Title: Managing Larger Data on a GitHub Repository
Description: Because larger (> 50 MB) data files cannot easily be committed to git,
a different approach is required to manage data associated with an analysis in a
GitHub repository. This package provides a simple work-around by allowing larger
(up to 2 GB) data files to piggyback on a repository as assets attached to individual
GitHub releases. These files are not handled by git in any way, but instead are
uploaded, downloaded, or edited directly by calls through the GitHub API. These
data files can be versioned manually by creating different releases. This approach
works equally well with public or private repositories. Data can be uploaded
and downloaded programmatically from scripts. No authentication is required to
download data from public repositories.
Author: Carl Boettiger [aut, cre, cph]
(<https://orcid.org/0000-0002-1642-628X>),
Mark Padgham [ctb] (<https://orcid.org/0000-0003-2172-5265>),
Jeffrey O Hanson [ctb] (<https://orcid.org/0000-0002-4716-6134>)
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between piggyback versions 0.0.8 dated 2018-10-06 and 0.0.9 dated 2019-01-08
DESCRIPTION | 16 ++++++++++------ MD5 | 21 +++++++++++---------- NEWS.md | 4 ++++ R/pb_download.R | 4 ++++ R/pb_info.R | 18 ++++++++++++++++++ R/pb_upload.R | 4 +++- README.md | 4 ++-- build/vignette.rds |binary inst/doc/alternatives.html | 4 ++-- inst/doc/intro.html | 42 +++++++++++++++++++++++++++++++----------- man/figures/logo.svg |only man/piggyback-package.Rd | 1 + 12 files changed, 86 insertions(+), 32 deletions(-)
Title: R Interface to LibBi
Description: Provides a complete R interface to LibBi, a library for Bayesian inference (see <http://libbi.org> and <doi:10.18637/jss.v067.i10> for more information). This includes functions for manipulating LibBi models, for reading and writing LibBi input/output files, for converting LibBi output to provide traces for use with the coda package, and for running LibBi from R.
Author: Pierre E. Jacob [aut],
Anthony Lee [ctb],
Lawrence M. Murray [ctb],
Sebastian Funk [aut, cre],
Sam Abbott [ctb]
Maintainer: Sebastian Funk <sebastian.funk@lshtm.ac.uk>
Diff between rbi versions 0.10.0 dated 2018-12-11 and 0.10.1 dated 2019-01-08
DESCRIPTION | 6 - MD5 | 27 ++++---- NAMESPACE | 3 NEWS.md | 5 + R/bi_model.R | 30 ++++----- R/libbi.R | 23 +++++++ build/vignette.rds |binary inst/doc/introduction.Rmd.rsp | 15 ++-- inst/doc/introduction.html | 133 ++++++++++++++++++++--------------------- man/find_block.Rd | 4 - man/get_block.Rd | 4 - man/remove_lines.Rd | 4 - man/simulate.Rd |only tests/testthat/test-bi-model.r | 5 - vignettes/introduction.Rmd.rsp | 15 ++-- 15 files changed, 156 insertions(+), 118 deletions(-)
Title: Confidence or Prediction Intervals, Quantiles, and Probabilities
for Statistical Models
Description: Functions to append confidence intervals, prediction intervals,
and other quantities of interest to data frames. All appended quantities
are for the response variable, after conditioning on the model and covariates.
This package has a data frame first syntax that allows for easy piping.
Currently supported models include (log-) linear, (log-) linear mixed,
generalized linear models, generalized linear mixed models, and
accelerated failure time models.
Author: John Haman [cre, aut],
Matthew Avery [aut],
Institute for Defense Analyses [cph]
Maintainer: John Haman <jhaman@ida.org>
Diff between ciTools versions 0.5.0 dated 2018-10-19 and 0.5.1 dated 2019-01-08
DESCRIPTION | 8 +- MD5 | 104 +++++++++++++++++++++++++++------ R/add_ci_glm.R | 2 R/add_pi.R | 2 R/add_pi_survreg.R | 16 +---- R/add_probs_survreg.R | 4 - build/vignette.rds |binary inst/doc/ciTools-glm-vignette.html | 18 ++--- inst/doc/ciTools_survreg_vignette.R |only inst/doc/ciTools_survreg_vignette.Rmd |only inst/doc/ciTools_survreg_vignette.html |only man/add_ci.Rd | 29 +++++---- man/add_ci.glm.Rd | 20 +++--- man/add_ci.glmerMod.Rd | 16 +---- man/add_ci.lmerMod.Rd | 4 - man/add_pi.Rd | 10 +-- man/add_pi.glm.Rd | 8 -- man/add_pi.survreg.Rd | 2 man/add_probs.Rd | 19 +++--- man/add_probs.survreg.Rd | 6 - man/add_quantile.Rd | 9 +- man/add_quantile.survreg.Rd | 12 --- vignettes/aft_files |only vignettes/ciTools_survreg_vignette.Rmd |only vignettes/survreg_data |only 25 files changed, 174 insertions(+), 115 deletions(-)
Title: Data and Methods Around Reference Values in Pediatrics
Description: Calculation of standard deviation scores and percentiles adduced from different
growth standards (WHO, UK, Germany, Italy, China, etc). Therefore, the calculation of SDS-values
for different measures like BMI, weight, height, head circumference, different
ratios, etc. are easy to carry out. Also, references for laboratory values in
children and adults are available, e.g., serum lipids, iron-related blood parameters, IGF, liver enzymes. In the
new version, there are also functions combining the lms() function from package 'gamlss' with
resampling methods for using with repeated measurements and family dependencies. A searchable list
of items can be found here: <https://github.com/mvogel78/childsds/wiki>.
Author: Mandy Vogel [aut, cre]
Maintainer: Mandy Vogel <mandy.vogel@googlemail.com>
Diff between childsds versions 0.7.0 dated 2019-01-04 and 0.7.1 dated 2019-01-08
DESCRIPTION | 7 ++--- MD5 | 22 ++++++++-------- NEWS.md | 5 +++ R/misc.R | 61 ++++++++++++++++++++------------------------- R/sdsvals.r | 6 +++- man/do_iterations.Rd | 7 ++--- man/fit_gamlss.Rd | 4 +- man/fit_gamlss1.Rd | 5 +-- man/fit_vgam.Rd | 4 +- man/make_percentile_tab.Rd | 4 +- man/one_iteration.Rd | 7 ++--- man/wormplot_gg.Rd | 2 - 12 files changed, 67 insertions(+), 67 deletions(-)
Title: Fast Nearest Neighbour Search (Wraps ANN Library) Using L2
Metric
Description: Finds the k nearest neighbours for every point in a given dataset
in O(N log N) time using Arya and Mount's ANN library (v1.1.3). There is
support for approximate as well as exact searches, fixed radius searches
and 'bd' as well as 'kd' trees. The distance is computed using the L2
(Euclidean) metric. Please see package 'RANN.L1' for the same
functionality using the L1 (Manhattan, taxicab) metric.
Author: Sunil Arya and David Mount (for ANN), Samuel E. Kemp, Gregory Jefferis
Maintainer: Gregory Jefferis <jefferis@gmail.com>
Diff between RANN versions 2.6 dated 2018-07-16 and 2.6.1 dated 2019-01-08
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 5 +++++ man/nn2.Rd | 5 +++-- src/Makevars.win | 3 ++- src/kd_split.cpp | 6 +++--- 6 files changed, 22 insertions(+), 15 deletions(-)
Title: "Hit and Run" and "Shake and Bake" for Sampling Uniformly from
Convex Shapes
Description: The "Hit and Run" Markov Chain Monte Carlo method for sampling uniformly from convex shapes defined by linear constraints, and the "Shake and Bake" method for sampling from the boundary of such shapes. Includes specialized functions for sampling normalized weights with arbitrary linear constraints.
Author: Gert van Valkenhoef, Tommi Tervonen
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between hitandrun versions 0.5-4 dated 2018-05-21 and 0.5-5 dated 2019-01-08
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NEWS | 9 +++++++++ R/bound.R | 2 +- src/rsabDir.c | 6 +----- 5 files changed, 19 insertions(+), 14 deletions(-)
Title: A Computational Tool for Astrochronology
Description: Routines for astrochronologic testing, astronomical time scale construction, and time series analysis. Also included are a range of statistical analysis and modeling routines that are relevant to time scale development and paleoclimate analysis.
Author: Stephen Meyers [aut,cre], Alberto Malinverno [ctb], Linda Hinnov [ctb], Christian Zeeden [ctb], Vincent Moron [ctb]
Maintainer: Stephen Meyers <smeyers@geology.wisc.edu>
Diff between astrochron versions 0.8 dated 2018-05-16 and 0.9 dated 2019-01-08
astrochron-0.8/astrochron/R/FUNCTION-ar1etp_v9.R |only astrochron-0.8/astrochron/R/FUNCTION-autoPlot_v10.R |only astrochron-0.8/astrochron/R/FUNCTION-confAdjust_v8.R |only astrochron-0.8/astrochron/R/FUNCTION-detrend_v3.R |only astrochron-0.8/astrochron/R/FUNCTION-getData_v3.R |only astrochron-0.8/astrochron/R/FUNCTION-getLaskar_v3.R |only astrochron-0.8/astrochron/R/FUNCTION-lowspec_v20b.R |only astrochron-0.8/astrochron/R/FUNCTION-mtmML96_v14b.R |only astrochron-0.8/astrochron/R/FUNCTION-mtmPL_v6.R |only astrochron-0.8/astrochron/R/FUNCTION-mtm_v18b.R |only astrochron-0.8/astrochron/R/FUNCTION-multiTest_v8.R |only astrochron-0.8/astrochron/R/FUNCTION-rankSeries_v3.R |only astrochron-0.8/astrochron/R/FUNCTION-read_v30.R |only astrochron-0.8/astrochron/R/FUNCTION-sortNave_v7a.R |only astrochron-0.8/astrochron/R/FUNCTION-testPrecession_v4b.R |only astrochron-0.8/astrochron/R/FUNCTION-timeOptPlot_v5.R |only astrochron-0.8/astrochron/R/FUNCTION-timeOptSim_v8b.R |only astrochron-0.8/astrochron/R/FUNCTION-tune_v8.R |only astrochron-0.9/astrochron/DESCRIPTION | 10 astrochron-0.9/astrochron/MD5 | 110 +++++----- astrochron-0.9/astrochron/NAMESPACE | 7 astrochron-0.9/astrochron/NEWS | 33 +++ astrochron-0.9/astrochron/R/FUNCTION-ar1etp_v10.R |only astrochron-0.9/astrochron/R/FUNCTION-autoPlot_v11.R |only astrochron-0.9/astrochron/R/FUNCTION-confAdjust_v9.R |only astrochron-0.9/astrochron/R/FUNCTION-detrend_v4.R |only astrochron-0.9/astrochron/R/FUNCTION-diffAccum_v5.R |only astrochron-0.9/astrochron/R/FUNCTION-getData_v7.R |only astrochron-0.9/astrochron/R/FUNCTION-getLaskar_v4.R |only astrochron-0.9/astrochron/R/FUNCTION-imbrie_v5.R |only astrochron-0.9/astrochron/R/FUNCTION-lowspec_v21.R |only astrochron-0.9/astrochron/R/FUNCTION-mtmML96_v15.R |only astrochron-0.9/astrochron/R/FUNCTION-mtmPL_v8.R |only astrochron-0.9/astrochron/R/FUNCTION-mtm_v19.R |only astrochron-0.9/astrochron/R/FUNCTION-multiTest_v10.R |only astrochron-0.9/astrochron/R/FUNCTION-rankSeries_v4.R |only astrochron-0.9/astrochron/R/FUNCTION-read_v32.R |only astrochron-0.9/astrochron/R/FUNCTION-sortNave_v8.R |only astrochron-0.9/astrochron/R/FUNCTION-synthStrat_v6.R |only astrochron-0.9/astrochron/R/FUNCTION-testPrecession_v10b.R |only astrochron-0.9/astrochron/R/FUNCTION-testTilt_v10c.R |only astrochron-0.9/astrochron/R/FUNCTION-timeOptPlot_v6.R |only astrochron-0.9/astrochron/R/FUNCTION-timeOptSim_v8c.R |only astrochron-0.9/astrochron/R/FUNCTION-timeOptTemplatePlot_v6.R |only astrochron-0.9/astrochron/R/FUNCTION-timeOptTemplateSim_v7.R |only astrochron-0.9/astrochron/R/FUNCTION-timeOptTemplate_v23.R |only astrochron-0.9/astrochron/R/FUNCTION-tune_v9.R |only astrochron-0.9/astrochron/R/startupMessage.R | 4 astrochron-0.9/astrochron/man/ar1etp.Rd | 5 astrochron-0.9/astrochron/man/asm.Rd | 3 astrochron-0.9/astrochron/man/astrochron-package.Rd | 4 astrochron-0.9/astrochron/man/bandpass.Rd | 20 + astrochron-0.9/astrochron/man/confAdjust.Rd | 8 astrochron-0.9/astrochron/man/detrend.Rd | 3 astrochron-0.9/astrochron/man/diffAccum.Rd |only astrochron-0.9/astrochron/man/eTimeOpt.Rd | 22 +- astrochron-0.9/astrochron/man/eTimeOptTrack.Rd | 13 + astrochron-0.9/astrochron/man/getData.Rd | 4 astrochron-0.9/astrochron/man/getLaskar.Rd | 5 astrochron-0.9/astrochron/man/imbrie.Rd |only astrochron-0.9/astrochron/man/lowpass.Rd | 21 + astrochron-0.9/astrochron/man/lowspec.Rd | 2 astrochron-0.9/astrochron/man/mtm.Rd | 2 astrochron-0.9/astrochron/man/mtmML96.Rd | 2 astrochron-0.9/astrochron/man/mtmPL.Rd | 34 ++- astrochron-0.9/astrochron/man/multiTest.Rd | 11 - astrochron-0.9/astrochron/man/periodogram.Rd | 6 astrochron-0.9/astrochron/man/rankSeries.Rd | 2 astrochron-0.9/astrochron/man/read.Rd | 3 astrochron-0.9/astrochron/man/sortNave.Rd | 6 astrochron-0.9/astrochron/man/synthStrat.Rd |only astrochron-0.9/astrochron/man/taner.Rd | 34 ++- astrochron-0.9/astrochron/man/testPrecession.Rd | 34 ++- astrochron-0.9/astrochron/man/testTilt.Rd |only astrochron-0.9/astrochron/man/timeOpt.Rd | 2 astrochron-0.9/astrochron/man/timeOptMCMC.Rd | 15 - astrochron-0.9/astrochron/man/timeOptSim.Rd | 2 astrochron-0.9/astrochron/man/timeOptTemplate.Rd |only astrochron-0.9/astrochron/man/timeOptTemplatePlot.Rd |only astrochron-0.9/astrochron/man/timeOptTemplateSim.Rd |only astrochron-0.9/astrochron/man/tune.Rd | 13 + 81 files changed, 304 insertions(+), 136 deletions(-)
Title: Fuzzy Clustering of Vegetation Data
Description: A set of functions to: (1) perform fuzzy clustering of vegetation data [De Caceres et al. (2010) <doi:10.1111/j.1654-1103.2010.01211.x>]; (2) to assess ecological community ressemblance on the basis of structure and composition [De Caceres et al. (2013): <doi:10.1111/2041-210X.12116>]; and (3) to perform community trajectory analysis [De Caceres et al. (2019): <doi:10.1002/ecm.1350>].
