Title: An R Interface to SciDB
Description: An R interface to the 'SciDB' array database <http://scidb.org>.
Author: B. W. Lewis [cre, aut],
Alex Poliakov [aut]
Maintainer: B. W. Lewis <blewis@illposed.net>
Diff between scidb versions 1.2-0 dated 2015-04-01 and 2.0.0 dated 2017-04-14
scidb-1.2-0/scidb/R/aggregate.R |only scidb-1.2-0/scidb/R/dbops.R |only scidb-1.2-0/scidb/R/distributions.R |only scidb-1.2-0/scidb/R/glm.R |only scidb-1.2-0/scidb/R/merge.R |only scidb-1.2-0/scidb/R/misc.R |only scidb-1.2-0/scidb/R/redim.R |only scidb-1.2-0/scidb/R/scidb-arithmetic.R |only scidb-1.2-0/scidb/R/scidb-functions.R |only scidb-1.2-0/scidb/R/scidb-indexing-functions.R |only scidb-1.2-0/scidb/R/scidb-methods.R |only scidb-1.2-0/scidb/R/scidbdf-functions.R |only scidb-1.2-0/scidb/R/scidbdf-methods.R |only scidb-1.2-0/scidb/R/special_index.R |only scidb-1.2-0/scidb/README |only scidb-1.2-0/scidb/inst/doc/scidb.Rnw |only scidb-1.2-0/scidb/inst/misc |only scidb-1.2-0/scidb/inst/misc-documentation |only scidb-1.2-0/scidb/man/Ops.scidb.Rd |only scidb-1.2-0/scidb/man/aggregate-methods.Rd |only scidb-1.2-0/scidb/man/all.equal.Rd |only scidb-1.2-0/scidb/man/antijoin.Rd |only scidb-1.2-0/scidb/man/attribute_rename.Rd |only scidb-1.2-0/scidb/man/bernoulli.Rd |only scidb-1.2-0/scidb/man/between.Rd |only scidb-1.2-0/scidb/man/bind.Rd |only scidb-1.2-0/scidb/man/build.Rd |only scidb-1.2-0/scidb/man/c-methods.Rd |only scidb-1.2-0/scidb/man/cast.Rd |only scidb-1.2-0/scidb/man/chunk_map.Rd |only scidb-1.2-0/scidb/man/comparison-methods.Rd |only scidb-1.2-0/scidb/man/cumulate.Rd |only scidb-1.2-0/scidb/man/diff.scidb.Rd |only scidb-1.2-0/scidb/man/dim.scidb.Rd |only scidb-1.2-0/scidb/man/dimension_rename.Rd |only scidb-1.2-0/scidb/man/dimensions.Rd |only scidb-1.2-0/scidb/man/dist.Rd |only scidb-1.2-0/scidb/man/factor_scidb.Rd |only scidb-1.2-0/scidb/man/glm.fit.Rd |only scidb-1.2-0/scidb/man/grand-methods.Rd |only scidb-1.2-0/scidb/man/hist-method.Rd |only scidb-1.2-0/scidb/man/hypergeometric-methods.Rd |only scidb-1.2-0/scidb/man/index_lookup.Rd |only scidb-1.2-0/scidb/man/is.scidb.Rd |only scidb-1.2-0/scidb/man/is.scidbdf.Rd |only scidb-1.2-0/scidb/man/is.temp.Rd |only scidb-1.2-0/scidb/man/kmeans.Rd |only scidb-1.2-0/scidb/man/lag.Rd |only scidb-1.2-0/scidb/man/length.scidb.Rd |only scidb-1.2-0/scidb/man/levels_scidb.Rd |only scidb-1.2-0/scidb/man/merge-methods.Rd |only scidb-1.2-0/scidb/man/na.locf-method.Rd |only scidb-1.2-0/scidb/man/nrow.scidb.Rd |only scidb-1.2-0/scidb/man/order.Rd |only scidb-1.2-0/scidb/man/peek.Rd |only scidb-1.2-0/scidb/man/persist.Rd |only scidb-1.2-0/scidb/man/predict.glm_scidb.Rd |only scidb-1.2-0/scidb/man/print.scidb.Rd |only scidb-1.2-0/scidb/man/project.Rd |only scidb-1.2-0/scidb/man/quantile.Rd |only scidb-1.2-0/scidb/man/rank.Rd |only scidb-1.2-0/scidb/man/redimension.Rd |only scidb-1.2-0/scidb/man/remove_old_versions.Rd |only scidb-1.2-0/scidb/man/rename.Rd |only scidb-1.2-0/scidb/man/repart.Rd |only scidb-1.2-0/scidb/man/replaceNA.Rd |only scidb-1.2-0/scidb/man/reshape-method.Rd |only scidb-1.2-0/scidb/man/scidb-class.Rd |only scidb-1.2-0/scidb/man/scidb_attributes.Rd |only scidb-1.2-0/scidb/man/scidb_fisher.test.Rd |only scidb-1.2-0/scidb/man/scidbdf-class.Rd |only scidb-1.2-0/scidb/man/scidbdisconnect.Rd |only scidb-1.2-0/scidb/man/scidbeval.Rd |only scidb-1.2-0/scidb/man/scidblist.Rd |only