Title: Regression Estimation and Presentation
Description: A collection of functions for interpretation and presentation
of regression analysis. These functions are used
to produce the statistics lectures in
<http://pj.freefaculty.org/guides>. Includes regression
diagnostics, regression tables, and plots of interactions and
"moderator" variables. The emphasis is on "mean-centered" and
"residual-centered" predictors. The vignette 'rockchalk' offers a
fairly comprehensive overview. The vignette 'Rstyle' has advice
about coding in R. The package title 'rockchalk' refers to our
school motto, 'Rock Chalk Jayhawk, Go K.U.'.
Author: Paul E. Johnson [aut, cre],
Gabor Grothendieck [ctb]
Maintainer: Paul E. Johnson <pauljohn@ku.edu>
Diff between rockchalk versions 1.8.111 dated 2018-05-14 and 1.8.117 dated 2018-09-12
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Title: Joint Estimation in Linear Quantile Regression
Description: Joint estimation of quantile specific intercept and slope parameters in a linear regression setting.
Author: Surya Tokdar <surya.tokdar@duke.edu> and Erika Cunningham <erika.ball@duke.edu>
Maintainer: Surya Tokdar <surya.tokdar@duke.edu>
Diff between qrjoint versions 1.0-0 dated 2016-03-16 and 2.0-1 dated 2018-09-12
DESCRIPTION | 12 MD5 | 28 - NAMESPACE | 6 R/qrjoint.R | 986 ++++++++++++++++++++++++++++++------ man/chull.center.Rd | 2 man/coef.qde.Rd |only man/coef.qrjoint.Rd | 21 man/getBands.Rd | 2 man/predict.qde.Rd |only man/predict.qrjoint.Rd |only man/qde.Rd |only man/qrjoint-internal.Rd | 2 man/qrjoint.Rd | 91 +-- man/summary.qde.Rd |only man/summary.qrjoint.Rd | 55 +- man/waic.Rd | 23 src/qrjoint.c | 1194 +++++++++++++++++++++++++++++++++++++------- src/registerDynamicSymbol.c |only 18 files changed, 1976 insertions(+), 446 deletions(-)
Title: A Wrapper Around 'rjags' to Streamline 'JAGS' Analyses
Description: A set of wrappers around 'rjags' functions to run Bayesian analyses in 'JAGS' (specifically, via 'libjags'). A single function call can control adaptive, burn-in, and sampling MCMC phases, with MCMC chains run in sequence or in parallel. Posterior distributions are automatically summarized (with the ability to exclude some monitored nodes if desired) and functions are available to generate figures based on the posteriors (e.g., predictive check plots, traceplots). Function inputs, argument syntax, and output format are nearly identical to the 'R2WinBUGS'/'R2OpenBUGS' packages to allow easy switching between MCMC samplers.
Author: Ken Kellner <contact@kenkellner.com>
Maintainer: Ken Kellner <contact@kenkellner.com>
Diff between jagsUI versions 1.4.9 dated 2017-12-12 and 1.5.0 dated 2018-09-12
DESCRIPTION | 9 ++++----- MD5 | 34 +++++++++++++++++----------------- NEWS | 9 +++++++++ R/View.R | 4 +++- R/autojags.R | 17 +++++++++++++---- R/datacheck.R | 10 +++++----- R/geninits.R | 19 +++++++++++-------- R/jags.R | 11 ++++++++++- R/jagsbasic.R | 5 +++-- R/orderparams.R | 4 ++-- R/print.R | 2 +- R/processoutput.R | 44 ++++++++++++++++++++++++++++++++------------ R/runparallel.R | 2 +- R/summary.R | 2 +- R/summarymatrix.R | 30 +++++++++++++++++++++++++++--- R/update.R | 4 ++-- R/updatebasic.R | 6 +++--- man/update.Rd | 5 ++--- 18 files changed, 146 insertions(+), 71 deletions(-)
Title: Case-Wise and Cluster-Wise Derivatives for Mixed Effects Models
Description: Compute analytic case-wise and cluster-wise derivative for
mixed effects models with respect to fixed effects parameter, random effect (co)variances,
and residual variance.
Author: Ting Wang [aut, cre],
Edgar Merkle [aut]
Maintainer: Ting Wang <twb8d@mail.missouri.edu>
Diff between merDeriv versions 0.1-4 dated 2018-03-29 and 0.1-5 dated 2018-09-12
DESCRIPTION | 15 +++++++++------ MD5 | 19 ++++++++++--------- R/bread.lmerMod.R | 22 +++++++++++++++++++--- R/estfun.lmerMod.R | 36 ++++++++++++++++++++++++++---------- R/llcont.lmerMod.R | 27 ++++++++++++++++++++++----- R/vcov.lmerMod.R | 19 +++++++++++++++++-- README.md |only man/bread.lmerMod.Rd | 36 ++++++++++++++++++------------------ man/estfun.lmerMod.Rd | 19 ++++++++++--------- man/llcont.lmerMod.Rd | 13 ++++++++----- man/vcov.lmerMod.Rd | 33 +++++++++++++++++---------------- 11 files changed, 156 insertions(+), 83 deletions(-)
Title: Crunch.io Data Tools
Description: The Crunch.io service <http://crunch.io/> provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Neal Richardson [aut, cre],
Jonathan Keane [aut],
Gordon Shotwell [aut]
Maintainer: Neal Richardson <neal@crunch.io>
Diff between crunch versions 1.23.0 dated 2018-06-22 and 1.24.0 dated 2018-09-12
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Title: Nested Association Mapping
Description: Designed for association studies in nested association mapping (NAM) panels, experimental and random panels. The method is described by Xavier et al. (2015) <doi:10.1093/bioinformatics/btv448>. It includes tools for genome-wide associations of multiple populations, marker quality control, population genetics analysis, genome-wide prediction, solving mixed models and finding variance components through likelihood and Bayesian methods.
Author: Alencar Xavier, William Muir, Katy Rainey, Shizhong Xu.
Maintainer: Alencar Xavier <alenxav@gmail.com>
Diff between NAM versions 1.6.2 dated 2018-08-24 and 1.6.3 dated 2018-09-12
DESCRIPTION | 8 MD5 | 51 - R/RcppExports.R | 222 +++--- R/gibbs.R | 7 R/gmm.R | 11 R/reml.R | 60 + R/wgr.R | 3 build/vignette.rds |binary inst/add/wgrMIXED.R |only inst/doc/background_stat_gen.pdf |binary inst/doc/gwa_description.pdf |binary inst/doc/vignette1.Rmd | 19 inst/doc/vignette1.html | 1285 +++++++++++++++++++++++---------------- inst/doc/vignette2.R | 38 - inst/doc/vignette2.Rmd | 2 inst/doc/vignette2.html | 463 ++++++++------ man/Internals.Rd | 44 + man/Manhattan.Rd | 2 man/NAM-package.Rd | 6 man/gibbs.Rd | 14 man/gmm.Rd | 4 man/reml.Rd | 12 man/tpod.Rd | 4 src/Functions.cpp | 163 ++++ src/RcppExports.cpp | 60 + vignettes/vignette1.Rmd | 19 vignettes/vignette2.Rmd | 2 27 files changed, 1629 insertions(+), 870 deletions(-)
Title: Estimating Parameters for a Matched Case Control Design with a
Mismeasured Exposure using Instrumental Variables
Description: Applying the methodology from Manuel, Wang, and Sinha (2018), estimates for the
parameters for matched case control data with a mismeasured exposure are calculated
through the use of user supplied instrumental variables.
Author: Chris M. Manuel and Samiran Sinha
Maintainer: Chris M. Manuel <cmmanuel@stat.tamu.edu>
Diff between mccmeiv versions 1.0 dated 2018-08-31 and 1.1 dated 2018-09-12
DESCRIPTION | 9 +++++---- MD5 | 4 ++-- build/partial.rdb |binary 3 files changed, 7 insertions(+), 6 deletions(-)
Title: GRadient-Based RECognition of Spatial Patterns in Environmental
Data
Description: Provides algorithms for detection of spatial patterns from oceanographic data using image processing methods based on Gradient Recognition.