Author: Miquel De Cáceres [aut, cre]
Maintainer: Miquel De Cáceres <miquelcaceres@gmail.com>
Diff between vegclust versions 1.7.4 dated 2018-05-29 and 1.7.7 dated 2019-01-08
DESCRIPTION | 16 MD5 | 68 - NAMESPACE | 36 NEWS | 73 - R/RcppExports.R | 62 - R/documentationAvoca.R | 48 - R/stratifyvegdata.R | 174 +-- R/trajectoryClustering.R | 646 +++++++------- R/trajectoryDistances.R | 1494 +++++++++++++++++---------------- R/vegclustdist.R | 514 +++++------ build/partial.rdb |binary build/vignette.rds |binary data/avoca.rda |binary data/medreg.rda |binary data/treedata.rda |binary data/wetland.rda |binary inst/doc/CTA.R | 551 ++++++------ inst/doc/CTA.Rmd | 921 +++++++++++--------- inst/doc/CTA.html | 1415 +++++++++++++++++++------------ inst/doc/MedRegExample.R | 302 +++--- inst/doc/MedRegExample.Rmd | 484 +++++----- inst/doc/MedRegExample.html | 832 +++++++++++------- inst/doc/VegetationClassification.R | 808 ++++++++--------- inst/doc/VegetationClassification.Rnw | 1048 +++++++++++------------ inst/doc/VegetationClassification.pdf |binary man/avoca.Rd | 66 - man/trajectories.Rd | 411 ++++----- man/vegclust-package.Rd | 78 - man/vegclust.Rd | 310 +++--- src/RcppExports.cpp | 9 src/trajectories.cpp | 20 vignettes/CTA.Rmd | 921 +++++++++++--------- vignettes/MedRegExample.Rmd | 484 +++++----- vignettes/VegetationClassification.Rnw | 1048 +++++++++++------------ vignettes/vegclust.bib | 706 +++++++-------- 35 files changed, 7290 insertions(+), 6255 deletions(-)
Title: Common R Scripts and Utilities Used by the Statnet Project
Software
Description: Non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.
Author: Pavel N. Krivitsky [aut, cre],
Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky <pavel@uow.edu.au>
Diff between statnet.common versions 4.1.4 dated 2018-06-22 and 4.2.0 dated 2019-01-08
statnet.common-4.1.4/statnet.common/README.md |only statnet.common-4.2.0/statnet.common/DESCRIPTION | 13 statnet.common-4.2.0/statnet.common/LICENSE | 2 statnet.common-4.2.0/statnet.common/MD5 | 57 ++-- statnet.common-4.2.0/statnet.common/NAMESPACE | 6 statnet.common-4.2.0/statnet.common/NEWS | 32 ++ statnet.common-4.2.0/statnet.common/NEWS.md | 22 + statnet.common-4.2.0/statnet.common/R/cite.utilities.R | 2 statnet.common-4.2.0/statnet.common/R/control.utilities.R | 8 statnet.common-4.2.0/statnet.common/R/deprecation_utils.R |only statnet.common-4.2.0/statnet.common/R/formula.utilities.R | 16 - statnet.common-4.2.0/statnet.common/R/logspace.utils.R | 2 statnet.common-4.2.0/statnet.common/R/mcmc-utils.R | 11 statnet.common-4.2.0/statnet.common/R/misc.utilities.R | 138 +++++++++- statnet.common-4.2.0/statnet.common/R/rle_utils.R | 11 statnet.common-4.2.0/statnet.common/R/startup.utilities.R | 2 statnet.common-4.2.0/statnet.common/R/string.utilities.R | 4 statnet.common-4.2.0/statnet.common/R/wmatrix.R | 2 statnet.common-4.2.0/statnet.common/R/zzz.R | 2 statnet.common-4.2.0/statnet.common/build/statnet.common.pdf |binary statnet.common-4.2.0/statnet.common/inst/CITATION | 4 statnet.common-4.2.0/statnet.common/man/check.control.class.Rd | 7 statnet.common-4.2.0/statnet.common/man/deprecation-utilities.Rd |only statnet.common-4.2.0/statnet.common/man/forkTimeout.Rd |only statnet.common-4.2.0/statnet.common/man/mcmc-utilities.Rd | 9 statnet.common-4.2.0/statnet.common/man/rle.utils.Rd | 3 statnet.common-4.2.0/statnet.common/man/set.control.class.Rd | 5 statnet.common-4.2.0/statnet.common/man/ult.Rd |only statnet.common-4.2.0/statnet.common/man/unwhich.Rd | 3 statnet.common-4.2.0/statnet.common/src/init.c | 2 statnet.common-4.2.0/statnet.common/src/logspace_utils.c | 2 statnet.common-4.2.0/statnet.common/src/rle_utils.c | 2 32 files changed, 273 insertions(+), 94 deletions(-)
More information about statnet.common at CRAN
Permanent link
Title: Convert Spatial Data Using Tidy Tables
Description: Tools to convert from specific formats to more general forms of
spatial data. Using tables to store the actual entities present in spatial
data provides flexibility, and the functions here deliberately
minimize the level of interpretation applied, leaving that for specific
applications. Includes support for simple features, round-trip for 'Spatial' classes and long-form
tables, analogous to 'ggplot2::fortify'. There is also a more 'normal form' representation
that decomposes simple features and their kin to tables of objects, parts, and unique coordinates.
Author: Michael D. Sumner [aut, cre]
Maintainer: Michael D. Sumner <mdsumner@gmail.com>
Diff between spbabel versions 0.4.8 dated 2017-08-04 and 0.5.0 dated 2019-01-08
DESCRIPTION | 9 MD5 | 24 +- NAMESPACE | 2 NEWS.md | 8 R/sf.r | 23 ++ R/spFromTable.r | 2 README.md | 245 +++++++++++++++-------- build/vignette.rds |binary inst/doc/sfbabel.html | 438 +++++++++++++++++++++++++++++++---------- inst/doc/spbabel.Rmd | 2 inst/doc/spbabel.html | 491 ++++++++++++++++++++++++++++++++++------------- tests/testthat/test-sf.R | 9 vignettes/spbabel.Rmd | 2 13 files changed, 919 insertions(+), 336 deletions(-)
Title: Diversity Dynamics using Fossil Sampling Data
Description: Functions to describe sampling and diversity dynamics of fossil occurrence datasets (e.g. from the Paleobiology Database). The package includes methods to calculate range- and occurrence-based metrics of taxonomic richness, extinction and origination rates, along with traditional sampling measures. A powerful subsampling tool is also included that implements frequently used sampling standardization methods in a multiple bin-framework. The plotting of time series and the occurrence data can be simplified by the functions incorporated in the package, as well other calculations, such as environmental affinities and extinction selectivity testing. Details can be found in: Kocsis, A.T.; Reddin, C.J.; Alroy, J. and Kiessling, W. (2018) <doi:10.1101/423780>.
Author: Adam T. Kocsis, John Alroy, Carl J. Reddin, Wolfgang Kiessling
Maintainer: Adam T. Kocsis <adam.kocsis@outlook.com>
Diff between divDyn versions 0.6.1 dated 2018-10-08 and 0.7.0 dated 2019-01-08
divDyn-0.6.1/divDyn/man/spCleanse.Rd |only divDyn-0.7.0/divDyn/DESCRIPTION | 10 divDyn-0.7.0/divDyn/MD5 | 92 +++--- divDyn-0.7.0/divDyn/NAMESPACE | 9 divDyn-0.7.0/divDyn/R/RcppExports.R | 16 + divDyn-0.7.0/divDyn/R/affinity.R | 4 divDyn-0.7.0/divDyn/R/cleaning.R |only divDyn-0.7.0/divDyn/R/data.R | 13 divDyn-0.7.0/divDyn/R/diversityDynamics.r | 425 ++++++++++-------------------- divDyn-0.7.0/divDyn/R/fadLad.R | 15 - divDyn-0.7.0/divDyn/R/georange.R |only divDyn-0.7.0/divDyn/R/modeltab.R |only divDyn-0.7.0/divDyn/R/plotting.R | 156 ++++++++--- divDyn-0.7.0/divDyn/R/rateSplit.R | 2 divDyn-0.7.0/divDyn/R/sampstat.R | 3 divDyn-0.7.0/divDyn/R/singletons.R | 6 divDyn-0.7.0/divDyn/R/streaklog.r | 129 +++++++++ divDyn-0.7.0/divDyn/R/subsample.R | 15 - divDyn-0.7.0/divDyn/R/tabinate.R |only divDyn-0.7.0/divDyn/build/vignette.rds |binary divDyn-0.7.0/divDyn/data/bins.RData |binary divDyn-0.7.0/divDyn/data/corals.RData |binary divDyn-0.7.0/divDyn/data/keys.RData |binary divDyn-0.7.0/divDyn/data/stages.RData |binary divDyn-0.7.0/divDyn/data/stratkeys.RData |binary divDyn-0.7.0/divDyn/inst/CITATION | 2 divDyn-0.7.0/divDyn/inst/NEWS |only divDyn-0.7.0/divDyn/inst/doc/handout.R | 134 ++++++--- divDyn-0.7.0/divDyn/inst/doc/handout.Rmd | 207 ++++++++++---- divDyn-0.7.0/divDyn/inst/doc/handout.pdf |binary divDyn-0.7.0/divDyn/man/cleansp.Rd |only divDyn-0.7.0/divDyn/man/collapse.Rd |only divDyn-0.7.0/divDyn/man/divDyn.Rd | 33 +- divDyn-0.7.0/divDyn/man/fadlad.Rd | 4 divDyn-0.7.0/divDyn/man/fill.Rd |only divDyn-0.7.0/divDyn/man/georange.Rd |only divDyn-0.7.0/divDyn/man/keys.Rd | 2 divDyn-0.7.0/divDyn/man/modeltab.Rd |only divDyn-0.7.0/divDyn/man/omit.Rd | 2 divDyn-0.7.0/divDyn/man/parts.Rd | 2 divDyn-0.7.0/divDyn/man/ranges.Rd | 4 divDyn-0.7.0/divDyn/man/ratesplit.Rd | 2 divDyn-0.7.0/divDyn/man/shades.Rd | 4 divDyn-0.7.0/divDyn/man/singletons.Rd | 6 divDyn-0.7.0/divDyn/man/stages.Rd | 11 divDyn-0.7.0/divDyn/man/subsample.Rd | 8 divDyn-0.7.0/divDyn/man/survivors.Rd | 2 divDyn-0.7.0/divDyn/man/tabinate.Rd |only divDyn-0.7.0/divDyn/man/tsplot.Rd | 29 +- divDyn-0.7.0/divDyn/src/Engine.cpp | 170 ++++++++++++ divDyn-0.7.0/divDyn/src/RcppExports.cpp | 48 +++ divDyn-0.7.0/divDyn/src/init.c | 11 divDyn-0.7.0/divDyn/vignettes/handout.Rmd | 207 ++++++++++---- 53 files changed, 1192 insertions(+), 591 deletions(-)
Title: General Bivariate Copula Theory and Many Utility Functions
Description: Extensive functions for bivariate copula (bicopula) computations and related operations
for bicopula theory. The lower, upper, product, and select other bicopula are implemented along
with operations including the diagonal, survival copula, dual of a copula, co-copula, and
numerical bicopula density. Level sets, horizontal and vertical sections are supported. Numerical
derivatives and inverses of a bicopula are provided through which simulation is implemented.
