Title: Election Vote Counting
Description: Counting election votes and determining election results by different methods, including the single transferable vote, approval, score and plurality methods.
Author: Hana Sevcikova, Bernard Silverman, Adrian Raftery
Maintainer: Hana Sevcikova<hanas@uw.edu>
Diff between vote versions 1.0-0 dated 2017-02-20 and 1.1-0 dated 2018-02-08
ChangeLog |only DESCRIPTION | 8 ++++---- MD5 | 7 ++++--- R/stv.R | 52 ++++++++++++++++++++++++++++++++++++++++++++-------- man/stv.Rd | 13 +++++++++++++ 5 files changed, 65 insertions(+), 15 deletions(-)
Title: Extreme Value Mixture Modelling, Threshold Estimation and
Boundary Corrected Kernel Density Estimation
Description: The usual distribution functions, maximum likelihood inference and
model diagnostics for univariate stationary extreme value mixture models
are provided. Kernel density estimation including various boundary
corrected kernel density estimation methods and a wide choice of kernels,
with cross-validation likelihood based bandwidth estimator.
Reasonable consistency with the base functions in the 'evd' package is
provided, so that users can safely interchange most code.
Author: Carl Scarrott, Yang Hu and Alfadino Akbar, University of Canterbury
Maintainer: Carl Scarrott <carl.scarrott@canterbury.ac.nz>
Diff between evmix versions 2.8 dated 2018-01-31 and 2.9 dated 2018-02-08
evmix-2.8/evmix/inst/doc/HuScarrott_Submitted_compressed.pdf |only evmix-2.8/evmix/inst/doc/Rd2.pdf |only evmix-2.8/evmix/inst/doc/evmix_supplementary.pdf |only evmix-2.9/evmix/DESCRIPTION | 8 ++-- evmix-2.9/evmix/MD5 | 14 ++++---- evmix-2.9/evmix/R/evmix-package.r | 8 +++- evmix-2.9/evmix/inst/CITATION | 19 +++++------ evmix-2.9/evmix/inst/doc/HuScarrottJSS_compressed.pdf |only evmix-2.9/evmix/inst/doc/Rd2_compressed.pdf |only evmix-2.9/evmix/inst/doc/evmix_supplementary_compressed.pdf |only evmix-2.9/evmix/man/evmix-package.Rd | 8 +++- 11 files changed, 33 insertions(+), 24 deletions(-)
Title: World Population Prospects 2017
Description: Provides data from the United Nation's World Population Prospects 2017.
Author: United Nations Population Division
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between wpp2017 versions 1.1-1 dated 2017-09-30 and 1.1-2 dated 2018-02-08
ChangeLog | 4 ++++ DESCRIPTION | 10 +++++----- MD5 | 20 ++++++++++---------- man/ASMR.Rd | 2 +- man/PercentASFR.Rd | 2 +- man/PopByAge.Rd | 2 +- man/SexRatioAtBirth.Rd | 2 +- man/e0.Rd | 2 +- man/migration.Rd | 2 +- man/tfr.Rd | 2 +- man/wpp2017-package.Rd | 9 +++------ 11 files changed, 29 insertions(+), 28 deletions(-)
Title: Handling Vegetation Data Sets
Description: Import and handling data from vegetation-plot databases, especially
data stored in 'Turboveg' (<https://www.synbiosys.alterra.nl/turboveg>).
Also import/export routines for exchange of data with 'Juice'
(<http://www.sci.muni.cz/botany/juice>) are implemented.
Author: Miguel Alvarez <kamapu78@gmail.com>
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between vegtable versions 0.1.0 dated 2017-08-08 and 0.1.1 dated 2018-02-08
DESCRIPTION | 10 +++---- MD5 | 38 +++++++++++++++-------------- NAMESPACE | 1 R/aggregate.R |only R/clean.R | 18 ++++--------- R/crosstable.R | 33 +++++++++++++++++++------ R/merge_taxa.R | 16 ++++++++++-- R/subset.R | 51 +++++++++++++++++++++++++++++---------- R/summary.R | 2 - R/vegtable-class.R | 25 +++++++++++++++++-- data/Kenya_veg.rda |binary data/Wetlands.rda |binary data/braun_blanquet.rda |binary data/dune_veg.rda |binary inst/ChangeLog | 10 ++++++- man/aggregate.Rd |only man/crosstable.Rd | 14 ++++------ man/merge_taxa.Rd | 9 +++++- man/subset.Rd | 13 +++++++-- man/vegtable-class.Rd | 1 tests/extras/0_before_building.R | 1 21 files changed, 169 insertions(+), 73 deletions(-)
Title: Multivariate Outlier Detection Based on Robust Methods
Description: Various Methods for Multivariate Outlier Detection.
Author: Peter Filzmoser <P.Filzmoser@tuwien.ac.at> and
Moritz Gschwandtner <e0125439@student.tuwien.ac.at>
Maintainer: P. Filzmoser <P.Filzmoser@tuwien.ac.at>
Diff between mvoutlier versions 2.0.8 dated 2017-01-16 and 2.0.9 dated 2018-02-08
DESCRIPTION | 10 +++---- MD5 | 64 +++++++++++++++++++++++----------------------- R/mvoutlier.CoDa.R | 4 +- data/X.rda |binary data/Y.rda |binary data/bhorizon.rda |binary data/bss.background.rda |binary data/bssbot.rda |binary data/bsstop.rda |binary data/chorizon.rda |binary data/dat.rda |binary data/humus.rda |binary data/kola.background.rda |binary data/moss.rda |binary man/aq.plot.Rd | 2 - man/arw.Rd | 2 - man/chisq.plot.Rd | 2 - man/color.plot.Rd | 2 - man/cor.plot.Rd | 2 - man/dd.plot.Rd | 2 - man/locoutNeighbor.Rd | 2 - man/locoutPercent.Rd | 2 - man/locoutSort.Rd | 2 - man/map.plot.Rd | 2 - man/mvoutlier.CoDa.Rd | 2 - man/pbb.Rd | 2 - man/pcout.Rd | 2 - man/pkb.Rd | 2 - man/plot.mvoutlierCoDa.Rd | 2 - man/sign1.Rd | 2 - man/sign2.Rd | 2 - man/symbol.plot.Rd | 2 - man/uni.plot.Rd | 2 - 33 files changed, 58 insertions(+), 58 deletions(-)
Title: Case-Control Analysis of Multi-Allelic Loci
Description: Data sets and functions for chi-squared Hardy-Weinberg and case-control association tests of highly polymorphic genetic data [e.g., human leukocyte antigen (HLA) data]. Performs association tests at multiple levels of polymorphism (haplotype, locus and HLA amino-acids) as described in Pappas DJ, Marin W, Hollenbach JA, Mack SJ (2016) <doi:10.1016/j.humimm.2015.12.006>. Combines rare variants to a common class to account for sparse cells in tables as described by Hollenbach JA, Mack SJ, Thomson G, Gourraud PA (2012) <doi:10.1007/978-1-61779-842-9_14>.