Author: Wencheng Lau-Medrano [aut, cre]
Maintainer: Wencheng Lau-Medrano <luis.laum@gmail.com>
Diff between grec versions 1.2.0 dated 2018-05-07 and 1.2.2 dated 2018-09-12
DESCRIPTION | 11 ++++++----- MD5 | 18 ++++++++++-------- NEWS.md | 10 ++++++++++ R/Raster-class.R | 2 +- R/grec-internal.R | 6 +++--- R/grec-main.R | 10 ++++++++++ data/NW_USA_SST.RData |only data/datalist | 1 + demo/detectFronts.R | 19 ++++++------------- man/NW_USA_SST.Rd |only man/detectFronts.Rd | 3 ++- 11 files changed, 49 insertions(+), 31 deletions(-)
Title: Stepwise Selection for Large Data Sets
Description: Selecting linear and generalized linear models for large data sets
using modified stepwise procedure and modern selection criteria (like
modifications of Bayesian Information Criterion). Selection can be
performed on data which exceed RAM capacity.
Author: Piotr Szulc [aut, cre]
Maintainer: Piotr Szulc <piotr.michal.szulc@gmail.com>
Diff between bigstep versions 0.7.4 dated 2017-04-05 and 1.0.0 dated 2018-09-12
bigstep-0.7.4/bigstep/R/aic.R |only bigstep-0.7.4/bigstep/R/allSteps.R |only bigstep-0.7.4/bigstep/R/backwardStep.R |only bigstep-0.7.4/bigstep/R/bic.R |only bigstep-0.7.4/bigstep/R/calculateLogLik.R |only bigstep-0.7.4/bigstep/R/combineBigMatrices.R |only bigstep-0.7.4/bigstep/R/fitLinear.R |only bigstep-0.7.4/bigstep/R/fitLogistic.R |only bigstep-0.7.4/bigstep/R/fitPoisson.R |only bigstep-0.7.4/bigstep/R/forwardStep.R |only bigstep-0.7.4/bigstep/R/maic.R |only bigstep-0.7.4/bigstep/R/maic2.R |only bigstep-0.7.4/bigstep/R/mbic.R |only bigstep-0.7.4/bigstep/R/mbic2.R |only bigstep-0.7.4/bigstep/R/multiBackward.R |only bigstep-0.7.4/bigstep/R/multiForward.R |only bigstep-0.7.4/bigstep/R/prepareMatrix.R |only bigstep-0.7.4/bigstep/R/selectModel.R |only bigstep-0.7.4/bigstep/R/singleTests.R |only bigstep-0.7.4/bigstep/man/combineBigMatrices.Rd |only bigstep-0.7.4/bigstep/man/fitLinear.Rd |only bigstep-0.7.4/bigstep/man/fitLogistic.Rd |only bigstep-0.7.4/bigstep/man/fitPoisson.Rd |only bigstep-0.7.4/bigstep/man/selectModel.Rd |only bigstep-0.7.4/bigstep/man/singleTests.Rd |only bigstep-0.7.4/bigstep/tests/testthat/test_crit.R |only bigstep-0.7.4/bigstep/tests/testthat/test_fitmodel.R |only bigstep-0.7.4/bigstep/tests/testthat/test_prepare.R |only bigstep-0.7.4/bigstep/tests/testthat/test_selection.R |only bigstep-1.0.0/bigstep/DESCRIPTION | 30 +- bigstep-1.0.0/bigstep/MD5 | 86 ++--- bigstep-1.0.0/bigstep/NAMESPACE | 29 + bigstep-1.0.0/bigstep/R/backward.R |only bigstep-1.0.0/bigstep/R/bigstep.R | 268 +++++------------- bigstep-1.0.0/bigstep/R/criteria.R |only bigstep-1.0.0/bigstep/R/fast_forward.R |only bigstep-1.0.0/bigstep/R/fit_model.R |only bigstep-1.0.0/bigstep/R/forward.R |only bigstep-1.0.0/bigstep/R/multi_backward.R |only bigstep-1.0.0/bigstep/R/prep_data.R |only bigstep-1.0.0/bigstep/R/reduce.R |only bigstep-1.0.0/bigstep/R/reexport.R |only bigstep-1.0.0/bigstep/R/stepwise.R | 83 ++++- bigstep-1.0.0/bigstep/README.md |only bigstep-1.0.0/bigstep/build |only bigstep-1.0.0/bigstep/inst |only bigstep-1.0.0/bigstep/man/aic.Rd | 13 bigstep-1.0.0/bigstep/man/backward.Rd |only bigstep-1.0.0/bigstep/man/bic.Rd | 13 bigstep-1.0.0/bigstep/man/bigstep.Rd | 262 +++++------------ bigstep-1.0.0/bigstep/man/fast_forward.Rd |only bigstep-1.0.0/bigstep/man/forward.Rd |only bigstep-1.0.0/bigstep/man/maic.Rd | 17 - bigstep-1.0.0/bigstep/man/maic2.Rd | 17 - bigstep-1.0.0/bigstep/man/mbic.Rd | 17 - bigstep-1.0.0/bigstep/man/mbic2.Rd | 17 - bigstep-1.0.0/bigstep/man/multi_backward.Rd |only bigstep-1.0.0/bigstep/man/prepare_data.Rd |only bigstep-1.0.0/bigstep/man/reduce_matrix.Rd |only bigstep-1.0.0/bigstep/man/reexports.Rd |only bigstep-1.0.0/bigstep/man/stepwise.Rd |only bigstep-1.0.0/bigstep/man/summary.big.Rd |only bigstep-1.0.0/bigstep/tests/testthat/test_all.R |only bigstep-1.0.0/bigstep/tests/testthat/test_backward.R | 98 ++++-- bigstep-1.0.0/bigstep/tests/testthat/test_criteria.R |only bigstep-1.0.0/bigstep/tests/testthat/test_fit_model.R |only bigstep-1.0.0/bigstep/tests/testthat/test_forward.R | 104 +++++- bigstep-1.0.0/bigstep/tests/testthat/test_prep_data.R |only bigstep-1.0.0/bigstep/tests/testthat/test_reduce.R |only bigstep-1.0.0/bigstep/tests/testthat/test_stepwise.R | 67 +++- bigstep-1.0.0/bigstep/vignettes |only 71 files changed, 534 insertions(+), 587 deletions(-)
Title: Animal Movement Tools
Description: Manage and analyze animal movement data. The functionality of 'amt' includes methods to calculate track statistics (e.g. step lengths, speed, or turning angles), prepare data for fitting habitat selection analyses (resource and step-selection functions), and simulation of space-use from fitted step-selection functions.
Author: Johannes Signer [aut, cre]
Maintainer: Johannes Signer <jsigner@gwdg.de>
Diff between amt versions 0.0.4.0 dated 2018-04-21 and 0.0.5.0 dated 2018-09-12
DESCRIPTION | 10 - MD5 | 48 ++++----- NAMESPACE | 31 +++--- NEWS.md | 9 + R/coercion.R | 14 ++ R/crs.R | 4 R/extract_covariates.R | 47 ++++++++- R/fit_distr.R | 20 +++ R/random_steps.R | 13 +- R/simulate_ud.R | 24 +++- R/steps.R | 102 +++++++++++++++---- R/time_of_day.R | 2 R/track.R | 24 ++-- build/partial.rdb |binary build/vignette.rds |binary inst/doc/p1_getting_started.html | 86 ++++++++-------- inst/doc/p4_SSF.html | 200 +++++++++++++++++++-------------------- man/coercion.Rd | 4 man/extract_covariates.Rd | 22 +++- man/random_steps.Rd | 4 man/sim_ud.Rd | 7 + man/steps.Rd | 40 +++++++ man/time_of_day.Rd | 6 - man/track.Rd | 6 - tests/testthat/test.steps.R | 44 +++----- 25 files changed, 482 insertions(+), 285 deletions(-)
Title: Fast Rolling and Expanding Window Linear Regression
Description: Methods for fast rolling and expanding linear regression models. That is, series of linear regression models estimated on either an expanding window of data or a moving window of data. The methods use rank-one updates and downdates of the upper triangular matrix from a QR decomposition (see Dongarra, Moler, Bunch, and Stewart (1979) <doi:10.1137/1.9781611971811>).