Bicopula composition, convex combination, and products also are provided. Support
extends to the Kendall Function as well as the Lmoments thereof. Kendall Tau,
Spearman Rho and Footrule, Gini Gamma, Blomqvist Beta, Hoeffding Phi, Schweizer-
Wolff Sigma, tail dependency, tail order, skewness, and bivariate Lmoments are implemented, and
positive/negative quadrant dependency, left (right) increasing (decreasing) are available.
Other features include Kullback-Leibler divergence, Vuong procedure, spectral measure, and
Lcomoments for inference, maximum likelihood, and AIC, BIC, and RMSE for goodness-of-fit.
Author: William Asquith
Maintainer: William Asquith <william.asquith@ttu.edu>
Diff between copBasic versions 2.1.1 dated 2018-12-03 and 2.1.2 dated 2019-01-08
ChangeLog | 84 ++++++++++++- DESCRIPTION | 35 ++--- MD5 | 169 ++++++++++++++------------- NAMESPACE | 7 + R/COP.R | 9 - R/GLcop.R | 237 +++++++++++++++++++++++++++++++++++++-- R/RFcop.R |only R/aicCOP.R | 8 - R/bicCOP.R | 8 - R/bilmoms.R | 10 + R/composite1COP.R | 10 + R/composite2COP.R | 8 + R/composite3COP.R | 8 + R/convex2COP.R | 4 R/convexCOP.R | 24 +++ R/derCOPinv.R | 5 R/derCOPinv2.R | 5 R/gEVcop.R |only R/isCOP.permsym.R | 4 R/isCOP.radsym.R | 4 R/joeskewCOP.R | 57 +++++---- R/lcomCOP.R |only R/rmseCOP.R | 4 R/semicorCOP.R | 25 ++-- R/simCOPmicro.R | 13 +- R/simcomposite3COP.R | 16 +- R/simcompositeCOP.R | 17 +- R/tEVcop.R |only inst/lcomCOPfitExperiment(R).txt |only man/AMHcop.Rd | 8 - man/CLcop.Rd | 2 man/COP.Rd | 2 man/COPinv.Rd | 4 man/COPinv2.Rd | 4 man/EMPIRcop.Rd | 6 man/GHcop.Rd | 10 - man/GLcop.Rd | 87 +++++++++++++- man/HRcop.Rd | 8 - man/JOcopB5.Rd | 2 man/N4212cop.Rd | 2 man/PARETOcop.Rd | 2 man/PLACKETTcop.Rd | 20 +-- man/RFcop.Rd |only man/aicCOP.Rd | 3 man/asCOP.Rd | 65 +++++----- man/bicCOP.Rd | 7 - man/bilmoms.Rd | 57 +++++---- man/coCOP.Rd | 2 man/composite1COP.Rd | 29 ++++ man/composite2COP.Rd | 4 man/composite3COP.Rd | 2 man/convex2COP.Rd | 2 man/convexCOP.Rd | 2 man/copBasic-package.Rd | 64 +++++----- man/copBasic.fitpara.Rd | 6 man/densityCOP.Rd | 22 ++- man/derCOPinv.Rd | 4 man/diagCOPatf.Rd | 4 man/duCOP.Rd | 6 man/footCOP.Rd | 2 man/gEVcop.Rd |only man/giniCOP.Rd | 2 man/gridCOP.Rd | 2 man/isCOP.PQD.Rd | 4 man/joeskewCOP.Rd | 189 +++++++++++++++++++------------ man/joint.curvesCOP.Rd | 8 - man/kfuncCOP.Rd | 14 +- man/kfuncCOPinv.Rd | 2 man/kullCOP.Rd | 4 man/lcomCOP.Rd |only man/lcomoms2.ABcop2parameter.Rd | 6 man/med.regressCOP.Rd | 8 - man/mleCOP.Rd | 16 +- man/prod2COP.Rd | 2 man/qua.regressCOP.Rd | 4 man/rhoCOP.Rd | 11 + man/rmseCOP.Rd | 4 man/semicorCOP.Rd | 41 +++--- man/simCOP.Rd | 6 man/simCOPmicro.Rd | 8 - man/simcomposite3COP.Rd | 19 +-- man/simcompositeCOP.Rd | 15 +- man/spectralmeas.Rd | 2 man/stabtaildepf.Rd | 4 man/statTn.Rd | 6 man/tEVcop.Rd |only man/taildepCOP.Rd | 8 - man/tauCOP.Rd | 8 - man/uvlmoms.Rd | 2 man/wolfCOP.Rd | 22 ++- 90 files changed, 1092 insertions(+), 534 deletions(-)
Title: Tools for Remote Sensing Data Analysis
Description: Toolbox for remote sensing image processing and analysis such as
calculating spectral indices, principal component transformation, unsupervised
and supervised classification or fractional cover analyses.
Author: Benjamin Leutner [cre, aut],
Ned Horning [aut],
Jakob Schwalb-Willmann [aut],
Robert J. Hijmans [ctb]
Maintainer: Benjamin Leutner <benjamin.leutner@uni-wuerzburg.de>
Diff between RStoolbox versions 0.2.3 dated 2018-06-22 and 0.2.4 dated 2019-01-08
DESCRIPTION | 8 +- MD5 | 76 ++++++++++--------- NAMESPACE | 3 NEWS | 18 ++++ R/RStoolbox.R | 2 R/RcppExports.R | 4 + R/classifyQA.R | 103 +++++++++++++------------ R/coregisterImages.R | 2 R/encodeQA.R | 118 +++++++++++++++++------------ R/ggR.R | 147 ++++++++++++++++++++++--------------- R/ggRGB.R | 7 + R/oneHotEncode.R |only R/radCor.R | 35 ++++---- R/rescaleImage.R | 82 ++++++++++---------- R/superClass.R | 53 ++++++++----- R/sysdata.rda |binary R/unsuperClass.R | 77 +++++++++++++++---- man/ImageMetaData.Rd | 11 +- man/classifyQA.Rd | 13 ++- man/coregisterImages.Rd | 6 - man/decodeQA.Rd | 4 - man/encodeQA.Rd | 38 ++++++--- man/estimateHaze.Rd | 4 - man/fCover.Rd | 6 - man/ggR.Rd | 11 +- man/ggRGB.Rd | 7 + man/mesma.Rd | 4 - man/oneHotEncode.Rd |only man/pifMatch.Rd | 4 - man/predict.superClass.Rd | 4 - man/predict.unsuperClass.Rd |only man/spectralIndices.Rd | 11 +- man/writeSLI.Rd | 3 src/RcppExports.cpp | 15 +++ src/init.c | 2 src/oneHot.cpp |only tests/testthat/Rplots.pdf |binary tests/testthat/test-encodeQA.R |only tests/testthat/test-ggplot.R | 2 tests/testthat/test-oneHotEncode.R |only tests/testthat/test-superClass.R | 51 +++++++----- tests/testthat/test-unsuperClass.R | 19 ++++ 42 files changed, 580 insertions(+), 370 deletions(-)
Title: Toolkit for Corpus Analysis
Description: Library for corpus analysis using the Corpus Workbench as an
efficient back end for indexing and querying large corpora. The package offers
functionality to flexibly create partitions and to carry out basic statistical
operations (count, co-occurrences etc.). The original full text of documents
can be reconstructed and inspected at any time. Beyond that, the package is
intended to serve as an interface to packages implementing advanced statistical
procedures. Respective data structures (document term matrices, term co-
occurrence matrices etc.) can be created based on the indexed corpora.
Author: Andreas Blaette [aut, cre] (<https://orcid.org/0000-0001-8970-8010>)
Maintainer: Andreas Blaette <andreas.blaette@uni-due.de>
Diff between polmineR versions 0.7.10 dated 2018-09-18 and 0.7.11 dated 2019-01-08
polmineR-0.7.10/polmineR/R/chisquare.R |only polmineR-0.7.10/polmineR/R/ll.R |only polmineR-0.7.10/polmineR/R/pmi.R |only polmineR-0.7.10/polmineR/man/polmineR.Rd |only polmineR-0.7.10/polmineR/man/subcorpus.Rd |only polmineR-0.7.10/polmineR/man/textstatistics.Rd |only polmineR-0.7.11/polmineR/DESCRIPTION | 33 polmineR-0.7.11/polmineR/MD5 | 219 +- polmineR-0.7.11/polmineR/NAMESPACE | 39 polmineR-0.7.11/polmineR/NEWS.md | 757 +++----- polmineR-0.7.11/polmineR/R/S4classes.R | 169 + polmineR-0.7.11/polmineR/R/TermDocumentMatrix.R | 6 polmineR-0.7.11/polmineR/R/as.VCorpus.R | 61 polmineR-0.7.11/polmineR/R/as.sparseMatrix.R | 40 polmineR-0.7.11/polmineR/R/as.speeches.R | 4 polmineR-0.7.11/polmineR/R/bundle.R | 45 polmineR-0.7.11/polmineR/R/context.R | 26 polmineR-0.7.11/polmineR/R/cooccurrences.R | 864 +++++++++- polmineR-0.7.11/polmineR/R/corpus.R | 86 polmineR-0.7.11/polmineR/R/count.R | 24 polmineR-0.7.11/polmineR/R/cpos.R | 60 polmineR-0.7.11/polmineR/R/decode.R | 175 +- polmineR-0.7.11/polmineR/R/encoding.R | 27 polmineR-0.7.11/polmineR/R/enrich.R | 2 polmineR-0.7.11/polmineR/R/features.R | 31 polmineR-0.7.11/polmineR/R/format.R |only polmineR-0.7.11/polmineR/R/highlight.R | 12 polmineR-0.7.11/polmineR/R/hits.R | 12 polmineR-0.7.11/polmineR/R/html.R | 8 polmineR-0.7.11/polmineR/R/kwic.R | 45 polmineR-0.7.11/polmineR/R/mail.R | 47 polmineR-0.7.11/polmineR/R/ngrams.R | 72 polmineR-0.7.11/polmineR/R/partition.R | 84 polmineR-0.7.11/polmineR/R/partition_bundle.R | 42 polmineR-0.7.11/polmineR/R/polmineR.R | 44 polmineR-0.7.11/polmineR/R/read.R | 12 polmineR-0.7.11/polmineR/R/regions.R | 8 polmineR-0.7.11/polmineR/R/registry.R | 80 polmineR-0.7.11/polmineR/R/reindex.R | 26 polmineR-0.7.11/polmineR/R/s_attributes.R | 11 polmineR-0.7.11/polmineR/R/size.R | 12 polmineR-0.7.11/polmineR/R/stats.R |only polmineR-0.7.11/polmineR/R/t_test.R | 23 polmineR-0.7.11/polmineR/R/tempcorpus.R | 2 polmineR-0.7.11/polmineR/R/textstat.R | 58 polmineR-0.7.11/polmineR/R/token_stream.R | 35 polmineR-0.7.11/polmineR/R/trim.R | 8 polmineR-0.7.11/polmineR/R/use.R | 44 polmineR-0.7.11/polmineR/R/utils.R | 77 polmineR-0.7.11/polmineR/R/view.R | 30 polmineR-0.7.11/polmineR/R/weigh.R | 11 polmineR-0.7.11/polmineR/R/zzz.R | 34 polmineR-0.7.11/polmineR/README.md | 12 polmineR-0.7.11/polmineR/build/vignette.rds |binary polmineR-0.7.11/polmineR/inst/doc/vignette.html | 360 ++-- polmineR-0.7.11/polmineR/inst/extdata/cwb/registry/germaparlmini | 4 polmineR-0.7.11/polmineR/inst/extdata/cwb/registry/reuters | 4 polmineR-0.7.11/polmineR/inst/shiny/global.R | 1 polmineR-0.7.11/polmineR/inst/shiny/server.R | 74 polmineR-0.7.11/polmineR/inst/shiny/ui.R | 2 polmineR-0.7.11/polmineR/man/CQI.Rd | 1 polmineR-0.7.11/polmineR/man/all-cooccurrences-class.Rd |only polmineR-0.7.11/polmineR/man/all_cooccurrences.Rd |only polmineR-0.7.11/polmineR/man/as.DocumentTermMatrix.Rd | 7 polmineR-0.7.11/polmineR/man/as.VCorpus.Rd | 27 polmineR-0.7.11/polmineR/man/as.markdown.Rd | 10 polmineR-0.7.11/polmineR/man/as.sparseMatrix.Rd | 6 polmineR-0.7.11/polmineR/man/as.speeches.Rd | 7 polmineR-0.7.11/polmineR/man/bundle.Rd | 26 polmineR-0.7.11/polmineR/man/chisquare-method.Rd | 99 + polmineR-0.7.11/polmineR/man/context-class.Rd | 36 polmineR-0.7.11/polmineR/man/context-method.Rd | 23 polmineR-0.7.11/polmineR/man/cooccurrences-class.Rd | 17 polmineR-0.7.11/polmineR/man/cooccurrences.Rd | 77 polmineR-0.7.11/polmineR/man/corpus-method.Rd | 3 polmineR-0.7.11/polmineR/man/corpus_class.Rd |only polmineR-0.7.11/polmineR/man/count-method.Rd | 13 polmineR-0.7.11/polmineR/man/cpos-method.Rd | 47 polmineR-0.7.11/polmineR/man/cqp.Rd | 26 polmineR-0.7.11/polmineR/man/decode.Rd | 65 polmineR-0.7.11/polmineR/man/dispersion-method.Rd | 13 polmineR-0.7.11/polmineR/man/encoding.Rd | 28 polmineR-0.7.11/polmineR/man/features-class.Rd | 10 polmineR-0.7.11/polmineR/man/features.Rd | 18 polmineR-0.7.11/polmineR/man/get_token_stream-method.Rd | 34 polmineR-0.7.11/polmineR/man/hits.Rd | 26 polmineR-0.7.11/polmineR/man/html-method.Rd | 15 polmineR-0.7.11/polmineR/man/kwic-class.Rd | 13 polmineR-0.7.11/polmineR/man/kwic.Rd | 34 polmineR-0.7.11/polmineR/man/ll.Rd |only polmineR-0.7.11/polmineR/man/mail-method.Rd | 42 polmineR-0.7.11/polmineR/man/ngrams.Rd | 12 polmineR-0.7.11/polmineR/man/partition.Rd | 36 polmineR-0.7.11/polmineR/man/partition_bundle-class.Rd | 18 polmineR-0.7.11/polmineR/man/partition_bundle-method.Rd | 19 polmineR-0.7.11/polmineR/man/partition_class.Rd | 64 polmineR-0.7.11/polmineR/man/pmi.Rd |only polmineR-0.7.11/polmineR/man/polmineR-package.Rd |only polmineR-0.7.11/polmineR/man/read-method.Rd | 15 polmineR-0.7.11/polmineR/man/regions_class.Rd | 15 polmineR-0.7.11/polmineR/man/registry.Rd | 39 polmineR-0.7.11/polmineR/man/registry_eval.Rd | 6 polmineR-0.7.11/polmineR/man/s_attributes-method.Rd | 1 polmineR-0.7.11/polmineR/man/size-method.Rd | 9 polmineR-0.7.11/polmineR/man/slice.Rd |only polmineR-0.7.11/polmineR/man/store.Rd | 8 polmineR-0.7.11/polmineR/man/subcorpus-class.Rd |only polmineR-0.7.11/polmineR/man/t_test.Rd | 16 polmineR-0.7.11/polmineR/man/terms.Rd | 4 polmineR-0.7.11/polmineR/man/textstat-class.Rd | 37 polmineR-0.7.11/polmineR/man/trim-method.Rd | 1 polmineR-0.7.11/polmineR/man/use.Rd | 10 polmineR-0.7.11/polmineR/man/view.Rd | 4 polmineR-0.7.11/polmineR/man/weigh-method.Rd | 6 polmineR-0.7.11/polmineR/tests/testthat/test_aggregate.R | 22 polmineR-0.7.11/polmineR/tests/testthat/test_chisquare.R |only polmineR-0.7.11/polmineR/tests/testthat/test_context.R | 16 polmineR-0.7.11/polmineR/tests/testthat/test_cooccurrences.R | 126 + polmineR-0.7.11/polmineR/tests/testthat/test_partition_bundle.R |only polmineR-0.7.11/polmineR/tests/testthat/test_pmi.R |only 120 files changed, 3599 insertions(+), 1570 deletions(-)
Title: Analysis of Charcoal Records from the Global Charcoal Database
Description: Tools to extract and analyse charcoal sedimentary data stored in
the Global Charcoal Database. Main functionalities includes data extraction
and sites selection, transformation and interpolation of the charcoal
records as well as compositing.
