Title: 'Simulates Univariate and Semi-Competing Risks Data Given
Covariates and Piecewise Exponential Baseline Hazards'
Description: Contains two functions for simulating survival data from piecewise exponential hazards with a proportional hazards adjustment for covariates. The first function SimUNIVPiecewise simulates univariate survival data based on a piecewise exponential hazard, covariate matrix and true regression vector. The second function SimSCRPiecewise semi-competing risks data based on three piecewise exponential hazards, three true regression vectors and three matrices of patient covariates (which can be different or the same). This simulates from the Semi-Markov model of Lee et al (2015) given patient covariates, regression parameters, patient frailties and baseline hazard functions.
Author: Andrew G Chapple
Maintainer: Andrew G Chapple <Andrew.G.Chapple@rice.edu>
Diff between SimSCRPiecewise versions 0.1.0 dated 2016-07-27 and 0.1.1 dated 2016-07-27
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/SimPieceSCR.R | 1 + R/SimPieceUNI.R | 6 +++--- man/SimSCRPiecewise.Rd | 5 +---- man/SimUNIVPiecewise.Rd | 8 ++------ 6 files changed, 15 insertions(+), 21 deletions(-)
More information about SimSCRPiecewise at CRAN
Permanent link
Title: Maximum Likelihood Estimation and Likelihood Ratio Test
Functions for Separable Variance-Covariance Structures
Description: It combines maximum likelihood estimation of the parameters
of matrix and 3rd-order tensor normal distributions with unstructured
factor variance-covariance matrices, two procedures, and unbiased
modified likelihood ratio testing of simple and double separability
for variance-covariance structures, two procedures.
Author: Ameur Manceur [aut],
Timothy Schwinghamer [aut, cre],
Pierre Dutilleul [aut, cph]
Maintainer: Timothy Schwinghamer <schwinghamer@hotmail.com>
Diff between sEparaTe versions 0.1.2 dated 2016-07-24 and 0.2.1 dated 2016-07-27
DESCRIPTION | 6 MD5 | 10 - R/lrt2d_svc.R | 404 ++++++++++++++++++++++++++---------------------- R/lrt3d_svc.R | 486 ++++++++++++++++++++++++++++++++++------------------------ R/mle2d_svc.R | 172 +++++++++++--------- R/mle3d_svc.R | 227 ++++++++++++++++----------- 6 files changed, 753 insertions(+), 552 deletions(-)
Title: Variable Selection in Partial Least Squares
Description: Interfaces and methods for variable selection in Partial Least
Squares. The methods include filter methods, wrapper methods and embedded
methods. Both regression and classification is supported.
Author: Kristian Hovde Liland, Tahir Mehmood, Solve Sæbø
Maintainer: Kristian Hovde Liland <kristian.liland@nmbu.no>
Diff between plsVarSel versions 0.8 dated 2016-06-15 and 0.9 dated 2016-07-27
DESCRIPTION | 10 ++-- MD5 | 58 ++++++++++++----------- NAMESPACE | 4 + R/BVE.R | 50 +++++++++++++------- R/GA.R | 13 +++-- R/IPW.R | 27 +++++++--- R/REP.R | 53 +++++++++++++-------- R/SPA.R | 48 ++++++++++++------- R/UVE.R | 31 +++++++++--- R/filters.R | 118 +++++++++++++++++++++++++++++++++++++----------- R/lda_from_pls.R |only R/plsVarSel.R | 12 +++- R/shaving.R | 56 ++-------------------- R/stpls.R | 10 ++-- R/trunc.R | 10 ++-- R/utilities.R | 58 ++++++++++++++++++++--- man/VIP.Rd | 8 ++- man/bve_pls.Rd | 8 ++- man/ga_pls.Rd | 8 ++- man/ipw_pls.Rd | 8 ++- man/lda_from_pls.Rd |only man/lda_from_pls_cv.Rd |only man/mcuve_pls.Rd | 8 ++- man/myImagePlot.Rd | 8 ++- man/plsVarSel.Rd | 12 +++- man/rep_pls.Rd | 8 ++- man/setDA.Rd |only man/shaving.Rd | 8 ++- man/simulate_classes.Rd | 8 ++- man/spa_pls.Rd | 8 ++- man/stpls.Rd | 8 ++- man/truncation.Rd | 8 ++- 32 files changed, 426 insertions(+), 240 deletions(-)
Title: Access to the Neotoma Paleoecological Database Through R
Description: Access paleoecological datasets from the Neotoma Paleoecological
Database using the published API (http://api.neotomadb.org/). The functions
in this package access various pre-built API functions and attempt to return
the results from Neotoma in a usable format for researchers and the public.
Author: Simon J. Goring [aut, cre], Gavin L. Simpson [aut], Jeremiah P. Marsicek
[ctb], Karthik Ram [aut], Luke Sosalla [ctb]
Maintainer: Simon J. Goring <goring@wisc.edu>
Diff between neotoma versions 1.5.1 dated 2016-05-06 and 1.6.0 dated 2016-07-27
DESCRIPTION | 8 +- MD5 | 44 +++++++------- NAMESPACE | 6 + NEWS | 7 ++ R/bind.R | 75 +++++++++++++----------- R/get_chroncontrol.R | 12 +++ R/get_closest.R |only R/get_contact.R | 15 ++-- R/get_dataset.R | 4 - R/get_download.R | 8 +- R/get_geochron.R | 92 +++++++++++++++--------------- R/get_table.R | 11 ++- R/print.geochronologic_list.R | 11 ++- R/write_agefile.R | 55 ++++++++++-------- README.md | 10 --- man/bind.Rd | 16 ++--- man/get_chroncontrol.Rd | 12 +++ man/get_closest.Rd |only man/get_geochron.Rd | 16 ++--- man/get_table.Rd | 10 ++- man/write_agefile.Rd | 12 +++ tests/testthat/test_examples.R | 9 +- tests/testthat/test_neotoma.R | 113 ++++++++++++++++++------------------- tests/testthat/test_simple_paper.R | 5 - 24 files changed, 309 insertions(+), 242 deletions(-)
Title: Utility Functions by Youyi, Krisz and Others
Description: A miscellaneous set of functions for printing, plotting, kernels, etc. Additional contributors are acknowledged on individual function help pages.