Author: Benjamin Christoffersen [cre, aut]
Maintainer: Benjamin Christoffersen <boennecd@gmail.com>
Diff between rollRegres versions 0.1.0 dated 2018-07-02 and 0.1.1 dated 2018-09-12
DESCRIPTION | 8 - MD5 | 32 ++++--- NAMESPACE | 1 NEWS.md |only R/RcppExports.R | 8 + R/roll_regres.R | 153 ++++++++++++++++++++++++++++++++------ TODO |only inst/doc/Comparisons.R | 78 ++++++++++++++++++- inst/doc/Comparisons.Rmd | 79 ++++++++++++++++++- inst/doc/Comparisons.html | 117 +++++++++++++++++++++++------ man/roll_regres.Rd | 7 + man/roll_regres.fit.Rd | 6 + src/RcppExports.cpp | 26 +++++- src/roll.cpp | 100 ++++++++++++++++++++++-- tests/testthat/test_ex_grp.RDS |only tests/testthat/test_ex_grp1.RDS |only tests/testthat/test_roll_cpp.R | 66 +++++++++++++++- tests/testthat/test_roll_regres.R | 88 +++++++++++++++++++++ vignettes/Comparisons.Rmd | 79 ++++++++++++++++++- 19 files changed, 754 insertions(+), 94 deletions(-)
Title: An Algorithm for Gene Co-Expression Analysis
Description: Implementation based on Zhang, Jie & Huang, Kun (2014) <doi:10.4137/CIN.S14021> Normalized ImQCM: An Algorithm for Detecting Weak Quasi-Cliques in Weighted Graph with Applications in Gene Co-Expression Module Discovery in Cancers. Cancer informatics, 13, CIN-S14021.
Author: Zhi Huang [aut, cre],
Jie Zhang [aut, ctb],
Kun Huang [aut, ctb],
Zhi Han [aut, ctb]
Maintainer: Zhi Huang <huang898@purdue.edu>
Diff between lmQCM versions 0.1.1 dated 2018-06-28 and 0.1.2 dated 2018-09-12
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 12 ++++++++---- R/lmQCM.R | 5 ++--- R/localMaximumQCM.R | 5 ++--- R/merging_lmQCM.R | 8 +++++--- 6 files changed, 27 insertions(+), 23 deletions(-)
Title: Estimating Conditional Distributions
Description: Estimates conditional distributions and conditional quantiles. The versions of the methods in this package are primarily for use in multiple step procedures where the first step is to estimate a conditional distribution. In particular, there are functions for implementing distribution regression, quantile regression, and versions of local linear distribution regression; all in a unified framework. Distribution regression provides a way to flexibly model the distribution of some outcome Y conditional on covariates X without imposing parametric assumptions on the conditional distribution but providing more structure than fully nonparametric estimation (See Foresi and Peracchi (1995) <doi:10.2307/2291056> and Chernozhukov, Fernandez-Val, and Melly (2013) <doi:10.3982/ECTA10582>).
Author: Brantly Callaway [aut, cre],
Weige Huang [aut]
Maintainer: Brantly Callaway <brantly.callaway@temple.edu>
Diff between TempleMetrics versions 1.1.0 dated 2017-11-22 and 1.2.0 dated 2018-09-12
DESCRIPTION | 10 +++++----- MD5 | 11 +++++++---- NAMESPACE | 2 ++ NEWS.md | 3 +++ R/llscm.R |only man/lldr.inner.Rd | 3 ++- man/llscm.Rd |only man/llscm.inner.Rd |only 8 files changed, 19 insertions(+), 10 deletions(-)
Title: Multiple Testing Procedures with Adaptation for Discrete Tests
Description: Multiple testing procedures described in the paper Döhler, Durand and Roquain (2018) "New FDR bounds for discrete and heterogeneous tests" <doi:10.1214/18-EJS1441>. The main procedures of the paper (HSU and HSD), their adaptive counterparts (AHSU and AHSD), and the HBR variant are available and are coded to take as input a set of observed p-values and their discrete support under the null. A function to compute such p-values and supports for Fisher's exact tests is also provided, along with a wrapper allowing to apply discrete procedures directly from contingency tables.
Author: Sebastian Döhler [ctb],
Guillermo Durand [aut, cre],
Florian Junge [aut],
Etienne Roquain [ctb]
Maintainer: Guillermo Durand <guillermo.durand@polytechnique.org>
Diff between DiscreteFDR versions 1.0 dated 2018-07-10 and 1.1 dated 2018-09-12
DESCRIPTION | 10 +-- MD5 | 39 ++++++++------- NAMESPACE | 1 R/ADBH_fun.R | 2 R/Aux_fun.R | 108 ++---------------------------------------- R/DBH_fun.R | 2 R/DBR_fun.R | 17 +++++- R/DiscreteFDR.R | 4 + R/fast_appli.R |only R/support.R |only man/ADBH.Rd | 21 +++++--- man/DBH.Rd | 21 +++++--- man/DBR.Rd | 32 ++++++++---- man/DiscreteFDR-package.Rd | 4 + man/build.stepfuns.Rd | 4 - man/fast.Discrete.Rd |only man/fisher.pvalues.support.Rd | 74 ++++++++++++++++++++++------ man/kernel.ADBH.Rd | 19 ++++--- man/kernel.DBH.Rd | 19 ++++--- man/kernel.DBR.Rd | 21 ++++---- man/match.pvals.Rd | 6 +- man/short.eff.Rd | 2 22 files changed, 205 insertions(+), 201 deletions(-)
Title: Robust Testing in GLMs
Description: Provides robust tests for testing in GLMs,
by sign-flipping score contributions.
The tests are often robust against overdispersion,
heteroscedasticity and, in some cases,
ignored nuisance variables.
See Hemerik and Goeman (2017) <doi:10.1007/s11749-017-0571-1>.
Author: Jesse Hemerik, Jelle Goeman and Livio Finos
Maintainer: Jesse Hemerik <j.b.a.hemerik@lumc.nl>
Diff between flipscores versions 0.1 dated 2017-12-06 and 0.2 dated 2018-09-12
DESCRIPTION | 12 ++++++------ MD5 | 8 +++++--- NAMESPACE | 3 ++- R/flipscores.R | 13 ++++--------- R/flipscoreshd.R |only man/flipscoreshd.Rd |only 6 files changed, 17 insertions(+), 19 deletions(-)
Title: ExifTool Functionality from R
Description: Reads, writes, and edits EXIF and other file metadata
using ExifTool <http://www.sno.phy.queensu.ca/~phil/exiftool/>,
returning read results as a data frame. ExifTool supports many
different metadata formats including EXIF, GPS, IPTC, XMP, JFIF,
GeoTIFF, ICC Profile, Photoshop IRB, FlashPix, AFCP and ID3, as
well as the maker notes of many digital cameras by Canon, Casio,
DJI, FLIR, FujiFilm, GE, GoPro, HP, JVC/Victor, Kodak, Leaf,
Minolta/Konica-Minolta, Motorola, Nikon, Nintendo, Olympus/Epson,
Panasonic/Leica, Pentax/Asahi, Phase One, Reconyx, Ricoh, Samsung,
Sanyo, Sigma/Foveon and Sony.
Author: Joshua O'Brien [aut, cre]
Maintainer: Joshua O'Brien <joshmobrien@gmail.com>
Diff between exiftoolr versions 0.1.0 dated 2018-08-06 and 0.1.1 dated 2018-09-12
DESCRIPTION | 14 ++++++-------- MD5 | 15 ++++++++------- NEWS.md |only R/exif_read.R | 10 +++++----- R/utils.R | 18 +++++++++--------- man/configure_exiftoolr.Rd | 7 ++++--- man/exif_call.Rd | 4 ++-- man/exif_read.Rd | 6 +++--- man/install_exiftool.Rd | 8 ++++---- 9 files changed, 41 insertions(+), 41 deletions(-)
Title: Mosaic Plots in the 'ggplot2' Framework
Description: Mosaic plots in the 'ggplot2' framework. Mosaic
plot functionality is provided in a single 'ggplot2' layer by calling
the geom 'mosaic'.