scidb-1.2-0/scidb/man/scidbremove.Rd |only scidb-1.2-0/scidb/man/show_commit_log.Rd |only scidb-1.2-0/scidb/man/slice.Rd |only scidb-1.2-0/scidb/man/sort-methods.Rd |only scidb-1.2-0/scidb/man/str.scidb.Rd |only scidb-1.2-0/scidb/man/subarray.Rd |only scidb-1.2-0/scidb/man/subset-methods.Rd |only scidb-1.2-0/scidb/man/summary.scidb.Rd |only scidb-1.2-0/scidb/man/svd.Rd |only scidb-1.2-0/scidb/man/sweep-methods.Rd |only scidb-1.2-0/scidb/man/tsvd.Rd |only scidb-1.2-0/scidb/man/unbound.Rd |only scidb-1.2-0/scidb/tests/scidb.R |only scidb-1.2-0/scidb/tests/scidbdf.R |only scidb-1.2-0/scidb/vignettes/Rlogo.jpg |only scidb-1.2-0/scidb/vignettes/p4logo.jpg |only scidb-1.2-0/scidb/vignettes/scidb.Rnw |only scidb-1.2-0/scidb/vignettes/scidblogo.jpg |only scidb-2.0.0/scidb/.Rinstignore | 2 scidb-2.0.0/scidb/DESCRIPTION | 26 scidb-2.0.0/scidb/MD5 | 178 - scidb-2.0.0/scidb/NAMESPACE | 175 - scidb-2.0.0/scidb/NEWS | 8 scidb-2.0.0/scidb/R/afl.R |only scidb-2.0.0/scidb/R/classes.R | 60 scidb-2.0.0/scidb/R/data.R |only scidb-2.0.0/scidb/R/internal.R |only scidb-2.0.0/scidb/R/methods.R |only scidb-2.0.0/scidb/R/pkg.R | 188 - scidb-2.0.0/scidb/R/schema-utils.R | 483 +---- scidb-2.0.0/scidb/R/utility.R | 1624 ++++------------- scidb-2.0.0/scidb/README.md | 202 -- scidb-2.0.0/scidb/build/vignette.rds |binary scidb-2.0.0/scidb/data |only scidb-2.0.0/scidb/inst/doc/scidb.R |only scidb-2.0.0/scidb/inst/doc/scidb.Rmd |only scidb-2.0.0/scidb/inst/doc/scidb.pdf |binary scidb-2.0.0/scidb/inst/scidbdoc |only scidb-2.0.0/scidb/man/afl.Rd |only scidb-2.0.0/scidb/man/aflhelp.Rd |only scidb-2.0.0/scidb/man/as.R.Rd |only scidb-2.0.0/scidb/man/as.scidb.Rd | 84 scidb-2.0.0/scidb/man/at_least.Rd |only scidb-2.0.0/scidb/man/cov.Rd |only scidb-2.0.0/scidb/man/df2scidb.Rd | 53 scidb-2.0.0/scidb/man/digest_auth.Rd |only scidb-2.0.0/scidb/man/dimnames.scidb.Rd | 32 scidb-2.0.0/scidb/man/fwrite.Rd |only scidb-2.0.0/scidb/man/getpwd.Rd |only scidb-2.0.0/scidb/man/grapes-as-grapes-scidb-method.Rd |only scidb-2.0.0/scidb/man/grapes-as-grapes.Rd |only scidb-2.0.0/scidb/man/help-operator-method.Rd |only scidb-2.0.0/scidb/man/iquery.Rd | 134 - scidb-2.0.0/scidb/man/ls-afl-method.Rd |only scidb-2.0.0/scidb/man/names.scidb.Rd | 22 scidb-2.0.0/scidb/man/operators.Rd |only scidb-2.0.0/scidb/man/print-afl-method.Rd |only scidb-2.0.0/scidb/man/print-scidb-method.Rd |only scidb-2.0.0/scidb/man/print.afl.Rd |only scidb-2.0.0/scidb/man/rsub.Rd |only scidb-2.0.0/scidb/man/schema.Rd | 47 scidb-2.0.0/scidb/man/scidb-package.Rd | 60 scidb-2.0.0/scidb/man/scidb.Rd | 155 - scidb-2.0.0/scidb/man/scidb_prefix.Rd |only scidb-2.0.0/scidb/man/scidb_unpack_to_dataframe.Rd |only scidb-2.0.0/scidb/man/scidbconnect.Rd | 130 - scidb-2.0.0/scidb/man/show-afl-method.Rd |only scidb-2.0.0/scidb/man/show-scidb-method.Rd |only scidb-2.0.0/scidb/man/store.Rd |only scidb-2.0.0/scidb/man/update.afl.Rd |only scidb-2.0.0/scidb/src/init.c |only scidb-2.0.0/scidb/src/parse.c | 540 +++-- scidb-2.0.0/scidb/src/scidb.c | 378 +-- scidb-2.0.0/scidb/tests/a.R |only scidb-2.0.0/scidb/vignettes/scidb.Rmd |only scidb-2.0.0/scidb/vignettes/scidb.html |only scidb-2.0.0/scidb/vignettes/style.css |only 151 files changed, 1402 insertions(+), 3179 deletions(-)
Title: Epidemiology Tools
Description: Tools for training and practicing epidemiologists including methods for two-way and multi-way contingency tables.
