yamlet-introduction.html | 140 +++++------------- yamlet-0.5.3/yamlet/man/codelist.Rd |only yamlet-0.5.3/yamlet/man/codelist.data.frame.Rd |only yamlet-0.5.3/yamlet/man/filter.decorated.Rd | 2 yamlet-0.5.3/yamlet/man/gather.decorated.Rd |only 14 files changed, 79 insertions(+), 124 deletions(-)
Title: Spatial Analysis on Network
Description: Perform spatial analysis on network.
Allow to calculate Network Kernel Density Estimate, and to build
spatial matrices ('listw' objects like in 'spdep' package) to conduct any kind of traditional
spatial analysis with spatial weights based on reticular distances. K functions on network
are also available but still experimental. References: Okabe et al (2019) <doi:10.1080/13658810802475491>;
Okabe et al (2012, ISBN:978-0470770818);Baddeley el al (2015, ISBN:9781482210200).
Author: Jeremy Gelb [aut, cre],
Philippe Apparicio [ctb]
Maintainer: Jeremy Gelb <jeremy.gelb@ucs.inrs.ca>
Diff between spNetwork versions 0.1.0 dated 2021-01-18 and 0.1.1 dated 2021-01-21
DESCRIPTION | 6 MD5 | 35 ++-- R/k_functions.R | 300 +++++++++++++++++++++++++++--------- inst/doc/KNetworkFunctions.R | 2 inst/doc/KNetworkFunctions.Rmd | 8 inst/doc/KNetworkFunctions.html | 12 - inst/doc/NKDE.html | 4 inst/doc/NKDEdetailed.R | 4 inst/doc/NKDEdetailed.Rmd | 4 inst/doc/NKDEdetailed.html | 16 - inst/doc/SpatialWeightMatrices.html | 4 man/cross_kfunctions.Rd | 7 man/cross_kfunctions.mc.Rd | 7 man/kfunctions.Rd | 9 - man/kfunctions.mc.Rd | 7 man/randomize_distmatrix2.Rd |only tests/testthat/test_kernels.R | 22 +- vignettes/KNetworkFunctions.Rmd | 8 vignettes/NKDEdetailed.Rmd | 4 19 files changed, 319 insertions(+), 140 deletions(-)
Title: Xsimd C++ Header-Only Library Files
Description: This header-only library provides modern, portable C++ wrappers for SIMD
intrinsics and parallelized, optimized math implementations (SSE, AVX, NEON, AVX512).
By placing this library in this package, we offer an efficient distribution system for
Xsimd <https://github.com/xtensor-stack/xsimd> for R packages using CRAN.
Author: Marc A. Suchard [aut, cre],
Andrew J. Holbrook [aut],
Observational Health Data Sciences and Informatics [cph],
Johan Mabille [cph, ctb] (author and copyright holder of Xsimd library
under a BSD-3 license),
Sylvain Corlay [cph, ctb] (author and copyright holder of Xsimd library
under a BSD-3 license),
Alexander J. Lee [cph, ctb] (author and copyright holder of
FeatureDetector library under a CC0 1.0 license)
Maintainer: Marc A. Suchard <msuchard@ucla.edu>
Diff between RcppXsimd versions 7.1.5 dated 2021-01-07 and 7.1.6 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NEWS.md | 5 +++++ inst/CITATION |only inst/include/xsimd/types/xsimd_traits.hpp | 1 + 5 files changed, 13 insertions(+), 6 deletions(-)
Title: Paired Mass Distance Analysis for GC/LC-MS Based Non-Targeted
Analysis and Reactomics Analysis
Description: Paired mass distance (PMD) analysis proposed in Yu, Olkowicz and Pawliszyn (2018) <doi:10.1016/j.aca.2018.10.062> for gas/liquid chromatography–mass spectrometry (GC/LC-MS) based non-targeted analysis. PMD analysis including GlobalStd algorithm and structure/reaction directed analysis. GlobalStd algorithm could found independent peaks in m/z-retention time profiles based on retention time hierarchical cluster analysis and frequency analysis of paired mass distances within retention time groups. Structure directed analysis could be used to find potential relationship among those independent peaks in different retention time groups based on frequency of paired mass distances. Reactomics analysis could also be performed to build PMD network, assign sources and make biomarker reaction discovery. GUIs for PMD analysis is also included as 'shiny' applications.
Author: Miao YU [aut, cre] (<https://orcid.org/0000-0002-2804-6014>)
Maintainer: Miao YU <yufreecas@gmail.com>
Diff between pmd versions 0.1.9 dated 2020-06-04 and 0.2.1 dated 2021-01-21
pmd-0.1.9/pmd/R/pmd.R |only pmd-0.2.1/pmd/DESCRIPTION | 19 pmd-0.2.1/pmd/MD5 | 61 + pmd-0.2.1/pmd/NAMESPACE | 2 pmd-0.2.1/pmd/NEWS.md | 20 pmd-0.2.1/pmd/R/globalstd.R |only pmd-0.2.1/pmd/R/pmdanno.R | 48 - pmd-0.2.1/pmd/R/pmdda.R |only pmd-0.2.1/pmd/R/pmdvis.R | 60 - pmd-0.2.1/pmd/R/sda.R |only pmd-0.2.1/pmd/README.md | 26 pmd-0.2.1/pmd/build/vignette.rds |binary pmd-0.2.1/pmd/inst/CITATION |only pmd-0.2.1/pmd/inst/doc/globalstd.R | 139 +--- pmd-0.2.1/pmd/inst/doc/globalstd.Rmd | 257 +++---- pmd-0.2.1/pmd/inst/doc/globalstd.html | 1114 +++++++++++---------------------- pmd-0.2.1/pmd/inst/doc/reactomics.R |only pmd-0.2.1/pmd/inst/doc/reactomics.Rmd |only pmd-0.2.1/pmd/inst/doc/reactomics.html |only pmd-0.2.1/pmd/man/getcda.Rd |only pmd-0.2.1/pmd/man/getchain.Rd | 2 pmd-0.2.1/pmd/man/getcluster.Rd | 2 pmd-0.2.1/pmd/man/getcorcluster.Rd | 2 pmd-0.2.1/pmd/man/getpaired.Rd | 6 pmd-0.2.1/pmd/man/getpmd.Rd | 4 pmd-0.2.1/pmd/man/getposneg.Rd | 2 pmd-0.2.1/pmd/man/getrda.Rd | 2 pmd-0.2.1/pmd/man/getreact.Rd | 2 pmd-0.2.1/pmd/man/getsda.Rd | 2 pmd-0.2.1/pmd/man/getstd.Rd | 2 pmd-0.2.1/pmd/man/gettarget.Rd | 2 pmd-0.2.1/pmd/man/globalstd.Rd | 11 pmd-0.2.1/pmd/man/pcasf.Rd | 2 pmd-0.2.1/pmd/man/plotcn.Rd |only pmd-0.2.1/pmd/man/plotstdsda.Rd | 2 pmd-0.2.1/pmd/vignettes/globalstd.Rmd | 257 +++---- pmd-0.2.1/pmd/vignettes/reactomics.Rmd |only 37 files changed, 864 insertions(+), 1182 deletions(-)
Title: Work with Custom Distribution Functions
Description: Create, transform, and summarize custom random
variables with distribution functions (analogues of 'p*()', 'd*()',
'q*()', and 'r*()' functions from base R). Two types of distributions
are supported: "discrete" (random variable has finite number of output
values) and "continuous" (infinite number of values in the form of
continuous random variable). Functions for distribution
transformations and summaries are available. Implemented approaches
often emphasize approximate and numerical solutions: all distributions
assume finite support and finite values of density function; some
methods implemented with simulation techniques.
Author: Evgeni Chasnovski [aut, cre] (<https://orcid.org/0000-0002-1617-4019>)
Maintainer: Evgeni Chasnovski <evgeni.chasnovski@gmail.com>
Diff between pdqr versions 0.2.1 dated 2019-12-15 and 0.3.0 dated 2021-01-21
DESCRIPTION | 20 MD5 | 270 +++--- NAMESPACE | 2 NEWS.md | 7 R/as_d.R | 26 R/as_p.R | 14 R/as_q.R | 10 R/as_r.R | 6 R/assertions.R | 35 R/form-compare.R | 4 R/form-other.R | 70 + R/form_regrid.R | 31 R/form_resupport.R | 21 R/form_retype.R | 39 R/form_tails.R | 22 R/form_trans.R | 36 R/group-generics.R | 173 ++-- R/meta.R | 1 R/new_d.R | 3 R/new_q.R | 8 R/pdqr-package.R | 25 R/plot.R | 1 R/print.R | 7 R/region.R | 208 ++++ R/summ-other.R | 7 R/summ_center.R | 73 + R/summ_classmetric.R | 83 + R/summ_distance.R | 74 + R/summ_entropy.R | 24 R/summ_hdr.R | 14 R/summ_interval.R | 19 R/summ_moment.R | 4 R/summ_order.R | 24 R/summ_pval.R | 14 R/summ_roc.R | 20 R/summ_separation.R | 17 R/summ_spread.R | 25 R/utils-as.R | 65 - R/utils-form.R | 22 R/utils-new.R | 46 - R/utils-summ.R | 344 +++++--- R/utils.R | 139 ++- R/x_tbl.R | 46 - R/zzz.R | 15 README.md | 122 +- build/vignette.rds |binary inst/WORDLIST | 5 inst/doc/pdqr-01-create.html | 1077 +++++++++++-------------- inst/doc/pdqr-02-convert.html | 928 +++++++++------------- inst/doc/pdqr-03-transform.html | 915 ++++++++++----------- inst/doc/pdqr-04-summarize.html | 1132 ++++++++++++--------------- man/as-pdqr.Rd | 31 man/enpoint.Rd | 3 man/form_estimate.Rd | 14 man/form_mix.Rd | 11 man/form_recenter.Rd | 3 man/form_regrid.Rd | 13 man/form_resupport.Rd | 7 man/form_retype.Rd | 16 man/form_smooth.Rd | 1 man/form_tails.Rd | 9 man/form_trans.Rd | 19 man/meta.Rd | 3 man/methods-group-generic.Rd | 29 man/methods-plot.Rd | 1 man/methods-print.Rd | 1 man/new-pdqr.Rd | 5 man/pdqr-package.Rd | 17 man/pdqr_approx_error.Rd | 1 man/region.Rd | 50 - man/summ_center.Rd | 24 man/summ_classmetric.Rd | 1 man/summ_distance.Rd | 31 man/summ_entropy.Rd | 7 man/summ_hdr.Rd | 7 man/summ_interval.Rd | 9 man/summ_moment.Rd | 1 man/summ_order.Rd | 11 man/summ_prob_true.Rd | 3 man/summ_pval.Rd | 3 man/summ_quantile.Rd | 1 man/summ_roc.Rd | 11 man/summ_separation.Rd | 5 man/summ_spread.Rd | 9 tests/figs/test-plot/plot-r-continuous-1.svg | 24 tests/figs/test-plot/plot-r-continuous-2.svg | 22 tests/figs/test-plot/plot-r-continuous-3.svg | 22 tests/figs/test-plot/plot-r-discrete-1.svg | 16 tests/figs/test-plot/plot-r-discrete-2.svg | 16 tests/figs/test-plot/plot-r-discrete-3.svg | 16 tests/figs/test-plot/plot-r-n-sample.svg | 10 tests/spelling.R | 9 tests/testthat/helper-data.R | 4 tests/testthat/helper-distributions.R | 34 tests/testthat/helper-expectations.R | 42 - tests/testthat/helper-summ-stats.R | 31 tests/testthat/test-as_d.R | 48 - tests/testthat/test-as_p.R | 24 tests/testthat/test-as_q.R | 24 tests/testthat/test-as_r.R | 20 tests/testthat/test-assertions.R | 47 - tests/testthat/test-form-compare.R | 2 tests/testthat/test-form-other.R | 79 + tests/testthat/test-form_regrid.R | 56 - tests/testthat/test-form_resupport.R | 24 tests/testthat/test-form_retype.R | 8 tests/testthat/test-form_tails.R | 18 tests/testthat/test-form_trans.R | 58 - tests/testthat/test-group-generics.R | 144 +-- tests/testthat/test-meta.R | 36 tests/testthat/test-new_d.R | 4 tests/testthat/test-new_p.R | 2 tests/testthat/test-new_q.R | 16 tests/testthat/test-new_r.R | 2 tests/testthat/test-plot.R | 95 +- tests/testthat/test-print.R | 16 tests/testthat/test-region.R | 221 +++++ tests/testthat/test-summ-other.R | 6 tests/testthat/test-summ_center.R | 42 - tests/testthat/test-summ_classmetric.R | 68 + tests/testthat/test-summ_distance.R | 253 ++++-- tests/testthat/test-summ_entropy.R | 56 - tests/testthat/test-summ_hdr.R | 79 + tests/testthat/test-summ_interval.R | 48 - tests/testthat/test-summ_moment.R | 6 tests/testthat/test-summ_order.R | 48 - tests/testthat/test-summ_pval.R | 28 tests/testthat/test-summ_roc.R | 14 tests/testthat/test-summ_separation.R | 32 tests/testthat/test-summ_spread.R | 48 - tests/testthat/test-utils-as.R | 2 tests/testthat/test-utils-form.R | 45 - tests/testthat/test-utils-new.R | 52 - tests/testthat/test-utils-summ.R | 230 +++++ tests/testthat/test-utils.R | 127 ++- tests/testthat/test-x_tbl.R | 48 - 136 files changed, 5183 insertions(+), 3889 deletions(-)
Title: MultiDimensional Feature Selection
Description: Functions for MultiDimensional Feature Selection (MDFS):
calculating multidimensional information gains, scoring variables,
finding important variables, plotting selection results.
This package includes an optional CUDA implementation that speeds up
information gain calculation using NVIDIA GPGPUs.
Author: Radosław Piliszek [aut, cre],
Krzysztof Mnich [aut],
Paweł Tabaszewski [aut],
Szymon Migacz [aut],
Andrzej Sułecki [aut],
Witold Remigiusz Rudnicki [aut]
Maintainer: Radosław Piliszek <r.piliszek@uwb.edu.pl>
Diff between MDFS versions 1.1.0 dated 2021-01-06 and 1.1.1 dated 2021-01-21
DESCRIPTION | 8 MD5 | 62 - NAMESPACE | 40 - NEWS | 122 +-- R/information_gain.R | 874 +++++++++++++------------- R/main.R | 182 ++--- R/p_value.R | 742 +++++++++++----------- R/utils.R | 54 - cleanup.win | 10 man/AddContrastVariables.Rd | 54 - man/ComputeInterestingTuples.Rd | 138 ++-- man/ComputeMaxInfoGains.Rd | 136 ++-- man/ComputePValue.Rd | 160 ++-- man/Discretize.Rd | 60 - man/MDFS.Rd | 144 ++-- man/RelevantVariables.MDFS.Rd | 54 - man/RelevantVariables.Rd | 38 - man/as.data.frame.MDFS.Rd | 38 - man/madelon.Rd | 68 +- man/plot.MDFS.Rd | 36 - src/MDFS-win.def | 6 src/Makevars.cuda.in | 32 src/cpu/mdfs.h | 1 src/gpu/kernels.cu | 214 +++--- src/gpu/kernels2D.cuh | 1302 ++++++++++++++++++++-------------------- src/gpu/kernels3D.cuh | 1176 ++++++++++++++++++------------------ src/gpu/kernels4D.cuh | 1204 ++++++++++++++++++------------------ src/gpu/kernels5D.cuh | 1298 +++++++++++++++++++-------------------- src/gpu/splitkernel.cuh | 926 ++++++++++++++-------------- src/gpu/tableskernel.cuh | 340 +++++----- src/gpu/utils.cuh | 28 tests/simple_run.R | 10 32 files changed, 4781 insertions(+), 4776 deletions(-)
Title: The Induced Smoothed Lasso
Description: An implementation of the induced smoothing (IS) idea to lasso regularization models to allow estimation and inference on the model coefficients (currently hypothesis testing only). Linear, logistic, Poisson and gamma regressions with several link functions are implemented. The algorithm is described in the original paper: Cilluffo, G., Sottile, G., La Grutta, S. and Muggeo, V. (2019) The Induced Smoothed lasso: A practical framework for hypothesis testing in high dimensional regression. <doi:10.1177/0962280219842890>, and discussed in a tutorial: Sottile, G., Cilluffo, G., and Muggeo, V. (2019) The R package islasso: estimation and hypothesis testing in lasso regression. <doi:10.13140/RG.2.2.16360.11521>.