Author: Haley Jeppson [aut, cre],
Heike Hofmann [aut],
Di Cook [aut],
Hadley Wickham [ctb]
Maintainer: Haley Jeppson <hjeppson@iastate.edu>
Diff between ggmosaic versions 0.1.2 dated 2017-02-08 and 0.2.0 dated 2018-09-12
ggmosaic-0.1.2/ggmosaic/inst/Rplots.pdf |only ggmosaic-0.1.2/ggmosaic/inst/asa.bst |only ggmosaic-0.1.2/ggmosaic/inst/asa.sty |only ggmosaic-0.1.2/ggmosaic/inst/flying-age.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-age_baby.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-age_child.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-an.bbl |only ggmosaic-0.1.2/ggmosaic/inst/flying-an.log |only ggmosaic-0.1.2/ggmosaic/inst/flying-an.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-an.synctex.gz |only ggmosaic-0.1.2/ggmosaic/inst/flying-an.tex |only ggmosaic-0.1.2/ggmosaic/inst/flying-anonymous.bbl |only ggmosaic-0.1.2/ggmosaic/inst/flying-anonymous.log |only ggmosaic-0.1.2/ggmosaic/inst/flying-anonymous.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-anonymous.synctex.gz |only ggmosaic-0.1.2/ggmosaic/inst/flying-anonymous.tex |only ggmosaic-0.1.2/ggmosaic/inst/flying-baby.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-baby1.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-baby2.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-child.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-child1.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-child2.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-concordance.tex |only ggmosaic-0.1.2/ggmosaic/inst/flying-eliminate.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-first_plot.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-recline.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-recline1.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-talk.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-who1.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-who2.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying-who3.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying.Rnw |only ggmosaic-0.1.2/ggmosaic/inst/flying.bbl |only ggmosaic-0.1.2/ggmosaic/inst/flying.log |only ggmosaic-0.1.2/ggmosaic/inst/flying.pdf |only ggmosaic-0.1.2/ggmosaic/inst/flying.synctex.gz |only ggmosaic-0.1.2/ggmosaic/inst/flying.tex |only ggmosaic-0.1.2/ggmosaic/inst/references.bib |only ggmosaic-0.1.2/ggmosaic/man/scale_productlist.Rd |only ggmosaic-0.2.0/ggmosaic/DESCRIPTION | 45 - ggmosaic-0.2.0/ggmosaic/MD5 | 111 +-- ggmosaic-0.2.0/ggmosaic/NAMESPACE | 11 ggmosaic-0.2.0/ggmosaic/NEWS.md | 12 ggmosaic-0.2.0/ggmosaic/R/calculate.R | 3 ggmosaic-0.2.0/ggmosaic/R/data.R |only ggmosaic-0.2.0/ggmosaic/R/divide.R | 5 ggmosaic-0.2.0/ggmosaic/R/divider.R | 112 +-- ggmosaic-0.2.0/ggmosaic/R/geom-mosaic.r | 76 +- ggmosaic-0.2.0/ggmosaic/R/geom2plotly.R | 1 ggmosaic-0.2.0/ggmosaic/R/scale-product.R | 153 +--- ggmosaic-0.2.0/ggmosaic/R/stat-mosaic.r | 208 +++--- ggmosaic-0.2.0/ggmosaic/README.md | 69 ++ ggmosaic-0.2.0/ggmosaic/build/vignette.rds |binary ggmosaic-0.2.0/ggmosaic/data |only ggmosaic-0.2.0/ggmosaic/inst/comparisons.R | 6 ggmosaic-0.2.0/ggmosaic/inst/doc/ggmosaic.R | 222 ++---- ggmosaic-0.2.0/ggmosaic/inst/doc/ggmosaic.Rmd | 214 ++---- ggmosaic-0.2.0/ggmosaic/inst/doc/ggmosaic.html | 488 ++++++++++----- ggmosaic-0.2.0/ggmosaic/inst/flydata.R | 88 +- ggmosaic-0.2.0/ggmosaic/inst/nhanes.R | 6 ggmosaic-0.2.0/ggmosaic/inst/plotly-shiny |only ggmosaic-0.2.0/ggmosaic/man/StatMosaic.Rd | 1 ggmosaic-0.2.0/ggmosaic/man/ddecker.Rd | 1 ggmosaic-0.2.0/ggmosaic/man/figures |only ggmosaic-0.2.0/ggmosaic/man/fly.Rd |only ggmosaic-0.2.0/ggmosaic/man/geom_mosaic.Rd | 50 - ggmosaic-0.2.0/ggmosaic/man/happy.Rd |only ggmosaic-0.2.0/ggmosaic/man/hbar.Rd |only ggmosaic-0.2.0/ggmosaic/man/hspine.Rd | 1 ggmosaic-0.2.0/ggmosaic/man/mosaic.Rd | 1 ggmosaic-0.2.0/ggmosaic/man/prodcalc.Rd | 8 ggmosaic-0.2.0/ggmosaic/man/product.Rd | 7 ggmosaic-0.2.0/ggmosaic/man/scale_type.product.Rd | 3 ggmosaic-0.2.0/ggmosaic/man/scale_type.productlist.Rd | 9 ggmosaic-0.2.0/ggmosaic/man/scale_type.tbl_df.Rd |only ggmosaic-0.2.0/ggmosaic/man/scale_x_productlist.Rd |only ggmosaic-0.2.0/ggmosaic/man/spine.Rd | 5 ggmosaic-0.2.0/ggmosaic/man/squeeze.Rd |only ggmosaic-0.2.0/ggmosaic/man/vbar.Rd |only ggmosaic-0.2.0/ggmosaic/man/vspine.Rd | 1 ggmosaic-0.2.0/ggmosaic/vignettes/ggmosaic.Rmd | 214 ++---- 81 files changed, 1147 insertions(+), 984 deletions(-)
Title: Create Compact Hash Digests of R Objects
Description: Implementation of a function 'digest()' for the creation
of hash digests of arbitrary R objects (using the 'md5', 'sha-1', 'sha-256',
'crc32', 'xxhash' and 'murmurhash' algorithms) permitting easy comparison of R
language objects, as well as a function 'hmac()' to create hash-based
message authentication code. Please note that this package is not meant to
be deployed for cryptographic purposes for which more comprehensive (and
widely tested) libraries such as 'OpenSSL' should be used.
Author: Dirk Eddelbuettel <edd@debian.org> with contributions
by Antoine Lucas, Jarek Tuszynski, Henrik Bengtsson, Simon Urbanek,
Mario Frasca, Bryan Lewis, Murray Stokely, Hannes Muehleisen,
Duncan Murdoch, Jim Hester, Wush Wu, Qiang Kou, Thierry Onkelinx,
Michel Lang, Viliam Simko, Kurt Hornik and Radford Neal.
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between digest versions 0.6.16 dated 2018-08-22 and 0.6.17 dated 2018-09-12
ChangeLog | 13 + DESCRIPTION | 10 - MD5 | 10 - inst/doc/sha1.html | 470 ++++++++++++++++++++++++++++++++++++++--------------- src/sha2.c | 54 +++--- src/sha2.h | 8 6 files changed, 393 insertions(+), 172 deletions(-)
Title: Labelled Data Utility Functions
Description: Collection of functions dealing with labelled data, like reading and
writing data between R and other statistical software packages like 'SPSS',
'SAS' or 'Stata', and working with labelled data. This includes easy ways
to get, set or change value and variable label attributes, to convert
labelled vectors into factors or numeric (and vice versa), or to deal with
multiple declared missing values.