Author: Derek Pappas <dpappas@chori.org>, Steve Mack <sjmack@chori.org>, Jill
Hollenbach <Jill.Hollenbach@ucsf.edu>
Maintainer: Steve Mack <sjmack@chori.org>
Diff between BIGDAWG versions 1.16 dated 2017-09-06 and 2.1 dated 2018-02-08
BIGDAWG-1.16/BIGDAWG/R/CheckRelease.R |only BIGDAWG-1.16/BIGDAWG/R/epicalc.R |only BIGDAWG-1.16/BIGDAWG/man/DRB345.flag.Rd |only BIGDAWG-1.16/BIGDAWG/man/DRB345.zygosity.Rd |only BIGDAWG-1.16/BIGDAWG/man/FixAlleleName.Rd |only BIGDAWG-2.1/BIGDAWG/DESCRIPTION | 12 BIGDAWG-2.1/BIGDAWG/MD5 | 101 ++++-- BIGDAWG-2.1/BIGDAWG/NAMESPACE | 7 BIGDAWG-2.1/BIGDAWG/NEWS | 21 + BIGDAWG-2.1/BIGDAWG/R/A.R | 69 +--- BIGDAWG-2.1/BIGDAWG/R/A_support_functions.R | 16 + BIGDAWG-2.1/BIGDAWG/R/A_wrapper.R | 14 BIGDAWG-2.1/BIGDAWG/R/BIGDAWG.R | 177 +++++------- BIGDAWG-2.1/BIGDAWG/R/DRB_Parser.R | 221 +++++++-------- BIGDAWG-2.1/BIGDAWG/R/ErrLog.R | 28 + BIGDAWG-2.1/BIGDAWG/R/GL2TAB.R |only BIGDAWG-2.1/BIGDAWG/R/GLSconvert.R |only BIGDAWG-2.1/BIGDAWG/R/TAB2GL.R |only BIGDAWG-2.1/BIGDAWG/R/check_functions.R | 336 +++++++++++++++++------ BIGDAWG-2.1/BIGDAWG/R/general_functions.R | 309 +++++++++++---------- BIGDAWG-2.1/BIGDAWG/R/stat_functions.R |only BIGDAWG-2.1/BIGDAWG/R/sysdata.rda |binary BIGDAWG-2.1/BIGDAWG/R/update_wrapper.R | 25 + BIGDAWG-2.1/BIGDAWG/build/vignette.rds |binary BIGDAWG-2.1/BIGDAWG/inst/doc/BIGDAWG.Rmd | 31 +- BIGDAWG-2.1/BIGDAWG/inst/doc/BIGDAWG.html | 50 ++- BIGDAWG-2.1/BIGDAWG/inst/doc/GLSconvert.Rmd |only BIGDAWG-2.1/BIGDAWG/inst/doc/GLSconvert.html |only BIGDAWG-2.1/BIGDAWG/man/A.Rd | 6 BIGDAWG-2.1/BIGDAWG/man/A.wrapper.Rd | 6 BIGDAWG-2.1/BIGDAWG/man/Append.System.Rd |only BIGDAWG-2.1/BIGDAWG/man/BIGDAWG.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/Build.Matrix.Rd |only BIGDAWG-2.1/BIGDAWG/man/Check.Cores.Rd | 4 BIGDAWG-2.1/BIGDAWG/man/Check.Data.Rd |only BIGDAWG-2.1/BIGDAWG/man/Check.Params.GLS.Rd |only BIGDAWG-2.1/BIGDAWG/man/CheckAlleles.Rd | 8 BIGDAWG-2.1/BIGDAWG/man/CheckHLA.Rd | 4 BIGDAWG-2.1/BIGDAWG/man/CheckLoci.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/CheckRelease.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/CheckString.Allele.Rd |only BIGDAWG-2.1/BIGDAWG/man/CheckString.Locus.Rd |only BIGDAWG-2.1/BIGDAWG/man/Create.Null.Table.Rd |only BIGDAWG-2.1/BIGDAWG/man/DRB345.Check.Wrapper.Rd |only BIGDAWG-2.1/BIGDAWG/man/DRB345.Check.Zygosity.Rd |only BIGDAWG-2.1/BIGDAWG/man/DRB345.Exp.Rd |only BIGDAWG-2.1/BIGDAWG/man/Err.Log.Rd | 4 BIGDAWG-2.1/BIGDAWG/man/Filler.Rd |only BIGDAWG-2.1/BIGDAWG/man/Format.Allele.Rd |only BIGDAWG-2.1/BIGDAWG/man/Format.Tab.Rd |only BIGDAWG-2.1/BIGDAWG/man/GL2Tab.Loci.Rd |only BIGDAWG-2.1/BIGDAWG/man/GL2Tab.Sub.Rd |only BIGDAWG-2.1/BIGDAWG/man/GL2Tab.wrapper.Rd |only BIGDAWG-2.1/BIGDAWG/man/GLSconvert.Rd |only BIGDAWG-2.1/BIGDAWG/man/RunChiSq.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/Stripper.Rd |only BIGDAWG-2.1/BIGDAWG/man/Tab2GL.Loci.Rd |only BIGDAWG-2.1/BIGDAWG/man/Tab2GL.Sub.Rd |only BIGDAWG-2.1/BIGDAWG/man/Tab2GL.wrapper.Rd |only BIGDAWG-2.1/BIGDAWG/man/TableMaker.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/UpdateRelease.Rd | 6 BIGDAWG-2.1/BIGDAWG/man/cci.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/cci.pval.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/cci.pval.list.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/getFileName.Rd |only BIGDAWG-2.1/BIGDAWG/man/make2x2.Rd | 2 BIGDAWG-2.1/BIGDAWG/man/prepData.Rd |only BIGDAWG-2.1/BIGDAWG/vignettes/BIGDAWG.Rmd | 31 +- BIGDAWG-2.1/BIGDAWG/vignettes/GLSconvert.Rmd |only 69 files changed, 928 insertions(+), 576 deletions(-)
Title: Bayesian Additive Regression Trees
Description: Bayesian Additive Regression Trees (BART) provide flexible nonparametric modeling of covariates for continuous, binary and time-to-event outcomes. For more information on BART, see Chipman, George and McCulloch (2010) <doi:10.1214/09-AOAS285> and Sparapani, Logan, McCulloch and Laud (2016) <doi:10.1002/sim.6893>.
Author: Robert McCulloch [aut],
Rodney Sparapani [aut, cre],
Robert Gramacy [aut],
Charles Spanbauer [aut],
Matthew Pratola [aut],
Jean-Sebastien Roy [ctb],
Makoto Matsumoto [ctb],
Takuji Nishimura [ctb],
Bill Venables [ctb],
Brian Ripley [ctb]
Maintainer: Rodney Sparapani <rsparapa@mcw.edu>
Diff between BART versions 1.4 dated 2018-02-04 and 1.5 dated 2018-02-08
BART-1.4/BART/vignettes/time-to-event.pdfsync |only BART-1.5/BART/DESCRIPTION | 8 +-- BART-1.5/BART/MD5 | 57 ++++++++++++-------------- BART-1.5/BART/NEWS | 10 ++++ BART-1.5/BART/R/mc.recur.bart.R | 5 +- BART-1.5/BART/R/recur.bart.R | 3 - BART-1.5/BART/R/recur.pre.bart.R | 35 +++++++++------ BART-1.5/BART/build/vignette.rds |binary BART-1.5/BART/data/ACTG175.rda |binary BART-1.5/BART/data/arq.rda |binary BART-1.5/BART/data/bladder.rda |binary BART-1.5/BART/data/lung.rda |binary BART-1.5/BART/data/transplant.rda |binary BART-1.5/BART/data/xdm20.test.rda |binary BART-1.5/BART/data/xdm20.train.rda |binary BART-1.5/BART/data/ydm20.test.rda |binary BART-1.5/BART/data/ydm20.train.rda |binary BART-1.5/BART/inst/cxx-ex/clbart.cpp | 2 BART-1.5/BART/inst/cxx-ex/cmbart.cpp | 2 BART-1.5/BART/inst/cxx-ex/cpbart.cpp | 2 BART-1.5/BART/inst/cxx-ex/cwbart.cpp | 2 BART-1.5/BART/inst/doc/bincat.pdf |binary BART-1.5/BART/inst/doc/computing.pdf |binary BART-1.5/BART/inst/doc/hwbart.pdf |binary BART-1.5/BART/inst/doc/time-to-event.pdf |binary BART-1.5/BART/man/recur.pre.bart.Rd | 12 ++--- BART-1.5/BART/src/clbart.cpp | 2 BART-1.5/BART/src/cmbart.cpp | 2 BART-1.5/BART/src/cpbart.cpp | 2 BART-1.5/BART/src/cwbart.cpp | 2 30 files changed, 81 insertions(+), 65 deletions(-)
Title: Data Exchange Between R and LabKey Server
Description: The LabKey client library for R makes it easy for R users to
load live data from a LabKey Server, <http://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a LabKey Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.1.136 dated 2017-10-16 and 2.2.0 dated 2018-02-08
DESCRIPTION | 12 ++--- MD5 | 40 ++++++++--------- NAMESPACE | 2 NEWS | 3 + R/RcppExports.R | 2 R/labkey.curlOptions.R | 2 R/labkey.defaults.R | 101 ++++++++++++++++++++----------------------- R/labkey.getQueryInfo.R | 6 +- R/labkey.getQueryLists.R | 4 - R/labkey.importRows.R | 2 R/labkey.makeRemotePath.R | 2 R/labkey.saveBatch.R | 2 R/labkey.selectRows.R | 18 +++---- R/labkey.setCurlOptions.R | 22 +++++++-- R/makeFilter.R | 4 - R/parseHeader.R | 86 ++++++++++++++++++------------------ build/vignette.rds |binary inst/doc/RlabkeyExample.pdf |binary man/Rlabkey-package.Rd | 4 - man/labkey.setCurlOptions.Rd | 8 +-- man/labkey.setDefaults.Rd | 6 +- 21 files changed, 167 insertions(+), 159 deletions(-)
Title: Functional Data Analysis for Density Functions by Transformation
to a Hilbert Space
Description: An implementation of the methodology described in
Petersen and Mueller (2016) <doi:10.1214/15-AOS1363> for the functional
data analysis of samples of density functions. Densities are first
transformed to their corresponding log quantile densities, followed by
ordinary Functional Principal Components Analysis (FPCA). Transformation
modes of variation yield improved interpretation of the variability in the
data as compared to FPCA on the densities themselves. The standard
fraction of variance explained (FVE) criterion commonly used for functional
data is adapted to the transformation setting, also allowing for an
alternative quantification of variability for density data through the
Wasserstein metric of optimal transport.
Author: A. Petersen, P. Z. Hadjipantelis and H.G. Mueller
Maintainer: Alexander Petersen <petersen@pstat.ucsb.edu>
Diff between fdadensity versions 0.1.0 dated 2017-10-16 and 0.1.1 dated 2018-02-08
fdadensity-0.1.0/fdadensity/R/fastTrapz.R |only fdadensity-0.1.0/fdadensity/man/fastTrapz.Rd |only fdadensity-0.1.1/fdadensity/DESCRIPTION | 10 ++--- fdadensity-0.1.1/fdadensity/MD5 | 22 +++++------- fdadensity-0.1.1/fdadensity/NAMESPACE | 4 -- fdadensity-0.1.1/fdadensity/R/GetFVE.R | 21 +++++++---- fdadensity-0.1.1/fdadensity/R/dens2lqd.R | 9 ++-- fdadensity-0.1.1/fdadensity/R/dens2qd.R | 8 ++-- fdadensity-0.1.1/fdadensity/R/dens2quantile.R | 8 ++-- fdadensity-0.1.1/fdadensity/R/getWFmean.R | 20 +++++++--- fdadensity-0.1.1/fdadensity/man/GetFVE.Rd | 17 ++++++--- fdadensity-0.1.1/fdadensity/man/getWFmean.Rd | 11 ++++-- fdadensity-0.1.1/fdadensity/tests/testthat/test_getWFmean.R | 2 - 13 files changed, 79 insertions(+), 53 deletions(-)
Title: Dynamic Modeling in R
Description: Intensive longitudinal data have become increasingly prevalent in
various scientific disciplines. Many such data sets are noisy, multivariate,
and multi-subject in nature. The change functions may also be continuous, or
continuous but interspersed with periods of discontinuities (i.e., showing
regime switches). The package 'dynr' (Dynamic Modeling in R) is an R package
that implements a set of computationally efficient algorithms for handling a
broad class of linear and nonlinear discrete- and continuous-time models with
regime-switching properties under the constraint of linear Gaussian measurement
functions. The discrete-time models can generally take on the form of a state-
space or difference equation model. The continuous-time models are generally
expressed as a set of ordinary or stochastic differential equations. All
estimation and computations are performed in C, but users are provided with the
option to specify the model of interest via a set of simple and easy-to-learn
model specification functions in R. Model fitting can be performed using single-
subject time series data or multiple-subject longitudinal data.