Author: Global Paleofire Working Group <paleofire@univ-fcomte.fr>
Maintainer: Olivier Blarquez <blarquez@gmail.com>
Diff between paleofire versions 1.2.2 dated 2018-05-02 and 1.2.3 dated 2019-01-08
paleofire-1.2.2/paleofire/vignettes/paleofire-paper.Rmd |only paleofire-1.2.2/paleofire/vignettes/paleofire-paper.nb.html |only paleofire-1.2.3/paleofire/DESCRIPTION | 10 - paleofire-1.2.3/paleofire/MD5 | 81 +++++------ paleofire-1.2.3/paleofire/NEWS | 7 paleofire-1.2.3/paleofire/R/SEA.R |only paleofire-1.2.3/paleofire/R/contiguous.R | 8 - paleofire-1.2.3/paleofire/R/kdffreq.R | 4 paleofire-1.2.3/paleofire/R/pfCircular.R | 20 +- paleofire-1.2.3/paleofire/R/pfComposite.R | 8 - paleofire-1.2.3/paleofire/R/pfCompositeLF.R | 16 -- paleofire-1.2.3/paleofire/R/pfDiagnostic.R | 4 paleofire-1.2.3/paleofire/R/pfExtract.R | 4 paleofire-1.2.3/paleofire/R/pfGridding.R | 12 + paleofire-1.2.3/paleofire/R/pfKruskal.R | 8 - paleofire-1.2.3/paleofire/R/pfResolution.R | 4 paleofire-1.2.3/paleofire/R/pfTransform.R | 4 paleofire-1.2.3/paleofire/R/pretreatment.R | 4 paleofire-1.2.3/paleofire/build/vignette.rds |binary paleofire-1.2.3/paleofire/inst/doc/paleofire-paper.R | 62 +++----- paleofire-1.2.3/paleofire/inst/doc/paleofire-paper.Rnw | 21 +- paleofire-1.2.3/paleofire/inst/doc/paleofire-paper.pdf |binary paleofire-1.2.3/paleofire/man/SEA.Rd |only paleofire-1.2.3/paleofire/man/contiguous.Rd | 4 paleofire-1.2.3/paleofire/man/contrib.pfCompositeLF.Rd | 4 paleofire-1.2.3/paleofire/man/kdffreq.Rd | 10 - paleofire-1.2.3/paleofire/man/pfAddData.Rd | 3 paleofire-1.2.3/paleofire/man/pfComposite.Rd | 4 paleofire-1.2.3/paleofire/man/pfCompositeLF.Rd | 9 - paleofire-1.2.3/paleofire/man/pfDiagnostic.Rd | 7 paleofire-1.2.3/paleofire/man/pfDotMap.Rd | 4 paleofire-1.2.3/paleofire/man/pfExtract.Rd | 4 paleofire-1.2.3/paleofire/man/pfKruskal.Rd | 4 paleofire-1.2.3/paleofire/man/pfResolution.Rd | 4 paleofire-1.2.3/paleofire/man/pfSimpleGrid.Rd | 11 - paleofire-1.2.3/paleofire/man/pfTransform.Rd | 9 - paleofire-1.2.3/paleofire/man/plot.CHAR.Rd | 4 paleofire-1.2.3/paleofire/man/plot.contiguous.Rd | 4 paleofire-1.2.3/paleofire/man/plot.pfCircular.Rd | 4 paleofire-1.2.3/paleofire/man/plot.pfComposite.Rd | 4 paleofire-1.2.3/paleofire/man/plot.pfCompositeLF.Rd | 14 - paleofire-1.2.3/paleofire/man/plot.pfKruskal.Rd | 8 - paleofire-1.2.3/paleofire/vignettes/paleofire-paper-fig2.pdf |only paleofire-1.2.3/paleofire/vignettes/paleofire-paper.Rnw | 21 +- 44 files changed, 213 insertions(+), 200 deletions(-)
Title: Decode Coded Variables to Plain Text and the Other Way Around
Description: Main function "decode" is used to decode coded key values to plain
text. Function "code" can be used to code plain text to code if there is a
1:1 relation between the two. The concept relies on 'keyvalue' objects used
for translation. There are several 'keyvalue' objects included in the areas
of geographical regional codes, administrative health care unit codes,
diagnosis codes and more. It is also easy to extend the use by arbitrary
code sets.
Author: Erik Bulow [aut, cre] (<https://orcid.org/0000-0002-9973-456X>)
Maintainer: Erik Bulow <erik.bulow@rccvast.se>
Diff between decoder versions 1.1.12 dated 2017-02-14 and 1.1.13 dated 2019-01-08
DESCRIPTION | 22 MD5 | 102 R/as.keyvalue.R | 2 R/as.keyvalue.list.R | 2 R/datasets_keyvalue.R | 22 R/decode.R | 12 R/keyvalue_methods.R | 4 README.md | 32 build/vignette.rds |binary inst/doc/RC_units.Rmd | 4 inst/doc/RC_units.html | 466 + inst/doc/decoder.html | 502 +- inst/doc/sjukhus.Rmd | 4 inst/doc/sjukhus.html | 2486 +++++++++- man/as.keyvalue.list.Rd | 2 man/decode.Rd | 16 man/distrikt.Rd | 3 man/figo.Rd | 1 man/forsamling.Rd | 5 man/hemort.Rd | 1 man/hsn.Rd | 5 man/icd10.Rd | 1 man/icd7.Rd | 1 man/icd7_grov.Rd | 1 man/icd9.Rd | 1 man/icdo.Rd | 1 man/icdo3.Rd | 1 man/icdo3_grov.Rd | 1 man/keyvalue.Rd | 2 man/klinik.Rd | 1 man/kommun.Rd | 3 man/kon.Rd | 1 man/lan.Rd | 1 man/m_rtr.Rd | 1 man/n_rtr.Rd | 1 man/pad.Rd | 1 man/patologiavdelning.Rd | 3 man/rc.Rd | 5 man/region.Rd | 1 man/sida.Rd | 1 man/sjukhus.Rd | 3 man/sjukhus_inca.Rd | 3 man/sjukhus_par.Rd | 1 man/sjukvardsomrade.Rd | 1 man/snomed.Rd | 1 man/snomed3.Rd | 1 man/summary.keyvalue.Rd | 4 man/t_rtr.Rd | 1 man/tnmgrund.Rd | 1 tests/testthat/test-internal_extra_functions_sjukvardsomrade.R | 3 vignettes/RC_units.Rmd | 4 vignettes/sjukhus.Rmd | 4 52 files changed, 3346 insertions(+), 402 deletions(-)
Title: Generalized and Classical Blockmodeling of Valued Networks
Description: This is primarily meant as an implementation of generalized blockmodeling for valued networks.
In addition, measures of similarity or dissimilarity based on structural equivalence and
regular equivalence (REGE algorithms) can be computed and partitioned matrices can be plotted:
Žiberna (2007)<doi:10.1016/j.socnet.2006.04.002>, Žiberna (2008)<doi:10.1080/00222500701790207>,
Žiberna (2014)<doi:10.1016/j.socnet.2014.04.002>.
Author: Aleš Žiberna [aut, cre]
Maintainer: Aleš Žiberna <ales.ziberna@gmail.com>
Diff between blockmodeling versions 0.3.1 dated 2018-06-04 and 0.3.4 dated 2019-01-08
CHANGES | 42 ++++++++++++++++++---- DESCRIPTION | 12 +++--- MD5 | 64 +++++++++++++++++----------------- NAMESPACE | 2 - R/Cinterfaces.R | 37 +++++++++++++------ R/IM.R | 17 +++++++-- R/fun.by.blocks.default.R | 3 - R/genRandomPar.R | 1 R/gplot.R | 4 +- R/loadnetwork2.R | 21 ++++++----- R/loadpajek.R | 20 ++++------ R/loadvector2.R | 4 +- R/plot.mat.R | 80 ++++++++++++++++++++++++++++++++++--------- R/plot.opt.more.par.R | 2 - inst/CITATION | 13 ++---- man/Pajek.Rd | 4 +- man/REGE.Rd | 10 ++--- man/blockmodeling-package.Rd | 12 +++--- man/clu.Rd | 16 +++++--- man/critFunC.Rd | 70 +++++++++++++++++++++++-------------- man/find.m.Rd | 4 +- man/fun.by.blocks.Rd | 7 +-- man/genRandomPar.Rd | 2 - man/gplot1.Rd | 5 +- man/ircNorm.Rd | 2 - man/nkpartitions.Rd | 4 +- man/optRandomParC.Rd | 54 ++++++++++++++++++++--------- man/plot.mat.Rd | 27 +++++++------- man/rand.Rd | 2 - man/recode.Rd | 4 +- man/reorderImage.Rd | 2 - man/sedist.Rd | 20 +++++----- man/two2one.Rd | 4 +- 33 files changed, 358 insertions(+), 213 deletions(-)
Title: Spectral Processing for High Resolution Flow Infusion Mass
Spectrometry
Description: A spectral binning approach for high resolution flow infusion mass spectrometry data.
Author: Jasen Finch [aut, cre]
Maintainer: Jasen Finch <jsf9@aber.ac.uk>
Diff between binneR versions 2.0.5 dated 2018-12-12 and 2.0.6 dated 2019-01-08
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NAMESPACE | 1 + R/binneRlyse.R | 2 +- build/vignette.rds |binary inst/doc/binneR.html | 8 ++++---- 6 files changed, 14 insertions(+), 13 deletions(-)
Title: Render 'Plotly' Maps without an Internet Connection
Description: Includes 'JavaScript' files that allow 'plotly' maps to render without an internet connection.
Author: Carson Sievert [aut, cre] (<https://orcid.org/0000-0002-4958-2844>)
Maintainer: Carson Sievert <cpsievert1@gmail.com>
Diff between plotlyGeoAssets versions 0.0.1 dated 2018-06-06 and 0.0.2 dated 2019-01-08
DESCRIPTION | 6 +-- MD5 | 10 +++--- R/sysdata.rda |binary README.md | 13 ++------ inst/lib/plotly-geo-assets.js | 68 +++++++++++++++++++++--------------------- tools/plotlyjs.R | 4 +- 6 files changed, 48 insertions(+), 53 deletions(-)
More information about plotlyGeoAssets at CRAN
Permanent link
Title: Functions for Reading Ontologies into R
Description: Functions for reading ontologies into R as lists and manipulating sets of ontological terms - 'ontologyX: A suite of R packages for working with ontological data', Greene et al 2017 <doi:10.1093/bioinformatics/btw763>.