Author: Daniel Lüdecke [aut, cre] (<https://orcid.org/0000-0002-8895-3206>)
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>
Diff between sjlabelled versions 1.0.13 dated 2018-08-11 and 1.0.14 dated 2018-09-12
DESCRIPTION | 10 MD5 | 51 - NAMESPACE | 5 NEWS.md | 10 R/add_labels.R | 3 R/as_factor.R | 3 R/drop_labels.R | 2 R/fill_labels.R | 2 R/get_labels.R | 36 + R/get_model_labels.R | 53 - R/helpfunctions.R | 5 R/read_write.R | 1 R/remove_all_labels.R | 2 R/remove_labels.R | 2 R/select_helpers.R |only R/set_labels.R | 2 R/set_na.R | 2 R/tidiers.R | 33 - R/tidy_labels.R | 2 R/to_label.R | 4 R/to_value.R | 2 R/unlabel.R | 3 R/var_labels.R | 1 R/zap_labels.R | 6 inst/doc/intro_sjlabelled.html | 1114 ++++++++++++++++++++++++----------------- inst/doc/labelleddata.html | 402 +++++++++++--- man/get_term_labels.Rd | 5 27 files changed, 1082 insertions(+), 679 deletions(-)
Title: GeoServer REST API R Interface
Description: Provides an R interface to the GeoServer REST API, allowing to upload
and publish data in a GeoServer web-application and expose data to OGC Web-Services.
The package currently supports all CRUD (Create,Read,Update,Delete) operations
on GeoServer workspaces, namespaces, datastores (stores of vector data), featuretypes,
layers, styles, as well as vector data upload operations. For more information about
the GeoServer REST API, see <http://docs.geoserver.org/stable/en/user/rest/>.
Author: Emmanuel Blondel [aut, cre] (<https://orcid.org/0000-0002-5870-5762>)
Maintainer: Emmanuel Blondel <emmanuel.blondel1@gmail.com>
Diff between geosapi versions 0.2-0 dated 2017-12-01 and 0.3-0 dated 2018-09-12
DESCRIPTION | 12 +++-- MD5 | 74 ++++++++++++++++++----------------- NAMESPACE | 5 +- R/GSAbstractDBDataStore.R |only R/GSDatastoreManager.R | 17 +++++--- R/GSDimension.R | 4 - R/GSFeatureType.R | 8 +++ R/GSOracleNGDataStore.R |only R/GSPostGISDataStore.R |only R/geosapi.R | 4 - README.md | 6 ++ man/GSAbstractDBDataStore.Rd |only man/GSDataStore.Rd | 13 ++---- man/GSDataStoreManager.Rd | 25 ++++++----- man/GSDimension.Rd | 20 ++------- man/GSFeatureType.Rd | 8 ++- man/GSLayer.Rd | 13 +++--- man/GSLayerGroup.Rd | 5 +- man/GSManager.Rd | 6 +- man/GSMetadataLink.Rd | 8 +-- man/GSNamespace.Rd | 12 +---- man/GSNamespaceManager.Rd | 9 ++-- man/GSOracleNGDataStore.Rd |only man/GSPostGISDataStore.Rd |only man/GSRESTEntrySet.Rd | 5 +- man/GSRESTResource.Rd | 4 - man/GSResource.Rd | 28 +------------ man/GSShapefileDataStore.Rd | 5 +- man/GSShapefileDirectoryDataStore.Rd | 5 +- man/GSStyleManager.Rd | 13 +++--- man/GSUtils.Rd | 4 - man/GSVersion.Rd | 9 ++-- man/GSVirtualTable.Rd | 12 +---- man/GSVirtualTableGeometry.Rd | 10 +--- man/GSVirtualTableParameter.Rd | 10 +--- man/GSWorkspace.Rd | 6 +- man/GSWorkspaceManager.Rd | 13 +++--- man/geosapi.Rd | 18 ++++---- tests/testthat/test_GSDataStore.R | 13 +++--- tests/testthat/test_GSStyle.R | 5 +- tests/testthat/test_GSVersion.R | 34 ++++++++-------- 41 files changed, 225 insertions(+), 218 deletions(-)
Title: Distributed Lag Non-Linear Models
Description: Collection of functions for distributed lag linear and non-linear models.
Author: Antonio Gasparrini [aut, cre],
Ben Armstrong [aut],
Fabian Scheipl [ctb]
Maintainer: Antonio Gasparrini <antonio.gasparrini@lshtm.ac.uk>
Diff between dlnm versions 2.3.5 dated 2018-08-02 and 2.3.6 dated 2018-09-12
DESCRIPTION | 8 ++++---- MD5 | 28 ++++++++++++++-------------- NEWS.md | 10 ++++++++++ R/crosspred.R | 4 ++-- R/getlink.R | 9 ++++++--- inst/NEWS | 10 ++++++++++ inst/doc/dlnmExtended.pdf |binary inst/doc/dlnmOverview.pdf |binary inst/doc/dlnmPenalized.pdf |binary inst/doc/dlnmTS.pdf |binary man/crosspred.Rd | 6 +++--- man/crossreduce.Rd | 6 +++--- man/dlnm-internal.Rd | 2 +- man/plot.crosspred.Rd | 4 ++-- man/plot.crossreduce.Rd | 2 +- 15 files changed, 56 insertions(+), 33 deletions(-)
Title: Correspondence Analysis Variants
Description: Provides six variants of two-way correspondence analysis (ca):
simple ca, singly ordered ca, doubly ordered ca, non symmetrical ca,
singly ordered non symmetrical ca, and doubly ordered non symmetrical
ca.
Author: Rosaria Lombardo and Eric J Beh
Maintainer: Rosaria Lombardo <rosaria.lombardo@unicampania.it>
Diff between CAvariants versions 3.4 dated 2017-02-27 and 3.5 dated 2018-09-12
DESCRIPTION | 12 +-- MD5 | 64 +++++++++--------- NAMESPACE | 5 + R/CAvariants.R | 39 +++++++---- R/cabasic.R | 21 ++---- R/caplot3d.R |only R/docabasic.R | 2 R/nscabasic.R | 15 +++- R/nscaellipse.R | 13 +-- R/plot.CAvariants.R | 161 ++++++++++++++++++++++++++++++---------------- R/plotone.R | 40 ++++------- R/print.CAvariants.R | 103 +++++++++++++---------------- data/asbestos.rda |binary data/shopdataM.rda |binary man/CAvariants.Rd | 8 +- man/cabasic.Rd | 10 +- man/caellipse.Rd | 4 - man/caplot3d.Rd |only man/compsonetable.exe.Rd | 6 + man/compstable.exe.Rd | 6 + man/docabasic.Rd | 6 + man/donscabasic.Rd | 7 +- man/emerson.poly.Rd | 6 + man/nscabasic.Rd | 6 + man/nscaellipse.Rd | 4 - man/plot.CAvariants.Rd | 38 ++++++---- man/plotone.Rd | 4 - man/print.CAvariants.Rd | 6 + man/printwithaxes.Rd | 3 man/shopdataM.Rd | 3 man/socabasic.Rd | 6 + man/sonscabasic.Rd | 6 + man/summary.CAvariants.Rd | 6 + man/trendplot.Rd | 6 + 34 files changed, 353 insertions(+), 263 deletions(-)
Title: Statistical Analysis of Fuzzy Data
Description: The aim of the package is to provide some basic functions for doing statistics with one-dimensional Fuzzy Data (in the form of polygonal fuzzy numbers).
Author: Wolfgang Trutschnig <wolfgang@trutschnig.net>, Asun Lubiano
<lubiano@uniovi.es>
Maintainer: Asun Lubiano
<lubiano@uniovi.es>
Diff between SAFD versions 1.0-1 dated 2015-12-11 and 2.0 dated 2018-09-12
SAFD-1.0-1/SAFD/R/Bcov.R |only SAFD-1.0-1/SAFD/R/DSfrequency.R |only SAFD-1.0-1/SAFD/R/DShistogram.R |only SAFD-1.0-1/SAFD/R/lrmodel.R |only SAFD-1.0-1/SAFD/data/quality.rda |only SAFD-1.0-1/SAFD/man/Bcov.Rd |only SAFD-1.0-1/SAFD/man/DSfrequency.Rd |only SAFD-1.0-1/SAFD/man/DShistogram.Rd |only SAFD-1.0-1/SAFD/man/lrmodel.Rd |only SAFD-1.0-1/SAFD/man/quality.Rd |only SAFD-2.0/SAFD/DESCRIPTION | 27 ++++++++------------------- SAFD-2.0/SAFD/MD5 | 35 +++++++++++++---------------------- SAFD-2.0/SAFD/R/hukuhara.R | 2 +- SAFD-2.0/SAFD/R/sc_mult.R | 2 +- SAFD-2.0/SAFD/R/translator.R | 2 +- SAFD-2.0/SAFD/build |only SAFD-2.0/SAFD/data/Trees.rda |binary SAFD-2.0/SAFD/data/XX.rda |binary SAFD-2.0/SAFD/man/Bvar.Rd | 10 +--------- SAFD-2.0/SAFD/man/Fmedian.Rd | 6 ------ SAFD-2.0/SAFD/man/Mmean.Rd | 7 ------- SAFD-2.0/SAFD/man/SAFD-package.Rd | 25 ++++++++++--------------- SAFD-2.0/SAFD/man/bertoluzza.Rd | 2 +- SAFD-2.0/SAFD/man/hukuhara.Rd | 2 +- 24 files changed, 37 insertions(+), 83 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>).