Author: Youyi Fong <yfong@fhcrc.org>, Krisztian Sebestyen <ksebestyen@gmail.com>
Maintainer: Youyi Fong <yfong@fhcrc.org>
Diff between kyotil versions 2016.7-9 dated 2016-07-11 and 2016.7-27 dated 2016-07-27
DESCRIPTION | 8 +- MD5 | 14 +-- NAMESPACE | 4 - R/plotting.R | 24 ++++-- R/print.R | 204 +++++++++++++++++++++++++++++++------------------------- R/random.R | 4 - R/string.R | 24 ------ man/plotting.Rd | 6 + 8 files changed, 151 insertions(+), 137 deletions(-)
Title: Fitting Single and Mixture of Generalised Lambda Distributions
(RS and FMKL) using Various Methods
Description: The fitting algorithms considered in this package have two major objectives. One is to provide a smoothing device to fit distributions to data using the weight and unweighted discretised approach based on the bin width of the histogram. The other is to provide a definitive fit to the data set using the maximum likelihood and quantile matching estimation. Other methods such as moment matching, starship method, L moment matching are also provided. Diagnostics on goodness of fit can be done via qqplots, KS-resample tests and comparing mean, variance, skewness and kurtosis of the data with the fitted distribution.
Author: Steve Su, with contributions from: Diethelm Wuertz, Martin Maechler and Rmetrics core team members for low discrepancy algorithm, Juha Karvanen for L moments codes, Robert King for gld C codes and starship codes, Benjamin Dean for corrections and input in ks.gof code and R core team for histsu function.
Maintainer: Steve Su <allegro.su@gmail.com>
Diff between GLDEX versions 2.0.0.3 dated 2015-07-04 and 2.0.0.4 dated 2016-07-27
DESCRIPTION | 8 ++++---- MD5 | 19 ++++++++++--------- R/fun.diag.ks.g.R | 4 ++-- R/fun.diag.ks.g.bimodal.R | 4 ++-- R/fun.diag1.R | 8 ++++---- R/fun.diag2.R | 8 ++++---- README |only man/fun.diag.ks.g.Rd | 5 +++-- man/fun.diag.ks.g.bimodal.Rd | 5 +++-- man/fun.diag1.Rd | 5 +++-- man/fun.diag2.Rd | 5 +++-- 11 files changed, 38 insertions(+), 33 deletions(-)
Title: Extract-Transform-Load Framework for Medium Data
Description: A framework for loading medium-sized data from
the Internet to a local or remote relational database management system.
This package itself doesn't do much more than provide a toy example and set up
the method structure. Packages that depend on this package will facilitate the
construction and maintenance of their respective databases.
Author: Ben Baumer [aut, cre],
Carson Sievert [ctb]
Maintainer: Ben Baumer <ben.baumer@gmail.com>
Diff between etl versions 0.3.1 dated 2016-06-13 and 0.3.3 dated 2016-07-27
etl-0.3.1/etl/inst/sql/mtcars.mysql |only etl-0.3.1/etl/inst/sql/mtcars.psql |only etl-0.3.1/etl/inst/sql/mtcars.sqlite3 |only etl-0.3.1/etl/man/get_schema.Rd |only etl-0.3.1/etl/man/is.etl.Rd |only etl-0.3.3/etl/DESCRIPTION | 14 - etl-0.3.3/etl/MD5 | 38 ++-- etl-0.3.3/etl/NAMESPACE | 23 ++ etl-0.3.3/etl/NEWS.md | 12 + etl-0.3.3/etl/R/etl.R | 40 ++++ etl-0.3.3/etl/R/etl_create.R | 21 +- etl-0.3.3/etl/R/etl_load.R | 127 +++++++++++--- etl-0.3.3/etl/R/etl_transform.R | 12 - etl-0.3.3/etl/R/utils.R | 205 +++++++++++++++--------- etl-0.3.3/etl/README.md | 33 ++- etl-0.3.3/etl/inst/sql/init.mysql |only etl-0.3.3/etl/inst/sql/init.postgres |only etl-0.3.3/etl/inst/sql/init.sqlite |only etl-0.3.3/etl/man/dbWipe.Rd |only etl-0.3.3/etl/man/etl.Rd | 21 ++ etl-0.3.3/etl/man/etl_create.Rd | 28 +-- etl-0.3.3/etl/man/etl_init.Rd |only etl-0.3.3/etl/man/match_files_by_year_months.Rd |only etl-0.3.3/etl/man/smart_download.Rd | 10 + etl-0.3.3/etl/man/valid_year_month.Rd |only etl-0.3.3/etl/tests/testthat/test-etl.R | 79 ++++++++- 26 files changed, 478 insertions(+), 185 deletions(-)
Title: Bibliometric and Co-Citation Analysis Tool
Description: Tool for quantitative research in scientometrics and bibliometrics.
It provides various routines for importing bibliographic data from SCOPUS and
Thomson Reuters' ISI Web of Knowledge databases, performing bibliometric analysis
and building data matrices for co-citation, coupling and scientific collaboration analysis.