Author: Gianluca Sottile [aut, cre],
Giovanna Cilluffo [aut, ctb],
Vito MR Muggeo [aut, cre]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between islasso versions 1.2.0 dated 2021-01-21 and 1.2.1 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- man/islasso-package.Rd | 2 +- src/auxiliary.f90 | 12 ++++++------ src/islasso2.f90 | 7 +------ 5 files changed, 15 insertions(+), 20 deletions(-)
Title: Apply Functions to Multiple Multidimensional Arrays or Vectors
Description: The base apply function and its variants, as well as the related
functions in the 'plyr' package, typically apply user-defined functions to a
single argument (or a list of vectorized arguments in the case of mapply). The
'multiApply' package extends this paradigm with its only function, Apply, which
efficiently applies functions taking one or a list of multiple unidimensional
or multidimensional arrays (or combinations thereof) as input. The input
arrays can have different numbers of dimensions as well as different dimension
lengths, and the applied function can return one or a list of unidimensional or
multidimensional arrays as output. This saves development time by preventing the
R user from writing often error-prone and memory-inefficient loops dealing with
multiple complex arrays. Also, a remarkable feature of Apply is the transparent
use of multi-core through its parameter 'ncores'. In contrast to the base apply
function, this package suggests the use of 'target dimensions' as opposite
to the 'margins' for specifying the dimensions relevant to the function to be
applied.
Author: BSC-CNS [aut, cph],
Nicolau Manubens [aut],
Alasdair Hunter [aut],
Nuria Perez [cre]
Maintainer: Nuria Perez <nuria.perez@bsc.es>
Diff between multiApply versions 2.1.1 dated 2019-09-03 and 2.1.2 dated 2021-01-21
DESCRIPTION | 10 +++++----- MD5 | 4 ++-- R/Apply.R | 2 +- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Computation of the Double-Entry Intraclass Correlation
Description: The function computes the profile similarity measure double-entry intraclass correlation. It is a more precise index of the agreement of two
empirically observed profiles than the often used intraclass correlation or profile correlation. Profiles comprising correlations are transformed according to the Fisher z transformation before the index is calculated. In the case of score data with different scale formats (e.g., if the profile contains different IQ or a variety of personality tests), it is recommended to z-standardize the scores before entering into the function. For details, see Furr (2010) <doi:10.1080/00223890903379134> or McCrae (2008) <doi:10.1080/00223890701845104>.
Author: Christian Blötner, Michael Paul Grosz
Maintainer: Christian Blötner <c.bloetner@gmail.com>
Diff between iccde versions 0.2.0 dated 2020-12-04 and 0.3.0 dated 2021-01-21
DESCRIPTION | 9 +++++---- MD5 | 6 +++--- R/iccde.R | 26 +++++++++++++------------- man/iccde.Rd | 19 +++++++++++-------- 4 files changed, 32 insertions(+), 28 deletions(-)
Title: Kalman Filter and Smoother for Exponential Family State Space
Models
Description: State space modelling is an efficient and flexible framework for
statistical inference of a broad class of time series and other data. KFAS
includes computationally efficient functions for Kalman filtering, smoothing,
forecasting, and simulation of multivariate exponential family state space models,
with observations from Gaussian, Poisson, binomial, negative binomial, and gamma
distributions. See the paper by Helske (2017) <doi:10.18637/jss.v078.i10> for details.
Author: Jouni Helske [aut, cre] (<https://orcid.org/0000-0001-7130-793X>)
Maintainer: Jouni Helske <jouni.helske@iki.fi>
Diff between KFAS versions 1.4.2 dated 2021-01-14 and 1.4.4 dated 2021-01-21
ChangeLog | 8 +++ DESCRIPTION | 8 +-- MD5 | 28 +++++------ R/KFS.R | 14 +++-- R/ldl.R | 5 + R/logLik.SSModel.R | 14 +++-- R/transformSSM.R | 7 +- inst/doc/KFAS.pdf |binary man/KFS.Rd | 7 ++ man/ldl.Rd | 5 + man/logLik.SSModel.Rd | 4 + man/transformSSM.Rd | 5 + src/declarations.h | 117 ++++++++++++++++++++++++++++++++++++++-------- src/ngloglik.f95 | 9 +-- tests/testthat/testMisc.R | 6 +- 15 files changed, 177 insertions(+), 60 deletions(-)
Title: A 'HTTP' Server Graphics Device
Description: A graphics device for R that is accessible via network protocols.
This package was created to make it easier to embed live R graphics in
integrated development environments and other applications.
The included 'HTML/JavaScript' client (plot viewer) aims to provide a better overall user experience when dealing with R graphics.
The device asynchronously serves 'SVG' graphics via 'HTTP' and 'WebSockets'.
Author: Florian Rupprecht [aut, cre] (<https://orcid.org/0000-0002-1795-8624>),
Kun Ren [ctb],
Jeroen Ooms [ctb] (<https://orcid.org/0000-0002-4035-0289>),
Hadley Wickham [cph] (Author of included svglite code),
Lionel Henry [cph] (Author of included svglite code),
Thomas Lin Pedersen [cph] (Author and creator of included svglite code),
T Jake Luciani [cph] (Author of included svglite code),
Matthieu Decorde [cph] (Author of included svglite code),
Vaudor Lise [cph] (Author of included svglite code),
Tony Plate [cph] (Contributor to included svglite code),
David Gohel [cph] (Contributor to included svglite code),
Yixuan Qiu [cph] (Contributor to included svglite code),
Håkon Malmedal [cph] (Contributor to included svglite code),
RStudio [cph] (Copyright holder of included svglite code),
Brett Robinson [cph] (Author of included belle library),
Google [cph] (Copyright holder of included material design icons),
Victor Zverovich [cph] (Author of included fmt library)
Maintainer: Florian Rupprecht <floruppr@gmail.com>
Diff between httpgd versions 1.0.0 dated 2021-01-19 and 1.0.1 dated 2021-01-21
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ NEWS.md | 7 ++++++- src/devGeneric.cpp | 2 +- src/lib/svglite_utils.h | 2 ++ tests/testthat/test-svglite-devSVG.R | 6 ++---- tests/testthat/test-svglite-text.R | 3 +-- 7 files changed, 23 insertions(+), 19 deletions(-)
Title: Imports Datasets from BCB (Central Bank of Brazil) using Its
Official API
Description: Downloads and organizes datasets using BCB's API <https://www.bcb.gov.br/>. Offers options for caching with the 'memoise' package and
, multicore/multisession with 'furrr' and format of output data (long/wide).
Author: Marcelo Perlin [aut, cre]
Maintainer: Marcelo Perlin <marceloperlin@gmail.com>
Diff between GetBCBData versions 0.5 dated 2019-04-23 and 0.6 dated 2021-01-21
DESCRIPTION | 12 +- MD5 | 26 ++--- NEWS.md | 4 R/gbcbd_get_series.R | 7 - R/gbcbd_utils.R | 4 README.md | 2 build/vignette.rds |binary inst/doc/GetBCBData-vignette.R | 62 ++++++------ inst/doc/GetBCBData-vignette.Rmd | 6 - inst/doc/GetBCBData-vignette.html | 187 ++++++++++++++++++++++---------------- man/gbcbd_get_JSON_fct.Rd | 8 + man/gbcbd_get_series.Rd | 16 ++- man/gbcbd_get_single_series.Rd | 16 ++- vignettes/GetBCBData-vignette.Rmd | 6 - 14 files changed, 205 insertions(+), 151 deletions(-)
Title: Conditional Graphical LASSO for Gaussian Graphical Models with
Censored and Missing Values
Description: Conditional graphical lasso estimator is an extension of the graphical lasso proposed to estimate the conditional dependence structure of a set of p response variables given q predictors. This package provides suitable extensions developed to study datasets with censored and/or missing values. Standard conditional graphical lasso is available as a special case. Furthermore, the package provides an integrated set of core routines for visualization, analysis, and simulation of datasets with censored and/or missing values drawn from a Gaussian graphical model. Details about the implemented models can be found in Augugliaro et al. (2020b) <doi: 10.1007/s11222-020-09945-7>, Augugliaro et al. (2020a) <doi: 10.1093/biostatistics/kxy043>, Yin et al. (2001) <doi: 10.1214/11-AOAS494> and Stadler et al. (2012) <doi: 10.1007/s11222-010-9219-7>.
Author: Luigi Augugliaro [aut, cre] (<https://orcid.org/0000-0002-4603-7541>),
Gianluca Sottile [aut] (<https://orcid.org/0000-0001-9347-7251>),
Ernst C. Wit [aut] (<https://orcid.org/0000-0002-3671-9610>),
Veronica Vinciotti [aut] (<https://orcid.org/0000-0002-2625-7977>)
Maintainer: Luigi Augugliaro <luigi.augugliaro@unipa.it>
Diff between cglasso versions 2.0.1 dated 2021-01-11 and 2.0.2 dated 2021-01-21
ChangeLog | 7 +++++++ DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- build/partial.rdb |binary man/ShowStructure.Rd | 4 ---- man/cglasso-package.Rd | 4 ++-- 6 files changed, 19 insertions(+), 16 deletions(-)
Title: Cache R Objects with Automatic Pruning
Description: Key-value stores with automatic pruning. Caches can limit
either their total size or the age of the oldest object (or both),
automatically pruning objects to maintain the constraints.
Author: Winston Chang [aut, cre],
RStudio [cph, fnd]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between cachem versions 1.0.0 dated 2021-01-18 and 1.0.1 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 5 +++++ src/init.c | 2 +- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Bayesian Model Averaging for Basket Trials
Description: An implementation of the Bayesian model averaging method
of Psioda and others (2019) <doi:10.1093/biostatistics/kxz014> for basket trials.
Contains a user-friendly wrapper for simulating basket trials under conditions
and analyzing them with a Bayesian model averaging approach.
Author: Matt Psioda [cre],
Ethan Alt [aut]
Maintainer: Matt Psioda <matt_psioda@unc.edu>
Diff between bmabasket versions 0.1.0 dated 2021-01-15 and 0.1.1 dated 2021-01-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ man/bmabasket-package.Rd | 2 +- src/cppfuns.cpp | 4 ++-- 5 files changed, 15 insertions(+), 11 deletions(-)
Title: Deal with Dependencies
Description: Tools to help manage dependencies during package
development. This can retrieve all dependencies that are used in R
files in the "R" directory, in Rmd files in "vignettes" directory and
in 'roxygen2' documentation of functions. There is a function to
update the Description file of your package and a function to create a
file with the R commands to install all dependencies of your package.
All functions to retrieve dependencies of R scripts and Rmd files can
be used independently of a package development.
Author: Sébastien Rochette [cre, aut] (<https://orcid.org/0000-0002-1565-9313>),
Vincent Guyader [aut] (<https://orcid.org/0000-0003-0671-9270>,
previous maintainer),
ThinkR [cph, fnd]
Maintainer: Sébastien Rochette <sebastien@thinkr.fr>
Diff between attachment versions 0.2.0 dated 2021-01-19 and 0.2.1 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS.md | 8 ++++++-- README.md | 10 +++++++++- inst/doc/fill-pkg-description.html | 6 +++--- tests/testthat/test-rmd.R | 13 +++++++++---- 6 files changed, 35 insertions(+), 18 deletions(-)
Title: Information Preserving Regression-Based Tools for Statistical
Disclosure Control
Description: Implementation of the methods described in the paper with the above title: Langsrud, Ø. (2019) <doi:10.1007/s11222-018-9848-9>. The package can be used to generate synthetic or hybrid continuous microdata, and the relationship to the original data can be controlled in several ways. A function for replacing suppressed tabular cell frequencies with decimal numbers is included.
Author: Øyvind Langsrud [aut, cre]
Maintainer: Øyvind Langsrud <oyl@ssb.no>
Diff between RegSDC versions 0.4.0 dated 2020-05-08 and 0.5.0 dated 2021-01-21
RegSDC-0.4.0/RegSDC/man/RoundWhole.Rd |only RegSDC-0.5.0/RegSDC/DESCRIPTION | 12 ++-- RegSDC-0.5.0/RegSDC/MD5 | 11 +-- RegSDC-0.5.0/RegSDC/NAMESPACE | 2 RegSDC-0.5.0/RegSDC/R/SuppressDec.R | 91 +++++++++++++-------------------- RegSDC-0.5.0/RegSDC/man/IpsoExtra.Rd | 2 RegSDC-0.5.0/RegSDC/man/SuppressDec.Rd | 4 + 7 files changed, 54 insertions(+), 68 deletions(-)
Title: Simplifies Exploratory Data Analysis
Description: Interactive data exploration with one line of code or use an easy to remember set of tidy functions for exploratory data analysis. Introduces three main verbs. explore() to graphically explore a variable or table, describe() to describe a variable or table and report() to create an automated report.
Author: Roland Krasser
Maintainer: Roland Krasser <roland.krasser@gmail.com>
Diff between explore versions 0.6.2 dated 2020-10-14 and 0.7.0 dated 2021-01-21
DESCRIPTION | 8 MD5 | 26 - NAMESPACE | 2 NEWS.md | 10 R/explain.R | 28 + R/tools.R | 85 ++++ inst/doc/explore.html | 498 ++++++++-------------------- inst/doc/explore_mtcars.html | 350 ++++--------------- inst/doc/explore_penguins.html | 274 ++------------- inst/doc/explore_titanic.html | 328 +++--------------- inst/extdata/template_report_target_pct.Rmd | 3 man/explain_tree.Rd | 8 man/plot_legend_targetpct.Rd |only man/weight_target.Rd |only tests |only 15 files changed, 503 insertions(+), 1117 deletions(-)
Title: Access Elevation Data from Various APIs
Description: Several web services are available that provide access to elevation
data. This package provides access to several of those services and
returns elevation data either as a SpatialPointsDataFrame from
point elevation services or as a raster object from raster
elevation services. Currently, the package supports access to the
Amazon Web Services Terrain Tiles <https://registry.opendata.aws/terrain-tiles/>,
the Open Topography Global Datasets API <https://opentopography.org/developers/>,
and the USGS Elevation Point Query Service <https://nationalmap.gov/epqs/>.
Author: Jeffrey Hollister [aut, cre] (<https://orcid.org/0000-0002-9254-9740>),
Tarak Shah [ctb],
Alec L. Robitaille [ctb] (<https://orcid.org/0000-0002-4706-1762>),
Marcus W. Beck [rev] (<https://orcid.org/0000-0002-4996-0059>),
Mike Johnson [ctb] (<https://orcid.org/0000-0002-5288-8350>)
Maintainer: Jeffrey Hollister <hollister.jeff@epa.gov>
Diff between elevatr versions 0.3.3 dated 2021-01-08 and 0.3.4 dated 2021-01-21
DESCRIPTION | 6 ++-- MD5 | 18 ++++++------ NAMESPACE | 1 R/internal.R | 28 ++++++++++--------- inst/doc/introduction_to_elevatr.Rmd | 4 +- inst/doc/introduction_to_elevatr.html | 48 +++----------------------------- tests/testthat/test-get_elev_point.R | 15 ++++------ tests/testthat/test-get_elev_raster.R | 26 ++++++++--------- tests/testthat/test-internal.R | 50 +++++++++++++++++++--------------- vignettes/introduction_to_elevatr.Rmd | 4 +- 10 files changed, 86 insertions(+), 114 deletions(-)
Title: Detecting Anomalies in Data
Description: Implements Collective And Point Anomaly (CAPA) <arXiv:1806.01947>, Multi-Variate Collective And Point Anomaly (MVCAPA) <arXiv:1909.01691>, Proportion Adaptive Segment Selection (PASS) <doi:10.1093/biomet/ass059>, and Bayesian Abnormal Region Detector (BARD) <doi:10.1214/16-BA998> methods for the detection of anomalies in time series data. Also includes sequential versions of CAPA and MVCAPA <arXiv:2009.06670>.
Author: Alex Fisch [aut],
Daniel Grose [aut, cre],
Lawrence Bardwell [aut, ctb],
Idris Eckley [aut, ths],
Paul Fearnhead [aut, ths]
Maintainer: Daniel Grose <dan.grose@lancaster.ac.uk>
Diff between anomaly versions 4.0.0 dated 2020-09-29 and 4.0.1 dated 2021-01-21
anomaly-4.0.0/anomaly/inst/CITATION |only anomaly-4.0.1/anomaly/DESCRIPTION | 22 +++++++++++----------- anomaly-4.0.1/anomaly/MD5 | 7 +++---- anomaly-4.0.1/anomaly/build/partial.rdb |binary anomaly-4.0.1/anomaly/inst/REFERENCES.bib | 13 ++++++------- 5 files changed, 20 insertions(+), 22 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-06-04 1.2.4
2012-11-27 1.2.3
2012-05-03 1.2.2
2012-04-16 1.2.1
2012-02-28 1.2
2011-11-14 1.1
2011-03-14 1.0
2009-07-18 0.2
2009-06-24 0.1
Title: Soybean Nested Association Mapping Dataset
Description: Genomic and multi-environmental soybean data. Soybean Nested
Association Mapping (SoyNAM) project dataset funded by the United Soybean Board
(USB). BLUP function formats data for genome-wide prediction and association analysis.
Author: Alencar Xavier, William Beavis, James Specht, Brian Diers, Rouf Mian, Reka Howard,
George Graef, Randall Nelson, William Schapaugh, Dechun Wang, Grover Shannon, Leah McHale,
Perry Cregan, Qijian Song, Miguel Lopez, William Muir, Katy Rainey.