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@ipn.uni-kiel.de>
Diff between mdmb versions 0.9-43 dated 2018-08-08 and 0.10-13 dated 2018-09-12
DESCRIPTION | 8 - MD5 | 49 ++++++----- R/RcppExports.R | 6 + R/frm_define_model_R_function.R | 3 R/frm_estimate_model_create_R_args.R | 2 R/frm_fb.R | 3 R/frm_fb_init_imputations.R | 3 R/frm_fb_initial_parameters.R | 8 + R/frm_fb_mh_refresh_imputed_values.R | 5 - R/frm_fb_mh_refresh_parameters.R | 2 R/frm_fb_refresh_parameters_step.R | 2 R/frm_fb_sample_parameters.R | 2 R/mdmb_lm_wfit.R | 6 - R/mdmb_regression.R | 125 +++++------------------------ R/mdmb_regression_optim_oprobit_fct.R |only R/mdmb_regression_optim_oprobit_grad.R |only R/mdmb_regression_optim_yjt_fct.R |only R/mdmb_regression_optim_yjt_grad.R |only R/mdmb_regression_proc_control_optim_fct.R |only R/oprobit_regression.R | 8 - inst/NEWS | 11 ++ man/frm.Rd | 6 - man/mdmb-package.Rd | 8 - man/mdmb_regression.Rd | 6 - man/yjt_dist.Rd | 10 +- src/RcppExports.cpp | 20 ++++ src/mdmb_rcpp_linreg.cpp | 18 ++-- src/mdmb_rcpp_oprobit.cpp | 45 +++++++++- 28 files changed, 178 insertions(+), 178 deletions(-)
Title: Classical Test Theory Functions
Description: A collection of common test and item analyses from a classical test theory (CTT) framework. Analyses can be applied to both dichotomous and polytomous data. Functions provide reliability analyses (alpha), item statistics, disctractor analyses, disattenuated correlations, scoring routines, and empirical ICCs.
Author: John T. Willse
Maintainer: John T. Willse <willse@uncg.edu>
Diff between CTT versions 2.3.2 dated 2018-02-04 and 2.3.3 dated 2018-09-12
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/distractorAnalysis.R | 3 ++- man/CTT-package.Rd | 4 ++-- 4 files changed, 11 insertions(+), 10 deletions(-)
Title: Low-Rank Interaction Contingency Tables
Description: Analysis of count data with covariates. LORI uses a log-linear model where main row and column effects are decomposed as regression terms on known covariates. A residual low-rank interaction term is also fitted.
Author: Genevieve Robin [aut, cre]
Maintainer: Genevieve Robin <genevieve.robin@polytechnique.edu>
Diff between lori versions 0.1.0 dated 2018-02-27 and 0.2.0 dated 2018-09-12
lori-0.1.0/lori/R/optimization_functions.R |only lori-0.1.0/lori/R/plot_interaction.R |only lori-0.1.0/lori/R/tune_regularization.R |only lori-0.1.0/lori/inst/doc/lori_with_covariates.R |only lori-0.1.0/lori/inst/doc/lori_with_covariates.Rmd |only lori-0.1.0/lori/inst/doc/lori_with_covariates.html |only lori-0.1.0/lori/inst/doc/regularized_log-bilinear.R |only lori-0.1.0/lori/inst/doc/regularized_log-bilinear.Rmd |only lori-0.1.0/lori/inst/doc/regularized_log-bilinear.html |only lori-0.1.0/lori/man/admm_algorithm.Rd |only lori-0.1.0/lori/man/default_projection.Rd |only lori-0.1.0/lori/man/estimate_null_model.Rd |only lori-0.1.0/lori/man/gradient.Rd |only lori-0.1.0/lori/man/lambda_QUT.Rd |only lori-0.1.0/lori/man/lambda_QUT_covariates.Rd |only lori-0.1.0/lori/man/lambda_cv.Rd |only lori-0.1.0/lori/man/objective_function.Rd |only lori-0.1.0/lori/man/plot_interaction.Rd |only lori-0.1.0/lori/vignettes/lori_with_covariates.Rmd |only lori-0.1.0/lori/vignettes/regularized_log-bilinear.Rmd |only lori-0.2.0/lori/DESCRIPTION | 10 lori-0.2.0/lori/MD5 | 46 +- lori-0.2.0/lori/NAMESPACE | 30 + lori-0.2.0/lori/R/lori.R | 348 +++++++++++++---- lori-0.2.0/lori/R/lori_plots.R |only lori-0.2.0/lori/R/lori_tools.R |only lori-0.2.0/lori/build/vignette.rds |binary lori-0.2.0/lori/inst/doc/example.R |only lori-0.2.0/lori/inst/doc/example.Rmd |only lori-0.2.0/lori/inst/doc/example.html |only lori-0.2.0/lori/man/altmin.Rd |only lori-0.2.0/lori/man/covmat.Rd |only lori-0.2.0/lori/man/covmatC.Rd |only lori-0.2.0/lori/man/covmatR.Rd |only lori-0.2.0/lori/man/legend.col.Rd |only lori-0.2.0/lori/man/lori.Rd | 67 ++- lori-0.2.0/lori/man/null_model.Rd |only lori-0.2.0/lori/man/plot_counts.Rd |only lori-0.2.0/lori/man/plot_cov.Rd |only lori-0.2.0/lori/man/qut.Rd |only lori-0.2.0/lori/vignettes/example.Rmd |only lori-0.2.0/lori/vignettes/example.md |only 42 files changed, 381 insertions(+), 120 deletions(-)
Title: eXtensible Time Series
Description: Provide for uniform handling of R's different time-based data classes by extending zoo, maximizing native format information preservation and allowing for user level customization and extension, while simplifying cross-class interoperability.
Author: Jeffrey A. Ryan [aut, cph],
Joshua M. Ulrich [cre, aut],
Ross Bennett [ctb],
Corwin Joy [ctb]
Maintainer: Joshua M. Ulrich <josh.m.ulrich@gmail.com>
Diff between xts versions 0.11-0 dated 2018-07-16 and 0.11-1 dated 2018-09-12
xts-0.11-0/xts/inst/unitTests/runit.tclass.R |only xts-0.11-0/xts/src/migrate_index_attrib.c |only xts-0.11-1/xts/DESCRIPTION | 6 - xts-0.11-1/xts/MD5 | 46 ++++---- xts-0.11-1/xts/NEWS | 24 ++++ xts-0.11-1/xts/R/axTicksByTime.R | 6 - xts-0.11-1/xts/R/xts.R | 8 + xts-0.11-1/xts/R/xts.methods.R | 16 --- xts-0.11-1/xts/inst/benchmarks/benchmark.subset.R | 37 ++++++- xts-0.11-1/xts/inst/doc/xts-faq.pdf |binary xts-0.11-1/xts/inst/doc/xts.pdf |binary xts-0.11-1/xts/inst/unitTests/runit.data.frame.R | 29 +---- xts-0.11-1/xts/inst/unitTests/runit.fts.R | 5 xts-0.11-1/xts/inst/unitTests/runit.indexClass.R | 55 +++++++--- xts-0.11-1/xts/inst/unitTests/runit.irts.R | 6 - xts-0.11-1/xts/inst/unitTests/runit.lag.R | 13 -- xts-0.11-1/xts/inst/unitTests/runit.merge.R | 16 +++ xts-0.11-1/xts/inst/unitTests/runit.plot.R | 15 ++ xts-0.11-1/xts/inst/unitTests/runit.subset.R | 51 +++++++++ xts-0.11-1/xts/inst/unitTests/runit.timeSeries.R | 7 - xts-0.11-1/xts/inst/unitTests/runit.xts.R | 53 ++++++++++ xts-0.11-1/xts/inst/unitTests/runit.xts.methods.R | 115 ++++++++++------------ xts-0.11-1/xts/src/binsearch.c | 58 +++++++++++ xts-0.11-1/xts/src/isOrdered.c | 8 + xts-0.11-1/xts/src/merge.c | 108 +++++++++++++------- 25 files changed, 484 insertions(+), 198 deletions(-)
Title: Calculating Concentration Risk under Solvency II
Description: Methods for determining spatial risk, in particular concentration risk in the context of the EU insurance regulation framework (Solvency II).