Author: Massimo Aria [cre, aut],
Corrado Cuccurullo [aut]
Maintainer: Massimo Aria <aria@unina.it>
Diff between bibliometrix versions 0.8 dated 2016-06-20 and 1.0 dated 2016-07-27
DESCRIPTION | 8 - MD5 | 60 +++++++------- NAMESPACE | 154 ++++++++++++++++++++++++++++++++---- NEWS | 11 ++ R/Hindex.R | 3 R/biblioAnalysis.R | 1 R/biblioNetwork.R | 3 R/citations.R | 1 R/cocMatrix.R | 29 +++++- R/convert2df.R | 119 +++++++++++++++++++++++++++ R/couplingSimilarity.R | 1 R/dfMerge.R | 1 R/dominance.R | 1 R/histNetwork.R |only R/isi2df.R | 1 R/isibib2df.R | 2 R/keywordsAssoc.R | 1 R/localCitations.R | 3 R/lotka.R | 3 R/metaTagExtraction.R | 3 R/plot.bibliometrix.R | 5 - R/scopus2df.R | 2 R/summary.bibliometrix.R | 5 - R/tableTag.R | 1 R/timeslice.R | 3 R/trim.leading.R | 3 build/vignette.rds |binary inst/doc/bibliometrix-vignette.R | 31 +++++-- inst/doc/bibliometrix-vignette.Rmd | 39 +++++++-- inst/doc/bibliometrix-vignette.html | 70 ++++++++++++---- man/histNetwork.Rd |only vignettes/bibliometrix-vignette.Rmd | 39 +++++++-- 32 files changed, 502 insertions(+), 101 deletions(-)
Title: Tools for Storing, Restoring and Searching for R Objects
Description: Data exploration and modelling is a process in which a lot of data
artifacts are produced. Artifacts like: subsets, data aggregates, plots,
statistical models, different versions of data sets and different versions
of results. The more projects we work with the more artifacts are produced
and the harder it is to manage these artifacts. Archivist helps to store
and manage artifacts created in R. Archivist allows you to store selected
artifacts as a binary files together with their metadata and relations.
Archivist allows to share artifacts with others, either through shared
folder or github. Archivist allows to look for already created artifacts by
using it's class, name, date of the creation or other properties. Makes it
easy to restore such artifacts. Archivist allows to check if new artifact
is the exact copy that was produced some time ago. That might be useful
either for testing or caching.
Author: Przemyslaw Biecek [aut, cre],
Marcin Kosinski [aut],
Witold Chodor [ctb]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between archivist versions 2.0.4 dated 2016-05-12 and 2.1 dated 2016-07-27
DESCRIPTION | 7 ++- MD5 | 94 ++++++++++++++++++++++++----------------------- NAMESPACE | 1 NEWS.md | 14 ++++++- R/addArchivistHooks.R | 56 +++++++++++++++++----------- R/ahistory.R | 21 ++++++++++ R/archivist-package.R | 5 ++ R/aread.R | 25 ++++++++---- R/asearch.R | 10 ++++- R/asession.R | 50 ++++++++++++++++--------- R/atrace.R |only R/createEmptyRepo.R | 48 ++++++++++++++++-------- R/getTags.R | 19 +++++++-- R/loadFromRepo.R | 10 ++++- R/magrittr.R | 6 ++- R/searchInRepo.R | 14 ++++++- man/Repository.Rd | 3 + man/Tags.Rd | 4 +- man/addHooksToPrint.Rd | 30 ++++++++------- man/addTagsRepo.Rd | 4 +- man/aformat.Rd | 4 +- man/ahistory.Rd | 9 +++- man/alink.Rd | 4 +- man/archivist-package.Rd | 10 ++++- man/archivistOptions.Rd | 4 +- man/aread.Rd | 4 +- man/asearch.Rd | 4 +- man/asession.Rd | 4 +- man/atrace.Rd |only man/cache.Rd | 2 - man/copyToRepo.Rd | 3 + man/createEmptyRepo.Rd | 6 ++- man/createMDGallery.Rd | 3 + man/deleteLocalRepo.Rd | 6 ++- man/getRemoteHook.Rd | 3 + man/getTags.Rd | 6 ++- man/loadFromRepo.Rd | 3 + man/magrittr.Rd | 9 +++- man/md5hash.Rd | 3 + man/restoreLibs.Rd | 3 + man/rmFromLocalRepo.Rd | 6 ++- man/saveToRepo.Rd | 3 + man/searchInRepo.Rd | 9 +++- man/setRepo.Rd | 6 ++- man/shinySearchInRepo.Rd | 3 + man/showRepo.Rd | 3 + man/splitTags.Rd | 3 + man/summaryRepo.Rd | 3 + man/zipRepo.Rd | 6 ++- 49 files changed, 366 insertions(+), 187 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: An R implementation of Ken Ludwig's popular Isoplot add-in to Microsoft Excel. Currently plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using the 'York' approach. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Calculates 40A/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Future versions will include functionality for the Rb-Sr, Sm-Nd, Re-Os, U-Th-He, fission track and cosmogenic nuclide methods, ternary diagrams, radial plots, banana diagrams and multidimensional scaling plots. A graphical user interface is provided as an RStudio Shiny app at http://isoplotr.london-geochron.com. Offline access to this interface will be provided at a later point in time.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 0.5 dated 2016-07-03 and 0.6 dated 2016-07-27
DESCRIPTION | 8 ++-- MD5 | 53 ++++++++++++++++-------------- NAMESPACE | 12 ++++++ R/ArAr.R | 44 ++++++++++++++++++------- R/UPb.R | 91 ++++++++++++++++++++++++++++++++++++++++------------ R/age.R | 48 ++++++++++++++++++++------- R/agespectrum.R |only R/cad.R | 89 ++++++++++++++++++++++++++++++++++---------------- R/concordia.R | 15 ++++---- R/constants.R | 14 ++++---- R/discordia.R | 14 ++++---- R/errorellipse.R | 28 ++++++++++++++-- R/io.R | 23 ++++++++++++- R/isochron.R | 85 +++++++++++++++++++++++++++--------------------- R/kde.R | 63 ++++++++++++++++-------------------- R/regression.R | 29 +--------------- R/toolbox.R | 35 ++++++++++++++++++-- R/weightedmean.R |only data/examples.rda |binary inst/ArAr.csv | 31 ++++++++--------- inst/RbSr.csv |only inst/constants.json | 11 +++++- man/age.Rd | 17 +++++++-- man/agespectrum.Rd |only man/cad.Rd | 52 ++++++++++++++++++++++++----- man/concordia.Rd | 4 +- man/isochron.Rd | 15 +++++--- man/kde.Rd | 10 ++++- man/lambda.Rd | 14 ++++---- man/weightedmean.Rd |only 30 files changed, 530 insertions(+), 275 deletions(-)
More information about SimSCRPiecewise at CRAN
Permanent link
Title: Test Metric and Null Model Statistical Performance
Description: Explore the behavior and performance of phylogenetic metrics and
null models.