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between SoyNAM versions 1.6 dated 2019-02-13 and 1.6.1 dated 2021-01-21
DESCRIPTION | 11 +++++------ MD5 | 8 ++++---- data/soyin.RData |binary man/SoyNAM-package.Rd | 9 ++++----- man/soynam.Rd | 7 ++++--- 5 files changed, 17 insertions(+), 18 deletions(-)
Title: Generate Standardized Data
Description: Creates simulated data from structural equation models with standardized loading. Data generation methods are described in Schneider (2013) <doi:10.1177/0734282913478046>.
Author: W. Joel Schneider [aut, cre] (<https://orcid.org/0000-0002-8393-5316>)
Maintainer: W. Joel Schneider <w.joel.schneider@gmail.com>
Diff between simstandard versions 0.6.0 dated 2020-11-25 and 0.6.2 dated 2021-01-21
simstandard-0.6.0/simstandard/vignettes/ModelFigure.svg |only simstandard-0.6.0/simstandard/vignettes/ModelFigureComplete.svg |only simstandard-0.6.2/simstandard/DESCRIPTION | 6 simstandard-0.6.2/simstandard/MD5 | 31 simstandard-0.6.2/simstandard/NEWS.md | 5 simstandard-0.6.2/simstandard/R/main.R | 63 simstandard-0.6.2/simstandard/README.md | 40 simstandard-0.6.2/simstandard/inst/WORDLIST | 3 simstandard-0.6.2/simstandard/inst/doc/simstandard_tutorial.R | 5 simstandard-0.6.2/simstandard/inst/doc/simstandard_tutorial.Rmd | 5 simstandard-0.6.2/simstandard/inst/doc/simstandard_tutorial.html | 754 ++++------ simstandard-0.6.2/simstandard/man/add_composite_scores.Rd | 14 simstandard-0.6.2/simstandard/man/add_factor_scores.Rd | 21 simstandard-0.6.2/simstandard/man/get_model_implied_correlations.Rd | 2 simstandard-0.6.2/simstandard/tests/testthat/testthat.R | 56 simstandard-0.6.2/simstandard/vignettes/ModelFigure.png |only simstandard-0.6.2/simstandard/vignettes/ModelFigureComplete.png |only simstandard-0.6.2/simstandard/vignettes/figure_caption_patch.lua |only simstandard-0.6.2/simstandard/vignettes/simstandard_tutorial.Rmd | 5 19 files changed, 521 insertions(+), 489 deletions(-)
Title: Robust Bayesian Meta-Analyses
Description: A framework for estimating ensembles of meta-analytic models
(assuming either presence or absence of the effect, heterogeneity, and
publication bias) and using Bayesian model averaging to combine them. The
ensembles use Bayes factors to test for the presence or absence of the
individual components (e.g., effect vs. no effect) and model-averages
parameter estimates based on posterior model probabilities
(Maier, Bartoš & Wagenmakers, 2020, <doi:10.31234/osf.io/u4cns>). The user can
define a wide range of non-informative or informative priors for the
effect size, heterogeneity, and weight functions. The package provides
convenient functions for summary, visualizations, and fit diagnostics.
Author: František Bartoš [aut, cre] (<https://orcid.org/0000-0002-0018-5573>),
Maximilian Maier [aut] (<https://orcid.org/0000-0002-9873-6096>),
Eric-Jan Wagenmakers [ths] (<https://orcid.org/0000-0003-1596-1034>),
Joris Goosen [ctb]
Maintainer: František Bartoš <f.bartos96@gmail.com>
Diff between RoBMA versions 1.1.2 dated 2020-12-10 and 1.2.0 dated 2021-01-21
RoBMA-1.1.2/RoBMA/src/distributions/DTboost.cc |only RoBMA-1.1.2/RoBMA/src/distributions/DTboost.h |only RoBMA-1.1.2/RoBMA/src/distributions/DWT1boost.cc |only RoBMA-1.1.2/RoBMA/src/distributions/DWT1boost.h |only RoBMA-1.1.2/RoBMA/src/distributions/DWT2boost.cc |only RoBMA-1.1.2/RoBMA/src/distributions/DWT2boost.h |only RoBMA-1.2.0/RoBMA/DESCRIPTION | 6 RoBMA-1.2.0/RoBMA/MD5 | 80 - RoBMA-1.2.0/RoBMA/NEWS.md | 10 RoBMA-1.2.0/RoBMA/R/diagnostics.R | 5 RoBMA-1.2.0/RoBMA/R/distributions.R | 83 + RoBMA-1.2.0/RoBMA/R/main.R | 1161 +++++++++------- RoBMA-1.2.0/RoBMA/R/methods.R | 146 +- RoBMA-1.2.0/RoBMA/R/plots.R | 4 RoBMA-1.2.0/RoBMA/R/priors.R | 59 RoBMA-1.2.0/RoBMA/R/zzz.R | 7 RoBMA-1.2.0/RoBMA/README.md | 60 RoBMA-1.2.0/RoBMA/build/partial.rdb |binary RoBMA-1.2.0/RoBMA/build/vignette.rds |binary RoBMA-1.2.0/RoBMA/inst/REFERENCES.bib | 41 RoBMA-1.2.0/RoBMA/inst/doc/CustomEnsembles.Rmd | 4 RoBMA-1.2.0/RoBMA/inst/doc/CustomEnsembles.html | 92 - RoBMA-1.2.0/RoBMA/inst/doc/ReproducingBMA.R | 5 RoBMA-1.2.0/RoBMA/inst/doc/ReproducingBMA.Rmd | 19 RoBMA-1.2.0/RoBMA/inst/doc/ReproducingBMA.html | 50 RoBMA-1.2.0/RoBMA/inst/doc/WarningsAndErrors.html | 4 RoBMA-1.2.0/RoBMA/man/RoBMA.Rd | 3 RoBMA-1.2.0/RoBMA/man/figures/README-fig_mu-1.png |binary RoBMA-1.2.0/RoBMA/man/figures/README-fig_mu_chain-1.png |binary RoBMA-1.2.0/RoBMA/man/figures/README-fig_mu_ind-1.png |binary RoBMA-1.2.0/RoBMA/man/figures/README-fig_omega-1.png |binary RoBMA-1.2.0/RoBMA/man/figures/README-fig_tau-1.png |binary RoBMA-1.2.0/RoBMA/man/update.RoBMA.Rd | 3 RoBMA-1.2.0/RoBMA/src/Makevars.in | 2 RoBMA-1.2.0/RoBMA/src/Makevars.win | 2 RoBMA-1.2.0/RoBMA/src/distributions/DWN1.cc |only RoBMA-1.2.0/RoBMA/src/distributions/DWN1.h |only RoBMA-1.2.0/RoBMA/src/distributions/DWN2.cc |only RoBMA-1.2.0/RoBMA/src/distributions/DWN2.h |only RoBMA-1.2.0/RoBMA/src/weightedt.cc | 10 RoBMA-1.2.0/RoBMA/tests/testthat/test-0-CRAN.R | 16 RoBMA-1.2.0/RoBMA/tests/testthat/test-4-fit.R | 70 RoBMA-1.2.0/RoBMA/tests/testthat/test-5-methods.R | 12 RoBMA-1.2.0/RoBMA/tests/testthat/test-6-plots.R | 12 RoBMA-1.2.0/RoBMA/vignettes/CustomEnsembles.Rmd | 4 RoBMA-1.2.0/RoBMA/vignettes/ReproducingBMA.Rmd | 19 46 files changed, 1197 insertions(+), 792 deletions(-)
Title: Model Based Treatment of Missing Data
Description: Contains model-based treatment of missing data for regression
models with missing values in covariates or the dependent
variable using maximum likelihood or Bayesian estimation
(Ibrahim et al., 2005; <doi:10.1198/016214504000001844>;
Luedtke, Robitzsch, & West, 2020a, 2020b;
<doi:10.1080/00273171.2019.1640104><doi:10.1037/met0000233>).
The regression model can be nonlinear (e.g., interaction
effects, quadratic effects or B-spline functions).
Multilevel models with missing data in predictors are
available for Bayesian estimation. Substantive-model compatible
multiple imputation can be also conducted.
Author: Alexander Robitzsch [aut, cre], Oliver Luedtke [aut]
Maintainer: Alexander Robitzsch <robitzsch@leibniz-ipn.de>
Diff between mdmb versions 1.4-12 dated 2020-05-12 and 1.5-8 dated 2021-01-21
DESCRIPTION | 12 +++++----- MD5 | 34 +++++++++++++++--------------- R/RcppExports.R | 2 - R/frm_check_predictor_matrix.R | 4 +-- R/frm_define_model_R_function.R | 8 ++++--- R/frm_em.R | 2 - R/frm_em_avcov.R | 12 ++++++---- R/frm_fb.R | 2 - R/frm_fb_initial_parameters.R | 6 ++--- R/frm_fb_sample_imputed_values_proposal.R | 2 - R/frm_mlreg_wrapper_ml_mcmc.R | 6 +++-- R/frm_prepare_models.R | 4 +-- R/mdmb_regression.R | 4 +-- build/partial.rdb |binary inst/NEWS | 14 ++++++++++++ man/frm.Rd | 18 +++++++-------- man/mdmb-package.Rd | 16 +++++++------- src/RcppExports.cpp | 2 - 18 files changed, 84 insertions(+), 64 deletions(-)
Title: The Induced Smoothed Lasso
Description: An implementation of the induced smoothing (IS) idea to lasso regularization models to allow estimation and inference on the model coefficients (currently hypothesis testing only). Linear, logistic, Poisson and gamma regressions with several link functions are implemented. The algorithm is described in the original paper: Cilluffo, G., Sottile, G., La Grutta, S. and Muggeo, V. (2019) The Induced Smoothed lasso: A practical framework for hypothesis testing in high dimensional regression. <doi:10.1177/0962280219842890>, and discussed in a tutorial: Sottile, G., Cilluffo, G., and Muggeo, V. (2019) The R package islasso: estimation and hypothesis testing in lasso regression. <doi:10.13140/RG.2.2.16360.11521>.
Author: Gianluca Sottile [aut, cre],
Giovanna Cilluffo [aut, ctb],
Vito MR Muggeo [aut, cre]
Maintainer: Gianluca Sottile <gianluca.sottile@unipa.it>
Diff between islasso versions 1.1.1 dated 2020-02-25 and 1.2.0 dated 2021-01-21
islasso-1.1.1/islasso/src/check_out.f90 |only islasso-1.1.1/islasso/src/gradient.f90 |only islasso-1.1.1/islasso/src/hessian.f90 |only islasso-1.2.0/islasso/DESCRIPTION | 10 islasso-1.2.0/islasso/MD5 | 54 - islasso-1.2.0/islasso/NAMESPACE | 17 islasso-1.2.0/islasso/NEWS | 10 islasso-1.2.0/islasso/R/S3methods_islasso.R |only islasso-1.2.0/islasso/R/auxiliary.R |only islasso-1.2.0/islasso/R/confint_and_auxiliary.R |only islasso-1.2.0/islasso/R/islasso.R | 1029 ++++++------------------ islasso-1.2.0/islasso/man/aic.islasso.Rd | 3 islasso-1.2.0/islasso/man/anova.islasso.Rd | 6 islasso-1.2.0/islasso/man/confint.islasso.Rd |only islasso-1.2.0/islasso/man/diabetes.Rd | 2 islasso-1.2.0/islasso/man/is.control.Rd | 19 islasso-1.2.0/islasso/man/islasso-internal.Rd | 59 - islasso-1.2.0/islasso/man/islasso-package.Rd | 4 islasso-1.2.0/islasso/man/islasso.Rd | 37 islasso-1.2.0/islasso/man/predict.islasso.Rd | 16 islasso-1.2.0/islasso/man/summary.islasso.Rd | 6 islasso-1.2.0/islasso/src/Makevars | 3 islasso-1.2.0/islasso/src/auxiliary.f90 | 182 +--- islasso-1.2.0/islasso/src/dev_grad_hess.f90 |only islasso-1.2.0/islasso/src/family.f90 | 64 - islasso-1.2.0/islasso/src/init.c | 5 islasso-1.2.0/islasso/src/islasso.h | 34 islasso-1.2.0/islasso/src/islasso2.f90 | 196 ++-- islasso-1.2.0/islasso/src/islasso_glm.f90 | 194 ++-- islasso-1.2.0/islasso/src/link.f90 | 2 islasso-1.2.0/islasso/src/standardize.f90 | 28 islasso-1.2.0/islasso/src/trace_islasso.c | 106 +- 32 files changed, 868 insertions(+), 1218 deletions(-)
Title: Modular Hydrological Model
Description: The HBV hydrological model (Bergström, S. and Lindström, G., (2015) <doi:10.1002/hyp.10510>) has been split in modules to allow the user to build his/her own model. This version was developed by the author in IANIGLA-CONICET (Instituto Argentino de Nivologia, Glaciologia y Ciencias Ambientales - Consejo Nacional de Investigaciones Cientificas y Tecnicas) for hydroclimatic studies in the Andes. HBV.IANIGLA incorporates routines for clean and debris covered glacier melt simulations.
Author: Ezequiel Toum <etoum@mendoza-conicet.gob.ar>
Maintainer: Ezequiel Toum <etoum@mendoza-conicet.gob.ar>
Diff between HBV.IANIGLA versions 0.1.1 dated 2019-08-29 and 0.2.0 dated 2021-01-21
DESCRIPTION | 24 MD5 | 114 +++- NAMESPACE | 7 NEWS.md |only R/HBV.IANIGLA-package.R |only R/RcppExports.R | 854 +++++++++++++++++++++++++++++++++ R/alerce_data.R |only R/glacio_hydro_hbv.R |only R/lumped_hbv.R |only R/semi_distributed_hbv.R |only R/tupungato_data.R |only README.md | 49 + build |only data |only inst |only man/Glacier_Disch.Rd | 122 ++-- man/PET.Rd | 111 ++-- man/Precip_model.Rd | 101 ++- man/Routing_HBV.Rd | 288 +++++++---- man/SnowGlacier_HBV.Rd | 210 ++++---- man/Soil_HBV.Rd | 168 +++--- man/Temp_model.Rd | 102 ++- man/UH.Rd | 95 +-- man/alerce_data.Rd |only man/figures |only man/glacio_hydro_hbv.Rd |only man/lumped_hbv.Rd |only man/semi_distributed_hbv.Rd |only man/tupungato_data.Rd |only src/Evapotranspiration_HBV.cpp | 135 ++++- src/Glacier_Disch.cpp | 164 +++++- src/Precip_models.cpp | 183 +++++-- src/RcppExports.cpp | 157 ++++++ src/Routing_HBV.cpp | 675 ++++++++++---------------- src/SnowGlacier_HBV.cpp | 1053 +++++++++++------------------------------ src/Soil_HBV.cpp | 165 +++++- src/Temp_models.cpp | 173 +++++- src/UH_HBV.cpp | 90 ++- src/aa_icemelt_clean.cpp |only src/aa_icemelt_clean.h |only src/aa_icemelt_clean_gca.cpp |only src/aa_icemelt_clean_gca.h |only src/aa_icemelt_debris.cpp |only src/aa_icemelt_debris.h |only src/aa_icemelt_debris_gca.cpp |only src/aa_icemelt_debris_gca.h |only src/aa_route_1r_2o.cpp |only src/aa_route_1r_2o.h |only src/aa_route_1r_3o.cpp |only src/aa_route_1r_3o.h |only src/aa_route_2r_2o.cpp |only src/aa_route_2r_2o.h |only src/aa_route_2r_3o.cpp |only src/aa_route_2r_3o.h |only src/aa_route_3r_3o.cpp |only src/aa_route_3r_3o.h |only src/aa_snowmelt.cpp |only src/aa_snowmelt.h |only src/aa_snowmelt_sca.cpp |only src/aa_snowmelt_sca.h |only vignettes |only 61 files changed, 3192 insertions(+), 1848 deletions(-)
Title: ELISA Data Analysis with Batch Correction
Description: To run data analysis for enzyme-link immunosorbent assays (ELISAs).
Either the five- or four-parameter logistic model will be fitted for data of single ELISA.
Moreover, the batch effect correction/normalization will be carried out, when there are more than one batches of ELISAs.
Feng (2018) <doi:10.1101/483800>.