Author: Martin Haringa
Maintainer: Martin Haringa <mtharinga@gmail.com>
Diff between spatialrisk versions 0.2.1 dated 2018-09-03 and 0.3.1 dated 2018-09-12
spatialrisk-0.2.1/spatialrisk/tests/testthat/test_coord_in_circle.R |only spatialrisk-0.3.1/spatialrisk/DESCRIPTION | 6 ++-- spatialrisk-0.3.1/spatialrisk/MD5 | 13 +++++----- spatialrisk-0.3.1/spatialrisk/R/concentration.R | 8 +++--- spatialrisk-0.3.1/spatialrisk/man/concentration.Rd | 8 +++--- spatialrisk-0.3.1/spatialrisk/src/haversine_cpp.cpp | 5 ++- spatialrisk-0.3.1/spatialrisk/tests/testthat.R | 1 spatialrisk-0.3.1/spatialrisk/tests/testthat/test_concentration.R |only spatialrisk-0.3.1/spatialrisk/tests/testthat/test_pointsincircle.R |only 9 files changed, 23 insertions(+), 18 deletions(-)
Title: Download and Explore Datasets from UCSC Xena Data Hubs
Description: Download and explore datasets from UCSC Xena data hubs, which are
a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
This package is based on 'XenaR' package.
Author: Shixiang Wang [aut, cre],
Martin Morgan [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaTools versions 0.2.2 dated 2018-08-19 and 0.2.4 dated 2018-09-12
DESCRIPTION | 8 MD5 | 64 +- NAMESPACE | 52 + NEWS.md | 9 R/download.R | 5 R/query.R | 384 ++++++------- R/shiny.R |only R/simplify.R |only README.md | 1010 ++++++++++++++++++++++-------------- build/vignette.rds |binary inst/doc/USCSXenaTools.R | 170 +++--- inst/doc/USCSXenaTools.Rmd | 133 ++++ inst/doc/USCSXenaTools.html | 1057 ++++++++++++++++++++++---------------- inst/doc/USCSXenaTools_0.2.0.R | 114 ++-- inst/doc/USCSXenaTools_0.2.0.Rmd | 45 + inst/doc/USCSXenaTools_0.2.0.html | 830 +++++++++++++++-------------- inst/figures |only man/XenaData.Rd | 36 - man/XenaDataUpdate.Rd | 56 +- man/XenaDownload.Rd | 72 +- man/XenaFilter.Rd | 80 +- man/XenaGenerate.Rd | 62 +- man/XenaHub-class.Rd | 36 - man/XenaHub.Rd | 98 +-- man/XenaPrepare.Rd | 80 +- man/XenaQuery.Rd | 50 - man/XenaShiny.Rd |only man/availTCGA.Rd |only man/cohorts.Rd | 40 - man/datasets.Rd | 40 - man/downloadTCGA.Rd |only man/getTCGAdata.Rd |only man/hosts.Rd | 40 - man/samples.Rd | 68 +- man/showTCGA.Rd |only man/xena_default_hosts.Rd | 40 - vignettes/USCSXenaTools.Rmd | 133 ++++ 37 files changed, 2804 insertions(+), 2008 deletions(-)
Title: Variance Estimation for Sample Surveys by the Ultimate Cluster
Method
Description: Generation of domain variables, linearization of several nonlinear population statistics (the ratio of two totals, weighted income percentile, relative median income ratio, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, the aggregate replacement ratio, the relative median income ratio, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow,Theory, vol. I: Methods and Applications; vol. II: Theory. 1953, New York: John Wiley and Sons), variance estimation for longitudinal, cross-sectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y. G., 2015, <doi:10.1111/rssa.12116>). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre],
Martins Liberts [aut],
Santa Ivanova [aut]
Maintainer: Juris Breidaks <Juris.Breidaks@csb.gov.lv>
Diff between vardpoor versions 0.10.0 dated 2018-05-23 and 0.11.0 dated 2018-09-12
DESCRIPTION | 11 MD5 | 42 - NAMESPACE | 10 R/domain.R | 421 ++++++++--------- R/incPercentile.R | 163 +++--- R/linarpr.R | 450 +++++++++--------- R/linarpt.R | 222 ++++++++- R/vardannual.R | 6 R/vardchanges.R | 3 R/vardchangespoor.R | 3 R/vardchangstrs.R | 6 R/vardcros.R | 3 R/vardcrospoor.R | 3 R/vardom.R | 2 R/vardom_othstr.R | 2 R/vardomh.R | 3 R/varpoord.R | 1164 ++++++++++++++++++++++++------------------------ man/domain.Rd | 146 +++--- man/linarpr.Rd | 11 man/linarpt.Rd | 10 man/vardpoor-package.Rd | 6 man/varpoord.Rd | 12 22 files changed, 1491 insertions(+), 1208 deletions(-)
Title: Australian Government Bureau of Meteorology (BOM) Data from R
Description: Provides functions to interface with Australian Government Bureau
of Meteorology (BOM) data, fetching data and returning a tidy data frame of
précis forecasts, historical and current weather data from stations,
agriculture bulletin data, BOM 0900 or 1500 weather bulletins and
downloading and importing radar and satellite imagery files. Data (c)
Australian Government Bureau of Meteorology Creative Commons (CC)
Attribution 3.0 licence or Public Access Licence (PAL) as appropriate. See
<http://www.bom.gov.au/other/copyright.shtml> for further details.
Author: Adam Sparks [aut, cre] (<https://orcid.org/0000-0002-0061-8359>),
Jonathan Carroll [aut] (<https://orcid.org/0000-0002-1404-5264>),
Dean Marchiori [aut],
Mark Padgham [aut, rev] (<https://orcid.org/0000-0003-2172-5265>),
Hugh Parsonage [aut] (<https://orcid.org/0000-0003-4055-0835>),
Keith Pembleton [aut] (<https://orcid.org/0000-0002-1896-4516>),
James Balamuta [ctb] (<https://orcid.org/0000-0003-2826-8458>),
Brooke Anderson [rev] (<https://orcid.org/0000-0002-5012-9035>)
Maintainer: Adam Sparks <adamhsparks@gmail.com>
Diff between bomrang versions 0.3.0 dated 2018-08-15 and 0.4.0 dated 2018-09-12
DESCRIPTION | 18 - MD5 | 70 ++--- NAMESPACE | 2 NEWS.md | 38 ++ R/get_ag_bulletin.R | 2 R/get_coastal_forecast.R | 26 +- R/get_current_weather.R | 5 R/get_historical.R | 78 ++++-- R/get_precis_forecast.R | 6 R/get_radar_imagery.R |only R/get_satellite_imagery.R | 16 - R/internal_functions.R | 181 ++++++++++--- R/update_forecast_towns.R | 28 +- R/update_station_locations.R | 94 ++++--- R/zzz.R | 13 - README.md | 40 ++- inst/CITATION | 7 inst/doc/bomrang.R | 103 +++++++ inst/doc/bomrang.Rmd | 244 ++++++++++++++++-- inst/doc/bomrang.html | 325 +++++++++++++++++++------ inst/extdata/JSONurl_site_list.rda |binary inst/extdata/current_stations_site_list.rda |only inst/extdata/radar_locations.rda |only inst/extdata/stations_site_list.rda |binary man/get_available_imagery.Rd | 2 man/get_available_radar.Rd |only man/get_coastal_forecast.Rd | 4 man/get_historical.Rd | 32 ++ man/get_precis_forecast.Rd | 4 man/get_radar_imagery.Rd |only man/get_satellite_imagery.Rd | 4 man/update_station_locations.Rd | 8 tests/testthat/test-get_coastal_forecast.R | 2 tests/testthat/test-get_historical.R | 15 - tests/testthat/test-get_radar_imagery.R |only tests/testthat/test-get_satellite_imagery.R | 2 tests/testthat/test-update_forecast_towns.R | 44 ++- tests/testthat/test-update_station_locations.R | 127 +++++---- vignettes/bomrang.Rmd | 244 ++++++++++++++++-- 39 files changed, 1351 insertions(+), 433 deletions(-)
Title: Flexible Gaussian Cluster Simulator
Description: Clustering is a central task in big data analyses and clusters are often Gaussian or near Gaussian. However, a flexible Gaussian cluster simulation tool with precise control over the size, variance, and spacing of the clusters in NXN dimensional space does not exist. This is why we created 'clusterlab'. The algorithm first creates X points equally spaced on the circumference of a circle in 2D space. These form the centers of each cluster to be simulated. Additional samples are added by adding Gaussian noise to each cluster center and concatenating the new sample co-ordinates. Then if the feature space is greater than 2D, the generated points are considered principal component scores and projected into N dimensional space using linear combinations using fixed eigenvectors. Through using vector rotations and scalar multiplication clusterlab can generate complex patterns of Gaussian clusters and outliers. The algorithm is highly customizable and well suited to testing class discovery tools across a range of fields.