Author: Eliot Miller, Chris Trisos & Damien Farine
Maintainer: Eliot Miller <eliot.isaac@gmail.com>
Diff between metricTester versions 1.2.2 dated 2016-06-25 and 1.3.0 dated 2016-07-27
metricTester-1.2.2/metricTester/R/sesSingle.R |only metricTester-1.2.2/metricTester/man/sesSingle.Rd |only metricTester-1.3.0/metricTester/DESCRIPTION | 10 metricTester-1.3.0/metricTester/MD5 | 280 +++++----- metricTester-1.3.0/metricTester/NAMESPACE | 4 metricTester-1.3.0/metricTester/NEWS.md | 16 metricTester-1.3.0/metricTester/R/FDis.R | 2 metricTester-1.3.0/metricTester/R/abundanceVector.r | 4 metricTester-1.3.0/metricTester/R/alphaMetricSims.R | 4 metricTester-1.3.0/metricTester/R/arenaTest.R | 50 + metricTester-1.3.0/metricTester/R/betaErrorChecker.R | 7 metricTester-1.3.0/metricTester/R/betaErrorWrapper.R | 4 metricTester-1.3.0/metricTester/R/betaLinker.R | 42 - metricTester-1.3.0/metricTester/R/betaMetricSims.R | 4 metricTester-1.3.0/metricTester/R/betaMetricsNnulls.R | 23 metricTester-1.3.0/metricTester/R/betaMultiLinker.R | 33 - metricTester-1.3.0/metricTester/R/calcBetaMetrics.R | 22 metricTester-1.3.0/metricTester/R/calcField.R | 12 metricTester-1.3.0/metricTester/R/calcMetrics.R | 40 - metricTester-1.3.0/metricTester/R/centers.R | 2 metricTester-1.3.0/metricTester/R/checkBetaMetrics.R | 58 +- metricTester-1.3.0/metricTester/R/checkCDM.R | 4 metricTester-1.3.0/metricTester/R/checkMetrics.R | 58 +- metricTester-1.3.0/metricTester/R/checkNulls.R | 58 +- metricTester-1.3.0/metricTester/R/checkSimulations.R | 63 +- metricTester-1.3.0/metricTester/R/competitionArena.R | 4 metricTester-1.3.0/metricTester/R/defineBetaMetrics.R | 4 metricTester-1.3.0/metricTester/R/defineMetrics.R | 4 metricTester-1.3.0/metricTester/R/defineNulls.R | 4 metricTester-1.3.0/metricTester/R/defineSimulations.R | 4 metricTester-1.3.0/metricTester/R/errorChecker.R | 40 - metricTester-1.3.0/metricTester/R/evolveTraits.R | 4 metricTester-1.3.0/metricTester/R/expectations.R | 31 - metricTester-1.3.0/metricTester/R/filteringArena.R | 15 metricTester-1.3.0/metricTester/R/killSome.R | 4 metricTester-1.3.0/metricTester/R/killSomeBig.R | 4 metricTester-1.3.0/metricTester/R/lengthNonZeros.R | 4 metricTester-1.3.0/metricTester/R/linker.R | 35 - metricTester-1.3.0/metricTester/R/makeCDM.R | 4 metricTester-1.3.0/metricTester/R/metricPerformance.R | 82 +- metricTester-1.3.0/metricTester/R/metricsNnulls.R | 63 +- metricTester-1.3.0/metricTester/R/modifiedMPD.R | 4 metricTester-1.3.0/metricTester/R/multiCDM.R | 4 metricTester-1.3.0/metricTester/R/multiLinker.R | 33 - metricTester-1.3.0/metricTester/R/nullPerformance.R | 86 +-- metricTester-1.3.0/metricTester/R/observedBetaMetrics.R | 16 metricTester-1.3.0/metricTester/R/observedMetrics.R | 15 metricTester-1.3.0/metricTester/R/plotContents.R | 11 metricTester-1.3.0/metricTester/R/plotOverall.R | 36 + metricTester-1.3.0/metricTester/R/plotPlacer.R | 4 metricTester-1.3.0/metricTester/R/plotPlotter.R | 10 metricTester-1.3.0/metricTester/R/plotTest.R | 50 - metricTester-1.3.0/metricTester/R/prepData.R | 4 metricTester-1.3.0/metricTester/R/prepNulls.R | 4 metricTester-1.3.0/metricTester/R/prepSimulations.R | 4 metricTester-1.3.0/metricTester/R/randomArena.R | 4 metricTester-1.3.0/metricTester/R/readIn.R | 4 metricTester-1.3.0/metricTester/R/reduceRandomizations.R | 9 metricTester-1.3.0/metricTester/R/reduceResults.R | 33 - metricTester-1.3.0/metricTester/R/regionalNull.R | 4 metricTester-1.3.0/metricTester/R/relativeCDM.R | 4 metricTester-1.3.0/metricTester/R/runNulls.R | 32 - metricTester-1.3.0/metricTester/R/runSimulations.R | 34 - metricTester-1.3.0/metricTester/R/sesField.R | 15 metricTester-1.3.0/metricTester/R/sesIndiv.R | 236 +++++++- metricTester-1.3.0/metricTester/R/sesOverall.R | 111 ++- metricTester-1.3.0/metricTester/R/settleSome.R | 4 metricTester-1.3.0/metricTester/R/simulateComm.R | 4 metricTester-1.3.0/metricTester/R/summCorrs.R | 4 metricTester-1.3.0/metricTester/R/summaries.R | 15 metricTester-1.3.0/metricTester/R/traitField.R | 6 metricTester-1.3.0/metricTester/R/utils.R | 20 metricTester-1.3.0/metricTester/R/varLandscape.R |only metricTester-1.3.0/metricTester/R/varyX.R | 4 metricTester-1.3.0/metricTester/man/FDis.Rd | 2 metricTester-1.3.0/metricTester/man/abundanceVector.Rd | 4 metricTester-1.3.0/metricTester/man/alphaMetricSims.Rd | 4 metricTester-1.3.0/metricTester/man/arenaTest.Rd | 25 metricTester-1.3.0/metricTester/man/betaErrorChecker.Rd | 7 metricTester-1.3.0/metricTester/man/betaErrorWrapper.Rd | 4 metricTester-1.3.0/metricTester/man/betaLinker.Rd | 42 - metricTester-1.3.0/metricTester/man/betaMetricSims.Rd | 4 metricTester-1.3.0/metricTester/man/betaMetricsNnulls.Rd | 25 metricTester-1.3.0/metricTester/man/betaMultiLinker.Rd | 33 - metricTester-1.3.0/metricTester/man/calcBetaMetrics.Rd | 21 metricTester-1.3.0/metricTester/man/calcField.Rd | 12 metricTester-1.3.0/metricTester/man/calcMetrics.Rd | 39 - metricTester-1.3.0/metricTester/man/centers.Rd | 2 metricTester-1.3.0/metricTester/man/checkBetaMetrics.Rd | 16 metricTester-1.3.0/metricTester/man/checkCDM.Rd | 4 metricTester-1.3.0/metricTester/man/checkMetrics.Rd | 16 metricTester-1.3.0/metricTester/man/checkNulls.Rd | 16 metricTester-1.3.0/metricTester/man/checkSimulations.Rd | 17 metricTester-1.3.0/metricTester/man/competitionArena.Rd | 4 metricTester-1.3.0/metricTester/man/defineBetaMetrics.Rd | 4 metricTester-1.3.0/metricTester/man/defineMetrics.Rd | 4 metricTester-1.3.0/metricTester/man/defineNulls.Rd | 4 metricTester-1.3.0/metricTester/man/defineSimulations.Rd | 4 metricTester-1.3.0/metricTester/man/errorChecker.Rd | 20 metricTester-1.3.0/metricTester/man/evolveTraits.Rd | 4 metricTester-1.3.0/metricTester/man/expectations.Rd | 33 - metricTester-1.3.0/metricTester/man/filteringArena.Rd | 15 metricTester-1.3.0/metricTester/man/killSome.Rd | 4 metricTester-1.3.0/metricTester/man/killSomeBig.Rd | 4 metricTester-1.3.0/metricTester/man/lengthNonZeros.Rd | 4 metricTester-1.3.0/metricTester/man/linker.Rd | 33 - metricTester-1.3.0/metricTester/man/makeCDM.Rd | 4 metricTester-1.3.0/metricTester/man/metricPerformance.Rd | 26 metricTester-1.3.0/metricTester/man/metricsNnulls.Rd | 25 metricTester-1.3.0/metricTester/man/modifiedMPD.Rd | 4 metricTester-1.3.0/metricTester/man/multiCDM.Rd | 4 metricTester-1.3.0/metricTester/man/multiLinker.Rd | 33 - metricTester-1.3.0/metricTester/man/nullPerformance.Rd | 26 metricTester-1.3.0/metricTester/man/observedBetaMetrics.Rd | 16 metricTester-1.3.0/metricTester/man/observedMetrics.Rd | 15 metricTester-1.3.0/metricTester/man/plotContents.Rd | 9 metricTester-1.3.0/metricTester/man/plotOverall.Rd | 12 metricTester-1.3.0/metricTester/man/plotPlacer.Rd | 4 metricTester-1.3.0/metricTester/man/plotPlotter.Rd | 9 metricTester-1.3.0/metricTester/man/plotTest.Rd | 28 - metricTester-1.3.0/metricTester/man/prepData.Rd | 4 metricTester-1.3.0/metricTester/man/prepNulls.Rd | 4 metricTester-1.3.0/metricTester/man/prepSimulations.Rd | 4 metricTester-1.3.0/metricTester/man/randomArena.Rd | 4 metricTester-1.3.0/metricTester/man/readIn.Rd | 4 metricTester-1.3.0/metricTester/man/reduceRandomizations.Rd | 9 metricTester-1.3.0/metricTester/man/reduceResults.Rd | 10 metricTester-1.3.0/metricTester/man/regionalNull.Rd | 4 metricTester-1.3.0/metricTester/man/relativeCDM.Rd | 4 metricTester-1.3.0/metricTester/man/runNulls.Rd | 31 - metricTester-1.3.0/metricTester/man/runSimulations.Rd | 33 - metricTester-1.3.0/metricTester/man/sesField.Rd | 17 metricTester-1.3.0/metricTester/man/sesIndiv.Rd | 44 + metricTester-1.3.0/metricTester/man/sesOverall.Rd | 22 metricTester-1.3.0/metricTester/man/settleSome.Rd | 4 metricTester-1.3.0/metricTester/man/simulateComm.Rd | 4 metricTester-1.3.0/metricTester/man/summCorrs.Rd | 4 metricTester-1.3.0/metricTester/man/summaries.Rd | 15 metricTester-1.3.0/metricTester/man/traitField.Rd | 6 metricTester-1.3.0/metricTester/man/varLandscape.Rd |only metricTester-1.3.0/metricTester/man/varyX.Rd | 4 metricTester-1.3.0/metricTester/tests/testthat/test_post_sim_analyses_by_both.R | 8 metricTester-1.3.0/metricTester/tests/testthat/test_post_sim_analyses_by_richness.R | 8 143 files changed, 1805 insertions(+), 1017 deletions(-)
Title: Draw Geographical Maps
Description: Display of maps. Projection code and larger maps are in
separate packages ('mapproj' and 'mapdata').
Author: Original S code by Richard A. Becker and Allan R. Wilks.
R version by Ray Brownrigg.
Enhancements by Thomas P Minka and Alex Deckmyn.
Maintainer: Alex Deckmyn <alex.deckmyn@meteo.be>
Diff between maps versions 3.1.0 dated 2016-02-13 and 3.1.1 dated 2016-07-27
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/db.r | 7 +++++-- R/map.r | 7 +++++-- R/zzz.R | 9 --------- README.md | 4 ++-- data/world.cities.rda |binary inst/NEWS.Rd | 9 ++++++++- inst/README.md | 4 ++-- src/legacy_world.name | 4 ++-- 10 files changed, 37 insertions(+), 33 deletions(-)
More information about BayesPiecewiseICAR at CRAN
Permanent link
Title: Plot Categorical Data Using Quasirandom Noise and Density
Estimates
Description: Generate a violin point plot, a combination of a violin/histogram
plot and a scatter plot by offsetting points within a category based on their
density using quasirandom noise.