Author: Lu Ou [aut],
Michael D. Hunter [aut, cre],
Sy-Miin Chow [aut]
Maintainer: Michael D. Hunter <mhunter.ou@gmail.com>
Diff between dynr versions 0.1.11-8 dated 2017-08-21 and 0.1.12-5 dated 2018-02-08
dynr-0.1.11-8/dynr/inst/models/slow/MCTest.R |only dynr-0.1.11-8/dynr/inst/models/slow/RSODEmodel.c |only dynr-0.1.11-8/dynr/inst/models/slow/RSODEmodel2.c |only dynr-0.1.11-8/dynr/inst/models/slow/RSlinearODE.R |only dynr-0.1.11-8/dynr/inst/models/slow/RSlinearODE.c |only dynr-0.1.11-8/dynr/inst/models/slow/data |only dynr-0.1.12-5/dynr/DESCRIPTION | 12 dynr-0.1.12-5/dynr/MD5 | 82 - dynr-0.1.12-5/dynr/NEWS | 16 dynr-0.1.12-5/dynr/R/dataDoc.R | 106 + dynr-0.1.12-5/dynr/R/dynrCook.R | 119 + dynr-0.1.12-5/dynr/R/dynrPlot.R | 38 dynr-0.1.12-5/dynr/R/dynrRecipe.R | 94 + dynr-0.1.12-5/dynr/R/dynrVersion.R | 2 dynr-0.1.12-5/dynr/README.md | 2 dynr-0.1.12-5/dynr/build/partial.rdb |binary dynr-0.1.12-5/dynr/build/vignette.rds |binary dynr-0.1.12-5/dynr/data/PFAsim.txt.gz |only dynr-0.1.12-5/dynr/data/datalist | 1 dynr-0.1.12-5/dynr/demo/00Index | 1 dynr-0.1.12-5/dynr/demo/LinearSDE.R | 2 dynr-0.1.12-5/dynr/demo/NonlinearODE.R | 57 dynr-0.1.12-5/dynr/demo/PFA.R |only dynr-0.1.12-5/dynr/demo/RSLinearDiscrete.R | 18 dynr-0.1.12-5/dynr/demo/RSLinearDiscreteYang.R | 16 dynr-0.1.12-5/dynr/demo/RSNonlinearDiscrete.R | 2 dynr-0.1.12-5/dynr/demo/RSNonlinearODE.R | 143 +- dynr-0.1.12-5/dynr/inst/doc/InstallationForUsers.pdf |binary dynr-0.1.12-5/dynr/inst/models/passing/LinearSDEWithChecks.R | 15 dynr-0.1.12-5/dynr/inst/models/passing/errorCheckDyn.R |only dynr-0.1.12-5/dynr/inst/models/passing/multiStart.R |only dynr-0.1.12-5/dynr/inst/models/slow/fern.R |only dynr-0.1.12-5/dynr/man/Oscillator.Rd | 4 dynr-0.1.12-5/dynr/man/PFAsim.Rd |only dynr-0.1.12-5/dynr/man/dynr.cook.Rd | 17 dynr-0.1.12-5/dynr/man/plotFormula.Rd | 4 dynr-0.1.12-5/dynr/man/prep.loadings.Rd | 31 dynr-0.1.12-5/dynr/src/brekfis.c | 133 - dynr-0.1.12-5/dynr/src/data_structure.h | 1 dynr-0.1.12-5/dynr/src/ekf.c | 775 ++++------- dynr-0.1.12-5/dynr/src/ekf.h | 12 dynr-0.1.12-5/dynr/src/estimation.c | 2 dynr-0.1.12-5/dynr/src/estimation.h | 2 dynr-0.1.12-5/dynr/src/mainR.c | 27 dynr-0.1.12-5/dynr/src/wrappernegloglike.c | 12 45 files changed, 914 insertions(+), 832 deletions(-)
Title: 'CARTOColors' Palettes
Description: Provides color schemes for maps and other graphics
designed by 'CARTO' as described at <https://carto.com/carto-colors/>.
It includes four types of palettes: aggregation, diverging, qualitative,
and quantitative.
Author: Jakub Nowosad [aut, cre] (<https://orcid.org/0000-0002-1057-3721>)
Maintainer: Jakub Nowosad <nowosad.jakub@gmail.com>
Diff between rcartocolor versions 0.0.21 dated 2017-11-06 and 0.0.22 dated 2018-02-08
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- README.md | 18 +++++++++++++++++- man/figures/README-example-1.png |binary man/figures/README-examplegg1-1.png |binary man/figures/README-examplegg2-1.png |binary 6 files changed, 27 insertions(+), 11 deletions(-)
Title: Hydrologic Network Linking Data and Tools
Description: Tools to link geographic data with hydrologic network, including lakes, streams and rivers.
Includes automated download of U.S. National Hydrography Network and other hydrolayers.
Author: Tobi Hahn [aut],
Luke Winslow [aut, cre],
Taylor Leach [ctb],
Kevin Rose [ths]
Maintainer: Luke Winslow <lawinslow@gmail.com>
Diff between hydrolinks versions 0.5 dated 2017-11-06 and 0.7.1 dated 2018-02-08
hydrolinks-0.5/hydrolinks/inst/extR/link_shape_waterbodies.R |only hydrolinks-0.5/hydrolinks/inst/extR/zip_hash_upload.R |only hydrolinks-0.5/hydrolinks/inst/extdata/hydrolakes_bb_cache_projected.Rdata |only hydrolinks-0.5/hydrolinks/man/local_path.Rd |only hydrolinks-0.5/hydrolinks/man/set_local_path.Rd |only hydrolinks-0.7.1/hydrolinks/DESCRIPTION | 9 hydrolinks-0.7.1/hydrolinks/MD5 | 69 - hydrolinks-0.7.1/hydrolinks/NAMESPACE | 9 hydrolinks-0.7.1/hydrolinks/NEWS.md |only hydrolinks-0.7.1/hydrolinks/R/AAA.R | 8 hydrolinks-0.7.1/hydrolinks/R/all_shapefiles.R | 2 hydrolinks-0.7.1/hydrolinks/R/check_dl_file.R | 3 hydrolinks-0.7.1/hydrolinks/R/dataset_info.R | 12 hydrolinks-0.7.1/hydrolinks/R/link_to_flowlines.R | 37 hydrolinks-0.7.1/hydrolinks/R/link_to_waterbodies.R | 25 hydrolinks-0.7.1/hydrolinks/R/link_waterbody_centroids.R | 16 hydrolinks-0.7.1/hydrolinks/R/local_path_helpers.R | 215 +++- hydrolinks-0.7.1/hydrolinks/R/shape_by_id.R | 15 hydrolinks-0.7.1/hydrolinks/R/traverse_flowlines.R |only hydrolinks-0.7.1/hydrolinks/inst/extR/build_id_tables.R | 121 -- hydrolinks-0.7.1/hydrolinks/inst/extR/format_data.R |only hydrolinks-0.7.1/hydrolinks/inst/extR/general_functions.R |only hydrolinks-0.7.1/hydrolinks/inst/extR/slice_hydrolakes.R |only hydrolinks-0.7.1/hydrolinks/inst/extR/unzip_nhd.R |only hydrolinks-0.7.1/hydrolinks/inst/extR/unzip_nhdplus.R |only hydrolinks-0.7.1/hydrolinks/inst/extdata/flowtable.csv |only hydrolinks-0.7.1/hydrolinks/inst/extdata/hydrolakes.csv | 102 +- hydrolinks-0.7.1/hydrolinks/inst/extdata/hydrolakes_bb_cache.Rdata |binary hydrolinks-0.7.1/hydrolinks/inst/extdata/nhd_bb_cache_projected.Rdata |binary hydrolinks-0.7.1/hydrolinks/inst/extdata/nhd_bb_streams_cache.Rdata |binary hydrolinks-0.7.1/hydrolinks/inst/extdata/nhdh.csv | 448 +++++----- hydrolinks-0.7.1/hydrolinks/inst/extdata/nhdplus_flowline_bb_cache.rdata |binary hydrolinks-0.7.1/hydrolinks/inst/extdata/nhdplus_waterbody_bb_cache.rdata |binary hydrolinks-0.7.1/hydrolinks/inst/extdata/nhdplusv2.csv | 54 - hydrolinks-0.7.1/hydrolinks/inst/extdata/shape_id_cache.csv | 12 hydrolinks-0.7.1/hydrolinks/man/cache_clear.Rd |only hydrolinks-0.7.1/hydrolinks/man/cache_get_dir.Rd |only hydrolinks-0.7.1/hydrolinks/man/cache_info.Rd |only hydrolinks-0.7.1/hydrolinks/man/cache_set_dir.Rd |only hydrolinks-0.7.1/hydrolinks/man/check_dl_file.Rd | 2 hydrolinks-0.7.1/hydrolinks/man/traverse_flowlines.Rd |only hydrolinks-0.7.1/hydrolinks/tests/testthat.R | 7 hydrolinks-0.7.1/hydrolinks/tests/testthat/test_flowline_linking.R | 34 hydrolinks-0.7.1/hydrolinks/tests/testthat/test_lake_linking.R | 1 hydrolinks-0.7.1/hydrolinks/tests/testthat/test_traversal.R |only 45 files changed, 616 insertions(+), 585 deletions(-)
Title: A Class of Mixture Models for Ordinal Data
Description: For ordinal rating data, estimate and test models within the family of
CUB models and their extensions (where CUB stands for Combination of a
discrete Uniform and a shifted Binomial distributions). Simulation routines, plotting facilities
and fitting measures are also provided.