Author: Daniel Greene <dg333@cam.ac.uk>
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Diff between ontologyIndex versions 2.4 dated 2017-02-06 and 2.5 dated 2019-01-08
DESCRIPTION | 10 - MD5 | 30 +-- R/descendants.R | 2 build/vignette.rds |binary data/datalist | 6 data/go.RData |binary data/hpo.RData |binary data/mpo.RData |binary inst/doc/intro-to-ontologyX.R | 70 ++----- inst/doc/intro-to-ontologyX.Rmd | 25 -- inst/doc/intro-to-ontologyX.html | 374 +++++++++++++++++++++------------------ inst/doc/reading-ontologies.R | 55 +++-- inst/doc/reading-ontologies.Rmd | 6 inst/doc/reading-ontologies.html | 368 +++++++++++++++++++++----------------- vignettes/intro-to-ontologyX.Rmd | 25 -- vignettes/reading-ontologies.Rmd | 6 16 files changed, 507 insertions(+), 470 deletions(-)
More information about BiProbitPartial at CRAN
Permanent link
Title: Bayesian Age-Period-Cohort Modeling and Prediction
Description: Bayesian Age-Period-Cohort Modeling and Prediction using efficient Markov Chain Monte Carlo Methods. This is the R version of the previous BAMP software as described in Volker Schmid and Leonhard Held (2007) <DOI:10.18637/jss.v021.i08> Bayesian Age-Period-Cohort Modeling and Prediction - BAMP, Journal of Statistical Software 21:8. This package includes checks of convergence using Gelman's R.
Author: Volker Schmid [aut, cre],
Florian Geressen [ctb],
Leonhard Held [ctb],
Evi Rainer [ctb]
Maintainer: Volker Schmid <volker.schmid@lmu.de>
Diff between bamp versions 2.0.5 dated 2018-12-12 and 2.0.6 dated 2019-01-08
DESCRIPTION | 8 MD5 | 16 - NEWS.md | 3 build/vignette.rds |binary inst/CITATION | 2 inst/doc/bamp.Rmd | 7 inst/doc/bamp.html | 339 ++++++-------------------------- vignettes/bamp.Rmd | 7 vignettes/publications/publications.Rmd | 9 9 files changed, 98 insertions(+), 293 deletions(-)
More information about analysisPipelines at CRAN
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Title: Efficiently Read Sequence Data (VCF Format, BCF Format, METAL
Format and BGEN Format) into R
Description: Integrate sequencing data (Variant call format, e.g. VCF or BCF) or meta-analysis results in R. This package can help you (1) read VCF/BCF/BGEN files by chromosomal ranges (e.g. 1:100-200); (2) read RareMETAL summary statistics files; (3) read tables from a tabix-indexed files; (4) annotate VCF/BCF files; (5) create customized workflow based on Makefile.
Author: Xiaowei Zhan [aut, cre],
Dajiang Liu [aut],
Attractive Chaos [cph] (We have used the following software and made
minimal necessary changes: Tabix, Heng Li <lh3@live.co.uk> (MIT
license). We removed standard IO related functions, e.g. printf,
fprintf ; also changed its un-safe pointer arithmetics.),
Broad Institute / Massachusetts Institute of Technology [cph],
Genome Research Ltd (GRL) [cph],
Facebook, Inc [cph]
Maintainer: Xiaowei Zhan <zhanxw@gmail.com>
Diff between seqminer versions 7.0 dated 2019-01-06 and 7.1 dated 2019-01-08
DESCRIPTION | 8 - MD5 | 40 ++--- NAMESPACE | 2 R/seqminer.R | 118 ++++++++++++++++ man/openPlink.Rd |only man/readPlinkToMatrixByIndex.Rd | 4 man/sub-.PlinkFile.Rd |only src/FreqTable.h | 12 - src/R_CPP_interface.cpp | 111 ++++++--------- src/R_CPP_interface.h | 75 +++++----- src/Rannotation.cpp | 8 - src/Rannotation.h | 2 src/TabixReader.h | 2 src/bgen2genoLoader.cpp | 47 +++--- src/plink2genoLoader.cpp | 242 +++++++++++++++++++++++++++++---- src/plink2genoLoader.h | 13 + src/rvMetaLoader.cpp | 86 +++++------ src/seqminer.c | 125 ++++++++++------- src/seqminer_init.c | 64 ++++---- src/tabixLoader.cpp | 3 src/vcf.c | 2 src/vcf2genoLoader.cpp | 287 +++++++++++++++++++++------------------- 22 files changed, 802 insertions(+), 449 deletions(-)
Title: NASA POWER API Client
Description: Client for 'NASA' 'POWER' global meteorology, surface solar
energy and climatology data 'API'. 'POWER' (Prediction Of Worldwide Energy
Resource) data are freely available global meteorology and surface solar
energy climatology data for download with a resolution of 1/2 by 1/2 arc
degree longitude and latitude and are funded through the 'NASA' Earth
Science Directorate Applied Science Program. For more on the data
themselves, a web-based data viewer and web access, please see
<https://power.larc.nasa.gov/>.
Author: Adam H. Sparks [aut, cre] (<https://orcid.org/0000-0002-0061-8359>),
Scott Chamberlain [rev] (<https://orcid.org/0000-0003-1444-9135>),
Hazel Kavili [rev],
Alison Boyer [rev]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between nasapower versions 1.0.2 dated 2018-10-18 and 1.0.4 dated 2019-01-08
DESCRIPTION | 18 +-- MD5 | 55 +++++----- NEWS.md | 34 +++++- R/create_icasa.R | 46 ++++---- R/create_met.R | 55 +++++----- R/get_power.R | 118 +++++++++++---------- R/internal_functions.R | 73 ++++++------- R/nasapower-package.R | 25 ++-- R/parameters_data.R | 10 + README.md | 9 - build/vignette.rds |binary data/parameters.rda |binary inst/CITATION | 22 +++- inst/doc/nasapower.Rmd | 105 +++++++++++-------- inst/doc/nasapower.html | 199 +++++++++++++++++++++---------------- inst/paper/paper.bib | 84 +++++++++------ inst/paper/paper.md | 94 +++++++++-------- man/create_icasa.Rd | 73 +++++++------ man/create_met.Rd | 82 +++++++-------- man/get_power.Rd | 153 ++++++++++++++-------------- man/nasapower.Rd | 26 ++-- man/parameters.Rd | 8 - tests/fixtures |only tests/testthat/test-create_icasa.R | 3 tests/testthat/test-create_met.R | 3 tests/testthat/test-get_power.R | 21 +-- vignettes/nasapower.Rmd | 105 +++++++++++-------- 27 files changed, 800 insertions(+), 621 deletions(-)
Title: Freshing Up your 'ggplot2' Plots
Description: Functions for working with legends and axis lines of 'ggplot2',
facets that repeat axis lines on all panels, and some 'knitr' extensions.
Author: Stefan McKinnon Edwards [aut, ctb, cre]
(<https://orcid.org/0000-0002-4628-8148>),
Baptiste Auguie [ctb] (For g_legend and grid_arrange_shared_legend),
Shaun Jackman [ctb] (For grid_arrange_shared_legend),
Hadley Wickham [ctb] (ggplot2 functions),
Winston Chang [ctb] (ggplot2 functions)
Maintainer: Stefan McKinnon Edwards <sme@iysik.com>
Diff between lemon versions 0.4.2 dated 2018-10-30 and 0.4.3 dated 2019-01-08
DESCRIPTION | 10 ++--- MD5 | 20 +++++------ build/vignette.rds |binary inst/doc/capped-axes.html | 42 +++++++++++++++-------- inst/doc/facet-rep-labels.html | 6 +-- inst/doc/gtable_show_lemonade.html | 8 ++-- inst/doc/legends.html | 44 ++++++++++++------------- inst/doc/lemon_print.R | 15 ++++---- inst/doc/lemon_print.Rmd | 18 +++++----- inst/doc/lemon_print.html | 65 ++----------------------------------- vignettes/lemon_print.Rmd | 18 +++++----- 11 files changed, 105 insertions(+), 141 deletions(-)
Title: Automatic Codebooks from Survey Metadata Encoded in Attributes
Description: Easily automate the following tasks to describe data frames:
summarise the distributions of scales and items graphically and using descriptive statistics,
compute reliabilities (internal consistencies, retest, multilevel) for psychological scales,
combine this information with metadata (such as item labels and labelled values) that is derived from R attributes.
To do so, the package relies on 'rmarkdown' partials, so you can generate HTML, PDF, and Word documents. Codebooks
are also available as tables (CSV, Excel, etc.).
The metadata and codebooks are also available at your fingertips via RStudio Addins.
Author: Ruben Arslan [aut, cre]
Maintainer: Ruben Arslan <ruben.arslan@gmail.com>
Diff between codebook versions 0.7.5 dated 2018-12-04 and 0.7.6 dated 2019-01-08
codebook-0.7.5/codebook/inst/doc/codebook_tutorial.pdf |only codebook-0.7.5/codebook/vignettes/codebook_tutorial.html |only codebook-0.7.6/codebook/DESCRIPTION | 6 codebook-0.7.6/codebook/MD5 | 43 ++--- codebook-0.7.6/codebook/NEWS.md | 4 codebook-0.7.6/codebook/R/plot_helpers.R | 1 codebook-0.7.6/codebook/build/vignette.rds |binary codebook-0.7.6/codebook/inst/doc/codebook.Rmd | 4 codebook-0.7.6/codebook/inst/doc/codebook.html | 75 +++++++++- codebook-0.7.6/codebook/inst/doc/codebook_labelled_manual.html | 68 ++++++--- codebook-0.7.6/codebook/inst/doc/codebook_nested_scale.Rmd | 2 codebook-0.7.6/codebook/inst/doc/codebook_nested_scale.html | 28 +++ codebook-0.7.6/codebook/inst/doc/codebook_qualtrics.Rmd | 2 codebook-0.7.6/codebook/inst/doc/codebook_qualtrics.html | 28 +++ codebook-0.7.6/codebook/inst/doc/codebook_sav.Rmd | 2 codebook-0.7.6/codebook/inst/doc/codebook_sav.html | 30 +++- codebook-0.7.6/codebook/inst/doc/codebook_tutorial.R | 31 +--- codebook-0.7.6/codebook/inst/doc/codebook_tutorial.Rmd | 30 ++-- codebook-0.7.6/codebook/inst/doc/codebook_tutorial.html |only codebook-0.7.6/codebook/vignettes/codebook.Rmd | 4 codebook-0.7.6/codebook/vignettes/codebook_nested_scale.Rmd | 2 codebook-0.7.6/codebook/vignettes/codebook_qualtrics.Rmd | 2 codebook-0.7.6/codebook/vignettes/codebook_sav.Rmd | 2 codebook-0.7.6/codebook/vignettes/codebook_tutorial.Rmd | 30 ++-- 24 files changed, 283 insertions(+), 111 deletions(-)
Title: Functions for Base Types and Core R and 'Tidyverse' Features
Description: A toolbox for working with base types, core R features
like the condition system, and core 'Tidyverse' features like tidy
evaluation.