Author: Feng Feng [aut, cre]
Maintainer: Feng Feng <ffeng@BU.edu>
Diff between ELISAtools versions 0.1.0 dated 2019-03-08 and 0.1.5 dated 2021-01-21
DESCRIPTION | 8 LICENSE | 4 MD5 | 96 - NAMESPACE | 68 R/BatchCorrection.R | 1678 ++++++++++---------- R/ELISAplate.R | 1298 ++++++++-------- R/ELISAtools.R | 72 R/ELISAtools_IO.R | 2430 +++++++++++++++--------------- R/Regression.R | 844 +++++----- README.md | 16 build/partial.rdb |only build/vignette.rds |binary inst/doc/elisatools-vignette.R | 156 - inst/doc/elisatools-vignette.Rmd | 526 +++--- inst/doc/elisatools-vignette.pdf |binary inst/extdata/annote.txt | 38 inst/extdata/annote_single.txt | 14 inst/extdata/shortTutorialELISAtools.docx |only inst/extdata/stdConc.txt | 46 inst/extdata/tutorial.R | 98 - man/ELISAtools-package.Rd | 58 man/annotate.plate.Rd | 124 - man/avoidZero.Rd | 44 man/combineData.Rd | 116 - man/elisa_batch-class.Rd | 128 - man/elisa_batch.Rd | 113 - man/elisa_plate-class.Rd | 128 - man/elisa_plate.Rd | 114 - man/elisa_run-class.Rd | 96 - man/elisa_run.Rd | 91 - man/f5pl.Rd | 48 man/inv.f5pl.Rd | 40 man/load.ODs.Rd | 78 man/loadDB.Rd | 112 - man/loadData.Rd | 100 - man/plotAlignData.Rd | 86 - man/plotBatchData.Rd | 80 man/predictAll.Rd | 74 man/prepareInitsLM.Rd | 74 man/prepareRegInput.Rd | 46 man/rangeOD.Rd | 28 man/read.annotation.Rd | 106 - man/read.annotations.Rd | 111 - man/read.plate.Rd | 58 man/read.plates.Rd | 106 - man/reportHtml.Rd | 98 - man/runFit.Rd | 144 - man/saveDB.Rd | 104 - man/saveDataText.Rd | 96 - vignettes/elisatools-vignette.Rmd | 526 +++--- 50 files changed, 5287 insertions(+), 5232 deletions(-)
Title: Visualizing Hypothesis Tests in Multivariate Linear Models
Description: Provides HE plot and other functions for visualizing hypothesis
tests in multivariate linear models. HE plots represent sums-of-squares-and-
products matrices for linear hypotheses and for error using ellipses (in two
dimensions) and ellipsoids (in three dimensions). The related 'candisc' package
provides visualizations in a reduced-rank canonical discriminant space when
there are more than a few response variables.
Author: John Fox [aut],
Michael Friendly [aut, cre],
Georges Monette [ctb],
Phil Chalmers [ctb]
Maintainer: Michael Friendly <friendly@yorku.ca>
Diff between heplots versions 1.3-7 dated 2020-10-28 and 1.3-8 dated 2021-01-21
DESCRIPTION | 10 +- MD5 | 115 ++++++++++++++++---------------- NEWS | 4 + build/partial.rdb |only demo/Big5.R | 2 demo/OBK.R | 5 - inst/doc/HE-examples.R | 2 inst/doc/HE-examples.Rnw | 2 inst/doc/HE-examples.pdf |binary inst/doc/repeated.pdf |binary man/AddHealth.Rd | 2 man/Adopted.Rd | 2 man/FootHead.Rd | 3 man/Oslo.Rd | 4 - man/heplot-package.Rd | 4 - man/heplot.Rd | 2 man/logdetCI.Rd | 4 - vignettes/HE-examples.Rnw | 2 vignettes/fig/plot-Ortho-fm1.pdf |binary vignettes/fig/plot-Ortho-fm3.pdf |binary vignettes/fig/plot-grades-can-class.pdf |binary vignettes/fig/plot-grades-can-gpa.pdf |binary vignettes/fig/plot-grades-can-sex.pdf |binary vignettes/fig/plot-grades-pairs.pdf |binary vignettes/fig/plot-hern-can-age.pdf |binary vignettes/fig/plot-hern-can-build.pdf |binary vignettes/fig/plot-hern-can-cardiac.pdf |binary vignettes/fig/plot-hern-can-pstat.pdf |binary vignettes/fig/plot-hern-pairs.pdf |binary vignettes/fig/plot-jury-can1.pdf |binary vignettes/fig/plot-jury-mod1-HE.pdf |binary vignettes/fig/plot-jury-mod1-pairs.pdf |binary vignettes/fig/plot-jury-mod2-HE.pdf |binary vignettes/fig/plot-jury-mod3-eff.pdf |binary vignettes/fig/plot-obk-HE1.pdf |binary vignettes/fig/plot-obk-HE2.pdf |binary vignettes/fig/plot-obk-HE3.pdf |binary vignettes/fig/plot-obk2-HE1.pdf |binary vignettes/fig/plot-obk2-HE2.pdf |binary vignettes/fig/plot-ortho-HE.pdf |binary vignettes/fig/plot-ortho-nonlin-HE.pdf |binary vignettes/fig/plot-ortho-xyplot1.pdf |binary vignettes/fig/plot-ortho-xyplot2.pdf |binary vignettes/fig/plot-plastic2.pdf |binary vignettes/fig/plot-rohwer-HE1.pdf |binary vignettes/fig/plot-rohwer-HE2.pdf |binary vignettes/fig/plot-rohwer-HE3.pdf |binary vignettes/fig/plot-rohwer-HE4.pdf |binary vignettes/fig/plot-skulls-HE-pairs.pdf |binary vignettes/fig/plot-skulls-bwplot.pdf |binary vignettes/fig/plot-skulls-can2.pdf |binary vignettes/fig/plot-skulls4.pdf |binary vignettes/fig/plot-voc1.pdf |binary vignettes/fig/plot-voc4.pdf |binary vignettes/fig/plot-voc8.pdf |binary vignettes/fig/plot-wl-HE1.pdf |binary vignettes/fig/plot-wl-HE2.pdf |binary vignettes/fig/plot-wl-HE3.pdf |binary vignettes/fig/plot-wl-means.pdf |binary 59 files changed, 92 insertions(+), 71 deletions(-)
Title: Qualitative Comparative Analysis
Description: An extensive set of functions to perform Qualitative Comparative Analysis:
crisp sets ('csQCA'), temporal ('tQCA'), multi-value ('mvQCA')
and fuzzy sets ('fsQCA'), using a GUI - graphical user interface.
'QCA' is a methodology that bridges the qualitative and quantitative divide
in social science research. It uses a Boolean algorithm, resulting in a
minimal causal configuration that explains a given phenomenon.
Author: Adrian Dusa [aut, cre, cph] (<https://orcid.org/0000-0002-3525-9253>),
Ciprian Paduraru [ctb] (<https://orcid.org/0000-0002-4518-374X>),
jQuery Foundation [cph] (jQuery library and jQuery UI library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/gui/www/lib/jquery-AUTHORS.txt),
lp_solve [cph] (http://lpsolve.sourceforge.net),
Vasil Dinkov [ctb, cph] (jquery.smartmenus.js library),
Dmitry Baranovskiy [ctb, cph] (raphael.js library),
Emmanuel Quentin [ctb, cph] (raphael.inline_text_editing.js library),
Jimmy Breck-McKye [ctb, cph] (raphael-paragraph.js library),
Alrik Thiem [aut] (from version 1.0-0 up to version 1.1-3)
Maintainer: Adrian Dusa <dusa.adrian@unibuc.ro>
Diff between QCA versions 3.10 dated 2020-10-21 and 3.11 dated 2021-01-21
QCA-3.10/QCA/src/CCubes |only QCA-3.10/QCA/src/lpSolve |only QCA-3.11/QCA/DESCRIPTION | 15 QCA-3.11/QCA/MD5 | 385 ++++++------- QCA-3.11/QCA/R/XYplot.R | 2 QCA-3.11/QCA/R/Xplot.R | 2 QCA-3.11/QCA/R/allExpressions.R | 2 QCA-3.11/QCA/R/calibrate.R | 2 QCA-3.11/QCA/R/causalChain.R | 5 QCA-3.11/QCA/R/combint.R | 2 QCA-3.11/QCA/R/complexity.R | 2 QCA-3.11/QCA/R/createMatrix.R | 2 QCA-3.11/QCA/R/dimnames.R | 2 QCA-3.11/QCA/R/findRows.R | 2 QCA-3.11/QCA/R/findSubsets.R | 2 QCA-3.11/QCA/R/findSupersets.R | 2 QCA-3.11/QCA/R/findTh.R | 2 QCA-3.11/QCA/R/findmin.R | 2 QCA-3.11/QCA/R/fuzzyand.R | 2 QCA-3.11/QCA/R/fuzzyor.R | 2 QCA-3.11/QCA/R/generate.R | 2 QCA-3.11/QCA/R/getRow.R | 2 QCA-3.11/QCA/R/getSolution.R | 2 QCA-3.11/QCA/R/makeChart.R | 2 QCA-3.11/QCA/R/minimize.R | 15 QCA-3.11/QCA/R/modelFit.R | 2 QCA-3.11/QCA/R/onAttach.R | 2 QCA-3.11/QCA/R/onUnload.R | 2 QCA-3.11/QCA/R/panel.R | 2 QCA-3.11/QCA/R/pof.R | 15 QCA-3.11/QCA/R/pofind.R | 2 QCA-3.11/QCA/R/print.R | 4 QCA-3.11/QCA/R/removeRedundants.R | 2 QCA-3.11/QCA/R/retention.R | 2 QCA-3.11/QCA/R/rowDominance.R | 2 QCA-3.11/QCA/R/runGUI.R | 2 QCA-3.11/QCA/R/solveChart.R | 2 QCA-3.11/QCA/R/sortMatrix.R | 2 QCA-3.11/QCA/R/sortVector.R | 2 QCA-3.11/QCA/R/string.R | 2 QCA-3.11/QCA/R/superSubset.R | 2 QCA-3.11/QCA/R/truthTable.R | 4 QCA-3.11/QCA/R/verifyQCA.R | 2 QCA-3.11/QCA/R/writeSolution.R | 2 QCA-3.11/QCA/build |only QCA-3.11/QCA/inst/ChangeLog | 7 QCA-3.11/QCA/inst/TODO | 9 QCA-3.11/QCA/inst/gui/server.R | 2 QCA-3.11/QCA/inst/gui/www/js/maincode.js | 6 QCA-3.11/QCA/inst/gui/www/js/utils.js | 19 QCA-3.11/QCA/inst/staticdocs/CV.html | 4 QCA-3.11/QCA/inst/staticdocs/LegacyDatasets.html | 4 QCA-3.11/QCA/inst/staticdocs/Lipset.html | 4 QCA-3.11/QCA/inst/staticdocs/QCA.package.html | 8 QCA-3.11/QCA/inst/staticdocs/RS.html | 4 QCA-3.11/QCA/inst/staticdocs/SOPexpressions.html | 4 QCA-3.11/QCA/inst/staticdocs/XYplot.html | 4 QCA-3.11/QCA/inst/staticdocs/Xplot.html | 4 QCA-3.11/QCA/inst/staticdocs/calibrate.html | 4 QCA-3.11/QCA/inst/staticdocs/causalChain.html | 4 QCA-3.11/QCA/inst/staticdocs/chartFunctions.html | 26 QCA-3.11/QCA/inst/staticdocs/export.html | 4 QCA-3.11/QCA/inst/staticdocs/factorize.html | 4 QCA-3.11/QCA/inst/staticdocs/findRows.html | 4 QCA-3.11/QCA/inst/staticdocs/findTh.html | 4 QCA-3.11/QCA/inst/staticdocs/fuzzyops.html | 4 QCA-3.11/QCA/inst/staticdocs/generate.html | 4 QCA-3.11/QCA/inst/staticdocs/implicantMatrixFunctions.html | 4 QCA-3.11/QCA/inst/staticdocs/index.html | 4 QCA-3.11/QCA/inst/staticdocs/intersection.html | 4 QCA-3.11/QCA/inst/staticdocs/minimize.html | 97 ++- QCA-3.11/QCA/inst/staticdocs/modelFit.html | 4 QCA-3.11/QCA/inst/staticdocs/negate.html | 4 QCA-3.11/QCA/inst/staticdocs/pof.html | 4 QCA-3.11/QCA/inst/staticdocs/recode.html | 4 QCA-3.11/QCA/inst/staticdocs/retention.html | 4 QCA-3.11/QCA/inst/staticdocs/runGUI.html | 4 QCA-3.11/QCA/inst/staticdocs/subsetsAndSupersets.html | 4 QCA-3.11/QCA/inst/staticdocs/truthTable.html | 4 QCA-3.11/QCA/man/CV.Rd | 3 QCA-3.11/QCA/man/NF.Rd | 2 QCA-3.11/QCA/man/QCA.package.Rd | 26 QCA-3.11/QCA/man/RS.Rd | 6 QCA-3.11/QCA/man/XYplot.Rd | 3 QCA-3.11/QCA/man/calibrate.Rd | 3 QCA-3.11/QCA/man/causalChain.Rd | 50 + QCA-3.11/QCA/man/chartFunctions.Rd | 4 QCA-3.11/QCA/man/complexity.Rd | 3 QCA-3.11/QCA/man/findRows.Rd | 2 QCA-3.11/QCA/man/implicantMatrixFunctions.Rd | 2 QCA-3.11/QCA/man/minimize.Rd | 71 -- QCA-3.11/QCA/man/pof.Rd | 3 QCA-3.11/QCA/man/retention.Rd | 3 QCA-3.11/QCA/man/subsetsAndSupersets.Rd | 10 QCA-3.11/QCA/man/truthTable.Rd | 3 QCA-3.11/QCA/src/CCubes.c |only QCA-3.11/QCA/src/CCubes.h |only QCA-3.11/QCA/src/Makevars | 30 - QCA-3.11/QCA/src/QCA.c | 43 - QCA-3.11/QCA/src/colamd.c |only QCA-3.11/QCA/src/colamd.h |only QCA-3.11/QCA/src/commonlib.c |only QCA-3.11/QCA/src/commonlib.h |only QCA-3.11/QCA/src/consistency.c |only QCA-3.11/QCA/src/consistency.h |only QCA-3.11/QCA/src/consistent_solution.c |only QCA-3.11/QCA/src/consistent_solution.h |only QCA-3.11/QCA/src/declare.h |only QCA-3.11/QCA/src/find_consistent_models.c |only QCA-3.11/QCA/src/find_consistent_models.h |only QCA-3.11/QCA/src/find_min.c |only QCA-3.11/QCA/src/find_min.h |only QCA-3.11/QCA/src/find_models.c |only QCA-3.11/QCA/src/find_models.h |only QCA-3.11/QCA/src/fortify.h |only QCA-3.11/QCA/src/generate_matrix.c |only QCA-3.11/QCA/src/generate_matrix.h |only QCA-3.11/QCA/src/ini.c |only QCA-3.11/QCA/src/ini.h |only QCA-3.11/QCA/src/isfixedvar.c |only QCA-3.11/QCA/src/lp_BFP.h |only QCA-3.11/QCA/src/lp_BFP1.h |only QCA-3.11/QCA/src/lp_BFP2.h |only QCA-3.11/QCA/src/lp_Hash.c |only QCA-3.11/QCA/src/lp_Hash.h |only QCA-3.11/QCA/src/lp_LUSOL.c |only QCA-3.11/QCA/src/lp_LUSOL.h |only QCA-3.11/QCA/src/lp_MDO.c |only QCA-3.11/QCA/src/lp_MDO.h |only QCA-3.11/QCA/src/lp_MPS.c |only QCA-3.11/QCA/src/lp_MPS.h |only QCA-3.11/QCA/src/lp_SOS.c |only QCA-3.11/QCA/src/lp_SOS.h |only QCA-3.11/QCA/src/lp_crash.c |only QCA-3.11/QCA/src/lp_crash.h |only QCA-3.11/QCA/src/lp_explicit.h |only QCA-3.11/QCA/src/lp_fortify.h |only QCA-3.11/QCA/src/lp_lib.c |only QCA-3.11/QCA/src/lp_lib.h |only QCA-3.11/QCA/src/lp_matrix.c |only QCA-3.11/QCA/src/lp_matrix.h |only QCA-3.11/QCA/src/lp_min.c |only QCA-3.11/QCA/src/lp_min.h |only QCA-3.11/QCA/src/lp_mipbb.c |only QCA-3.11/QCA/src/lp_mipbb.h |only QCA-3.11/QCA/src/lp_params.c |only QCA-3.11/QCA/src/lp_presolve.c |only QCA-3.11/QCA/src/lp_presolve.h |only QCA-3.11/QCA/src/lp_price.c |only QCA-3.11/QCA/src/lp_price.h |only QCA-3.11/QCA/src/lp_pricePSE.c |only QCA-3.11/QCA/src/lp_pricePSE.h |only QCA-3.11/QCA/src/lp_report.c |only QCA-3.11/QCA/src/lp_report.h |only QCA-3.11/QCA/src/lp_rlp.c |only QCA-3.11/QCA/src/lp_rlp.h |only QCA-3.11/QCA/src/lp_scale.c |only QCA-3.11/QCA/src/lp_scale.h |only QCA-3.11/QCA/src/lp_simplex.c |only QCA-3.11/QCA/src/lp_simplex.h |only QCA-3.11/QCA/src/lp_types.h |only QCA-3.11/QCA/src/lp_utils.c |only QCA-3.11/QCA/src/lp_utils.h |only QCA-3.11/QCA/src/lp_wlp.c |only QCA-3.11/QCA/src/lp_wlp.h |only QCA-3.11/QCA/src/lpkit.h |only QCA-3.11/QCA/src/lpsolve.h |only QCA-3.11/QCA/src/lusol.c |only QCA-3.11/QCA/src/lusol.h |only QCA-3.11/QCA/src/lusol1.h |only QCA-3.11/QCA/src/lusol2.h |only QCA-3.11/QCA/src/lusol6a.h |only QCA-3.11/QCA/src/lusol6l0.h |only QCA-3.11/QCA/src/lusol6u.h |only QCA-3.11/QCA/src/lusol7a.h |only QCA-3.11/QCA/src/lusol8a.h |only QCA-3.11/QCA/src/myblas.c |only QCA-3.11/QCA/src/myblas.h |only QCA-3.11/QCA/src/registerDynamicSymbol.c | 2 QCA-3.11/QCA/src/row_dominance.c |only QCA-3.11/QCA/src/row_dominance.h |only QCA-3.11/QCA/src/sort_cols.c |only QCA-3.11/QCA/src/sort_cols.h |only QCA-3.11/QCA/src/sort_matrix.c |only QCA-3.11/QCA/src/sort_matrix.h |only QCA-3.11/QCA/src/sparselib.c |only QCA-3.11/QCA/src/sparselib.h |only QCA-3.11/QCA/src/super_rows.c |only QCA-3.11/QCA/src/super_rows.h |only QCA-3.11/QCA/src/truthTable.c | 2 QCA-3.11/QCA/src/ufortify.h |only QCA-3.11/QCA/src/utils.c |only QCA-3.11/QCA/src/utils.h |only QCA-3.11/QCA/src/yacc_read.c |only QCA-3.11/QCA/src/yacc_read.h |only 195 files changed, 554 insertions(+), 508 deletions(-)
Title: Create, Build and Maintain Packages
Description: Helper functions for package creation, building and
maintenance. Designed to work with a build system such as 'GNU make' or
package 'fakemake' to help you to conditionally work through the stages of
package development (such as spell checking, linting, testing, before
building and checking a package).