Author: Maria Iannario <maria.iannario@unina.it>, Domenico Piccolo
<domenico.piccolo@unina.it>, Rosaria Simone <rosaria.simone@unina.it>
Maintainer: Rosaria Simone <rosaria.simone@unina.it>
Diff between CUB versions 1.1 dated 2017-10-11 and 1.1.2 dated 2018-02-08
CUB-1.1.2/CUB/DESCRIPTION | 10 CUB-1.1.2/CUB/MD5 | 264 +- CUB-1.1.2/CUB/NAMESPACE | 146 - CUB-1.1.2/CUB/R/CUB_package.R | 102 - CUB-1.1.2/CUB/build/vignette.rds |binary CUB-1.1.2/CUB/inst/doc/CUBvignette-knitr.R | 1089 +++++----- CUB-1.1.2/CUB/inst/doc/CUBvignette-knitr.Rnw | 2641 +++++++++++++------------- CUB-1.1.2/CUB/inst/doc/CUBvignette-knitr.pdf |binary CUB-1.1.2/CUB/man/BIC.GEM.Rd | 47 CUB-1.1.2/CUB/man/CUB.Rd | 209 +- CUB-1.1.2/CUB/man/CUBE.Rd | 173 - CUB-1.1.2/CUB/man/CUB_package.Rd | 123 - CUB-1.1.2/CUB/man/CUSH.Rd | 91 CUB-1.1.2/CUB/man/GEM.Rd | 370 +-- CUB-1.1.2/CUB/man/Hadprod.Rd | 57 CUB-1.1.2/CUB/man/IHG.Rd | 143 - CUB-1.1.2/CUB/man/Q2gecub.Rd | 37 CUB-1.1.2/CUB/man/Qdue.Rd | 57 CUB-1.1.2/CUB/man/Quno.Rd | 51 CUB-1.1.2/CUB/man/Qunogecub.Rd | 41 CUB-1.1.2/CUB/man/auxmat.Rd | 71 CUB-1.1.2/CUB/man/betabinomial.Rd | 119 - CUB-1.1.2/CUB/man/betabinomialcsi.Rd | 105 - CUB-1.1.2/CUB/man/betar.Rd | 75 CUB-1.1.2/CUB/man/bitcsi.Rd | 75 CUB-1.1.2/CUB/man/bitgama.Rd | 79 CUB-1.1.2/CUB/man/chi2cub.Rd | 101 CUB-1.1.2/CUB/man/chi2cub1cov.Rd | 73 CUB-1.1.2/CUB/man/chi2cub2cov.Rd | 73 CUB-1.1.2/CUB/man/coef.GEM.Rd | 53 CUB-1.1.2/CUB/man/cormat.Rd | 49 CUB-1.1.2/CUB/man/cub00.Rd | 99 CUB-1.1.2/CUB/man/cub0q.Rd | 147 - CUB-1.1.2/CUB/man/cube000.Rd | 131 - CUB-1.1.2/CUB/man/cubecov.Rd | 81 CUB-1.1.2/CUB/man/cubecsi.Rd | 149 - CUB-1.1.2/CUB/man/cubevisual.Rd | 77 CUB-1.1.2/CUB/man/cubp0.Rd | 69 CUB-1.1.2/CUB/man/cubpq.Rd | 81 CUB-1.1.2/CUB/man/cubshe.Rd | 73 CUB-1.1.2/CUB/man/cubshevisual.Rd | 85 CUB-1.1.2/CUB/man/cubvisual.Rd | 73 CUB-1.1.2/CUB/man/cush00.Rd | 45 CUB-1.1.2/CUB/man/cushcov.Rd | 51 CUB-1.1.2/CUB/man/deltaprob.Rd | 47 CUB-1.1.2/CUB/man/dissim.Rd | 53 CUB-1.1.2/CUB/man/effe01.Rd | 49 CUB-1.1.2/CUB/man/effe10.Rd | 51 CUB-1.1.2/CUB/man/effecube.Rd | 57 CUB-1.1.2/CUB/man/effecubecsi.Rd | 47 CUB-1.1.2/CUB/man/effecush.Rd | 55 CUB-1.1.2/CUB/man/effeihg.Rd | 47 CUB-1.1.2/CUB/man/effeihgcov.Rd | 55 CUB-1.1.2/CUB/man/ellecub.Rd | 85 CUB-1.1.2/CUB/man/ellegecub.Rd | 59 CUB-1.1.2/CUB/man/expcub00.Rd | 65 CUB-1.1.2/CUB/man/expcube.Rd | 75 CUB-1.1.2/CUB/man/fitted.GEM.Rd | 57 CUB-1.1.2/CUB/man/gecubpqs.Rd | 87 CUB-1.1.2/CUB/man/gini.Rd | 47 CUB-1.1.2/CUB/man/ihg00.Rd | 53 CUB-1.1.2/CUB/man/ihgcov.Rd | 59 CUB-1.1.2/CUB/man/inibest.Rd | 79 CUB-1.1.2/CUB/man/inibestcube.Rd | 63 CUB-1.1.2/CUB/man/inibestcubecov.Rd | 107 - CUB-1.1.2/CUB/man/inibestcubecsi.Rd | 109 - CUB-1.1.2/CUB/man/inibestgama.Rd | 85 CUB-1.1.2/CUB/man/inigrid.Rd | 79 CUB-1.1.2/CUB/man/iniihg.Rd | 71 CUB-1.1.2/CUB/man/kkk.Rd | 39 CUB-1.1.2/CUB/man/laakso.Rd | 55 CUB-1.1.2/CUB/man/logLik.GEM.Rd | 49 CUB-1.1.2/CUB/man/logis.Rd | 57 CUB-1.1.2/CUB/man/loglikCUB.Rd | 216 +- CUB-1.1.2/CUB/man/loglikCUSH.Rd | 103 - CUB-1.1.2/CUB/man/loglikcub00.Rd | 45 CUB-1.1.2/CUB/man/loglikcub0q.Rd | 51 CUB-1.1.2/CUB/man/loglikcube.Rd | 129 - CUB-1.1.2/CUB/man/loglikcubecov.Rd | 67 CUB-1.1.2/CUB/man/loglikcubecsi.Rd | 61 CUB-1.1.2/CUB/man/loglikcuben.Rd | 95 CUB-1.1.2/CUB/man/loglikcubp0.Rd | 51 CUB-1.1.2/CUB/man/loglikcubpq.Rd | 57 CUB-1.1.2/CUB/man/loglikcubshe.Rd | 53 CUB-1.1.2/CUB/man/loglikcush00.Rd | 51 CUB-1.1.2/CUB/man/loglikcushcov.Rd | 51 CUB-1.1.2/CUB/man/loglikihg.Rd | 95 CUB-1.1.2/CUB/man/loglikihgcov.Rd | 53 CUB-1.1.2/CUB/man/logscore.Rd | 101 CUB-1.1.2/CUB/man/makeplot.Rd | 57 CUB-1.1.2/CUB/man/multicub.Rd | 93 CUB-1.1.2/CUB/man/multicube.Rd | 87 CUB-1.1.2/CUB/man/parnames.Rd | 49 CUB-1.1.2/CUB/man/plotloglikihg.Rd | 51 CUB-1.1.2/CUB/man/print.GEM.Rd | 43 CUB-1.1.2/CUB/man/probbit.Rd | 61 CUB-1.1.2/CUB/man/probcub00.Rd | 75 CUB-1.1.2/CUB/man/probcub0q.Rd | 111 - CUB-1.1.2/CUB/man/probcube.Rd | 81 CUB-1.1.2/CUB/man/probcubp0.Rd | 107 - CUB-1.1.2/CUB/man/probcubpq.Rd | 113 - CUB-1.1.2/CUB/man/probcubshe1.Rd | 101 CUB-1.1.2/CUB/man/probcubshe2.Rd | 105 - CUB-1.1.2/CUB/man/probcubshe3.Rd | 111 - CUB-1.1.2/CUB/man/probcush.Rd | 75 CUB-1.1.2/CUB/man/probgecub.Rd | 85 CUB-1.1.2/CUB/man/probihg.Rd | 63 CUB-1.1.2/CUB/man/probihgcovn.Rd | 83 CUB-1.1.2/CUB/man/relgoods.Rd | 211 +- CUB-1.1.2/CUB/man/simcub.Rd | 65 CUB-1.1.2/CUB/man/simcube.Rd | 73 CUB-1.1.2/CUB/man/simcubshe.Rd | 79 CUB-1.1.2/CUB/man/simcush.Rd | 67 CUB-1.1.2/CUB/man/simihg.Rd | 59 CUB-1.1.2/CUB/man/summary.GEM.Rd | 60 CUB-1.1.2/CUB/man/univer.Rd | 101 CUB-1.1.2/CUB/man/varcovcub00.Rd | 81 CUB-1.1.2/CUB/man/varcovcub0q.Rd | 85 CUB-1.1.2/CUB/man/varcovcubecov.Rd | 83 CUB-1.1.2/CUB/man/varcovcubeexp.Rd | 71 CUB-1.1.2/CUB/man/varcovcubeobs.Rd | 71 CUB-1.1.2/CUB/man/varcovcubp0.Rd | 71 CUB-1.1.2/CUB/man/varcovcubpq.Rd | 77 CUB-1.1.2/CUB/man/varcovcubshe.Rd | 73 CUB-1.1.2/CUB/man/varcovgecub.Rd | 79 CUB-1.1.2/CUB/man/varcub00.Rd | 65 CUB-1.1.2/CUB/man/varcube.Rd | 73 CUB-1.1.2/CUB/man/varmatCUB.Rd | 191 - CUB-1.1.2/CUB/man/varmatCUBE.Rd | 141 - CUB-1.1.2/CUB/man/vcov.GEM.Rd | 49 CUB-1.1.2/CUB/vignettes/CUBvignette-knitr.Rnw | 2641 +++++++++++++------------- CUB-1.1/CUB/inst/doc/CUBvignette.R |only CUB-1.1/CUB/inst/doc/CUBvignette.Rnw |only CUB-1.1/CUB/inst/doc/CUBvignette.pdf |only CUB-1.1/CUB/vignettes/CUBvignette.Rnw |only 135 files changed, 8415 insertions(+), 8507 deletions(-)
Title: Adjacency-Constrained Clustering of a Block-Diagonal Similarity
Matrix
Description: Implements a constrained version of hierarchical agglomerative
clustering, in which each observation is associated to a position, and
only adjacent clusters can be merged. Typical application fields in
bioinformatics include Genome-Wide Association Studies or Hi-C data
analysis, where the similarity between items is a decreasing function of
their genomic distance. Taking advantage of this feature, the implemented
algorithm is time and memory efficient. This algorithm is described in
Chapter 4 of Alia Dehman (2015)
<https://hal.archives-ouvertes.fr/tel-01288568v1>.