Author: Tomas J. Aragon [aut], Michael P. Fay
[ctb], Daniel Wollschlaeger [ctb], Adam Omidpanah [cre, ctb]
Maintainer: Adam Omidpanah <adam.omidpanah@wsu.edu>
Diff between epitools versions 0.5-8 dated 2017-03-23 and 0.5-9 dated 2017-04-14
DESCRIPTION | 8 +++--- MD5 | 58 +++++++++++++++++++++++----------------------- NAMESPACE | 4 ++- R/probratio.r |only man/ageadjust.direct.Rd | 4 +-- man/ageadjust.indirect.Rd | 4 +-- man/as.hour.Rd | 4 +-- man/as.month.Rd | 4 +-- man/as.week.Rd | 4 +-- man/binom.conf.int.Rd | 6 ++-- man/colorbrewer.Rd | 4 +-- man/colors.plot.Rd | 4 +-- man/epicurve.Rd | 4 +-- man/epidate.Rd | 4 +-- man/epitab.Rd | 4 +-- man/epitable.Rd | 4 +-- man/expand.table.Rd | 2 - man/expected.Rd | 4 +-- man/julian2date.Rd | 4 +-- man/kapmeier.Rd | 4 +-- man/oddsratio.Rd | 4 +-- man/or.midp.Rd | 4 +-- man/ormidp.test.Rd | 4 +-- man/pois.conf.int.Rd | 6 ++-- man/probratio.Rd |only man/rate2by2.test.Rd | 4 +-- man/rateratio.Rd | 4 +-- man/ratetable.Rd | 4 +-- man/riskratio.Rd | 4 +-- man/tab2by2.test.Rd | 4 +-- man/table.margins.Rd | 4 +-- 31 files changed, 90 insertions(+), 86 deletions(-)
Title: EMF Graphics Output Device
Description: Output graphics to EMF+/EMF.
Author: Philip Johnson
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between devEMF versions 3.3-1 dated 2017-02-11 and 3.4 dated 2017-04-14
DESCRIPTION | 8 +++--- MD5 | 14 +++++------ NEWS | 12 +++++++++ R/emf.R | 7 +++-- man/emf.Rd | 8 ++++-- src/devEMF.cpp | 70 ++++++++++++++++++++++++++++++--------------------------- src/emf+.h | 4 +-- src/emf.h | 7 +++-- 8 files changed, 77 insertions(+), 53 deletions(-)
Title: US Baby Names 1880-2015
Description: US baby names provided by the SSA. This package contains all
names used for at least 5 children of either sex.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between babynames versions 0.2.1 dated 2016-02-21 and 0.3.0 dated 2017-04-14
DESCRIPTION | 11 ++++++----- MD5 | 25 +++++++++++++------------ NAMESPACE | 1 + NEWS.md | 11 +++++++++++ R/data.R | 6 +++++- README.md | 21 +++++++++++++-------- data/applicants.rda |binary data/babynames.rda |binary data/births.rda |only data/births.rdata |binary man/applicants.Rd | 1 - man/babynames.Rd | 4 ++-- man/births.Rd | 1 - man/lifetables.Rd | 1 - 14 files changed, 51 insertions(+), 31 deletions(-)
Title: Local Polynomial Density Estimation and Inference
Description: Without imposing stringent distributional assumptions or shape restrictions, nonparametric density estimation has been popular in economics and other social sciences for counterfactual analysis, program evaluation, and policy recommendations. This package implements a novel density estimator based on local polynomial regression, documented in Cattaneo, Jansson and Ma (2017a): lpdensity() to construct local polynomial based density (and derivatives) estimator; lpbwdensity() to perform data-driven bandwidth selection; and lpdensity.plot() for density plot with robust confidence interval.