Author: Christopher R John
Maintainer: Christopher R John <chris.r.john86@gmail.com>
Diff between clusterlab versions 0.0.2.3 dated 2018-08-28 and 0.0.2.4 dated 2018-09-12
DESCRIPTION | 6 +-- MD5 | 12 +++---- R/clusterlab.R | 8 ++-- inst/doc/introduction.R | 16 +++++++++ inst/doc/introduction.Rmd | 50 +++++++++++++++++++++++++----- inst/doc/introduction.html | 75 +++++++++++++++++++++++++++++++++++++-------- vignettes/introduction.Rmd | 50 +++++++++++++++++++++++++----- 7 files changed, 176 insertions(+), 41 deletions(-)
Title: One-Sided Dynamic Principal Components
Description: Functions to compute the one-sided dynamic
principal components ('odpc') introduced in Smucler, Peña and Yohai (2018)
<DOI:10.1080/01621459.2018.1520117>. 'odpc' is a novel dimension
reduction technique for multivariate time series, that is useful
for forecasting. These dynamic principal components are defined as
the linear combinations of the present and past values of the series
that minimize the reconstruction mean squared error.
Author: Daniel Peña <daniel.pena@uc3m.es>,
Ezequiel Smucler <ezequiels.90@gmail.com>,
Victor Yohai <vyohai@dm.uba.ar>
Maintainer: Ezequiel Smucler <ezequiels.90@gmail.com>
Diff between odpc versions 1.0.0 dated 2017-08-18 and 2.0.0 dated 2018-09-12
odpc-1.0.0/odpc/man/odpc-package.Rd |only odpc-1.0.0/odpc/src/Makevars |only odpc-1.0.0/odpc/src/registerDynamicSymbols.c |only odpc-2.0.0/odpc/DESCRIPTION | 20 - odpc-2.0.0/odpc/MD5 | 45 +- odpc-2.0.0/odpc/NAMESPACE | 6 odpc-2.0.0/odpc/NEWS |only odpc-2.0.0/odpc/R/RcppExports.R | 20 - odpc-2.0.0/odpc/R/mainODPC.R | 430 +++++++++++++++++++++++++-- odpc-2.0.0/odpc/R/methodsODPC.R | 151 ++++++++- odpc-2.0.0/odpc/cleanup |only odpc-2.0.0/odpc/configure |only odpc-2.0.0/odpc/configure.ac |only odpc-2.0.0/odpc/configure.win |only odpc-2.0.0/odpc/man/components.odpcs.Rd | 6 odpc-2.0.0/odpc/man/crit.odpc.Rd |only odpc-2.0.0/odpc/man/cv.odpc.Rd |only odpc-2.0.0/odpc/man/fitted.odpcs.Rd | 6 odpc-2.0.0/odpc/man/forecast.odpcs.Rd | 8 odpc-2.0.0/odpc/man/odpc.Rd | 19 - odpc-2.0.0/odpc/man/plot.odpc.Rd | 5 odpc-2.0.0/odpc/src/Makevars.in |only odpc-2.0.0/odpc/src/Makevars.win |only odpc-2.0.0/odpc/src/RcppExports.cpp | 65 +++- odpc-2.0.0/odpc/src/autoconfig.h.in |only odpc-2.0.0/odpc/src/autoconfig.win.h |only odpc-2.0.0/odpc/src/config.h |only odpc-2.0.0/odpc/src/odpc_auxfunc.cpp | 325 ++++++++++---------- odpc-2.0.0/odpc/tests |only 29 files changed, 840 insertions(+), 266 deletions(-)
Title: Use and Explore CRU CL v. 2.0 Climatology Elements in R
Description: Provides functions that automate downloading and importing
University of East Anglia Climate Research Unit (CRU) CL v. 2.0 climatology
data into R, facilitates the calculation of minimum temperature and maximum
temperature and formats the data into a tidy data frame as a tibble or a
list of raster stack objects for use in an R session. CRU CL v. 2.0 data
are a gridded climatology of 1961-1990 monthly means released in 2002 and
cover all land areas (excluding Antarctica) at 10 arcminutes
(0.1666667 degree) resolution. For more information see the description of
the data provided by the University of East Anglia Climate Research Unit,
<https://crudata.uea.ac.uk/cru/data/hrg/tmc/readme.txt>.
Author: Adam Sparks [aut, cre] (<https://orcid.org/0000-0002-0061-8359>)
Maintainer: Adam Sparks <adamhsparks@gmail.com>
Diff between getCRUCLdata versions 0.2.4 dated 2018-06-16 and 0.2.5 dated 2018-09-12
getCRUCLdata-0.2.4/getCRUCLdata/R/create_df.R |only getCRUCLdata-0.2.4/getCRUCLdata/R/create_stacks.R |only getCRUCLdata-0.2.4/getCRUCLdata/R/set_cache.R |only getCRUCLdata-0.2.4/getCRUCLdata/R/validate_dsn.R |only getCRUCLdata-0.2.5/getCRUCLdata/DESCRIPTION | 11 getCRUCLdata-0.2.5/getCRUCLdata/MD5 | 37 - getCRUCLdata-0.2.5/getCRUCLdata/NEWS.md | 11 getCRUCLdata-0.2.5/getCRUCLdata/R/create_CRU_df.R | 3 getCRUCLdata-0.2.5/getCRUCLdata/R/create_CRU_stack.R | 2 getCRUCLdata-0.2.5/getCRUCLdata/R/get_CRU_df.R | 3 getCRUCLdata-0.2.5/getCRUCLdata/R/get_CRU_stack.R | 2 getCRUCLdata-0.2.5/getCRUCLdata/R/internal_functions.R |only getCRUCLdata-0.2.5/getCRUCLdata/R/zzz.R | 27 getCRUCLdata-0.2.5/getCRUCLdata/README.md | 277 ---------- getCRUCLdata-0.2.5/getCRUCLdata/build/vignette.rds |binary getCRUCLdata-0.2.5/getCRUCLdata/inst/CITATION | 18 getCRUCLdata-0.2.5/getCRUCLdata/man/create_CRU_df.Rd | 7 getCRUCLdata-0.2.5/getCRUCLdata/man/create_CRU_stack.Rd | 7 getCRUCLdata-0.2.5/getCRUCLdata/man/get_CRU_df.Rd | 5 getCRUCLdata-0.2.5/getCRUCLdata/man/get_CRU_stack.Rd | 7 getCRUCLdata-0.2.5/getCRUCLdata/tests/testthat/test-create_CRU_stack.R | 4 getCRUCLdata-0.2.5/getCRUCLdata/tests/testthat/test-create_df.R | 20 22 files changed, 92 insertions(+), 349 deletions(-)