Author: Christophe Ambroise [aut],
Shubham Chaturvedi [aut],
Alia Dehman [aut],
Michel Koskas [aut],
Pierre Neuvial [aut, cre],
Guillem Rigaill [aut],
Nathalie Villa-Vialaneix [aut]
Maintainer: Pierre Neuvial <pierre.neuvial@math.univ-toulouse.fr>
Diff between adjclust versions 0.5.2 dated 2017-10-18 and 0.5.6 dated 2018-02-08
adjclust-0.5.2/adjclust/R/band.R |only adjclust-0.5.2/adjclust/R/findMatL.R |only adjclust-0.5.2/adjclust/R/findRMatR.R |only adjclust-0.5.2/adjclust/R/findSparseMatL.R |only adjclust-0.5.2/adjclust/R/findSparseRMatR.R |only adjclust-0.5.2/adjclust/R/hic_imr90_40_XX.R |only adjclust-0.5.2/adjclust/R/lambda.R |only adjclust-0.5.2/adjclust/R/modify.R |only adjclust-0.5.2/adjclust/R/modifySparse.R |only adjclust-0.5.2/adjclust/R/sparseband.R |only adjclust-0.5.2/adjclust/data/datalist |only adjclust-0.5.2/adjclust/data/hic_imr90_40_XX.rda |only adjclust-0.5.2/adjclust/man/hic_imr90_40_XX.Rd |only adjclust-0.5.2/adjclust/src/CMakeSparseDiagOne.c |only adjclust-0.5.2/adjclust/src/CSparseCondnCheck.c |only adjclust-0.5.2/adjclust/src/CSparseMatLR.c |only adjclust-0.5.2/adjclust/src/CmatLR.c |only adjclust-0.5.2/adjclust/src/bandFunctions.c |only adjclust-0.5.2/adjclust/src/check.c |only adjclust-0.5.2/adjclust/src/lambda.c |only adjclust-0.5.2/adjclust/src/sparseband.c |only adjclust-0.5.2/adjclust/src/transform.c |only adjclust-0.5.2/adjclust/tests/testthat/test_SparseBand_dgc_dsc.R |only adjclust-0.5.2/adjclust/tests/testthat/test_dense_sparse_comparison_1.R |only adjclust-0.5.2/adjclust/tests/testthat/test_dense_sparse_comparison_2.R |only adjclust-0.5.2/adjclust/tests/testthat/test_modifySparse.R |only adjclust-0.5.6/adjclust/DESCRIPTION | 12 adjclust-0.5.6/adjclust/MD5 | 110 +-- adjclust-0.5.6/adjclust/NAMESPACE | 16 adjclust-0.5.6/adjclust/NEWS.md | 37 + adjclust-0.5.6/adjclust/R/adjclust.R | 298 +++++----- adjclust-0.5.6/adjclust/R/chac.R | 240 +++++++- adjclust-0.5.6/adjclust/R/helpers.R |only adjclust-0.5.6/adjclust/R/hicClust.R | 98 +-- adjclust-0.5.6/adjclust/R/snpClust.R | 191 +++--- adjclust-0.5.6/adjclust/README.md | 4 adjclust-0.5.6/adjclust/build/vignette.rds |binary adjclust-0.5.6/adjclust/inst/doc/hicClust.R | 9 adjclust-0.5.6/adjclust/inst/doc/hicClust.Rmd | 13 adjclust-0.5.6/adjclust/inst/doc/hicClust.html | 270 ++++++--- adjclust-0.5.6/adjclust/inst/doc/notesCHAC.R | 3 adjclust-0.5.6/adjclust/inst/doc/notesCHAC.Rmd | 221 ++++--- adjclust-0.5.6/adjclust/inst/doc/notesCHAC.html | 288 ++++++--- adjclust-0.5.6/adjclust/inst/doc/snpClust.R | 11 adjclust-0.5.6/adjclust/inst/doc/snpClust.Rmd | 26 adjclust-0.5.6/adjclust/inst/doc/snpClust.html | 247 +++++--- adjclust-0.5.6/adjclust/inst/extdata/hic_imr90_40_XX.rda |only adjclust-0.5.6/adjclust/man/adjClust.Rd | 16 adjclust-0.5.6/adjclust/man/chac.Rd | 91 ++- adjclust-0.5.6/adjclust/man/figures/README-adjClust-1.png |binary adjclust-0.5.6/adjclust/man/figures/README-hicClust-1.png |binary adjclust-0.5.6/adjclust/man/figures/README-hicClust-2.png |binary adjclust-0.5.6/adjclust/man/figures/README-snpClust-1.png |binary adjclust-0.5.6/adjclust/man/figures/README-snpClust-2.png |binary adjclust-0.5.6/adjclust/man/hicClust.Rd | 16 adjclust-0.5.6/adjclust/man/snpClust.Rd | 69 +- adjclust-0.5.6/adjclust/src/mainFunctions.c | 60 -- adjclust-0.5.6/adjclust/tests/testthat/test_adjclust_equivalentTo_hclust.R |only adjclust-0.5.6/adjclust/tests/testthat/test_adjclust_equivalentTo_rioja.R | 6 adjclust-0.5.6/adjclust/tests/testthat/test_ascendingCompatibility.R | 60 +- adjclust-0.5.6/adjclust/tests/testthat/test_correct.R |only adjclust-0.5.6/adjclust/tests/testthat/test_corrected_plot.R |only adjclust-0.5.6/adjclust/tests/testthat/test_cuttree.R |only adjclust-0.5.6/adjclust/tests/testthat/test_dense_sparse_comparison.R |only adjclust-0.5.6/adjclust/tests/testthat/test_final_height.R |only adjclust-0.5.6/adjclust/tests/testthat/test_hicClust.R | 14 adjclust-0.5.6/adjclust/tests/testthat/test_modify.R | 63 -- adjclust-0.5.6/adjclust/tests/testthat/test_similarity_equivalentTo_dissimilarity.R |only adjclust-0.5.6/adjclust/tests/testthat/test_snpClust.R | 102 +-- adjclust-0.5.6/adjclust/tests/testthat/test_snpClust_NA-in-LD.R | 115 ++- adjclust-0.5.6/adjclust/tests/testthat/test_warning_with_decreasing_height_plots.R |only adjclust-0.5.6/adjclust/vignettes/hicClust.Rmd | 13 adjclust-0.5.6/adjclust/vignettes/notesCHAC.Rmd | 221 ++++--- adjclust-0.5.6/adjclust/vignettes/snpClust.Rmd | 26 74 files changed, 1954 insertions(+), 1012 deletions(-)
Title: Retrieving, Organizing, and Analyzing Estuary Monitoring Data
Description: Tools for retrieving, organizing, and analyzing environmental
data from the System Wide Monitoring Program of the National Estuarine
Research Reserve System <http://cdmo.baruch.sc.edu/>. These tools
address common challenges associated with continuous time series data
for environmental decision making.