Author: Scott Sherrill-Mix, Erik Clarke
Maintainer: Scott Sherrill-Mix <shescott@upenn.edu>
Diff between vipor versions 0.4.2 dated 2016-07-03 and 0.4.3 dated 2016-07-27
DESCRIPTION | 8 ++-- MD5 | 22 ++++++------ R/violinPoint.R | 12 +++--- README.md | 41 ++++++++++++++++++++++- inst/doc/methodComparison.R | 72 +++++++++++++++++++++-------------------- inst/doc/methodComparison.Rnw | 64 +++++++++++++++++++----------------- inst/doc/methodComparison.pdf |binary inst/doc/usageExamples.Rnw | 3 + inst/doc/usageExamples.pdf |binary man/offsetX.Rd | 8 ++-- vignettes/methodComparison.Rnw | 64 +++++++++++++++++++----------------- vignettes/usageExamples.Rnw | 3 + 12 files changed, 177 insertions(+), 120 deletions(-)
Title: Morphological Analysis and Spell Checker for R
Description: A spell checker and morphological analyzer library designed for
languages with rich morphology and complex word compounding or character
encoding. The package can check and analyze individual words as well as
search for incorrect words within a text, latex or manual document. Use
the 'devtools' package to spell check R documentation with 'hunspell'.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen.ooms@stat.ucla.edu>
Diff between hunspell versions 1.4.2 dated 2016-07-13 and 1.4.3 dated 2016-07-27
hunspell-1.4.2/hunspell/src/config.h |only hunspell-1.4.3/hunspell/DESCRIPTION | 10 +++++----- hunspell-1.4.3/hunspell/MD5 | 13 ++++++------- hunspell-1.4.3/hunspell/NEWS | 4 ++++ hunspell-1.4.3/hunspell/src/RcppExports.cpp | 20 ++++++++++---------- hunspell-1.4.3/hunspell/src/check.cpp | 10 +++++----- hunspell-1.4.3/hunspell/src/hunspell/hunspell.cc | 3 --- hunspell-1.4.3/hunspell/src/utils.h | 6 +++--- 8 files changed, 33 insertions(+), 33 deletions(-)
Title: Evaluation of Surrogate Endpoints in Clinical Trials
Description: In a clinical trial, it frequently occurs that the most credible outcome to evaluate the effectiveness of a new therapy (the true endpoint) is difficult to measure. In such a situation, it can be an effective strategy to replace the true endpoint by a (bio)marker that is easier to measure and that allows for a prediction of the treatment effect on the true endpoint (a surrogate endpoint). The package 'Surrogate' allows for an evaluation of the appropriateness of a candidate surrogate endpoint based on the meta-analytic, information-theoretic, and causal-inference frameworks. Part of this software has been developed using funding provided from the European Union's 7-th Framework Programme for research, technological development and demonstration under Grant Agreement no 602552.
Author: Wim Van der Elst, Paul Meyvisch, Ariel Alonso, Hannah M. Ensor, Christopher J. Weir & Geert Molenberghs
Maintainer: Wim Van der Elst <Wim.vanderelst@gmail.com>
Diff between Surrogate versions 0.1-73 dated 2016-05-16 and 0.1-74 dated 2016-07-27
DESCRIPTION | 8 - MD5 | 19 +- NAMESPACE | 10 + NEWS | 6 R/Fano.BinBin.R |only R/MarginalProbs.R | 84 ++++++------ R/Single.Trial.RE.AA.R | 291 +++++++++++++++++++++--------------------- R/plot.Fano.BinBin.R |only R/summary.Fano.BinBin.R |only R/summary.FixedDIscrDiscrIT.R | 75 +++++----- man/Fano.BinBin.Rd |only man/plot.Fano.BinBin.Rd |only man/summary.gen.Rd | 2 13 files changed, 260 insertions(+), 235 deletions(-)
Title: An Implementation of 'kinn' Algorithm, a Graph Based Regression
Model
Description: A graph based regression model from flat unstructured dataset.
Each line in the input data set is treated as a node from which an edge to another line (node) can be formed.
In the training process, a model is created which contains sparse graph adjacency matrix.
This model is then used for prediction by taking a predictor and the model as inputs and outputs
a prediction which is an average of the most similar node and its neighbours in the model graph.
Author: Yossi Keshet
Maintainer: Yossi Keshet <jossiekat@icloud.com>
Diff between kinn versions 0.1 dated 2016-05-22 and 0.2 dated 2016-07-27
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/kinn.R | 17 +++++++++++------ 3 files changed, 17 insertions(+), 12 deletions(-)
More information about EvaluationMeasures at CRAN
Permanent link
Title: Spatial Implementation of Bayesian Networks and Mapping
Description: Package for the spatial implementation of Bayesian Networks and mapping in geographical space. It makes maps of expected value (or most likely state) given known and unknown conditions, maps of uncertainty measured as coefficient of variation or Shannon index (entropy), maps of probability associated to any states of any node of the network. Some additional features are provided as well: parallel processing options, data discretization routines and function wrappers designed for users with minimal knowledge of the R language. Outputs can be exported to any common GIS format. Development was funded by the European Union FP7 (2007-2013), under project ROBIN (agreement 283093).