Author: Lionel Henry [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Lionel Henry <lionel@rstudio.com>
Diff between rlang versions 0.3.0.1 dated 2018-10-25 and 0.3.1 dated 2019-01-08
DESCRIPTION | 10 MD5 | 267 +++++----- NAMESPACE | 11 NEWS.md | 164 ++++++ R/attr.R | 9 R/call.R | 166 ++++-- R/cnd-handlers.R | 17 R/cnd.R | 254 +++++---- R/compat-lifecycle.R |only R/compat-purrr.R | 9 R/deparse.R | 191 ++++++- R/dots.R | 6 R/env-binding.R | 2 R/env.R | 11 R/eval-tidy.R | 96 +++ R/eval.R | 4 R/exec.R | 12 R/expr.R | 50 - R/fn.R | 171 +++++- R/lifecycle-retired.R | 38 - R/lifecycle.R | 48 - R/quasiquotation.R | 18 R/quo.R | 61 ++ R/quotation.R | 12 R/rlang.R | 9 R/s3.R | 98 +++ R/sexp.R | 7 R/stack.R | 6 R/state.R | 53 + R/sym.R | 61 ++ R/trace.R | 106 ++- R/types.R | 21 R/utils-cli-tree.R | 17 R/utils.R | 15 R/vec-coerce.R | 14 README.md | 6 build/rlang.pdf |binary man/as_box.Rd |only man/as_label.Rd |only man/as_name.Rd |only man/as_string.Rd |only man/box.Rd | 21 man/call2.Rd | 56 +- man/call_name.Rd | 17 man/catch_cnd.Rd | 10 man/cnd_muffle.Rd | 6 man/done.Rd |only man/entrace.Rd |only man/env_bind.Rd | 2 man/env_bind_exprs.Rd | 2 man/env_bury.Rd | 2 man/eval_tidy.Rd | 70 ++ man/eval_tidy_.Rd | 2 man/exec.Rd | 8 man/exiting.Rd | 6 man/figures/lifecycle-retired.svg |only man/is_interactive.Rd |only man/last_error.Rd | 11 man/quasiquotation.Rd | 12 man/quo_label.Rd | 23 man/quosure.Rd | 28 - man/vector-coercion.Rd | 3 man/with_abort.Rd | 7 src/export/exported-tests.c | 11 src/export/exported.c | 15 src/export/init.c | 8 src/internal/arg.c | 6 src/internal/dots.c | 34 - src/internal/eval-tidy.c | 16 src/internal/expr-interp-rotate.c | 10 src/internal/expr-interp.c | 17 src/internal/utils.c | 2 src/lib/cnd.c | 43 - src/lib/cnd.h | 4 src/lib/env.c | 31 + src/lib/env.h | 2 src/lib/sym-unescape.c | 5 tests/testthat/helper-cnd.R | 14 tests/testthat/setup-tests.R |only tests/testthat/teardown-tests.R |only tests/testthat/test-call.R | 46 + tests/testthat/test-cnd-error-parent-default.txt | 16 tests/testthat/test-cnd-error-parent.txt | 63 +- tests/testthat/test-cnd-error-print-base-parent.txt |only tests/testthat/test-cnd-error-str.txt | 37 - tests/testthat/test-cnd-error.txt | 8 tests/testthat/test-cnd.R | 251 ++++++++- tests/testthat/test-deparse.R | 96 +++ tests/testthat/test-env-binding.R | 2 tests/testthat/test-env.R | 10 tests/testthat/test-eval-tidy.R | 8 tests/testthat/test-expr.R | 26 tests/testthat/test-fn.R | 86 +++ tests/testthat/test-lifecycle.R |only tests/testthat/test-on-error-message-options.txt | 30 - tests/testthat/test-parse.R | 7 tests/testthat/test-quasiquotation.R | 25 tests/testthat/test-quo.R | 6 tests/testthat/test-quotation.R | 16 tests/testthat/test-retired.R | 8 tests/testthat/test-s3.R | 30 + tests/testthat/test-state.R | 10 tests/testthat/test-sym.R | 2 tests/testthat/test-trace-backtrace-anonymous.txt | 8 tests/testthat/test-trace-backtrace-branch-first-frame.txt | 16 tests/testthat/test-trace-call-car-promise.txt | 16 tests/testthat/test-trace-collapse-children.txt | 24 tests/testthat/test-trace-collapse-eval.txt | 34 - tests/testthat/test-trace-collapse-evalq.txt | 34 - tests/testthat/test-trace-collapse-magrittr-before-after1.txt | 35 - tests/testthat/test-trace-collapse-magrittr-before-after2.txt | 35 - tests/testthat/test-trace-collapse-magrittr-before-after3.txt | 41 - tests/testthat/test-trace-collapse-magrittr-children.txt | 44 - tests/testthat/test-trace-collapse-magrittr-complete-leading1.txt | 30 - tests/testthat/test-trace-collapse-magrittr-complete-leading2.txt | 32 - tests/testthat/test-trace-collapse-magrittr-complete1.txt | 29 - tests/testthat/test-trace-collapse-magrittr-complete2.txt | 30 - tests/testthat/test-trace-collapse-magrittr-incomplete-leading1.txt | 10 tests/testthat/test-trace-collapse-magrittr-incomplete-leading2.txt | 30 - tests/testthat/test-trace-collapse-magrittr-incomplete.txt | 28 - tests/testthat/test-trace-collapse-magrittr.txt | 32 - tests/testthat/test-trace-collapse-magrittr2.txt | 32 - tests/testthat/test-trace-collapse-magrittr3.txt | 36 - tests/testthat/test-trace-collapsed1.txt | 66 +- tests/testthat/test-trace-collapsed2.txt | 56 +- tests/testthat/test-trace-dangling-srcref.txt | 16 tests/testthat/test-trace-degenerate-null.txt | 10 tests/testthat/test-trace-degenerate-scalar.txt | 10 tests/testthat/test-trace-degenerate-sym.txt | 10 tests/testthat/test-trace-global-prefix.txt | 16 tests/testthat/test-trace-non-collapsed-eval | 22 tests/testthat/test-trace-print.txt | 10 tests/testthat/test-trace-recursive.txt | 22 tests/testthat/test-trace-summary.txt | 8 tests/testthat/test-trace-trim.txt | 52 - tests/testthat/test-trace-truncate-backtrace-branch.txt | 44 - tests/testthat/test-trace-unexported-prefix.txt | 22 tests/testthat/test-trace.R | 9 tests/testthat/test-types.R | 2 tests/testthat/test-vec-coerce.R | 2 tests/testthat/test-with-abort.txt | 55 +- 141 files changed, 2935 insertions(+), 1400 deletions(-)
Title: Spatio-Temporal Generalised Linear Mixed Models for Areal Unit
Data
Description: Implements a class of spatio-temporal generalised linear mixed models for areal unit data, with inference in a Bayesian setting using Markov chain Monte Carlo (MCMC) simulation. The response variable can be binomial, Gaussian, or Poisson, but for some models only the binomial and Poisson data likelihoods are available. The spatio-temporal autocorrelation is modelled by random effects, which are assigned conditional autoregressive (CAR) style prior distributions. A number of different random effects structures are available, including Bernardinelli et al. (1995) <doi:10.1002/sim.4780142112>, Rushworth et al. (2014) <doi:10.1016/j.sste.2014.05.001> and Lee et al. (2016) <doi:10.1214/16-AOAS941>. Full details are given in the vignette accompanying this package. The creation of this package was supported by the Engineering and Physical Sciences Research Council (EPSRC) grant EP/J017442/1 and the Medical Research Council (MRC) grant MR/L022184/1.
Author: Duncan Lee, Alastair Rushworth and Gary Napier
Maintainer: Duncan Lee <Duncan.Lee@glasgow.ac.uk>
Diff between CARBayesST versions 3.0 dated 2018-09-27 and 3.0.1 dated 2019-01-08
DESCRIPTION | 8 +- MD5 | 14 +-- R/print.CARBayesST.R | 166 +++++++++++++++++++++++----------------------- inst/doc/CARBayesST.R | 46 ++++++------ inst/doc/CARBayesST.Rnw | 6 + inst/doc/CARBayesST.pdf |binary man/CARBayesST-package.Rd | 4 - vignettes/CARBayesST.Rnw | 6 + 8 files changed, 128 insertions(+), 122 deletions(-)
Title: Functions to Support the ICES Transparent Assessment Framework
Description: Functions to support the ICES Transparent Assessment Framework
<http://taf.ices.dk> to organize data, methods, and results used in ICES
assessments. ICES is an organization facilitating international collaboration
in marine science.
Author: Arni Magnusson [aut, cre],
Colin Millar [aut]
Maintainer: Arni Magnusson <arni.magnusson@ices.dk>
Diff between icesTAF versions 2.0-0 dated 2018-12-07 and 2.1-0 dated 2019-01-08
icesTAF-2.0-0/icesTAF/R/os.unix.R |only icesTAF-2.0-0/icesTAF/R/os.windows.R |only icesTAF-2.0-0/icesTAF/man/os.unix.Rd |only icesTAF-2.1-0/icesTAF/DESCRIPTION | 10 +++--- icesTAF-2.1-0/icesTAF/MD5 | 43 +++++++++++++++------------ icesTAF-2.1-0/icesTAF/NAMESPACE | 13 ++++++++ icesTAF-2.1-0/icesTAF/NEWS | 22 +++++++++++++ icesTAF-2.1-0/icesTAF/R/clean.R | 16 ++++++---- icesTAF-2.1-0/icesTAF/R/div.R | 2 - icesTAF-2.1-0/icesTAF/R/draft.data.R |only icesTAF-2.1-0/icesTAF/R/draft.software.R |only icesTAF-2.1-0/icesTAF/R/icesTAF-package.R | 13 ++++++-- icesTAF-2.1-0/icesTAF/R/os.R |only icesTAF-2.1-0/icesTAF/R/plus.R | 9 +++++ icesTAF-2.1-0/icesTAF/R/process.bib.R |only icesTAF-2.1-0/icesTAF/R/rnd.R | 2 - icesTAF-2.1-0/icesTAF/R/sourceTAF.R | 2 + icesTAF-2.1-0/icesTAF/R/taf.bootstrap.R |only icesTAF-2.1-0/icesTAF/R/taf.colors.R | 13 +++++++- icesTAF-2.1-0/icesTAF/data/taf.colors.rda |binary icesTAF-2.1-0/icesTAF/man/clean.Rd | 7 ++-- icesTAF-2.1-0/icesTAF/man/draft.data.Rd |only icesTAF-2.1-0/icesTAF/man/draft.software.Rd |only icesTAF-2.1-0/icesTAF/man/icesTAF-package.Rd | 13 ++++++-- icesTAF-2.1-0/icesTAF/man/os.Rd |only icesTAF-2.1-0/icesTAF/man/plus.Rd | 4 ++ icesTAF-2.1-0/icesTAF/man/process.bib.Rd |only icesTAF-2.1-0/icesTAF/man/taf.bootstrap.Rd |only icesTAF-2.1-0/icesTAF/man/taf.colors.Rd | 12 ++++++- 29 files changed, 141 insertions(+), 40 deletions(-)
Title: Reverse Engineering Summarized Data
Description: Decoupled (e.g. separate averages) and censored (e.g. > 100 species) variables are continually reported by many well-established organizations (e.g. World Health Organization (WHO), Centers for Disease Control and Prevention (CDC), World Bank, and various national censuses). The challenge therefore is to infer what the original data could have been given summarized information. We present an R package that reverse engineers decoupled and/or censored count data with two main functions. The cnbinom.pars function estimates the average and dispersion parameter of a censored univariate frequency table. The rec function reverse engineers summarized data into an uncensored bivariate table of probabilities.
Author: Samantha Duchscherer [aut, cre],
UT-Battelle, LLC [cph]
Maintainer: Samantha Duchscherer <sam.duchscherer@gmail.com>
Diff between revengc versions 1.0.3 dated 2018-09-24 and 1.0.4 dated 2019-01-08
DESCRIPTION | 10 - MD5 | 28 +-- R/format_data_for_functions.R | 1 R/rec_function.R | 19 +- R/reweight.contingencytable.R | 4 R/reweight.univariatetable.R | 2 README.md | 10 - inst/doc/duchscherer-stewart-urban.ltx | 284 ++++++++++++++------------------ inst/doc/duchscherer-stewart-urban.pdf |binary man/rec.Rd | 4 man/seedmatrix.Rd | 2 vignettes/Thumbs.db |binary vignettes/duchscherer-stewart-urban.bib | 99 ++++++----- vignettes/duchscherer-stewart-urban.ltx | 284 ++++++++++++++------------------ vignettes/workflow_overview.png |binary 15 files changed, 360 insertions(+), 387 deletions(-)
Title: Multi-Data-Driven Sparse PLS Robust to Missing Samples
Description: Allows to build Multi-Data-Driven Sparse PLS models. Multi-blocks with
high-dimensional settings are particularly sensible to this.
Author: Hadrien Lorenzo [aut, cre],
Jerome Saracco [aut],
Rodolphe Thiebaut [aut]
Maintainer: Hadrien Lorenzo <hadrien.lorenzo.2015@gmail.com>
Diff between ddsPLS versions 1.0.51 dated 2019-01-03 and 1.0.53 dated 2019-01-08
DESCRIPTION | 18 ++++++++++++------ MD5 | 10 +++++----- R/mddsPLS.R | 1 + R/plot.perf_mddsPLS.R | 18 +++++++++++------- build/partial.rdb |binary inst/doc/ddsPLS.html | 4 ++-- 6 files changed, 31 insertions(+), 20 deletions(-)
Title: Design of Risk Parity Portfolios
Description: Fast design of risk parity portfolios for financial investment.
The goal of the risk parity portfolio formulation is to equalize or distribute
the risk contributions of the different assets, which is missing if we simply
consider the overall volatility of the portfolio as in the mean-variance
Markowitz portfolio. In addition to the vanilla formulation, where the risk
contributions are perfectly equalized subject to no shortselling and budget
constraints, many other formulations are considered that allow for box
constraints and shortselling, as well as the inclusion of additional
objectives like the expected return and overall variance. See vignette for
a detailed documentation and comparison, with several illustrative examples.
The package is based on the papers:
Y. Feng, and D. P. Palomar (2015). SCRIP: Successive Convex Optimization Methods
for Risk Parity Portfolio Design. IEEE Trans. on Signal Processing, vol. 63,
no. 19, pp. 5285-5300. <doi:10.1109/TSP.2015.2452219>.
F. Spinu (2013), An Algorithm for Computing Risk Parity Weights.
<doi:10.2139/ssrn.2297383>.
T. Griveau-Billion, J. Richard, and T. Roncalli (2013). A fast algorithm for computing
High-dimensional risk parity portfolios. <arXiv:1311.4057>.