Author: Marcus W. Beck [aut, cre],
Kimberly Cressman [ctb]
Maintainer: Marcus W. Beck <marcusb@sccwrp.org>
Diff between SWMPr versions 2.2.0 dated 2016-11-07 and 2.3.0 dated 2018-02-08
DESCRIPTION | 28 +++++--- MD5 | 106 +++++++++++++++++---------------- NAMESPACE | 6 + NEWS.md | 14 ++++ R/globalVariables.R | 5 + R/swmpr_analyze.R | 150 ++++++++++++++++++++++++++++++++++++++++++++++-- R/swmpr_misc.R | 30 +++++++-- R/swmpr_organize.R | 150 ++++++++++++++++++++++++++++++++++++++++++++++++ R/swmpr_retrieval.R | 6 + data/apacpnut.RData |binary data/apacpwq.RData |binary data/apadbwq.RData |binary data/apaebmet.RData |binary man/aggremetab.Rd | 1 man/aggreswmp.Rd | 1 man/all_params.Rd | 1 man/all_params_dtrng.Rd | 1 man/apacpnut.Rd | 1 man/apacpwq.Rd | 1 man/apadbwq.Rd | 1 man/apaebmet.Rd | 1 man/calckl.Rd | 4 - man/cens_id.Rd |only man/comb.Rd | 3 man/decomp.Rd | 3 man/decompTs.Rd | 1 man/decomp_cj.Rd | 9 +- man/ecometab.Rd | 3 man/gradcols.Rd | 1 man/hist.swmpr.Rd | 1 man/import_local.Rd | 1 man/map_reserve.Rd | 1 man/metab_day.Rd | 1 man/na.approx.swmpr.Rd | 1 man/overplot.Rd | 3 man/oxySol.Rd | 7 -- man/param_names.Rd | 1 man/parser.Rd | 1 man/plot.swmpr.Rd | 3 man/plot_metab.Rd | 1 man/plot_quants.Rd |only man/plot_summary.Rd | 1 man/plot_wind.Rd | 3 man/qaqc.Rd | 1 man/qaqcchk.Rd | 1 man/rem_reps.Rd | 1 man/setstep.Rd | 3 man/single_param.Rd | 1 man/site_codes.Rd | 1 man/site_codes_ind.Rd | 1 man/smoother.Rd | 1 man/stat_locs.Rd | 1 man/subset.swmpr.Rd | 1 man/swmpr.Rd | 3 man/time_vec.Rd | 1 55 files changed, 436 insertions(+), 132 deletions(-)
Title: Linked Micromap Plots
Description: This group of functions simplifies the creation of linked micromap
plots.
Author: Quinn Payton [aut],
Tony Olsen [aut],
Marc Weber [ctb],
Michael McManus [ctb],
Tom Kincaid [ctb],
Marcus W. Beck [cre, ctb]
Maintainer: Marcus W. Beck <marcusb@sccwrp.org>
Diff between micromap versions 1.9.2 dated 2015-02-06 and 1.9.3 dated 2018-02-08
micromap-1.9.2/micromap/inst/doc/CHANGES.pdf |only micromap-1.9.2/micromap/inst/doc/Introduction_Guide_Code.R |only micromap-1.9.2/micromap/inst/doc/index.html |only micromap-1.9.3/micromap/DESCRIPTION | 23 micromap-1.9.3/micromap/MD5 | 39 micromap-1.9.3/micromap/NAMESPACE | 33 micromap-1.9.3/micromap/R/AttDefaults.r | 14 micromap-1.9.3/micromap/R/CreateMapTable.r | 4 micromap-1.9.3/micromap/R/GraphCleaning.r | 16 micromap-1.9.3/micromap/R/MapGraphs.r | 17 micromap-1.9.3/micromap/R/lmGroupedPlot.r | 1 micromap-1.9.3/micromap/R/lmPlot.r | 1 micromap-1.9.3/micromap/R/mmGroupedPlot.r | 5 micromap-1.9.3/micromap/R/mmPlot.r | 769 ++++++++----- micromap-1.9.3/micromap/inst/CITATION | 46 micromap-1.9.3/micromap/inst/NEWS.Rd | 241 ++-- micromap-1.9.3/micromap/inst/doc/Introduction_Guide.R |only micromap-1.9.3/micromap/inst/doc/Introduction_Guide.Rnw |only micromap-1.9.3/micromap/inst/doc/Introduction_Guide.pdf |binary micromap-1.9.3/micromap/man/create_map_table.Rd | 2 micromap-1.9.3/micromap/man/lmplot-internal.Rd | 84 - micromap-1.9.3/micromap/man/mmplot.Rd | 521 ++++---- micromap-1.9.3/micromap/vignettes |only 23 files changed, 1006 insertions(+), 810 deletions(-)
Title: A 'shiny' Application for the (Audio-)Visualization of Adverse
Event Profiles
Description: Contains a 'shiny' application called AdEPro (Animation of Adverse Event Profiles) which (audio-)visualizes adverse events occurring in clinical trials. As this data is usually considered sensitive, this tool is provided as a stand-alone application that can be launched from any local machine on which the data is stored.
Author: Nicole Mentenich, Jens Hooge, Bastian Becker, Christoph Tasto
Maintainer: Nicole Mentenich <nicole.mentenich@bayer.com>
Diff between adepro versions 0.1.0 dated 2017-07-12 and 2.0.0 dated 2018-02-08
DESCRIPTION | 11 - MD5 | 50 +++++- R/add.slice.R |only R/ae_count.R |only R/ae_data.R |only R/check_data.R |only R/initQ.R |only R/launch_adepro.R | 364 ++++++++++------------------------------------- R/patient_data.R |only R/pie_legend.R |only R/piechart.R |only R/piecharts.R |only R/preproc_ae.R |only R/preproc_patients.R |only R/set_global_params.R |only R/set_group_lines.R |only R/set_vector_layout.R |only R/set_width.R |only R/tone.R |only data |only inst/doc/adepro.html | 19 +- inst/doc/adepro.rmd | 20 +- man/add.slice.Rd |only man/ae_count.Rd |only man/ae_data.Rd |only man/check_data.Rd |only man/initQ.Rd |only man/launch_adepro.Rd | 8 + man/patient_data.Rd |only man/pie_legend.Rd |only man/piechart.Rd |only man/piecharts.Rd |only man/preproc_ae.Rd |only man/preproc_patients.Rd |only man/set_global_params.Rd |only man/set_group_lines.Rd |only man/set_vector_layout.Rd |only man/set_width.Rd |only man/tone.Rd |only tests |only vignettes/adepro.rmd | 20 +- 41 files changed, 177 insertions(+), 315 deletions(-)
Title: Bayesian Modeling via Goodness of Fit
Description: A Bayesian data modeling scheme that performs four interconnected tasks: (i) characterizes the uncertainty of the elicited parametric prior; (ii) provides exploratory diagnostic for checking prior-data conflict; (iii) computes the final statistical prior density estimate; and (iv) executes macro- and micro-inference. Primary reference is Mukhopadhyay, S. and Fletcher, D. (2018, Technical Report, <arXiv:1802.00474>).