Author: Dario Masante [aut, cre]
Maintainer: Dario Masante <dmasan@ceh.ac.uk>
Diff between bnspatial versions 0.9 dated 2016-06-02 and 1.0 dated 2016-07-27
bnspatial-0.9/bnspatial/inst/extdata/CurrentLULC.tif |only bnspatial-0.9/bnspatial/inst/extdata/LegalStatus.tif |only bnspatial-0.9/bnspatial/inst/extdata/degSlope.tif |only bnspatial-0.9/bnspatial/man/currentLU.Rd |only bnspatial-0.9/bnspatial/man/slope.Rd |only bnspatial-0.9/bnspatial/man/status.Rd |only bnspatial-1.0/bnspatial/DESCRIPTION | 18 - bnspatial-1.0/bnspatial/MD5 | 67 +++--- bnspatial-1.0/bnspatial/NEWS.md |only bnspatial-1.0/bnspatial/R/Conwy-data.R | 28 +- bnspatial-1.0/bnspatial/R/aoi.R | 8 bnspatial-1.0/bnspatial/R/bnspatial.R | 2 bnspatial-1.0/bnspatial/R/dataDiscretize.R | 12 - bnspatial-1.0/bnspatial/R/extractByMask.R | 12 - bnspatial-1.0/bnspatial/R/linkNode.R | 6 bnspatial-1.0/bnspatial/R/loadNetwork.R | 35 +-- bnspatial-1.0/bnspatial/R/mapTarget.R | 75 ++++--- bnspatial-1.0/bnspatial/R/queryNet.R | 14 - bnspatial-1.0/bnspatial/R/setClasses.R | 2 bnspatial-1.0/bnspatial/R/zzz.R |only bnspatial-1.0/bnspatial/data/ConwyData.RData |binary bnspatial-1.0/bnspatial/inst/COPYRIGHTS |only bnspatial-1.0/bnspatial/inst/doc/bnspatial.R | 49 +++- bnspatial-1.0/bnspatial/inst/doc/bnspatial.Rmd | 129 +++++++----- bnspatial-1.0/bnspatial/inst/doc/bnspatial.html | 201 +++++++++++-------- bnspatial-1.0/bnspatial/inst/extdata/ConwyLU.tif |only bnspatial-1.0/bnspatial/inst/extdata/ConwySlope.tif |only bnspatial-1.0/bnspatial/inst/extdata/ConwyStatus.tif |only bnspatial-1.0/bnspatial/man/ConwyData.Rd | 14 - bnspatial-1.0/bnspatial/man/ConwyLU.Rd |only bnspatial-1.0/bnspatial/man/ConwySlope.Rd |only bnspatial-1.0/bnspatial/man/ConwyStatus.Rd |only bnspatial-1.0/bnspatial/man/aoi.Rd | 8 bnspatial-1.0/bnspatial/man/bnspatial.Rd | 6 bnspatial-1.0/bnspatial/man/dataDiscretize.Rd | 4 bnspatial-1.0/bnspatial/man/evidence.Rd | 2 bnspatial-1.0/bnspatial/man/extractByMask.Rd | 8 bnspatial-1.0/bnspatial/man/linkNode.Rd | 8 bnspatial-1.0/bnspatial/man/loadNetwork.Rd | 18 + bnspatial-1.0/bnspatial/man/mapTarget.Rd | 10 bnspatial-1.0/bnspatial/man/queryNet.Rd | 5 bnspatial-1.0/bnspatial/vignettes/bnspatial.Rmd | 129 +++++++----- 42 files changed, 526 insertions(+), 344 deletions(-)
Title: Record Linkage in R
Description: Provides functions for linking and de-duplicating data sets.
Methods based on a stochastic approach are implemented as well as
classification algorithms from the machine learning domain.
Author: Andreas Borg <borga@uni-mainz.de>, Murat Sariyar <murat.sariyar@charite.de>
Maintainer: Andreas Borg <borga@uni-mainz.de>
Diff between RecordLinkage versions 0.4-9 dated 2016-05-03 and 0.4-10 dated 2016-07-27
DESCRIPTION | 9 ++++----- MD5 | 20 +++++++++++--------- NAMESPACE | 1 + NEWS | 3 +++ build/vignette.rds |binary inst/doc/BigData.pdf |binary inst/doc/EVT.pdf |binary inst/doc/Supervised.pdf |binary inst/doc/WeightBased.pdf |binary man/RLdata.rd | 3 +-- src/sqlite3.h |only src/sqlite3ext.h |only 12 files changed, 20 insertions(+), 16 deletions(-)
Title: Penalized Ordinal Regression
Description: Fits ordinal regression models with elastic net penalty. Supported
models include cumulative logit, probit, cauchit, and complementary log-log.
The algorithm uses Fisher Scoring with Coordinate Descent updates.
Author: Michael Wurm [aut, cre],
Bret Hanlon [ths]
Maintainer: Michael Wurm <wurm@wisc.edu>
Diff between ordinalNet versions 1.4 dated 2015-12-10 and 1.5 dated 2016-07-27
DESCRIPTION | 18 ++++++++++-------- LICENSE | 2 +- MD5 | 8 ++++---- R/ordinalNet.R | 30 +++++++++++++++++++++--------- man/ordinalNet.Rd | 21 ++++++++++++++------- 5 files changed, 50 insertions(+), 29 deletions(-)
Title: The Observatory of Economic Complexity
Description: Use The Observatory of Economic Complexity's API from R console to obtain international trade data to create spreadsheets (csv format) and D3Plus visualizations.
Author: Mauricio Vargas S. <mauriciovargas@ug.uchile.cl>
Maintainer: Mauricio Vargas S. <mauriciovargas@ug.uchile.cl>
Diff between oec versions 1.0 dated 2016-07-26 and 1.0.2 dated 2016-07-27
oec-1.0.2/oec/DESCRIPTION | 8 ++-- oec-1.0.2/oec/LICENSE | 2 - oec-1.0.2/oec/MD5 | 56 ++++++++++++++--------------- oec-1.0.2/oec/R/d3plus.R | 2 - oec-1.0.2/oec/R/demos.R | 4 +- oec-1.0.2/oec/R/getdata.R | 4 +- oec-1.0.2/oec/R/network.R | 6 +-- oec-1.0.2/oec/R/network.compare.R | 6 +-- oec-1.0.2/oec/R/treemap.R | 8 +--- oec-1.0.2/oec/data/hs92_6char.RData |binary oec-1.0.2/oec/data/hs92_8char.RData |binary oec-1.0.2/oec/data/sitc_rev2_4char.RData |binary oec-1.0.2/oec/inst/DESCRIPTION |only oec-1.0.2/oec/inst/extdata/edges_sitc.json | 2 - oec-1.0.2/oec/inst/extdata/nodes_sitc.json | 2 - oec-1.0.2/oec/man/countries_list.Rd | 6 +-- oec-1.0.2/oec/man/d3plus.Rd | 4 +- oec-1.0.2/oec/man/demos.Rd | 6 +-- oec-1.0.2/oec/man/getdata.Rd | 6 +-- oec-1.0.2/oec/man/hs92_2char.Rd | 6 +-- oec-1.0.2/oec/man/hs92_6char.Rd | 6 +-- oec-1.0.2/oec/man/hs92_8char.Rd | 6 +-- oec-1.0.2/oec/man/hs_colors.Rd | 6 +-- oec-1.0.2/oec/man/network.Rd | 6 +-- oec-1.0.2/oec/man/network.compare.Rd | 6 +-- oec-1.0.2/oec/man/sitc_colors.Rd | 6 +-- oec-1.0.2/oec/man/sitc_rev2_2char.Rd | 6 +-- oec-1.0.2/oec/man/sitc_rev2_4char.Rd | 6 +-- oec-1.0.2/oec/man/treemap.Rd | 6 +-- oec-1.0/oec/README.md |only 30 files changed, 79 insertions(+), 103 deletions(-)
Title: Discrete Global Grids for R
Description: Spatial analyses involving binning require that every bin have the same area, but this is impossible using a rectangular grid laid over the Earth or over any projection of the Earth. Discrete global grids use hexagons, triangles, and diamonds to overcome this issue, overlaying the Earth with equally-sized bins. This package provides utilities for working with discrete global grids, along with utilities to aid in plotting such data.