Author: Ze Vinicius [aut],
Daniel P. Palomar [cre, aut]
Maintainer: Daniel P. Palomar <daniel.p.palomar@gmail.com>
Diff between riskParityPortfolio versions 0.1.0 dated 2018-12-25 and 0.1.1 dated 2019-01-08
riskParityPortfolio-0.1.0/riskParityPortfolio/inst/doc/RiskParityPortfolio-html-vignette.html |only riskParityPortfolio-0.1.0/riskParityPortfolio/inst/doc/RiskParityPortfolio-html-vignette.html.asis |only riskParityPortfolio-0.1.0/riskParityPortfolio/inst/doc/RiskParityPortfolio-pdf-vignette.pdf |only riskParityPortfolio-0.1.0/riskParityPortfolio/inst/doc/RiskParityPortfolio-pdf-vignette.pdf.asis |only riskParityPortfolio-0.1.0/riskParityPortfolio/vignettes/RiskParityPortfolio-html-vignette.html.asis |only riskParityPortfolio-0.1.0/riskParityPortfolio/vignettes/RiskParityPortfolio-pdf-vignette.pdf.asis |only riskParityPortfolio-0.1.1/riskParityPortfolio/DESCRIPTION | 37 riskParityPortfolio-0.1.1/riskParityPortfolio/MD5 | 52 riskParityPortfolio-0.1.1/riskParityPortfolio/NEWS.md | 12 riskParityPortfolio-0.1.1/riskParityPortfolio/R/RcppExports.R | 12 riskParityPortfolio-0.1.1/riskParityPortfolio/R/riskParityPortfolio-package.R | 32 riskParityPortfolio-0.1.1/riskParityPortfolio/R/riskParityPortfolio.R | 541 ++++------ riskParityPortfolio-0.1.1/riskParityPortfolio/README.md | 106 + riskParityPortfolio-0.1.1/riskParityPortfolio/build/vignette.rds |binary riskParityPortfolio-0.1.1/riskParityPortfolio/inst/CITATION | 13 riskParityPortfolio-0.1.1/riskParityPortfolio/inst/doc/RiskParityPortfolio-pdf.pdf |only riskParityPortfolio-0.1.1/riskParityPortfolio/inst/doc/RiskParityPortfolio-pdf.pdf.asis |only riskParityPortfolio-0.1.1/riskParityPortfolio/inst/doc/RiskParityPortfolio.html |only riskParityPortfolio-0.1.1/riskParityPortfolio/inst/doc/RiskParityPortfolio.html.asis |only riskParityPortfolio-0.1.1/riskParityPortfolio/man/riskParityPortfolio-package.Rd | 28 riskParityPortfolio-0.1.1/riskParityPortfolio/man/riskParityPortfolio.Rd | 163 +-- riskParityPortfolio-0.1.1/riskParityPortfolio/src/RcppExports.cpp | 46 riskParityPortfolio-0.1.1/riskParityPortfolio/src/cyclical_coordinate_descent.cc | 54 riskParityPortfolio-0.1.1/riskParityPortfolio/src/cyclical_coordinate_descent.h | 3 riskParityPortfolio-0.1.1/riskParityPortfolio/src/objfunctions.cc | 4 riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-boxConstraints.R | 30 riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-checks.R |only riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-meanReturn.R | 42 riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-newton-cyclical.R | 10 riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-point-feasibility.R |only riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-riskFormulations.R | 17 riskParityPortfolio-0.1.1/riskParityPortfolio/tests/testthat/test-riskFormulationsGradients.R | 154 +- riskParityPortfolio-0.1.1/riskParityPortfolio/vignettes/RiskParityPortfolio-pdf.pdf.asis |only riskParityPortfolio-0.1.1/riskParityPortfolio/vignettes/RiskParityPortfolio.html.asis |only 34 files changed, 734 insertions(+), 622 deletions(-)
More information about riskParityPortfolio at CRAN
Permanent link
Title: Toolkit for Data Analytics in Human Resources
Description: Transform employee data in meaningful ways. Two functions, 'hierarchyLong' and
'hierarchyWide', convert standard employee and supervisor relationship data
into useful formats for human resources (HR) analytics.
Author: Dale Kube [aut, cre]
Maintainer: Dale Kube <dkube@uwalumni.com>
Diff between hR versions 0.1.4 dated 2018-11-26 and 0.1.6 dated 2019-01-08
DESCRIPTION | 14 +++++++---- MD5 | 17 +++++++++----- R/hierarchyLong.R | 45 +++++++++++++++++++++++++------------ R/hierarchyWide.R | 61 ++++++++++++++++++++++++++++++++------------------- README.md | 4 ++- build |only inst |only man/hierarchyLong.Rd | 22 +++++++++--------- man/hierarchyWide.Rd | 19 +++++++-------- vignettes |only 10 files changed, 112 insertions(+), 70 deletions(-)
Title: Mining Rigs for Specialized Subset Sum, Multi-Subset Sum,
Multidimensional Subset Sum, Multidimensional Knapsack,
Generalized Assignment Problems
Description: Specialized solvers for combinatorial optimization problems in the Subset Sum family. These solvers differ from the mainstream in the options of (i) restricting subset size, (ii) bounding subset elements, (iii) mining real-value sets with predefined subset sum errors, and (iv) finding one or more subsets in limited time. A novel algorithm for mining the one-dimensional Subset Sum induced algorithms for the multi-Subset Sum and the multidimensional Subset Sum. The latter decomposes the problem in a novel approach, and the multi-threaded framework offers exact algorithms to the multidimensional Knapsack and the Generalized Assignment problems. Package updates include (a) renewed implementation of the multi-Subset Sum, multidimensional Knapsack and Generalized Assignment solvers; (b) availability of bounding solution space in the multidimensional Subset Sum; (c) fundamental data structure and architectural changes for enhanced cache locality and better chance of SIMD vectorization; (d) an option of mapping real-domain problems to the integer domain with user-controlled precision loss, and those integers are further zipped non-uniformly in 64-bit buffers. Arithmetic on compressed integers is done by bit-manipulation and the design has virtually zero speed lag relative to normal integers arithmetic. The consequent reduction in dimensionality may yield substantial acceleration. Compilation with g++ '-Ofast' is recommended. See package vignette (<arXiv:1612.04484v3>) for details. Functions prefixed with 'aux' (auxiliary) are or will be implementations of existing foundational or cutting-edge algorithms for solving optimization problems of interest.
Author: Charlie Wusuo Liu
Maintainer: Charlie Wusuo Liu <liuwusuo@gmail.com>
Diff between FLSSS versions 7.7 dated 2018-11-22 and 8.3 dated 2019-01-08
FLSSS-7.7/FLSSS/tests/GAPspeedCalibration.Rdata |only FLSSS-8.3/FLSSS/DESCRIPTION | 8 FLSSS-8.3/FLSSS/MD5 | 123 - FLSSS-8.3/FLSSS/NAMESPACE | 3 FLSSS-8.3/FLSSS/R/RcppExports.R | 24 FLSSS-8.3/FLSSS/R/auxGAP.r |only FLSSS-8.3/FLSSS/R/gap.r | 1 FLSSS-8.3/FLSSS/inst/NEWS.Rd | 8 FLSSS-8.3/FLSSS/man/GAP.Rd | 12 FLSSS-8.3/FLSSS/man/auxGAPbb.Rd |only FLSSS-8.3/FLSSS/man/auxGAPbbDp.Rd |only FLSSS-8.3/FLSSS/man/auxKnapsack01bb.Rd |only FLSSS-8.3/FLSSS/man/auxKnapsack01dp.Rd |only FLSSS-8.3/FLSSS/man/mmKnapsack.Rd | 4 FLSSS-8.3/FLSSS/src/BaB01kp.cpp |only FLSSS-8.3/FLSSS/src/BaBgapMulthreadKPs.cpp |only FLSSS-8.3/FLSSS/src/BaBgapMulthreadNodes.cpp |only FLSSS-8.3/FLSSS/src/DP01kp.cpp |only FLSSS-8.3/FLSSS/src/DPgapMultithreadKPs.cpp |only FLSSS-8.3/FLSSS/src/DPgapMultithreadNodes.cpp |only FLSSS-8.3/FLSSS/src/GAP.cpp | 4 FLSSS-8.3/FLSSS/src/Gknapsack.cpp | 4 FLSSS-8.3/FLSSS/src/RcppExports.cpp | 112 + FLSSS-8.3/FLSSS/src/findBoundInterface.cpp | 4 FLSSS-8.3/FLSSS/src/flsss.cpp | 4 FLSSS-8.3/FLSSS/src/flsssVariableTree.cpp | 4 FLSSS-8.3/FLSSS/src/header/BaB01kp.hpp |only FLSSS-8.3/FLSSS/src/header/DP01kp.hpp |only FLSSS-8.3/FLSSS/src/header/PATclass.hpp | 1153 +++++----- FLSSS-8.3/FLSSS/src/header/dnyTasking.hpp | 256 -- FLSSS-8.3/FLSSS/src/header/integerize.hpp | 311 +- FLSSS-8.3/FLSSS/src/header/mPATclass.hpp | 973 ++++----- FLSSS-8.3/FLSSS/src/header/macros.hpp | 23 FLSSS-8.3/FLSSS/src/header/mflsssOBJ.hpp | 2413 +++++++++++------------ FLSSS-8.3/FLSSS/src/header/mvalFindBound.hpp | 978 ++++----- FLSSS-8.3/FLSSS/src/header/mvalOperation.hpp | 811 +++---- FLSSS-8.3/FLSSS/src/header/oneDfindBound.hpp | 541 ++--- FLSSS-8.3/FLSSS/src/header/oneDoperation.hpp | 269 +- FLSSS-8.3/FLSSS/src/header/raiseSupressBound.hpp | 242 -- FLSSS-8.3/FLSSS/src/header/singleDstack.hpp | 219 -- FLSSS-8.3/FLSSS/src/header/triMat.hpp | 233 -- FLSSS-8.3/FLSSS/src/header/triMatOneD.hpp | 162 - FLSSS-8.3/FLSSS/src/legacy/BaB01kpOld.cpp |only FLSSS-8.3/FLSSS/src/legacy/GAP.cpp | 3 FLSSS-8.3/FLSSS/src/legacy/GAPintegerized.Rd | 341 +-- FLSSS-8.3/FLSSS/src/legacy/PATclass.hpp | 622 ++--- FLSSS-8.3/FLSSS/src/legacy/gap.r | 564 ++--- FLSSS-8.3/FLSSS/src/legacy/gapBaBold.cpp |only FLSSS-8.3/FLSSS/src/legacy/mPATclass.hpp | 1352 ++++++------ FLSSS-8.3/FLSSS/src/legacy/macros.hpp | 14 FLSSS-8.3/FLSSS/src/legacy/mflsssComo.cpp | 3 FLSSS-8.3/FLSSS/src/legacy/multiDIO.hpp | 732 +++--- FLSSS-8.3/FLSSS/src/legacy/multiDstack.hpp | 589 ++--- FLSSS-8.3/FLSSS/src/legacy/multiDstack02.hpp | 715 +++--- FLSSS-8.3/FLSSS/src/legacy/mvalFindBound.hpp | 1130 +++++----- FLSSS-8.3/FLSSS/src/legacy/mvalOperation.hpp | 669 +++--- FLSSS-8.3/FLSSS/src/legacy/oneDfindBound.hpp | 543 ++--- FLSSS-8.3/FLSSS/src/legacy/oneDoperation.hpp | 269 +- FLSSS-8.3/FLSSS/src/legacy/raiseSupressBound.hpp | 242 -- FLSSS-8.3/FLSSS/src/legacy/singleDIO.hpp | 281 +- FLSSS-8.3/FLSSS/src/legacy/singleDstack.hpp | 255 +- FLSSS-8.3/FLSSS/src/legacy/triMat.hpp | 182 - FLSSS-8.3/FLSSS/src/legacy/triMatOneD.hpp | 162 - FLSSS-8.3/FLSSS/src/mflsss.cpp | 4 FLSSS-8.3/FLSSS/src/mflsssComoPar.cpp | 4 FLSSS-8.3/FLSSS/src/mflsssVariableTree.cpp | 4 FLSSS-8.3/FLSSS/src/testIntegerize.cpp | 4 FLSSS-8.3/FLSSS/tests/debugTests/HSknapsack.r |only FLSSS-8.3/FLSSS/tests/examples/auxGAPbb.r |only FLSSS-8.3/FLSSS/tests/examples/auxGAPbbDp.r |only FLSSS-8.3/FLSSS/tests/examples/auxKnapsack01bb.r |only FLSSS-8.3/FLSSS/tests/examples/auxKnapsack01dp.r |only FLSSS-8.3/FLSSS/tests/gapInstances |only 73 files changed, 8472 insertions(+), 9111 deletions(-)
Title: Resource Selection (Probability) Functions for Use-Availability
Data
Description: Resource Selection (Probability) Functions
for use-availability wildlife data
based on weighted distributions as described in
Lele and Keim (2006) <doi:10.1890/0012-9658(2006)87[3021:WDAEOR]2.0.CO;2>,
Lele (2009) <doi:10.2193/2007-535>,
and Solymos & Lele (2016) <doi:10.1111/2041-210X.12432>.