Author: Subhadeep Mukhopadhyay, Douglas Fletcher
Maintainer: Doug Fletcher <tug25070@temple.edu>
Diff between BayesGOF versions 1.4 dated 2018-01-05 and 2.1 dated 2018-02-08
BayesGOF-1.4/BayesGOF/R/BetaBinoMLE.R |only BayesGOF-1.4/BayesGOF/R/ConMean.prt.2.R |only BayesGOF-1.4/BayesGOF/R/DS.mode.map.R |only BayesGOF-1.4/BayesGOF/R/DS.mode.reduce.R |only BayesGOF-1.4/BayesGOF/R/Reduce.LP.coef.R |only BayesGOF-1.4/BayesGOF/R/rDS.R |only BayesGOF-1.4/BayesGOF/R/rDS.posterior.R |only BayesGOF-1.4/BayesGOF/R/weight.fun.beta.R |only BayesGOF-1.4/BayesGOF/man/BetaBinoMLE.Rd |only BayesGOF-1.4/BayesGOF/man/LP.basis.beta.Rd |only BayesGOF-1.4/BayesGOF/man/rDS.Rd |only BayesGOF-2.1/BayesGOF/DESCRIPTION | 10 - BayesGOF-2.1/BayesGOF/MD5 | 127 ++++++++++++----- BayesGOF-2.1/BayesGOF/NAMESPACE | 3 BayesGOF-2.1/BayesGOF/R/ConMean.prt.2.bb.R |only BayesGOF-2.1/BayesGOF/R/ConMean.prt.2.nn.R |only BayesGOF-2.1/BayesGOF/R/ConMean.prt.2.pg.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.R | 29 ++- BayesGOF-2.1/BayesGOF/R/DS.PostMean.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.pge.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.reduce.R | 28 +-- BayesGOF-2.1/BayesGOF/R/DS.PostMean.reduce.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.reduce.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMean.reduce.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMode.R |only BayesGOF-2.1/BayesGOF/R/DS.PostMode.reduce.R |only BayesGOF-2.1/BayesGOF/R/DS.macro.inf.R | 111 ++------------- BayesGOF-2.1/BayesGOF/R/DS.macro.inf.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.macro.inf.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.macro.inf.pge.R |only BayesGOF-2.1/BayesGOF/R/DS.macro.inf.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.micro.inf.R | 51 ++----- BayesGOF-2.1/BayesGOF/R/DS.micro.inf.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.micro.inf.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.micro.inf.pge.R |only BayesGOF-2.1/BayesGOF/R/DS.micro.inf.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.map.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.map.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.map.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.reduce.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.reduce.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.mode.reduce.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.prior.R | 124 +++-------------- BayesGOF-2.1/BayesGOF/R/DS.prior.bbu.R |only BayesGOF-2.1/BayesGOF/R/DS.prior.nnu.R |only BayesGOF-2.1/BayesGOF/R/DS.prior.pgu.R |only BayesGOF-2.1/BayesGOF/R/DS.sampler.R |only BayesGOF-2.1/BayesGOF/R/DS.sampler.post.R |only BayesGOF-2.1/BayesGOF/R/EXP.score.R | 1 BayesGOF-2.1/BayesGOF/R/LP.basis.beta.R | 2 BayesGOF-2.1/BayesGOF/R/LP.basis.gamma.R |only BayesGOF-2.1/BayesGOF/R/LP.basis.norm.R |only BayesGOF-2.1/BayesGOF/R/Reduce.LP.coef.univ.R |only BayesGOF-2.1/BayesGOF/R/gLP.basis.R |only BayesGOF-2.1/BayesGOF/R/gMLE.bb.R |only BayesGOF-2.1/BayesGOF/R/gMLE.nn.R |only BayesGOF-2.1/BayesGOF/R/gMLE.pg.R |only BayesGOF-2.1/BayesGOF/R/lambda.i.R |only BayesGOF-2.1/BayesGOF/R/plot.DS_GF.R | 18 +- BayesGOF-2.1/BayesGOF/R/plot.DS_GF_macro_mean.R | 6 BayesGOF-2.1/BayesGOF/R/plot.DS_GF_macro_mode.R | 10 - BayesGOF-2.1/BayesGOF/R/plot.DS_GF_micro.R | 6 BayesGOF-2.1/BayesGOF/R/rDS.bbu.R |only BayesGOF-2.1/BayesGOF/R/rDS.nnu.R |only BayesGOF-2.1/BayesGOF/R/rDS.pgu.R |only BayesGOF-2.1/BayesGOF/R/rDS.post.bbu.R |only BayesGOF-2.1/BayesGOF/R/rDS.post.nnu.R |only BayesGOF-2.1/BayesGOF/R/rDS.post.pgu.R |only BayesGOF-2.1/BayesGOF/R/weight.fun.univ.R |only BayesGOF-2.1/BayesGOF/build/partial.rdb |binary BayesGOF-2.1/BayesGOF/data/AutoIns.rda |only BayesGOF-2.1/BayesGOF/data/ChildIll.rda |only BayesGOF-2.1/BayesGOF/data/CorbBfly.rda |only BayesGOF-2.1/BayesGOF/data/NorbergIns.rda |only BayesGOF-2.1/BayesGOF/data/arsenic.rda |only BayesGOF-2.1/BayesGOF/data/ulcer.rda |only BayesGOF-2.1/BayesGOF/inst/doc/vignette_BayesGOF.R | 66 ++++++++- BayesGOF-2.1/BayesGOF/inst/doc/vignette_BayesGOF.Rmd | 131 ++++++++++++++++-- BayesGOF-2.1/BayesGOF/inst/doc/vignette_BayesGOF.html | 104 ++++++++++++-- BayesGOF-2.1/BayesGOF/man/AutoIns.Rd |only BayesGOF-2.1/BayesGOF/man/BayesGOF-package.Rd | 4 BayesGOF-2.1/BayesGOF/man/ChildIll.Rd |only BayesGOF-2.1/BayesGOF/man/CorbBfly.Rd |only BayesGOF-2.1/BayesGOF/man/DS.PostMean.Rd | 49 ++++-- BayesGOF-2.1/BayesGOF/man/DS.PostMode.Rd |only BayesGOF-2.1/BayesGOF/man/DS.macro.inf.Rd | 47 +++--- BayesGOF-2.1/BayesGOF/man/DS.micro.inf.Rd | 26 ++- BayesGOF-2.1/BayesGOF/man/DS.prior.Rd | 42 +++-- BayesGOF-2.1/BayesGOF/man/DS.sampler.Rd |only BayesGOF-2.1/BayesGOF/man/NorbergIns.Rd |only BayesGOF-2.1/BayesGOF/man/arsenic.Rd |only BayesGOF-2.1/BayesGOF/man/gLP.basis.Rd |only BayesGOF-2.1/BayesGOF/man/gMLE.bb.Rd |only BayesGOF-2.1/BayesGOF/man/gMLE.nn.Rd |only BayesGOF-2.1/BayesGOF/man/gMLE.pg.Rd |only BayesGOF-2.1/BayesGOF/man/rat.Rd | 1 BayesGOF-2.1/BayesGOF/man/ship.Rd | 4 BayesGOF-2.1/BayesGOF/man/tacks.Rd | 4 BayesGOF-2.1/BayesGOF/man/ulcer.Rd |only BayesGOF-2.1/BayesGOF/vignettes/vignette_BayesGOF.Rmd | 131 ++++++++++++++++-- 102 files changed, 697 insertions(+), 438 deletions(-)
Title: Genome Scans to Accommodate and Target Genetic and Non-Genetic
Effects on Trait Variance in Test Crosses
Description: In recognition that there are many factors (genetic loci, macro-
genetic factors such as sex, and environmental factors) that influence the
extent of environmental variation, the 'vqtl' package conducts genome scans
that accommodate and target these factors. The main functions of this package,
scanonevar() and scanonevar.perm() take as input a cross object from the popular
'qtl' package.
Author: Robert Corty [aut, cre]
Maintainer: Robert Corty <rcorty@gmail.com>
Diff between vqtl versions 1.2.0 dated 2017-06-14 and 2.0.0 dated 2018-02-08
vqtl-1.2.0/vqtl/R/archive |only vqtl-1.2.0/vqtl/R/to_use |only vqtl-1.2.0/vqtl/R/utils_dglm.R |only vqtl-1.2.0/vqtl/R/utils_stats.R |only vqtl-1.2.0/vqtl/tests/testthat/test-3-wrangle-scanonevar-input_.R |only vqtl-1.2.0/vqtl/tests/testthat/test-4-scanonevar.R |only vqtl-1.2.0/vqtl/tests/testthat/test-5-plots.R |only vqtl-2.0.0/vqtl/DESCRIPTION | 9 vqtl-2.0.0/vqtl/MD5 | 66 -- vqtl-2.0.0/vqtl/NAMESPACE | 2 vqtl-2.0.0/vqtl/R/effects_over_genome_plot.R | 137 ++-- vqtl-2.0.0/vqtl/R/mean_var_plots.R | 6 vqtl-2.0.0/vqtl/R/phenotype_at_locus_plot.R | 52 + vqtl-2.0.0/vqtl/R/plot.scanonevar.R | 86 +- vqtl-2.0.0/vqtl/R/scanonevar.R | 287 ++++------ vqtl-2.0.0/vqtl/R/scanonevar.boot.R |only vqtl-2.0.0/vqtl/R/scanonevar.perm.R | 137 +++- vqtl-2.0.0/vqtl/R/utils_formulae.R | 82 +- vqtl-2.0.0/vqtl/R/utils_model_fitting.R |only vqtl-2.0.0/vqtl/R/utils_permutation.R |only vqtl-2.0.0/vqtl/R/utils_validators.R | 19 vqtl-2.0.0/vqtl/R/utilts_genetic_data.R | 109 ++- vqtl-2.0.0/vqtl/build/vignette.rds |binary vqtl-2.0.0/vqtl/inst/doc/vqtl_vignette.html | 2 vqtl-2.0.0/vqtl/man/effects_over_genome_plot.Rd | 11 vqtl-2.0.0/vqtl/man/plot.scanonevar.Rd | 14 vqtl-2.0.0/vqtl/man/plotting.Rd | 6 vqtl-2.0.0/vqtl/man/pve.Rd |only vqtl-2.0.0/vqtl/man/scanonevar.Rd | 14 vqtl-2.0.0/vqtl/man/scanonevar.boot.Rd |only vqtl-2.0.0/vqtl/man/scanonevar.perm.Rd | 4 vqtl-2.0.0/vqtl/tests/testthat/test-2-scanonevar.R | 172 +++++ vqtl-2.0.0/vqtl/tests/testthat/test-3-scanonevar.perm.R | 221 +++---- vqtl-2.0.0/vqtl/tests/testthat/test-4-plots.R | 246 ++++---- vqtl-2.0.0/vqtl/tests/testthat/test-5-scanonevar.boot.R |only 35 files changed, 949 insertions(+), 733 deletions(-)
Title: Create Muller Plots of Evolutionary Dynamics
Description: Create plots that combine a phylogeny and frequency dynamics.
Phylogenetic input can be a generic adjacency matrix or a tree of class "phylo".
Inspired by similar plots in publications of the labs of RE Lenski and JE
Barrick. Named for HJ Muller (who popularised such plots) and H Wickham (whose
code this package exploits).
Author: Robert Noble [aut, cre] (<https://orcid.org/0000-0002-8057-4252>)
Maintainer: Robert Noble <robjohnnoble@gmail.com>
Diff between ggmuller versions 0.3 dated 2017-10-20 and 0.4 dated 2018-02-08
DESCRIPTION | 8 ++--- MD5 | 12 ++++---- R/MullerPlot.R | 71 +++++++++++++++++++++++++++++++++++++----------- README.md | 6 ++-- inst/doc/ggmuller.html | 21 +++++++------- man/add_start_points.Rd | 21 +++++++++++--- man/get_Muller_df.Rd | 19 +++++++++++- 7 files changed, 115 insertions(+), 43 deletions(-)
Title: Emissions and Statistics in R for Wastewater and Pollutants in
Combined Sewer Systems
Description: Provides a fast and parallelised calculator to estimate combined wastewater emissions.