Author: Richard Barnes [aut, cre], Kevin Sahr [ctb], Gerald Evenden [ctb], Angus Johnson [ctb], Frank Warmerdam [ctb]
Maintainer: Richard Barnes <rbarnes@umn.edu>
Diff between dggridR versions 0.1.7 dated 2016-07-23 and 0.1.8 dated 2016-07-27
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 8 ++++++++ src/lib/dglib/include/DgLocVector.h | 1 + 4 files changed, 16 insertions(+), 7 deletions(-)
Title: Depth-Based Classification and Calculation of Data Depth
Description: Contains procedures for depth-based supervised learning, which are entirely non-parametric, in particular the DDalpha-procedure (Lange, Mosler and Mozharovskyi, 2014). The training data sample is transformed by a statistical depth function to a compact low-dimensional space, where the final classification is done. It also offers an extension to functional data and routines for calculating certain notions of statistical depth functions. 50 multivariate and 5 functional classification problems are included.
Author: Oleksii Pokotylo [aut, cre],
Pavlo Mozharovskyi [aut],
Rainer Dyckerhoff [aut]
Maintainer: Oleksii Pokotylo <alexey.pokotylo@gmail.com>
Diff between ddalpha versions 1.2.0 dated 2016-07-25 and 1.2.0.1 dated 2016-07-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- man/ddalpha-package.Rd | 4 ++-- src/Common.cpp | 2 +- src/Common.h | 2 +- 5 files changed, 12 insertions(+), 12 deletions(-)
Title: Phase II Clinical Trial Design Using Bayesian Methods
Description: Calculate the Bayesian posterior/predictive probability and
determine the sample size and stopping boundaries for single-arm Phase II design.
Author: Yalin Zhu, Rui Qin
Maintainer: Yalin Zhu <yalin.zhu@outlook.com>
Diff between ph2bye versions 0.1.1 dated 2016-07-25 and 0.1.2 dated 2016-07-27
DESCRIPTION | 14 +++++++------- MD5 | 18 +++++++++++------- NAMESPACE | 2 ++ R/multpostp.R |only R/postp.R | 8 ++++---- R/predp.R | 4 ++-- man/MultPostP.Rd |only man/MultPostP.design.Rd |only man/PostP.Rd | 4 ++-- man/PostP.design.Rd | 4 ++-- man/PredP.design.Rd | 4 ++-- vignettes/vignette-DirMult-pdf.Rmd |only 12 files changed, 32 insertions(+), 26 deletions(-)
Title: Statistical Methods for the Item Count Technique and List
Experiment
Description: Allows researchers to conduct multivariate
statistical analyses of survey data with list experiments. This
survey methodology is also known as the item count technique or
the unmatched count technique and is an alternative to the commonly
used randomized response method. The package implements the methods
developed by Imai (2011), Blair and Imai (2012), Blair,
Imai, and Lyall (2013), Imai, Park, and Greene (2014),
and Aronow, Coppock, Crawford, and Green (2015).
This includes a Bayesian MCMC implementation of regression
for the standard and multiple sensitive item list experiment
designs and a random effects setup, a Bayesian MCMC hierarchical
regression model with up to three hierarchical groups, the
combined list experiment and endorsement experiment regression
model, a joint model of the list experiment that enables
the analysis of the list experiment as a predictor in
outcome regression models, and a method for combining list
experiments with direct questions. In addition, the package
implements the statistical test that is designed to detect
certain failures of list experiments, and a placebo test
for the list experiment using data from direct questions.
Author: Graeme Blair [aut, cre], Kosuke Imai [aut, cre], Bethany Park [ctb],
Alexander Coppock [ctb]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between list versions 8.0 dated 2015-05-19 and 8.1 dated 2016-07-27
ChangeLog | 1 DESCRIPTION | 34 +- MD5 | 18 - NAMESPACE | 11 R/ict.test.R | 2 build/vignette.rds |binary inst/doc/combined-list.html | 631 ++++++++++++++++---------------------------- man/combinedListDirect.Rd | 12 man/combinedListExps.Rd | 4 man/plot.predict.ictreg.Rd | 4 10 files changed, 290 insertions(+), 427 deletions(-)
Title: MA Birk's Functions
Description: Collection of tools to make R more convenient. Includes tools to
summarize data using statistics not available with base R and manipulate
objects for analyses.
Author: Matthew A. Birk
Maintainer: Matthew A. Birk <matthewabirk@gmail.com>
Diff between birk versions 2.1.1 dated 2016-07-14 and 2.1.2 dated 2016-07-27
DESCRIPTION | 12 ++++++------ MD5 | 18 +++++++++--------- NEWS | 4 ++++ R/birk.R | 4 ++-- R/conv_dim.R | 4 ++-- R/conv_unit.R | 6 +++--- man/birk.Rd | 2 +- man/conv_dim.Rd | 2 +- man/conv_unit.Rd | 2 +- man/conv_unit_options.Rd | 2 +- 10 files changed, 30 insertions(+), 26 deletions(-)