Author: Andreas Dominik Cullmann [aut, cre]
Maintainer: Andreas Dominik Cullmann <fvafrcu@mailbox.org>
Diff between packager versions 1.8.0 dated 2020-12-02 and 1.9.0 dated 2021-01-21
packager-1.8.0/packager/R/tools.R |only packager-1.9.0/packager/DESCRIPTION | 19 packager-1.9.0/packager/MD5 | 121 +++-- packager-1.9.0/packager/NAMESPACE | 3 packager-1.9.0/packager/NEWS.md | 38 + packager-1.9.0/packager/R/checks.R | 24 - packager-1.9.0/packager/R/convert_vignette.R | 18 packager-1.9.0/packager/R/cran_comments.R | 70 +-- packager-1.9.0/packager/R/description.R |only packager-1.9.0/packager/R/devtools_modified.R | 65 --- packager-1.9.0/packager/R/devtools_verbatim.R | 64 -- packager-1.9.0/packager/R/extract_vignette_code.R | 10 packager-1.9.0/packager/R/fritools.R |only packager-1.9.0/packager/R/git.R | 156 +++++-- packager-1.9.0/packager/R/git_hooks.R | 22 - packager-1.9.0/packager/R/gitlab.R | 57 ++ packager-1.9.0/packager/R/install_deps.R | 44 +- packager-1.9.0/packager/R/internal.R | 84 --- packager-1.9.0/packager/R/is_version_sufficient.R |only packager-1.9.0/packager/R/main.R | 14 packager-1.9.0/packager/R/makelist.R | 24 - packager-1.9.0/packager/R/manual_helpers.R |only packager-1.9.0/packager/R/news_rd.R |only packager-1.9.0/packager/R/options.R | 59 -- packager-1.9.0/packager/R/package_version.R |only packager-1.9.0/packager/R/rcmdcheck.R | 10 packager-1.9.0/packager/R/remove_lines.R | 4 packager-1.9.0/packager/R/rhub.R | 2 packager-1.9.0/packager/R/rsys.R |only packager-1.9.0/packager/R/sort_deps_in_desc.R | 2 packager-1.9.0/packager/R/submit.R | 7 packager-1.9.0/packager/R/use_dev_version.R | 12 packager-1.9.0/packager/R/various.R |only packager-1.9.0/packager/R/zzz.R | 6 packager-1.9.0/packager/inst/NEWS.rd |only packager-1.9.0/packager/inst/doc/An_Introduction_to_packager.html | 216 ++++------ packager-1.9.0/packager/inst/runit_tests/test_devtools_modified.R | 2 packager-1.9.0/packager/inst/runit_tests/test_git.R |only packager-1.9.0/packager/inst/runit_tests/test_internal.R | 14 packager-1.9.0/packager/inst/runit_tests/test_main.R | 10 packager-1.9.0/packager/inst/runit_tests/test_tools.R | 33 - packager-1.9.0/packager/inst/templates/dot_gitlab-ci |only packager-1.9.0/packager/inst/templates/dot_gitlab-ci.yml | 5 packager-1.9.0/packager/inst/templates/nomakefile | 11 packager-1.9.0/packager/man/add_github_url_to_desc.Rd | 5 packager-1.9.0/packager/man/check_codetags.Rd | 5 packager-1.9.0/packager/man/get_check_status.Rd | 4 packager-1.9.0/packager/man/get_options.Rd | 3 packager-1.9.0/packager/man/get_package_version.Rd |only packager-1.9.0/packager/man/get_pkg_archive_path.Rd | 2 packager-1.9.0/packager/man/git_add_commit.Rd | 8 packager-1.9.0/packager/man/git_tag.Rd | 2 packager-1.9.0/packager/man/install_deps.Rd | 4 packager-1.9.0/packager/man/is_r_package.Rd | 2 packager-1.9.0/packager/man/is_version_sufficient.Rd |only packager-1.9.0/packager/man/mark_lints.Rd | 2 packager-1.9.0/packager/man/provide_cran_comments.Rd | 2 packager-1.9.0/packager/man/provide_gitlab_url.Rd | 4 packager-1.9.0/packager/man/provide_make.Rd | 2 packager-1.9.0/packager/man/provide_news_rd.Rd |only packager-1.9.0/packager/man/remove_lines.Rd | 4 packager-1.9.0/packager/man/set_desc_url.Rd | 16 packager-1.9.0/packager/man/set_options.Rd | 17 packager-1.9.0/packager/man/use_bsd2clause_license.Rd | 2 packager-1.9.0/packager/man/use_dev_version.Rd | 2 packager-1.9.0/packager/man/use_git_check_version_not_tagged.Rd | 6 packager-1.9.0/packager/man/use_git_pre_commit_script.Rd | 4 packager-1.9.0/packager/man/use_template.Rd | 2 packager-1.9.0/packager/tests/runit.R | 8 69 files changed, 639 insertions(+), 693 deletions(-)
Title: Inference and Clustering for Mixture of Multinomial Principal
Component Analysis
Description: Cluster any count data matrix with a fixed number of variables, such as document/term matrices. It integrates the dimension reduction aspect of topic models in the mixture models framework. Inference is done by means of a greedy Classification Variational Expectation Maximisation (C-VEM) algorithm. An Integrated Classication Likelihood (ICL) model selection is designed for selecting the latent dimension (number of topics) and the number of clusters. For more details, see the article of Jouvin et. al. (2020) <arxiv:1909.00721>.
Author: Nicolas Jouvin
Maintainer: Nicolas Jouvin <nicolas.jouvin@ec-lyon.fr>
Diff between MoMPCA versions 1.0.0 dated 2020-07-01 and 1.0.1 dated 2021-01-21
DESCRIPTION | 12 +- MD5 | 20 +-- README.md | 187 +++++++++++++++++++++++++++++++++- build/vignette.rds |binary inst/doc/MoMPCA.R | 22 ++-- inst/doc/MoMPCA.html | 20 +-- man/BBCmsg.Rd | 6 - man/MoMPCA.Rd | 1 man/mmpca_clust.Rd | 18 ++- man/mmpca_clust_modelselect.Rd | 17 ++- man/plot-mmpcaClust-missing-method.Rd | 1 11 files changed, 250 insertions(+), 54 deletions(-)
Title: Functions for Benchmarking Time Series Prediction
Description: Functions for defining and conducting a time series prediction process including pre(post)processing, decomposition, modelling, prediction and accuracy assessment. The generated models and its yielded prediction errors can be used for benchmarking other time series prediction methods and for creating a demand for the refinement of such methods. For this purpose, benchmark data from prediction competitions may be used.
Author: Rebecca Pontes Salles [aut, cre, cph] (CEFET/RJ),
Eduardo Ogasawara [ths] (CEFET/RJ)
Maintainer: Rebecca Pontes Salles <rebeccapsalles@acm.org>
Diff between TSPred versions 5.0 dated 2021-01-09 and 5.1 dated 2021-01-21
TSPred-5.0/TSPred/man/ARIMA.Rd |only TSPred-5.0/TSPred/man/LT.Rd |only TSPred-5.0/TSPred/man/MSE_eval.Rd |only TSPred-5.1/TSPred/DESCRIPTION | 12 TSPred-5.1/TSPred/MD5 | 38 +- TSPred-5.1/TSPred/NAMESPACE | 4 TSPred-5.1/TSPred/R/evaluating_subclasses.r | 40 +- TSPred-5.1/TSPred/R/modeling_subclasses.r | 250 ++++++++++++-- TSPred-5.1/TSPred/R/processing_subclasses.r | 49 +- TSPred-5.1/TSPred/R/tspred.r | 416 ++++++++++++------------ TSPred-5.1/TSPred/man/MSE.Rd | 62 --- TSPred-5.1/TSPred/man/benchmark.Rd | 10 TSPred-5.1/TSPred/man/evaluate.tspred.Rd | 6 TSPred-5.1/TSPred/man/postprocess.tspred.Rd | 14 TSPred-5.1/TSPred/man/predict.tspred.Rd | 8 TSPred-5.1/TSPred/man/prediction_models.Rd |only TSPred-5.1/TSPred/man/preprocess.tspred.Rd | 12 TSPred-5.1/TSPred/man/quality_metrics.Rd |only TSPred-5.1/TSPred/man/subset.Rd | 12 TSPred-5.1/TSPred/man/train.tspred.Rd | 6 TSPred-5.1/TSPred/man/transformation_methods.Rd |only TSPred-5.1/TSPred/man/tspred.Rd | 10 TSPred-5.1/TSPred/man/workflow.Rd | 10 23 files changed, 538 insertions(+), 421 deletions(-)
Title: 'Opal' Data Repository Client and 'DataSHIELD' Utils
Description: Data integration Web application for biobanks by 'OBiBa'. 'Opal' is
the core database application for biobanks. Participant data, once
collected from any data source, must be integrated and stored in a central
data repository under a uniform model. 'Opal' is such a central repository.
It can import, process, validate, query, analyze, report, and export data.
'Opal' is typically used in a research center to analyze the data acquired at
assessment centres. Its ultimate purpose is to achieve seamless
data-sharing among biobanks. This 'Opal' client allows to interact with 'Opal'
web services and to perform operations on the R server side. 'DataSHIELD'
administration tools are also provided.
Author: Yannick Marcon [aut, cre] (<https://orcid.org/0000-0003-0138-2023>),
Amadou Gaye [ctb] (<https://orcid.org/0000-0002-1180-2792>),
OBiBa group [cph]
Maintainer: Yannick Marcon <yannick.marcon@obiba.org>
Diff between opalr versions 1.5.1 dated 2020-12-16 and 1.5.2 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/opal.table.R | 4 ++++ inst/doc/opal-files.html | 7 +++---- inst/doc/opal-projects.html | 7 +++---- inst/doc/opal-rsession.html | 7 +++---- 6 files changed, 21 insertions(+), 20 deletions(-)
Title: Some Additional Multiple Imputation Functions, Especially for
'mice'
Description: Contains functions for multiple imputation which
complements existing functionality in R.
In particular, several imputation methods for the
mice package (van Buuren & Groothuis-Oudshoorn, 2011,
<doi:10.18637/jss.v045.i03>) are included.
Main features of the miceadds package include
plausible value imputation (Mislevy, 1991,
<doi:10.1007/BF02294457>), multilevel imputation for
variables at any level or with any number of hierarchical
and non-hierarchical levels (Grund, Luedtke & Robitzsch,
2018, <doi:10.1177/1094428117703686>; van Buuren, 2018,
Ch.7, <doi:10.1201/9780429492259>), imputation using
partial least squares (PLS) for high dimensional
predictors (Robitzsch, Pham & Yanagida, 2016),
nested multiple imputation (Rubin, 2003,
<doi:10.1111/1467-9574.00217>), substantive model
compatible imputation (Bartlett et al., 2015,
<doi:10.1177/0962280214521348>), and features
for the generation of synthetic datasets
(Reiter, 2005, <doi:10.1111/j.1467-985X.2004.00343.x>;
Nowok, Raab, & Dibben, 2016, <doi:10.18637/jss.v074.i11>).
Author: Alexander Robitzsch [aut,cre] (<https://orcid.org/0000-0002-8226-3132>),
Simon Grund [aut] (<https://orcid.org/0000-0002-1290-8986>),
Thorsten Henke [ctb]
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between miceadds versions 3.10-28 dated 2020-07-30 and 3.11-6 dated 2021-01-21
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- R/RcppExports.R | 2 +- R/mice.impute.constant.R | 6 +++--- R/mice.impute.ml.lmer.R | 3 ++- R/ml_mcmc.R | 2 +- R/ml_mcmc_fit.R | 3 ++- R/ml_mcmc_initial_values.R | 5 +++-- R/save.data.R | 4 ++-- build/partial.rdb |binary inst/NEWS | 11 +++++++++++ man/data.allison.Rd | 4 ++-- man/mice.impute.synthpop.Rd | 4 ++-- man/ml_mcmc.Rd | 10 +++++----- src/RcppExports.cpp | 2 +- 15 files changed, 53 insertions(+), 39 deletions(-)
Title: High Dimensional Bayesian Mediation Analysis
Description: Perform mediation analysis in the presence of high-dimensional
mediators based on the potential outcome framework. Bayesian Mediation
Analysis (BAMA), developed by Song et al (2019) <doi:10.1111/biom.13189> and
Song et al (2020) <arXiv:2009.11409>,
relies on two Bayesian sparse linear mixed models to simultaneously analyze
a relatively large number of mediators for a continuous exposure and outcome
assuming a small number of mediators are truly active. This sparsity
assumption also allows the extension of univariate mediator analysis by
casting the identification of active mediators as a variable selection
problem and applying Bayesian methods with continuous shrinkage priors on
the effects.
Author: Alexander Rix [aut],
Mike Kleinsasser [aut, cre],
Yanyi Song [aut]
Maintainer: Mike Kleinsasser <mkleinsa@umich.edu>
Diff between bama versions 1.0.1 dated 2020-05-02 and 1.2 dated 2021-01-21
bama-1.0.1/bama/NEWS.md |only bama-1.2/bama/DESCRIPTION | 24 bama-1.2/bama/MD5 | 43 - bama-1.2/bama/NAMESPACE | 20 bama-1.2/bama/R/RcppExports.R | 34 - bama-1.2/bama/R/bama.R | 857 +++++++++++++++++++++++----------- bama-1.2/bama/R/data.R | 18 bama-1.2/bama/R/fdr.bama.R | 461 +++++++++--------- bama-1.2/bama/README.md | 200 ++++--- bama-1.2/bama/build/partial.rdb |only bama-1.2/bama/build/vignette.rds |binary bama-1.2/bama/inst/doc/bama.R | 105 ++-- bama-1.2/bama/inst/doc/bama.Rmd | 230 ++++----- bama-1.2/bama/inst/doc/bama.html | 590 +++++++++++++++-------- bama-1.2/bama/man/bama.Rd | 419 ++++++++++------ bama-1.2/bama/man/bama.data.Rd | 42 - bama-1.2/bama/man/fdr.bama.Rd | 257 +++++----- bama-1.2/bama/man/print.bama.Rd | 32 - bama-1.2/bama/man/print.fdr.bama.Rd | 32 - bama-1.2/bama/man/summary.bama.Rd | 58 +- bama-1.2/bama/man/summary.fdr.bama.Rd | 90 +-- bama-1.2/bama/src/RcppExports.cpp | 106 ++++ bama-1.2/bama/src/ptg.cpp |only bama-1.2/bama/vignettes/bama.Rmd | 230 ++++----- 24 files changed, 2357 insertions(+), 1491 deletions(-)
Title: 'ThingsBoard' API
Description: The goal of 'Rthingsboard' is to provide interaction with the API of 'ThingsBoard' (<https://thingsboard.io/>), an open-source IoT platform for device management, data collection, processing and visualization.
Author: David Dorchies [aut, cre] (<https://orcid.org/0000-0002-6595-7984>)
Maintainer: David Dorchies <david.dorchies@inrae.fr>
Diff between Rthingsboard versions 0.2.2 dated 2021-01-15 and 0.2.4 dated 2021-01-21
DESCRIPTION | 8 ++--- MD5 | 8 ++--- R/thingsboard_api.R | 15 ++++++++-- README.md | 61 ++++++++++++++++++++++---------------------- man/ThingsboardApi-class.Rd | 15 ++++++++-- 5 files changed, 63 insertions(+), 44 deletions(-)
Title: Steady and Unsteady Open-Channel Flow Computation
Description: A tool for undergraduate and graduate courses in open-channel
hydraulics. Provides functions for computing normal and critical depths,
steady-state water surface profiles (e.g. backwater curves) and unsteady flow
computations (e.g. flood wave routing) as described in
Koohafkan MC, Younis BA (2015). "Open-channel computation with R."