Author: Subhash R. Lele [aut],
Jonah L. Keim [aut],
Peter Solymos [aut, cre] (<https://orcid.org/0000-0001-7337-1740>)
Maintainer: Peter Solymos <solymos@ualberta.ca>
Diff between ResourceSelection versions 0.3-2 dated 2017-02-28 and 0.3-4 dated 2019-01-08
DESCRIPTION | 24 +++++++++-- MD5 | 26 +++++++----- NAMESPACE | 7 ++- R/family.rsf.R |only R/kdepairs.default.R | 20 ++++++--- R/mep.default.R | 15 ++++--- R/mepdot.R | 98 ++++++++++++++++++++++++++--------------------- R/sindex.R |only R/vcov.rsf.R | 2 R/wrsi.R |only R/wrsidot.R |only man/makeUsedAvail.Rd | 4 - man/mep.Rd | 13 +++++- man/rsf.Rd | 2 man/simulateUsedAvail.Rd | 2 man/sindex.Rd |only tests |only 17 files changed, 136 insertions(+), 77 deletions(-)
More information about ResourceSelection at CRAN
Permanent link
Title: Overfitting Bayesian Mixtures of Factor Analyzers with
Parsimonious Covariance and Unknown Number of Components
Description: Model-based clustering of multivariate continuous data using Bayesian mixtures of factor analyzers (Papastamoulis (2018) <DOI:10.1016/j.csda.2018.03.007>). The number of clusters is estimated using overfitting mixture models (Rousseau and Mengersen (2011) <DOI:10.1111/j.1467-9868.2011.00781.x>): suitable prior assumptions ensure that asymptotically the extra components will have zero posterior weight, therefore, the inference is based on the ``alive'' components. A Gibbs sampler is implemented in order to (approximately) sample from the posterior distribution of the overfitting mixture. A prior parallel tempering scheme is also available, which allows to run multiple parallel chains with different prior distributions on the mixture weights. These chains run in parallel and can swap states using a Metropolis-Hastings move. Eight different parameterizations give rise to parsimonious representations of the covariance per cluster (following Mc Nicholas and Murphy (2008) <DOI:10.1007/s11222-008-9056-0>). The model parameterization and number of factors is selected according to the Bayesian Information Criterion. Identifiability issues related to label switching are dealt by post-processing the simulated output with the Equivalence Classes Representatives algorithm (Papastamoulis and Iliopoulos (2010) <https://www.jstor.org/stable/25703571>, Papastamoulis (2016) <DOI:10.18637/jss.v069.c01>).
Author: Panagiotis Papastamoulis [aut, cre]
(<https://orcid.org/0000-0001-9468-7613>)
Maintainer: Panagiotis Papastamoulis <papapast@yahoo.gr>
Diff between fabMix versions 4.4 dated 2018-11-28 and 4.5 dated 2019-01-08
DESCRIPTION | 8 ++--- MD5 | 10 +++---- R/fabMix.R | 67 ++++++++++++++++++++++++++------------------------ build/partial.rdb |binary man/fabMix-package.Rd | 8 ++--- man/fabMix.Rd | 9 ++---- 6 files changed, 53 insertions(+), 49 deletions(-)
Title: Collection of Functions for Statistical Election Audits
Description: This is a bizarre collection of functions written to do
various sorts of statistical election audits. There are also
functions to generate simulated voting data, and simulated
"truth" so as to do simulations to check characteristics of
these methods.
Author: Luke Miratrix
Maintainer: Luke Mirarix <luke@vzvz.org>
Diff between elec versions 0.1.2 dated 2011-07-25 and 0.1.2.1 dated 2019-01-08
DESCRIPTION | 14 ++++++++------ MD5 |only NAMESPACE |only data/marin.rda |binary data/santa.cruz.audit.rda |binary data/santa.cruz.rda |binary data/yolo.rda |binary 7 files changed, 8 insertions(+), 6 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-11-25 0.2.0
2016-08-23 0.1.1
2016-08-12 0.1.0
Title: Exact Sequential Analysis for Poisson and Binomial Data
Description: Functions to calculate exact critical values, statistical power, expected time to signal, and required sample sizes for performing exact sequential analysis. All these calculations can be done for either Poisson or binomial data, for continuous or group sequential analyses, and for different types of rejection boundaries. In case of group sequential analyses, the group sizes do not have to be specified in advance and the alpha spending can be arbitrarily settled.
Author: Ivair Ramos Silva and Martin Kulldorff
Maintainer: Ivair Ramos Silva <jamesivair@yahoo.com.br>
Diff between Sequential versions 2.3.2 dated 2017-08-02 and 3.0 dated 2019-01-08
DESCRIPTION | 11 ++++--- MD5 | 54 ++++++++++++++++++++---------------- NAMESPACE | 3 +- R/Analyze.Binomial.R | 24 ++++------------ R/Analyze.CondPoisson.R | 2 - R/Analyze.wBinomial.R |only R/AnalyzeSetUp.Binomial.R | 39 ++++++++++++++++++-------- R/AnalyzeSetUp.wBinomial.R |only R/Optimal.Binomial.R |only man/Analyze.Binomial.Rd | 17 ++++++++--- man/Analyze.CondPoisson.Rd | 2 - man/Analyze.Poisson.Rd | 7 +++- man/Analyze.wBinomial.Rd |only man/AnalyzeSetUp.Binomial.Rd | 45 ++++++++++++++++++++++-------- man/AnalyzeSetUp.CondPoisson.Rd | 2 - man/AnalyzeSetUp.Poisson.Rd | 6 +++- man/AnalyzeSetUp.wBinomial.Rd |only man/CV.Binomial.Rd | 2 - man/CV.CondPoisson.Rd | 2 - man/CV.G.Binomial.Rd | 2 - man/CV.G.Poisson.Rd | 2 - man/CV.Poisson.Rd | 2 - man/Optimal.Binomial.Rd |only man/Performance.Binomial.Rd | 2 - man/Performance.CondPoisson.Rd | 2 - man/Performance.G.Binomial.Rd | 2 - man/Performance.G.Poisson.Rd | 2 - man/Performance.Poisson.Rd | 2 - man/SampleSize.Binomial.Rd | 2 - man/SampleSize.Poisson.Rd | 2 - man/Sequential-package.Rd | 60 ++++++++++++++++++++++++++++------------ 31 files changed, 187 insertions(+), 109 deletions(-)
Title: Mid-Domain Effect and Species Richness
Description: Generates expected values of species richness, with continuous or
scattered ranges, for data across one or two dimensions.
Author: Aniruddha Marathe <aniruddha.pravin.marathe@gmail.com>
Maintainer: Aniruddha Marathe <aniruddha.pravin.marathe@gmail.com>
Diff between rangemodelR versions 1.0.3 dated 2018-08-18 and 1.0.4 dated 2019-01-08
DESCRIPTION | 6 +++--- MD5 | 13 +++++++++---- NAMESPACE | 1 + R/range_shuffle.R |only R/rangedata.R |only R/rangemodelR-package.R | 2 +- data/rangedata.rda |only man/range_shuffle.Rd |only man/rangedata.Rd |only man/rangemodelR-package.Rd | 2 +- 10 files changed, 15 insertions(+), 9 deletions(-)
Title: Read and Write 'GraphPad Prism' Files
Description: Read and write 'GraphPad Prism' '.pzfx' files in R.
Author: Yue Jiang [aut, cre] (<https://orcid.org/0000-0002-9798-5517>)
Maintainer: Yue Jiang <rivehill@gmail.com>
Diff between pzfx versions 0.1.0 dated 2018-09-28 and 0.2.0 dated 2019-01-08
DESCRIPTION | 10 MD5 | 32 +- NAMESPACE | 1 NEWS.md | 7 R/pzfx_tables.R | 2 R/read_pzfx.R | 5 R/write_pzfx.R |only README.md | 9 build/vignette.rds |binary inst/doc/pzfx.R | 31 -- inst/doc/pzfx.Rmd | 49 +--- inst/doc/pzfx.html | 386 +++++++++++++++++++++++++++++------- inst/testdata/column_empty.pzfx |only inst/testdata/column_empty.tab |only inst/testdata/column_hugetable.pzfx |only inst/testdata/column_hugetable.tab |only inst/testdata/empty.pzfx |only man/write_pzfx.Rd |only tests/testthat/test_read_pzfx.R | 26 ++ tests/testthat/test_write_pzfx.R |only vignettes/pzfx.Rmd | 49 +--- 21 files changed, 433 insertions(+), 174 deletions(-)
Title: General-to-Specific (GETS) Modelling and Indicator Saturation
Methods
Description: Automated General-to-Specific (GETS) modelling of the mean and variance of a regression, and indicator saturation methods for detecting and testing for structural breaks in the mean.
Author: Genaro Sucarrat [aut, cre], Felix Pretis [aut], James Reade [aut]
Maintainer: Genaro Sucarrat <genaro.sucarrat@bi.no>
Diff between gets versions 0.16 dated 2018-08-28 and 0.17 dated 2019-01-08
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 4 ++-- NEWS | 8 +++++++- R/gets-internal.R | 4 ++-- R/printtex.R |only man/gets-package.Rd | 4 ++-- man/printtex.Rd |only 8 files changed, 24 insertions(+), 16 deletions(-)
Title: Streamlined Plot Theme and Plot Annotations for 'ggplot2'
Description: Some helpful extensions and modifications to the 'ggplot2'
package. In particular, this package makes it easy to combine multiple
'ggplot2' plots into one and label them with letters, e.g. A, B, C, etc.,
as is often required for scientific publications. The package also provides
a streamlined and clean theme that is used in the Wilke lab, hence the
package name, which stands for Claus O. Wilke's plot package.
Author: Claus O. Wilke [aut, cre],
RStudio [cph] (Copyright for ggplot2 code copied to cowplot)
Maintainer: Claus O. Wilke <wilke@austin.utexas.edu>
Diff between cowplot versions 0.9.3 dated 2018-07-15 and 0.9.4 dated 2019-01-08
DESCRIPTION | 12 ++++++------ MD5 | 40 ++++++++++++++++++++-------------------- NEWS | 4 ++++ inst/doc/axis_position.html | 10 +++++----- inst/doc/introduction.R | 28 ---------------------------- inst/doc/introduction.Rmd | 34 ---------------------------------- inst/doc/introduction.html | 9 +++------ inst/doc/plot_annotations.R | 7 +++++-- inst/doc/plot_annotations.Rmd | 9 ++++++--- inst/doc/plot_annotations.html | 24 +++++++++++++----------- inst/doc/plot_grid.html | 4 ++-- inst/doc/shared_legends.html | 12 ++++++------ man/add_sub.Rd | 5 +++-- man/axis_canvas.Rd | 4 ++-- man/background_grid.Rd | 4 ++-- man/draw_text.Rd | 4 ++-- man/ggsave.Rd | 6 +++--- man/plot_grid.Rd | 11 ++++++----- tests/testthat/Rplots.pdf |binary vignettes/introduction.Rmd | 34 ---------------------------------- vignettes/plot_annotations.Rmd | 9 ++++++--- 21 files changed, 94 insertions(+), 176 deletions(-)
Title: Easily Download and Visualise Climate Data from CliFlo
Description: CliFlo is a web portal to the New Zealand National Climate
Database and provides public access (via subscription) to around 6,500
various climate stations (see <https://cliflo.niwa.co.nz/> for more
information). Collating and manipulating data from CliFlo
(hence clifro) and importing into R for further analysis, exploration and
visualisation is now straightforward and coherent. The user is required to
have an internet connection, and a current CliFlo subscription (free) if
data from stations, other than the public Reefton electronic weather
station, is sought.
Author: Blake Seers [aut, cre] (<https://orcid.org/0000-0001-6841-4312>)
Maintainer: Blake Seers <blake.seers@gmail.com>
Diff between clifro versions 3.2-0 dated 2018-07-25 and 3.2-1 dated 2019-01-08
DESCRIPTION | 11 ++++---- MD5 | 42 ++++++++++++++++----------------- R/cfData-plotMethods.R | 4 +-- build/vignette.rds |binary inst/doc/cfStation.html | 4 +-- inst/doc/choose-datatype.html | 4 +-- inst/doc/choose-station.html | 4 +-- inst/doc/clifro.Rmd | 2 - inst/doc/clifro.html | 6 ++-- man/cfUser-class.Rd | 2 - man/cf_find_station.Rd | 3 +- man/clifro.Rd | 1 man/plot-cfEarthTemp-missing-method.Rd | 6 ++-- man/plot-cfPressure-missing-method.Rd | 6 ++-- man/plot-cfRain-missing-method.Rd | 4 +-- man/plot-cfScreenObs-missing-method.Rd | 6 ++-- man/plot-cfSunshine-missing-method.Rd | 6 ++-- man/plot-cfTemp-missing-method.Rd | 4 +-- man/plot-cfWind-missing-method.Rd | 16 ++++++------ man/valid_cfuser.Rd | 2 - man/windrose.Rd | 7 +++-- vignettes/clifro.Rmd | 2 - 22 files changed, 70 insertions(+), 72 deletions(-)
Title: Badge for R Package
Description: Query information and generate badge for using in README
and GitHub Pages.
Author: Guangchuang Yu [aut, cre] (<https://orcid.org/0000-0002-6485-8781>),
Gregor de Cillia [ctb]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between badger versions 0.0.2 dated 2017-03-08 and 0.0.4 dated 2019-01-08
DESCRIPTION | 16 - MD5 | 38 ++- NAMESPACE | 38 ++- R/badge.R | 490 +++++++++++++++++++++++++++----------------- R/gitaward.R | 42 +-- R/utilities.R | 2 man/badge_altmetric.Rd | 51 ++-- man/badge_bioc_download.Rd | 53 ++-- man/badge_bioc_release.Rd | 45 +--- man/badge_code_size.Rd |only man/badge_coveralls.Rd |only man/badge_cran_download.Rd |only man/badge_cran_release.Rd |only man/badge_custom.Rd | 53 ++-- man/badge_devel.Rd | 39 +-- man/badge_doi.Rd | 48 ++-- man/badge_download_bioc.Rd | 41 +-- man/badge_github_version.Rd | 45 +--- man/badge_last_commit.Rd |only man/badge_lifecycle.Rd |only man/badge_sci_citation.Rd |only man/badge_travis.Rd |only man/gitaward.Rd | 48 +--- man/ver_devel.Rd | 41 +-- 24 files changed, 605 insertions(+), 485 deletions(-)