It supports the planning and design of urban drainage systems, without the requirement of
extensive simulation tools. The 'EmiStatR' package implements modular R methods. This enables
to add new functionalities through the R framework. Furthermore, 'EmiStatR' was implemented
with an interactive user interface with sliders and input data exploration.
Author: J.A. Torres-Matallana [aut, cre]
K. Klepiszewski [aut, cre]
U. Leopold [ctb]
G. Schutz [ctb]
G.B.M. Heuvelink [ctb]
Maintainer: J.A. Torres-Matallana <arturo.torres@list.lu>
Diff between EmiStatR versions 1.2.0.4 dated 2018-01-30 and 1.2.0.6 dated 2018-02-08
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/Class-input.R | 6 +++--- R/EmiStatR.R | 24 +++++++++++++++--------- man/EmiStatR-package.Rd | 4 ++-- man/input-class.Rd | 6 +++--- 6 files changed, 32 insertions(+), 26 deletions(-)
Title: Draws Overview of Outliers (O3) Plots
Description: Potential outliers are identified for all combinations of a dataset's variables. The available methods are HDoutliers() from the package 'HDoutliers', FastPCS() from the package 'FastPCS', mvBACON() from 'robustX', adjOutlyingness() from 'robustbase', DectectDeviatingCells() from 'cellWise', covMcd() from 'robustbase'.
Author: Antony Unwin
Maintainer: Antony Unwin <unwin@math.uni-augsburg.de>
Diff between OutliersO3 versions 0.5.3 dated 2018-02-06 and 0.5.4 dated 2018-02-08
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NEWS | 5 +++++ build/vignette.rds |binary inst/doc/O3-alphas-vignette.Rmd | 2 +- inst/doc/O3-alphas-vignette.html | 14 +++++++------- inst/doc/O3-newMethod-vignette.Rmd | 2 +- inst/doc/O3-newMethod-vignette.html | 4 ++-- inst/doc/O3-pcps-vignette.Rmd | 2 +- inst/doc/O3-pcps-vignette.html | 6 +++--- inst/doc/O3-vignette.html | 6 +++--- vignettes/O3-alphas-vignette.Rmd | 2 +- vignettes/O3-newMethod-vignette.Rmd | 2 +- vignettes/O3-pcps-vignette.Rmd | 2 +- 14 files changed, 43 insertions(+), 38 deletions(-)
Title: Stratified and Personalised Models Based on Model-Based Trees
and Forests
Description: Model-based trees for subgroup analyses in clinical trials and
model-based forests for the estimation and prediction of personalised
treatment effects (personalised models). Currently partitioning of linear
models, lm(), generalised linear models, glm(), and Weibull models,
survreg(), is supported. Advanced plotting functionality is supported for
the trees and a test for parameter heterogeneity is provided for the
personalised models. For details on model-based trees for subgroup analyses
see Seibold, Zeileis and Hothorn (2016) <doi:10.1515/ijb-2015-0032>; for
details on model-based forests for estimation of individual treatment effects
see Seibold, Zeileis and Hothorn (2017) <doi:10.1177/0962280217693034>.
Author: Heidi Seibold [aut, cre],
Achim Zeileis [aut],
Torsten Hothorn [aut]
Maintainer: Heidi Seibold <heidi@seibold.co>
Diff between model4you versions 0.9-0 dated 2018-01-16 and 0.9-1 dated 2018-02-08
model4you-0.9-0/model4you/man/objfun.pmodel.identity.Rd |only model4you-0.9-0/model4you/man/test_heterogeneity.Rd |only model4you-0.9-1/model4you/DESCRIPTION | 8 +- model4you-0.9-1/model4you/MD5 | 38 ++++++------ model4you-0.9-1/model4you/NAMESPACE | 6 +- model4you-0.9-1/model4you/R/objfun.R | 2 model4you-0.9-1/model4you/R/plot-pmtree.R | 16 +++-- model4you-0.9-1/model4you/R/pmforest.R | 2 model4you-0.9-1/model4you/R/pmodel-methods.R | 32 +++++----- model4you-0.9-1/model4you/R/pmodel-test.R | 47 +++++++++------- model4you-0.9-1/model4you/R/pmodel.R | 6 +- model4you-0.9-1/model4you/R/pmtree-methods.R | 42 ++++++++++---- model4you-0.9-1/model4you/inst/NEWS.Rd |only model4you-0.9-1/model4you/inst/examples/ex-pmodel.R | 2 model4you-0.9-1/model4you/man/objfun.Rd | 6 +- model4you-0.9-1/model4you/man/objfun.pmodel_identity.Rd |only model4you-0.9-1/model4you/man/pmodel.Rd | 2 model4you-0.9-1/model4you/man/pmtest.Rd |only model4you-0.9-1/model4you/man/predict.pmtree.Rd | 3 - model4you-0.9-1/model4you/man/print.pmtree.Rd | 3 + model4you-0.9-1/model4you/tests/test-pmodel-test.R |only model4you-0.9-1/model4you/tests/test-pmtree.R | 4 + model4you-0.9-1/model4you/tests/test-pmtree.Rout.save | 14 ++++ 23 files changed, 148 insertions(+), 85 deletions(-)
Title: Linear and Nonlinear Methods for Analyzing Dendroclimatological
Data
Description: Provides novel dendroclimatological methods, primarily used by the
Tree-ring research community. There are two core functions. The first one is
daily_response(), which finds the optimal sequence of days that are related
to one or more tree-ring proxy records. The second one is compare_methods(),
which effectively compares several linear and nonlinear regression algorithms.
Author: Jernej Jevsenak [aut, cre], Tom Levanic [ctb]
Maintainer: Jernej Jevsenak <jernej.jevsenak@gmail.com>
Diff between dendroTools versions 0.0.5 dated 2018-01-04 and 0.0.6 dated 2018-02-08
DESCRIPTION | 13 MD5 | 37 - NAMESPACE | 5 NEWS.md | 22 R/calculate_metrics.R | 6 R/compare_methods.R | 855 +++++++++++++++++----------------- R/daily_response.R | 25 R/data_TRW.R | 2 R/plot_specific.R | 2 R/smooth_matrix.R | 4 inst/CITATION |only inst/doc/Examples_daily_response.R | 6 inst/doc/Examples_daily_response.Rmd | 6 inst/doc/Examples_daily_response.html | 48 - man/compare_methods.Rd | 101 ++-- man/daily_response.Rd | 22 man/data_TRW.Rd | 2 man/plot_specific.Rd | 25 man/smooth_matrix.Rd | 4 vignettes/Examples_daily_response.Rmd | 6 20 files changed, 592 insertions(+), 599 deletions(-)
Title: Tools for CM SAF NetCDF Data
Description: The Satellite Application Facility on Climate Monitoring (CM SAF)
is a ground segment of the European Organization for the Exploitation of
Meteorological Satellites (EUMETSAT) and one of EUMETSATs Satellite Application
Facilities. The CM SAF contributes to the sustainable observing of the climate
system by providing essential climate variables related to the energy and water
cycle of the atmosphere (<http://www.cmsaf.eu>). It is a joint cooperation of seven
National Meteorological and Hydrological Services.
The 'cmsaf' R-package provides a collection of R-operators for the analysis and
manipulation of CM SAF NetCDF formatted data. The 'cmsaf' R-package is tested
for CM SAF NetCDF data, which are structured in three-dimensional arrays
(longitude, latitude, time) on a rectangular grid. Layered CM SAF data have to
be converted with the provided levbox_mergetime() function. The 'cmsaf' R-package
operators have only minor checks for deviations from the recommended data structure,
and give only few specific error messages.
Scripts for an easy application of the 'cmsaf' package operators and the preparation
and visualization of CM SAF NetCDF data are provided at the CM SAF webpage
(<http://www.cmsaf.eu/EN/Products/Tools/Tools_node.html>).
Author: Steffen Kothe <Steffen.Kothe@dwd.de>
Maintainer: Steffen Kothe <Steffen.Kothe@dwd.de>
Diff between cmsaf versions 1.8.1 dated 2017-07-11 and 1.9.0 dated 2018-02-08
DESCRIPTION | 31 ++++++------- MD5 | 44 ++++++++++--------- NAMESPACE | 4 + R/box_mergetime.R | 25 ++++++++--- R/checkfile.R | 34 +++++++++------ R/cmsaf.cat.R |only R/fldmax.R | 43 +++++++++++-------- R/fldmean.R | 39 ++++++++++------- R/fldmin.R | 43 +++++++++++-------- R/levbox_mergetime.R | 35 +++++++++++++-- R/monsum.R | 18 ++++---- R/multimonmean.R | 13 +++-- R/multimonsum.R | 37 ++++++++-------- R/remapbil.R | 6 +- R/selpoint.multi.R | 25 +++++++---- R/timpctl.R |only R/timsd.R | 14 +++--- R/trend.R | 114 ++++++++++++++++++++++++++++++++++++--------------- R/wfldmean.R | 2 R/yearsum.R | 4 + man/box_mergetime.Rd | 1 man/cmsaf-package.Rd | 9 +--- man/cmsaf.cat.Rd |only man/timpctl.Rd |only man/trend.Rd | 17 +++++-- 25 files changed, 355 insertions(+), 203 deletions(-)