The R Journal, 7(2), 249–262. <doi: 10.32614/RJ-2015-034>.
Author: Michael C Koohafkan [aut, cre]
Maintainer: Michael C Koohafkan <michael.koohafkan@gmail.com>
Diff between rivr versions 1.2-2 dated 2020-02-27 and 1.2-3 dated 2021-01-21
DESCRIPTION | 14 MD5 | 48 - NAMESPACE | 2 NEWS.md | 8 build/vignette.rds |binary inst/CITATION | 4 inst/doc/publication-reproduction.html | 1268 ++++++++++++++------------------- inst/doc/quickstart.R | 2 inst/doc/quickstart.Rmd | 2 inst/doc/quickstart.html | 408 +++------- inst/doc/technical-vignette.R | 2 inst/doc/technical-vignette.Rmd | 2 inst/doc/technical-vignette.html | 212 ----- man/channel_geom.Rd | 76 - man/compute_profile.Rd | 168 ++-- man/conveyance.Rd | 56 - man/critical_depth.Rd | 78 +- man/demo_shiny.Rd | 52 - man/froude.Rd | 76 - man/normal_depth.Rd | 88 +- man/rivr-package.Rd | 30 man/route_wave.Rd | 270 +++---- man/waterolympics.Rd | 78 +- vignettes/quickstart.Rmd | 2 vignettes/technical-vignette.Rmd | 2 25 files changed, 1232 insertions(+), 1716 deletions(-)
Title: Explore NOAA Storm Events Database
Description: Allows users to explore and plot data from the
National Oceanic and Atmospheric Administration (NOAA)
Storm Events database through R for United States counties.
Functionality includes matching storm event listings by time and
location to hurricane best tracks data. This work was
supported by grants from the Colorado Water Center, the National Institute
of Environmental Health Sciences (R00ES022631) and the National Science
Foundation (1331399).
Author: Brooke Anderson [aut, cre],
Ziyu Chen [aut],
Therese Kondash [aut]
Maintainer: Brooke Anderson <brooke.anderson@colostate.edu>
Diff between noaastormevents versions 0.1.1 dated 2019-04-09 and 0.2.0 dated 2021-01-21
DESCRIPTION | 33 ++-- MD5 | 39 ++-- NAMESPACE | 1 NEWS.md |only R/adjust.R | 2 R/download.R | 8 R/input.R | 11 - R/map_events.R | 2 build/vignette.rds |binary inst/doc/details.R | 94 +++++------ inst/doc/details.Rmd | 13 + inst/doc/details.html | 285 +++++++--------------------------- inst/doc/noaastormevents.R | 28 +-- inst/doc/noaastormevents.Rmd | 2 inst/doc/noaastormevents.html | 345 ++++++++++-------------------------------- man/adjust_storm_data.Rd | 9 - man/create_storm_data.Rd | 3 man/find_events.Rd | 12 + man/map_events.Rd | 9 - vignettes/details.Rmd | 13 + vignettes/noaastormevents.Rmd | 2 21 files changed, 308 insertions(+), 603 deletions(-)
More information about noaastormevents at CRAN
Permanent link
Title: Multiple Imputation Using Weighted Quantile Sum Regression
Description: The `miWQS` package handles the uncertainty due to below the detection limit in a correlated component mixture problem. Researchers want to determine if a set/mixture of continuous and correlated components/chemicals is associated with an outcome and if so, which components are important in that mixture. These components share a common outcome but are interval-censored between zero and low thresholds, or detection limits, that may be different across the components. The `miWQS` package applies the multiple imputation (MI) procedure to the weighted quantile sum regression (WQS) methodology for continuous, binary, or count outcomes (Hargarten & Wheeler (2020) <doi:10.1016/j.envres.2020.109466>). The imputation models are: bootstrapping imputation (Lubin et.al (2004) <doi:10.1289/ehp.7199>), univariate Bayesian imputation (Hargarten & Wheeler (2020) <doi:10.1016/j.envres.2020.109466>), and multivariate Bayesian regression imputation.
Author: Paul M. Hargarten [aut, cre],
David C. Wheeler [aut, rev, ths]
Maintainer: Paul M. Hargarten <hargartenp@vcu.edu>
Diff between miWQS versions 0.2.0 dated 2019-12-12 and 0.4.2 dated 2021-01-21
miWQS-0.2.0/miWQS/R/impute_multivariate_bayesian_part.R |only miWQS-0.4.2/miWQS/DESCRIPTION | 27 miWQS-0.4.2/miWQS/MD5 | 109 +- miWQS-0.4.2/miWQS/NAMESPACE | 13 miWQS-0.4.2/miWQS/NEWS.md | 75 + miWQS-0.4.2/miWQS/R/analyze_individually.R | 10 miWQS-0.4.2/miWQS/R/check_miWQS_Functions.R | 281 ++--- miWQS-0.4.2/miWQS/R/coef_wqs_helper.R | 5 miWQS-0.4.2/miWQS/R/combine_AIC.R | 2 miWQS-0.4.2/miWQS/R/do_many_wqs.R | 59 - miWQS-0.4.2/miWQS/R/estimate_wqs_WQS.R | 542 +++++----- miWQS-0.4.2/miWQS/R/estimate_wqs_formula.R | 86 - miWQS-0.4.2/miWQS/R/formatIQR.R | 78 - miWQS-0.4.2/miWQS/R/formatMeanSd.R | 2 miWQS-0.4.2/miWQS/R/formatZ.R | 67 - miWQS-0.4.2/miWQS/R/format_pval.R |only miWQS-0.4.2/miWQS/R/generate_log_xmiss_prior_stage1a-i.R | 2 miWQS-0.4.2/miWQS/R/imp_cond_MVN.R |only miWQS-0.4.2/miWQS/R/impute_Lubin.R | 257 ++-- miWQS-0.4.2/miWQS/R/impute_boot.R | 138 +- miWQS-0.4.2/miWQS/R/impute_multivariate_bayesian_mi_condtl_lognorm.R |only miWQS-0.4.2/miWQS/R/impute_sub.R | 74 - miWQS-0.4.2/miWQS/R/impute_univariate_bayesian_imputation_stage1.R | 292 ++--- miWQS-0.4.2/miWQS/R/is_integer.R | 140 +- miWQS-0.4.2/miWQS/R/make_descriptive_tables.R | 209 +-- miWQS-0.4.2/miWQS/R/make_quantile_matrix_WQS.R | 112 +- miWQS-0.4.2/miWQS/R/plot_wqs_ggplot2_helper.R | 109 +- miWQS-0.4.2/miWQS/R/pool_mi_stage3.R | 175 +-- miWQS-0.4.2/miWQS/R/print_wqs_helper.R | 220 ++-- miWQS-0.4.2/miWQS/R/replace_na.R | 74 - miWQS-0.4.2/miWQS/R/simdata87.R | 39 miWQS-0.4.2/miWQS/R/specify_init_WQS.R | 116 +- miWQS-0.4.2/miWQS/R/wqs.pool.test_data.R | 8 miWQS-0.4.2/miWQS/build/vignette.rds |binary miWQS-0.4.2/miWQS/inst/WORDLIST | 18 miWQS-0.4.2/miWQS/inst/doc/README.R | 4 miWQS-0.4.2/miWQS/inst/doc/README.Rmd | 19 miWQS-0.4.2/miWQS/inst/doc/README.pdf |binary miWQS-0.4.2/miWQS/man/analyze.individually.Rd | 37 miWQS-0.4.2/miWQS/man/coef.wqs.Rd | 16 miWQS-0.4.2/miWQS/man/do.many.wqs.Rd | 35 miWQS-0.4.2/miWQS/man/estimate.wqs.Rd | 85 - miWQS-0.4.2/miWQS/man/estimate.wqs.formula.Rd | 50 miWQS-0.4.2/miWQS/man/impute.Lubin.Rd | 55 - miWQS-0.4.2/miWQS/man/impute.boot.Rd | 14 miWQS-0.4.2/miWQS/man/impute.multivariate.bayesian.Rd | 147 ++ miWQS-0.4.2/miWQS/man/impute.sub.Rd | 9 miWQS-0.4.2/miWQS/man/impute.univariate.bayesian.mi.Rd | 40 miWQS-0.4.2/miWQS/man/make.quantile.matrix.Rd | 26 miWQS-0.4.2/miWQS/man/plot.wqs.Rd | 36 miWQS-0.4.2/miWQS/man/pool.mi.Rd | 25 miWQS-0.4.2/miWQS/man/print.wqs.Rd | 18 miWQS-0.4.2/miWQS/man/simdata87.Rd | 9 miWQS-0.4.2/miWQS/man/wqs.pool.test.Rd | 7 miWQS-0.4.2/miWQS/tests/spelling.R | 9 miWQS-0.4.2/miWQS/tests/testthat/test_wts_matrix.R | 3 miWQS-0.4.2/miWQS/vignettes/README.Rmd | 19 miWQS-0.4.2/miWQS/vignettes/README.bib |only 58 files changed, 2245 insertions(+), 1757 deletions(-)
More information about LSMRealOptions at CRAN
Permanent link
Title: Sean 'Lahman' Baseball Database
Description: Provides the tables from the 'Sean Lahman Baseball Database' as
a set of R data.frames. It uses the data on pitching, hitting and fielding
performance and other tables from 1871 through 2019, as recorded in the 2020
version of the database. Documentation examples show how many baseball
questions can be investigated.
Author: Michael Friendly [aut],
Chris Dalzell [cre, aut],
Martin Monkman [aut],
Dennis Murphy [aut],
Vanessa Foot [ctb],
Justeena Zaki-Azat [ctb]
Maintainer: Chris Dalzell <cdalzell@gmail.com>
Diff between Lahman versions 8.0-0 dated 2020-06-08 and 8.0-1 dated 2021-01-21
DESCRIPTION | 14 ++--- MD5 | 104 +++++++++++++++++++-------------------- NEWS | 4 + build/vignette.rds |binary data/AllstarFull.RData |binary data/Appearances.RData |binary data/AwardsManagers.RData |binary data/AwardsPlayers.RData |binary data/AwardsShareManagers.RData |binary data/AwardsSharePlayers.RData |binary data/Batting.RData |binary data/BattingPost.RData |binary data/CollegePlaying.RData |binary data/Fielding.RData |binary data/FieldingOF.RData |binary data/FieldingOFsplit.RData |binary data/FieldingPost.RData |binary data/HallOfFame.RData |binary data/HomeGames.RData |binary data/LahmanData.RData |binary data/Managers.RData |binary data/ManagersHalf.RData |binary data/Master.RData |binary data/Parks.RData |binary data/People.RData |binary data/Pitching.RData |binary data/PitchingPost.RData |binary data/Salaries.RData |binary data/Schools.RData |binary data/SeriesPost.RData |binary data/Teams.RData |binary data/TeamsFranchises.RData |binary data/TeamsHalf.RData |binary data/battingLabels.RData |binary data/fieldingLabels.RData |binary data/pitchingLabels.RData |binary inst/doc/hits-by-type.html | 68 ++++++++++++++++++++++++- inst/doc/payroll.Rmd | 4 - inst/doc/payroll.html | 80 +++++++++++++++++++++++++++--- inst/doc/run-scoring-trends.Rmd | 6 +- inst/doc/run-scoring-trends.html | 74 +++++++++++++++++++++++++-- inst/doc/strikeoutsandhr.html | 70 +++++++++++++++++++++++++- inst/doc/vignette-intro.Rmd | 8 +-- inst/doc/vignette-intro.html | 76 ++++++++++++++++++++++++++-- inst/scripts/compress-data.R | 2 inst/scripts/readLahman.R | 60 +++++++++++----------- man/HallOfFame.Rd | 2 man/Lahman-package.Rd | 4 - man/Master.Rd | 4 - man/People.Rd | 4 - vignettes/payroll.Rmd | 4 - vignettes/run-scoring-trends.Rmd | 6 +- vignettes/vignette-intro.Rmd | 8 +-- 53 files changed, 463 insertions(+), 139 deletions(-)
Title: Index Number Calculation
Description: Computes bilateral and multilateral index numbers.
It has support for many standard bilateral indexes as well as
multilateral index number methods such as GEKS, GEKS-Tornqvist
(or CCDI), Geary-Khamis and the weighted time product dummy
(for details on these methods see Diewert and Fox (2020)
<doi:10.1080/07350015.2020.1816176>).
It also supports updating of multilateral indexes using
several splicing methods.
Author: Graham White
Maintainer: Graham White <g.white@unswalumni.com>
Diff between IndexNumR versions 0.1.3 dated 2020-03-04 and 0.2.0 dated 2021-01-21
IndexNumR-0.1.3/IndexNumR/R/multilateral.R |only IndexNumR-0.1.3/IndexNumR/man/GEKS_w.Rd |only IndexNumR-0.1.3/IndexNumR/tests/testthat/test-monthIndex.R |only IndexNumR-0.2.0/IndexNumR/DESCRIPTION | 20 IndexNumR-0.2.0/IndexNumR/MD5 | 92 - IndexNumR-0.2.0/IndexNumR/NAMESPACE | 3 IndexNumR-0.2.0/IndexNumR/R/CESData.R |only IndexNumR-0.2.0/IndexNumR/R/bilateral.R | 104 - IndexNumR-0.2.0/IndexNumR/R/dissimilarity.R | 2 IndexNumR-0.2.0/IndexNumR/R/elasticity.R | 2 IndexNumR-0.2.0/IndexNumR/R/evaluateMatched.R | 255 +- IndexNumR-0.2.0/IndexNumR/R/geks.R |only IndexNumR-0.2.0/IndexNumR/R/gk.R |only IndexNumR-0.2.0/IndexNumR/R/splices.R |only IndexNumR-0.2.0/IndexNumR/R/timeIndices.R |only IndexNumR-0.2.0/IndexNumR/R/unitValues.R | 332 --- IndexNumR-0.2.0/IndexNumR/R/utils.R | 428 ++-- IndexNumR-0.2.0/IndexNumR/R/wtpd.R |only IndexNumR-0.2.0/IndexNumR/README.md | 142 + IndexNumR-0.2.0/IndexNumR/build/vignette.rds |binary IndexNumR-0.2.0/IndexNumR/inst/doc/indexnumr.R | 44 IndexNumR-0.2.0/IndexNumR/inst/doc/indexnumr.Rmd | 279 ++- IndexNumR-0.2.0/IndexNumR/inst/doc/indexnumr.html | 863 +++++----- IndexNumR-0.2.0/IndexNumR/inst/testdata/testData_bilateral.RData |binary IndexNumR-0.2.0/IndexNumR/inst/testdata/testData_bilateral_quantity.RData |binary IndexNumR-0.2.0/IndexNumR/inst/testdata/testData_evaluateMatched.RData |only IndexNumR-0.2.0/IndexNumR/man/CESData.Rd |only IndexNumR-0.2.0/IndexNumR/man/CES_sigma_2.Rd | 6 IndexNumR-0.2.0/IndexNumR/man/GEKSIndex.Rd | 41 IndexNumR-0.2.0/IndexNumR/man/GKIndex.Rd |only IndexNumR-0.2.0/IndexNumR/man/WTPDIndex.Rd |only IndexNumR-0.2.0/IndexNumR/man/elasticity.Rd | 14 IndexNumR-0.2.0/IndexNumR/man/evaluateMatched.Rd | 13 IndexNumR-0.2.0/IndexNumR/man/mixScaleDissimilarity.Rd | 11 IndexNumR-0.2.0/IndexNumR/man/monthIndex.Rd | 2 IndexNumR-0.2.0/IndexNumR/man/priceIndex.Rd | 29 IndexNumR-0.2.0/IndexNumR/man/quantityIndex.Rd | 32 IndexNumR-0.2.0/IndexNumR/man/quantityIndicator.Rd | 3 IndexNumR-0.2.0/IndexNumR/man/quarterIndex.Rd | 2 IndexNumR-0.2.0/IndexNumR/man/relativeDissimilarity.Rd | 13 IndexNumR-0.2.0/IndexNumR/man/valueDecomposition.Rd | 11 IndexNumR-0.2.0/IndexNumR/man/values.Rd | 11 IndexNumR-0.2.0/IndexNumR/man/weekIndex.Rd | 2 IndexNumR-0.2.0/IndexNumR/man/yearIndex.Rd | 2 IndexNumR-0.2.0/IndexNumR/tests/testthat/test-CESData.R |only IndexNumR-0.2.0/IndexNumR/tests/testthat/test-bilateral.R | 89 - IndexNumR-0.2.0/IndexNumR/tests/testthat/test-evaluateMatched.R |only IndexNumR-0.2.0/IndexNumR/tests/testthat/test-geks.R | 148 - IndexNumR-0.2.0/IndexNumR/tests/testthat/test-gk.R |only IndexNumR-0.2.0/IndexNumR/tests/testthat/test-indicator.R | 145 + IndexNumR-0.2.0/IndexNumR/tests/testthat/test-timeIndices.R |only IndexNumR-0.2.0/IndexNumR/tests/testthat/test-unitValues.R | 50 IndexNumR-0.2.0/IndexNumR/tests/testthat/test-utils.R | 73 IndexNumR-0.2.0/IndexNumR/tests/testthat/test-wtpd.R |only IndexNumR-0.2.0/IndexNumR/vignettes/indexnumr.Rmd | 279 ++- IndexNumR-0.2.0/IndexNumR/vignettes/indexnumrbib.bib | 104 + 56 files changed, 2320 insertions(+), 1326 deletions(-)
Title: Store and Retrieve Data.frames in a Git Repository
Description: The git2rdata package is an R package for writing and reading
dataframes as plain text files. A metadata file stores important
information. 1) Storing metadata allows to maintain the classes of
variables. By default, git2rdata optimizes the data for file storage.
The optimization is most effective on data containing factors. The
optimization makes the data less human readable. The user can turn
this off when they prefer a human readable format over smaller files.
Details on the implementation are available in vignette("plain_text",
package = "git2rdata"). 2) Storing metadata also allows smaller row
based diffs between two consecutive commits. This is a useful feature
when storing data as plain text files under version control. Details
on this part of the implementation are available in
vignette("version_control", package = "git2rdata"). Although we
envisioned git2rdata with a git workflow in mind, you can use it in
combination with other version control systems like subversion or
mercurial. 3) git2rdata is a useful tool in a reproducible and
traceable workflow. vignette("workflow", package = "git2rdata") gives
a toy example. 4) vignette("efficiency", package = "git2rdata")
provides some insight into the efficiency of file storage, git
repository size and speed for writing and reading. Please cite using
<doi:10.5281/zenodo.1485309>.
Author: Thierry Onkelinx [aut, cre] (<https://orcid.org/0000-0001-8804-4216>),
Floris Vanderhaeghe [ctb] (<https://orcid.org/0000-0002-6378-6229>),
Peter Desmet [ctb] (<https://orcid.org/0000-0002-8442-8025>),
Els Lommelen [ctb] (<https://orcid.org/0000-0002-3481-5684>),
Research Institute for Nature and Forest [cph, fnd]
Maintainer: Thierry Onkelinx <thierry.onkelinx@inbo.be>
Diff between git2rdata versions 0.2.1 dated 2020-03-02 and 0.3.1 dated 2021-01-21
git2rdata-0.2.1/git2rdata/R/git2rdata-package.R |only git2rdata-0.2.1/git2rdata/man/figures/logo_en.png |only git2rdata-0.3.1/git2rdata/DESCRIPTION | 91 git2rdata-0.3.1/git2rdata/MD5 | 98 - git2rdata-0.3.1/git2rdata/NAMESPACE | 6 git2rdata-0.3.1/git2rdata/NEWS.md | 291 +-- git2rdata-0.3.1/git2rdata/R/datahash.R | 58 git2rdata-0.3.1/git2rdata/R/git2rdata_package.R |only git2rdata-0.3.1/git2rdata/R/is_git2rdata.R | 56 git2rdata-0.3.1/git2rdata/R/is_git2rmeta.R | 8 git2rdata-0.3.1/git2rdata/R/list_data.R | 2 git2rdata-0.3.1/git2rdata/R/meta.R | 18 git2rdata-0.3.1/git2rdata/R/prune.R | 4 git2rdata-0.3.1/git2rdata/R/read_vc.R | 57 git2rdata-0.3.1/git2rdata/R/rename_variable.R |only git2rdata-0.3.1/git2rdata/R/utils.R | 2 git2rdata-0.3.1/git2rdata/R/write_vc.R | 91 git2rdata-0.3.1/git2rdata/README.md | 6 git2rdata-0.3.1/git2rdata/build/vignette.rds |binary git2rdata-0.3.1/git2rdata/inst/doc/efficiency.R | 22 git2rdata-0.3.1/git2rdata/inst/doc/efficiency.html | 457 +--- git2rdata-0.3.1/git2rdata/inst/doc/plain_text.html | 553 ++---- git2rdata-0.3.1/git2rdata/inst/doc/split_by.R |only git2rdata-0.3.1/git2rdata/inst/doc/split_by.Rmd |only git2rdata-0.3.1/git2rdata/inst/doc/split_by.html |only git2rdata-0.3.1/git2rdata/inst/doc/version_control.html | 921 ++++------ git2rdata-0.3.1/git2rdata/inst/doc/workflow.R | 30 git2rdata-0.3.1/git2rdata/inst/doc/workflow.html | 597 ++---- git2rdata-0.3.1/git2rdata/inst/split_by |only git2rdata-0.3.1/git2rdata/man/commit.Rd | 9 git2rdata-0.3.1/git2rdata/man/figures/logo-en.png |only git2rdata-0.3.1/git2rdata/man/git2rdata-package.Rd | 35 git2rdata-0.3.1/git2rdata/man/is_git2rdata.Rd | 6 git2rdata-0.3.1/git2rdata/man/is_git2rmeta.Rd | 6 git2rdata-0.3.1/git2rdata/man/list_data.Rd | 12 git2rdata-0.3.1/git2rdata/man/meta.Rd | 37 git2rdata-0.3.1/git2rdata/man/prune_meta.Rd | 15 git2rdata-0.3.1/git2rdata/man/pull.Rd | 9 git2rdata-0.3.1/git2rdata/man/push.Rd | 9 git2rdata-0.3.1/git2rdata/man/read_vc.Rd | 10 git2rdata-0.3.1/git2rdata/man/recent_commit.Rd | 9 git2rdata-0.3.1/git2rdata/man/relabel.Rd | 10 git2rdata-0.3.1/git2rdata/man/rename_variable.Rd |only git2rdata-0.3.1/git2rdata/man/repository.Rd | 9 git2rdata-0.3.1/git2rdata/man/rm_data.Rd | 23 git2rdata-0.3.1/git2rdata/man/status.Rd | 9 git2rdata-0.3.1/git2rdata/man/upgrade_data.Rd | 17 git2rdata-0.3.1/git2rdata/man/write_vc.Rd | 65 git2rdata-0.3.1/git2rdata/tests/testthat/setup_test_data.R | 6 git2rdata-0.3.1/git2rdata/tests/testthat/test_a_basics.R | 12 git2rdata-0.3.1/git2rdata/tests/testthat/test_b_is_git2rmeta.R | 14 git2rdata-0.3.1/git2rdata/tests/testthat/test_b_special.R | 4 git2rdata-0.3.1/git2rdata/tests/testthat/test_d_recent_commit.R | 4 git2rdata-0.3.1/git2rdata/tests/testthat/test_f_split_by.R |only git2rdata-0.3.1/git2rdata/tests/testthat/test_g_rename_variable.R |only git2rdata-0.3.1/git2rdata/vignettes/split_by.Rmd |only 56 files changed, 1687 insertions(+), 2011 deletions(-)
Title: Excursion Sets and Contour Credibility Regions for Random Fields
Description: Functions that compute probabilistic excursion sets, contour credibility regions, contour avoiding regions, and simultaneous confidence bands for latent Gaussian random processes and fields. The package also contains functions that calculate these quantities for models estimated with the INLA package. The main references for excursions are Bolin and Lindgren (2015) <doi:10.1111/rssb.12055>, Bolin and Lindgren (2017) <doi:10.1080/10618600.2016.1228537>, and Bolin and Lindgren (2018) <doi:10.18637/jss.v086.i05>. These can be generated by the citation function in R.
Author: David Bolin [cre, aut],
Finn Lindgren [aut]
Maintainer: David Bolin <davidbolin@gmail.com>
Diff between excursions versions 2.4.5 dated 2020-02-26 and 2.5.1 dated 2021-01-21
DESCRIPTION | 20 ++++++++------- MD5 | 43 ++++++++++++++++++---------------- NAMESPACE | 2 + NEWS.md | 11 ++++++++ R/contourmap.inla.R | 4 +-- R/excursions.inla.R | 4 +-- R/geometry.R | 8 +++--- R/local_testthat.R |only R/simconf.inla.R | 4 +-- R/utils.R | 3 +- man/continuous.Rd | 2 - man/contourmap.inla.Rd | 4 +-- man/exc_safe_inla.Rd |only man/excursions.inla.Rd | 4 +-- man/local_exc_testthat.Rd |only man/simconf.inla.Rd | 4 +-- man/submesh.grid.Rd | 2 - man/submesh.mesh.Rd | 2 - man/tricontour.Rd | 2 - tests/testthat.R | 7 ----- tests/testthat/helper-data.R | 2 + tests/testthat/test.continuous.R | 11 +++++--- tests/testthat/test.contourmap.inla.R | 26 ++++++++++++-------- tests/testthat/test.excursions.inla.R | 6 +++- 24 files changed, 98 insertions(+), 73 deletions(-)
Title: Serializable Representations
Description: String and binary representations of objects for several formats /
mime types.
Author: Philipp Angerer [aut, cre] (<https://orcid.org/0000-0002-0369-2888>),
Thomas Kluyver [aut],
Jan Schulz [aut],
abielr [ctb],
Denilson Figueiredo de Sa [ctb],
Jim Hester [ctb],
karldw [ctb],
Dave Foster [ctb],
Carson Sievert [ctb]
Maintainer: Philipp Angerer <phil.angerer@gmail.com>
Diff between repr versions 1.1.0 dated 2020-01-28 and 1.1.3 dated 2021-01-21
repr-1.1.0/repr/tests/testthat/helpers.r |only repr-1.1.3/repr/DESCRIPTION | 14 - repr-1.1.3/repr/MD5 | 41 ++--- repr-1.1.3/repr/R/package.r | 3 repr-1.1.3/repr/R/repr_help_files_with_topic.r | 2 repr-1.1.3/repr/R/repr_list.r | 4 repr-1.1.3/repr/R/repr_matrix_df.r | 4 repr-1.1.3/repr/R/repr_ts.r | 6 repr-1.1.3/repr/README.md | 12 - repr-1.1.3/repr/man/repr-options.Rd | 4 repr-1.1.3/repr/man/repr-package.Rd | 2 repr-1.1.3/repr/man/repr_-times-.htmlwidget.Rd | 4 repr-1.1.3/repr/man/times-2repr.Rd | 6 repr-1.1.3/repr/tests/testthat/test_array_manipulation.r | 36 ++-- repr-1.1.3/repr/tests/testthat/test_escaping.r | 118 +++++++-------- repr-1.1.3/repr/tests/testthat/test_repr_array_df.r | 37 ++-- repr-1.1.3/repr/tests/testthat/test_repr_htmlwidget.r | 4 repr-1.1.3/repr/tests/testthat/test_repr_list.r | 20 +- repr-1.1.3/repr/tests/testthat/test_repr_packageIQR.r | 10 - repr-1.1.3/repr/tests/testthat/test_repr_ts.r | 18 +- repr-1.1.3/repr/tests/testthat/test_repr_vector.r | 22 +- repr-1.1.3/repr/tests/testthat/test_utils.r | 2 22 files changed, 192 insertions(+), 177 deletions(-)
Title: Rating Scale Reduction Procedure
Description: Describes a new procedure of reducing items in a rating scale called Rating Scale Reduction (RSR). The new stop criterion in RSR procedure is added (stop global max). The function order is replaced by sort.list.
Author: Waldemar W. Koczkodaj, Feng Li, Alicja Wolny-Dominiak
Maintainer: Alicja Wolny-Dominiak <alicja.wolny-dominiak@ue.katowice.pl>
Diff between RatingScaleReduction versions 1.2.2 dated 2018-05-29 and 1.4 dated 2021-01-21
RatingScaleReduction-1.2.2/RatingScaleReduction/data |only RatingScaleReduction-1.2.2/RatingScaleReduction/man/SHSData.Rd |only RatingScaleReduction-1.2.2/RatingScaleReduction/man/wineData.Rd |only RatingScaleReduction-1.4/RatingScaleReduction/DESCRIPTION | 12 - RatingScaleReduction-1.4/RatingScaleReduction/MD5 | 24 +- RatingScaleReduction-1.4/RatingScaleReduction/R/CheckAttr4Inclusion.R | 23 ++ RatingScaleReduction-1.4/RatingScaleReduction/R/diffExamples.R | 20 ++ RatingScaleReduction-1.4/RatingScaleReduction/R/grayExamples.R | 19 +- RatingScaleReduction-1.4/RatingScaleReduction/R/rsr.R | 86 ++++++---- RatingScaleReduction-1.4/RatingScaleReduction/R/startAuc.R | 38 ++-- RatingScaleReduction-1.4/RatingScaleReduction/R/totalAuc.R | 64 ++++--- RatingScaleReduction-1.4/RatingScaleReduction/man/RatingScaleReduction-package.Rd | 3 RatingScaleReduction-1.4/RatingScaleReduction/man/rsr.Rd | 2 RatingScaleReduction-1.4/RatingScaleReduction/man/totalAuc.Rd | 20 +- 14 files changed, 208 insertions(+), 103 deletions(-)
More information about RatingScaleReduction at CRAN
Permanent link
Title: Graphical Analysis of Structural Causal Models
Description: A port of the web-based software 'DAGitty', available at
<http://dagitty.net>, for analyzing structural causal models
(also known as directed acyclic graphs or DAGs).
This package computes covariate adjustment sets for estimating causal
effects, enumerates instrumental variables, derives testable
implications (d-separation and vanishing tetrads), generates equivalent
models, and includes a simple facility for data simulation.
Author: Johannes Textor, Benito van der Zander, Ankur Ankan
Maintainer: Johannes Textor <johannes.textor@gmx.de>
Diff between dagitty versions 0.3-0 dated 2020-07-21 and 0.3-1 dated 2021-01-21
DESCRIPTION | 11 ++++++----- MD5 | 28 ++++++++++++++-------------- R/dagitty.r | 31 ++++++++++++++++++++++++++----- build/vignette.rds |binary inst/doc/dagitty4semusers.html | 2 +- man/adjustmentSets.Rd | 8 ++++++-- man/impliedConditionalIndependencies.Rd | 3 +-- man/impliedCovarianceMatrix.Rd | 10 ++++++++-- man/lavaanToGraph.Rd | 6 +++--- man/localTests.Rd | 19 ++++++++++++++----- man/paths.Rd | 10 ++++++++-- man/plot.dagitty.Rd | 14 ++++++++++++-- man/plotLocalTestResults.Rd | 13 ++++++++++--- man/simulateLogistic.Rd | 11 +++++++++-- man/simulateSEM.Rd | 14 +++++++++++--- 15 files changed, 129 insertions(+), 51 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-05-22 0.3.23
2018-04-24 0.3.20
2017-03-22 0.3.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-16 0.1.3
2019-01-11 0.1.2
2018-09-11 0.0.5
2018-06-19 0.0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-15 0.1.1
2019-05-17 0.1.0
Title: Workflow for Open Reproducible Code in Science
Description: Create reproducible and transparent research projects in 'R'.
This package is based on the Workflow for Open
Reproducible Code in Science (WORCS), a step-by-step procedure based on best
practices for
Open Science. It includes an 'RStudio' project template, several
convenience functions, and all dependencies required to make your project
reproducible and transparent. WORCS is explained in the tutorial paper
by Van Lissa, Brandmaier, Brinkman, Lamprecht, Struiksma, & Vreede (2020).
<doi:10.17605/OSF.IO/ZCVBS>.
Author: Caspar J. van Lissa [aut, cre]
(<https://orcid.org/0000-0002-0808-5024>),
Aaron Peikert [aut] (<https://orcid.org/0000-0001-7813-818X>),
Andreas M. Brandmaier [aut] (<https://orcid.org/0000-0001-8765-6982>)
Maintainer: Caspar J. van Lissa <c.j.vanlissa@uu.nl>
Diff between worcs versions 0.1.6 dated 2020-12-16 and 0.1.7 dated 2021-01-21
DESCRIPTION | 8 - MD5 | 22 ++-- R/citations.R | 218 ++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/citation.html | 26 ++++ inst/doc/git_cloud.html | 26 ++++ inst/doc/reproduce.html | 26 ++++ inst/doc/setup-docker.html | 62 ++++++++--- inst/doc/setup.html | 26 ++++ inst/doc/workflow.html | 26 ++++ tests/testthat/test-citations.R | 36 +++--- tests/testthat/test-codebook.R | 9 + 12 files changed, 327 insertions(+), 158 deletions(-)
Title: Machine Learning in R - Next Generation
Description: Efficient, object-oriented programming on the
building blocks of machine learning. Provides 'R6' objects for tasks,
learners, resamplings, and measures. The package is geared towards
scalability and larger datasets by supporting parallelization and
out-of-memory data-backends like databases. While 'mlr3' focuses on
the core computational operations, add-on packages provide additional
functionality.
Author: Michel Lang [cre, aut] (<https://orcid.org/0000-0001-9754-0393>),
Bernd Bischl [aut] (<https://orcid.org/0000-0001-6002-6980>),
Jakob Richter [aut] (<https://orcid.org/0000-0003-4481-5554>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>),
Giuseppe Casalicchio [ctb] (<https://orcid.org/0000-0001-5324-5966>),
Stefan Coors [ctb] (<https://orcid.org/0000-0002-7465-2146>),
Quay Au [ctb] (<https://orcid.org/0000-0002-5252-8902>),
Martin Binder [aut],
Marc Becker [ctb] (<https://orcid.org/0000-0002-8115-0400>)
Maintainer: Michel Lang <michellang@gmail.com>
Diff between mlr3 versions 0.9.0 dated 2020-12-06 and 0.10.0 dated 2021-01-21
mlr3-0.10.0/mlr3/DESCRIPTION | 24 +-- mlr3-0.10.0/mlr3/MD5 | 74 ++++----- mlr3-0.10.0/mlr3/NEWS.md | 15 + mlr3-0.10.0/mlr3/R/BenchmarkResult.R | 22 ++ mlr3-0.10.0/mlr3/R/Learner.R | 22 ++ mlr3-0.10.0/mlr3/R/ResampleResult.R | 14 + mlr3-0.10.0/mlr3/R/Resampling.R | 3 mlr3-0.10.0/mlr3/R/ResamplingHoldout.R | 7 mlr3-0.10.0/mlr3/R/ResultData.R | 26 ++- mlr3-0.10.0/mlr3/R/Task.R | 144 +++++++++++++++++-- mlr3-0.10.0/mlr3/R/assertions.R | 6 mlr3-0.10.0/mlr3/R/auto_convert.R | 16 +- mlr3-0.10.0/mlr3/R/benchmark.R | 22 +- mlr3-0.10.0/mlr3/R/bibentries.R | 5 mlr3-0.10.0/mlr3/R/helper.R | 6 mlr3-0.10.0/mlr3/R/mlr_tasks.R | 6 mlr3-0.10.0/mlr3/R/resample.R | 13 + mlr3-0.10.0/mlr3/R/zzz.R | 8 - mlr3-0.10.0/mlr3/README.md | 48 ++++-- mlr3-0.10.0/mlr3/build/partial.rdb |binary mlr3-0.10.0/mlr3/inst/testthat/helper_expectations.R | 46 +++--- mlr3-0.10.0/mlr3/man/BenchmarkResult.Rd | 13 + mlr3-0.10.0/mlr3/man/Learner.Rd | 2 mlr3-0.10.0/mlr3/man/ResampleResult.Rd | 11 + mlr3-0.10.0/mlr3/man/ResultData.Rd | 12 - mlr3-0.10.0/mlr3/man/as_result_data.Rd | 7 mlr3-0.10.0/mlr3/man/benchmark.Rd | 13 + mlr3-0.10.0/mlr3/man/mlr_measures_regr.rsq.Rd | 3 mlr3-0.10.0/mlr3/man/resample.Rd | 17 ++ mlr3-0.10.0/mlr3/tests/testthat/test_Learner.R | 2 mlr3-0.10.0/mlr3/tests/testthat/test_Resampling.R | 1 mlr3-0.10.0/mlr3/tests/testthat/test_auto_convert.R | 32 ++++ mlr3-0.10.0/mlr3/tests/testthat/test_benchmark.R | 2 mlr3-0.10.0/mlr3/tests/testthat/test_convert_task.R | 4 mlr3-0.10.0/mlr3/tests/testthat/test_encapsulate.R | 2 mlr3-0.10.0/mlr3/tests/testthat/test_parallel.R | 2 mlr3-0.10.0/mlr3/tests/testthat/test_resample.R | 43 +---- mlr3-0.9.0/mlr3/R/Task_cbind.R |only mlr3-0.9.0/mlr3/R/Task_rbind.R |only 39 files changed, 501 insertions(+), 192 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-06-16 0.1.4
2019-01-19 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-03-22 0.7.1.1
2016-12-28 0.7.1
2016-05-28 0.7.0
2015-07-22 0.6.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-01 0.3.0
2016-04-08 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-07-27 0.2.3.6
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2021-01-18 0.14.1
2020-12-08 0.14.0
2020-05-11 0.13.0
2020-04-14 0.12.0
2019-10-22 0.11.0
2019-07-03 0.10.0
2019-02-24 0.9.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-12-07 0.1.1
2018-08-13 0.1.0
Title: Helper Functions to Install and Maintain TeX Live, and Compile
LaTeX Documents
Description: Helper functions to install and maintain the 'LaTeX' distribution
named 'TinyTeX' (<https://yihui.org/tinytex/>), a lightweight, cross-platform,
portable, and easy-to-maintain version of 'TeX Live'. This package also
contains helper functions to compile 'LaTeX' documents, and install missing
'LaTeX' packages automatically.
Author: Yihui Xie [aut, cre, cph] (<https://orcid.org/0000-0003-0645-5666>),
RStudio, PBC [cph],
Fernando Cagua [ctb],
Ethan Heinzen [ctb]
Maintainer: Yihui Xie <xie@yihui.name>
Diff between tinytex versions 0.28 dated 2020-12-14 and 0.29 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/latex.R | 7 ++++++- README.md | 2 +- tests/test-cran/test-latex.R | 20 +++++--------------- tests/test-travis/test-tlmgr.R | 8 ++++++++ 6 files changed, 28 insertions(+), 25 deletions(-)
Title: Various Plotting Functions
Description: Lots of plots, various labeling, axis and color scaling functions.
Author: Jim Lemon, Ben Bolker, Sander Oom,
Eduardo Klein, Barry Rowlingson,
Hadley Wickham, Anupam Tyagi,
Olivier Eterradossi, Gabor Grothendieck,
Michael Toews, John Kane, Rolf Turner,
Carl Witthoft, Julian Stander, Thomas Petzoldt,
Remko Duursma, Elisa Biancotto, Ofir Levy,
Christophe Dutang, Peter Solymos, Robby Engelmann,
Michael Hecker, Felix Steinbeck, Hans Borchers,
Henrik Singmann, Ted Toal, Derek Ogle, Darshan Baral,
Ulrike Groemping, Bill Venables
Maintainer: Jim Lemon <drjimlemon@gmail.com>
Diff between plotrix versions 3.7-8 dated 2020-04-16 and 3.8-1 dated 2021-01-21
plotrix-3.7-8/plotrix/R/dendrite.R |only plotrix-3.7-8/plotrix/man/furc.Rd |only plotrix-3.7-8/plotrix/man/listDepth.Rd |only plotrix-3.7-8/plotrix/man/makeDendrite.Rd |only plotrix-3.7-8/plotrix/man/plot.dendrite.Rd |only plotrix-3.7-8/plotrix/man/sumDendrite.Rd |only plotrix-3.8-1/plotrix/DESCRIPTION | 8 - plotrix-3.8-1/plotrix/MD5 | 49 +++--- plotrix-3.8-1/plotrix/NAMESPACE | 7 plotrix-3.8-1/plotrix/NEWS | 4 plotrix-3.8-1/plotrix/R/add.ps.R | 2 plotrix-3.8-1/plotrix/R/barp.R | 6 plotrix-3.8-1/plotrix/R/color.scale.R | 18 ++ plotrix-3.8-1/plotrix/R/color2D.matplot.R | 16 +- plotrix-3.8-1/plotrix/R/corner.label.R | 4 plotrix-3.8-1/plotrix/R/dispersion.R | 190 +++++++++++++-------------- plotrix-3.8-1/plotrix/R/draw.arc.R | 6 plotrix-3.8-1/plotrix/R/gap_barp.R | 5 plotrix-3.8-1/plotrix/R/radial.plot.R | 2 plotrix-3.8-1/plotrix/data/soils.rda |binary plotrix-3.8-1/plotrix/demo |only plotrix-3.8-1/plotrix/man/ablineclip.Rd | 13 - plotrix-3.8-1/plotrix/man/barp.Rd | 6 plotrix-3.8-1/plotrix/man/color.scale.Rd | 8 - plotrix-3.8-1/plotrix/man/color2D.matplot.Rd | 33 ++++ plotrix-3.8-1/plotrix/man/find_max_cell.Rd |only plotrix-3.8-1/plotrix/man/multivari.Rd | 2 plotrix-3.8-1/plotrix/man/plotrix-package.Rd | 8 - plotrix-3.8-1/plotrix/man/soil.texture.Rd | 4 29 files changed, 222 insertions(+), 169 deletions(-)
Title: Univariate Bootstrapping and Other Things
Description: Primarily devoted to implementing the Univariate Bootstrap (as well as the Traditional Bootstrap). In addition there are multiple functions for DeFries-Fulker behavioral genetics models. The univariate bootstrapping functions, DeFries-Fulker functions, regression and traditional bootstrapping functions form the original core. Additional features may come online later, however this software is a work in progress. For more information about univariate bootstrapping see: Lee and Rodgers (1998) and Beasley et al (2007) <doi:10.1037/1082-989X.12.4.414>.
Author: Patrick O'Keefe
Maintainer: Patrick O'Keefe <patrick.okeefe@vanderbilt.edu>
Diff between Omisc versions 0.1.3 dated 2020-08-11 and 0.1.4 dated 2021-01-21
DESCRIPTION | 10 +++++----- MD5 | 30 +++++++++++++++--------------- NAMESPACE | 2 +- man/Sfunc.Rd | 42 +++++++++++++++++++++--------------------- man/aCalc.Rd | 42 +++++++++++++++++++++--------------------- man/add.Rd | 40 ++++++++++++++++++++-------------------- man/bias.Rd | 52 ++++++++++++++++++++++++++-------------------------- man/bootsample.Rd | 44 ++++++++++++++++++++++---------------------- man/cent.Rd | 40 ++++++++++++++++++++-------------------- man/centerData.Rd | 40 ++++++++++++++++++++-------------------- man/doubleEnter.Rd | 48 ++++++++++++++++++++++++------------------------ man/jackknife.Rd | 44 ++++++++++++++++++++++---------------------- man/leave1out.Rd | 46 +++++++++++++++++++++++----------------------- man/resample.Rd | 44 ++++++++++++++++++++++---------------------- man/zScore.Rd | 44 ++++++++++++++++++++++---------------------- man/zScoreData.Rd | 40 ++++++++++++++++++++-------------------- 16 files changed, 304 insertions(+), 304 deletions(-)
Title: Analyzing High-Throughput Single Cell Sequencing Data
Description: A toolkit that allows scientists to work with data from single cell sequencing technologies such as scRNA-seq, scVDJ-seq and CITE-Seq. Single (i) Cell R package ('iCellR') provides unprecedented flexibility at every step of the analysis pipeline, including normalization, clustering, dimensionality reduction, imputation, visualization, and so on. Users can design both unsupervised and supervised models to best suit their research. In addition, the toolkit provides 2D and 3D interactive visualizations, differential expression analysis, filters based on cells, genes and clusters, data merging, normalizing for dropouts, data imputation methods, correcting for batch differences, pathway analysis, tools to find marker genes for clusters and conditions, predict cell types and pseudotime analysis. See Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.05.05.078550> and Khodadadi-Jamayran, et al (2020) <doi:10.1101/2020.03.31.019109> for more details.
Author: Alireza Khodadadi-Jamayran [aut, cre]
(<https://orcid.org/0000-0003-2495-7504>),
Joseph Pucella [aut, ctb] (<https://orcid.org/0000-0003-0875-8046>),
Hua Zhou [aut, ctb] (<https://orcid.org/0000-0003-1822-1306>),
Nicole Doudican [aut, ctb] (<https://orcid.org/0000-0003-3827-9644>),
John Carucci [aut, ctb] (<https://orcid.org/0000-0001-6817-9439>),
Adriana Heguy [aut, ctb],
Boris Reizis [aut, ctb] (<https://orcid.org/0000-0003-1140-7853>),
Aristotelis Tsirigos [aut, ctb]
(<https://orcid.org/0000-0002-7512-8477>)
Maintainer: Alireza Khodadadi-Jamayran <alireza.khodadadi.j@gmail.com>
Diff between iCellR versions 1.5.8 dated 2020-10-09 and 1.5.9 dated 2021-01-21
DESCRIPTION | 6 +++--- MD5 | 42 +++++++++++++++++++++--------------------- R/F0011.R | 8 ++++++-- R/F0012.R | 4 +++- R/F0014.R | 5 +++-- R/F0018.R | 3 +++ R/F0021.R | 15 +++++++++++++-- R/F0028.R | 28 ++++++++++++++++++++++++---- R/F0029.R | 4 ++-- R/F0030.R | 19 ++++++++++++++----- R/F0039.R | 8 +++++++- R/F0041.R | 14 -------------- R/F0042.R | 20 ++++++++++++++++---- R/F0043.R | 3 ++- R/F0050.R | 4 +++- R/F0059.R | 4 +++- R/F0061.R | 5 ++++- R/F0065.R | 8 ++++++-- R/F0066.R | 8 ++++++-- R/F008.R | 33 ++++----------------------------- man/findMarkers.Rd | 2 +- man/run.umap.Rd | 3 +++ 22 files changed, 147 insertions(+), 99 deletions(-)
Title: Fast Computation of some Matrices Useful in Statistics
Description: Small set of functions to fast computation of some matrices and operations
useful in statistics.
Author: Felipe Osorio [aut, cre] (<https://orcid.org/0000-0002-4675-5201>),
Alonso Ogueda [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>
Diff between fastmatrix versions 0.3 dated 2020-11-24 and 0.3-8 dated 2021-01-21
DESCRIPTION | 8 ++++---- MD5 | 35 +++++++++++++++++++++++------------ NAMESPACE | 7 ++++--- R/geomean.R |only R/ridge.R |only R/wilson_hilferty.R |only inst/include/fastmatrix.h | 5 +++++ inst/include/fastmatrix_API.h | 32 +++++++++++++++++++++++++++++--- man/equilibrate.Rd | 5 ++--- man/geomean.Rd |only man/kurtosis.Rd | 2 +- man/matrix.norm.Rd | 4 ++-- man/ols.fit.Rd | 4 ++-- man/ridge.Rd |only man/wilson.hilferty.Rd |only src/R_init_fastmatrix.c | 21 +++++++++++++++++---- src/brent.c |only src/fastmatrix.h | 29 +++++++++++++++++++++++------ src/lu.c | 2 +- src/products.c |only src/ridge.c |only src/ridge.h |only src/stats_API.c | 9 +++++++++ src/wilson_hilferty.c |only 24 files changed, 122 insertions(+), 41 deletions(-)
Title: Utilities to Extract and Analyse Text Data from the Emergency
Nutrition Network Forum
Description: The Emergency Nutrition Network or en-net forum is the go to online
forum for field practitioners requiring prompt technical advice for
operational challenges for which answers are not readily accessible in
current guidelines. The questions and the corresponding answers raised
within en-net can provide insight into what the key topics of discussion are
within the nutrition sector. This package provides utility functions for the
extraction, processing and analysis of text data from the online forum.
Author: Ernest Guevarra [aut, cre] (<https://orcid.org/0000-0002-4887-4415>)
Maintainer: Ernest Guevarra <ernest@guevarra.io>
Diff between ennet versions 0.1.0 dated 2020-11-24 and 0.2.0 dated 2021-01-21
DESCRIPTION | 14 MD5 | 72 ++-- NAMESPACE | 23 + NEWS.md | 25 + R/analytics.R | 310 ++++++++++++++++++ R/data.R | 79 ++++ R/database.R |only R/ennet.R | 40 ++ R/get_discussions.R | 7 R/get_themes.R | 3 README.md | 41 +- data/ennet_dailies.rda |only data/ennet_hourlies.rda |only data/ennet_topics.rda |binary inst/WORDLIST | 3 inst/doc/analytics.R | 102 +++--- inst/doc/analytics.Rmd | 175 +++++++--- inst/doc/analytics.html | 592 ++++++++++++++++++----------------- inst/doc/ennet.R | 60 --- inst/doc/ennet.Rmd | 61 --- inst/doc/ennet.html | 40 -- inst/doc/extract.R | 60 --- inst/doc/extract.Rmd | 61 --- inst/doc/extract.html | 92 +---- man/count_topics_author.Rd |only man/count_topics_day.Rd |only man/count_topics_theme.Rd |only man/create_db_topics_dailies.Rd |only man/create_db_topics_daily.Rd |only man/create_db_topics_hourlies.Rd |only man/create_db_topics_interactions.Rd |only man/create_db_topics_monthly.Rd |only man/ennet-deprecated.Rd |only man/ennet.Rd | 1 man/ennet_dailies.Rd |only man/ennet_hourlies.Rd |only man/ennet_themes.Rd | 4 man/ennet_topics.Rd | 17 - man/get_db.Rd |only tests/testthat/test-analytics.R | 196 +++++++++++ tests/testthat/test-database.R |only tests/testthat/test-get_themes.R | 6 vignettes/analytics.Rmd | 175 +++++++--- vignettes/ennet.Rmd | 61 --- vignettes/extract.Rmd | 61 --- 45 files changed, 1422 insertions(+), 959 deletions(-)