Author: Matias D. Cattaneo, Michael Jansson, Xinwei Ma
Maintainer: Xinwei Ma <xinweima@umich.edu>
Diff between lpdensity versions 0.1 dated 2017-04-11 and 0.2 dated 2017-04-14
DESCRIPTION | 8 - MD5 | 20 ++-- R/lpbwdensity.R | 118 ++++++++++++++++++--------- R/lpdensity-package.R | 15 ++- R/lpdensity.R | 199 ++++++++++++++++++++++++++++++++--------------- R/lpdensity.plot.R | 43 ++++++---- R/lpdensity_fn.R | 2 man/lpbwdensity.Rd | 42 +++++---- man/lpdensity-package.Rd | 11 +- man/lpdensity.Rd | 46 ++++++---- man/lpdensity.plot.Rd | 23 +++-- 11 files changed, 341 insertions(+), 186 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut],
Javier F. Tabima [aut],
Sydney E. Everhart [ctb, dtc],
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb],
Erik Sotka [ctb],
Brian J. Knaus [ctb],
Niklaus J. Grunwald [ths]
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>
Diff between poppr versions 2.4.0 dated 2017-04-10 and 2.4.1 dated 2017-04-14
DESCRIPTION | 8 +-- MD5 | 45 +++++++++---------- NEWS | 14 +++++ R/bruvo.r | 22 ++++----- R/filter_stats.R | 5 +- R/internal.r | 30 +++++++++++- R/internal_methods.R | 13 +++-- R/messages.r | 33 ++++++++++++++ R/methods.r | 63 +++++++++++--------------- R/msn_handlers.R | 2 inst/doc/algo.pdf |binary inst/doc/mlg.html | 8 +-- inst/doc/poppr_manual.html | 10 ++-- man/bruvo.dist.Rd | 2 man/filter_stats.Rd | 5 +- man/fix_replen.Rd | 5 +- man/is.clone.Rd | 3 - man/mlg.filter.Rd | 13 ++--- man/test_replen.Rd | 5 +- src/mlg_clustering.c | 35 ++++++++++++-- src/poppr_distance.c | 101 +++++++++++++++++++++++++++++++++++++++++++ tests/testthat/test-filter.R | 33 +++++++++++--- tests/testthat/test-replen.R |only tests/testthat/test-values.R | 27 +++-------- 24 files changed, 342 insertions(+), 140 deletions(-)
Title: Tools Inspired by 'Stata' to Manipulate Tabular Data
Description: A set of tools inspired by 'Stata' to explore data.frames ('summarize',
'tabulate', 'xtile', 'pctile', 'binscatter', elapsed quarters/month, lead/lag).
Author: Matthieu Gomez [aut, cre]
Maintainer: Matthieu Gomez <mattg@princeton.edu>
Diff between statar versions 0.6.3 dated 2017-04-04 and 0.6.4 dated 2017-04-14
statar-0.6.3/statar/R/find_duplicates.R |only statar-0.6.3/statar/R/utils.R |only statar-0.6.3/statar/man/find_duplicates.Rd |only statar-0.6.3/statar/vignettes/summary.html |only statar-0.6.4/statar/DESCRIPTION | 6 statar-0.6.4/statar/MD5 | 34 +-- statar-0.6.4/statar/NAMESPACE | 2 statar-0.6.4/statar/R/spread_.R | 15 + statar-0.6.4/statar/R/statascii.R | 189 +++++++++++--------- statar-0.6.4/statar/R/sum_up.R | 31 +-- statar-0.6.4/statar/R/tab.R | 17 - statar-0.6.4/statar/R/tempname.R | 114 ------------ statar-0.6.4/statar/README.md | 72 +++++++ statar-0.6.4/statar/inst/doc/data-frames.html | 4 statar-0.6.4/statar/inst/doc/graph.html | 4 statar-0.6.4/statar/inst/doc/panel-data.html | 4 statar-0.6.4/statar/inst/doc/vector.html | 4 statar-0.6.4/statar/tests/testthat/test_ispanel.R |only statar-0.6.4/statar/tests/testthat/test_pctile.R |only statar-0.6.4/statar/tests/testthat/test_statascii.R |only statar-0.6.4/statar/tests/testthat/test_sumup.R |only statar-0.6.4/statar/tests/testthat/test_tab.R | 5 22 files changed, 241 insertions(+), 260 deletions(-)
Title: T-Distributed Stochastic Neighbor Embedding using a Barnes-Hut
Implementation
Description: An R wrapper around the fast T-distributed Stochastic
Neighbor Embedding implementation by Van der Maaten (see <https://github.com/lvdmaaten/bhtsne/> for more information on the original implementation).
Author: Jesse Krijthe [aut, cre],
Laurens van der Maaten [cph] (Author of original C++ code)
Maintainer: Jesse Krijthe <jkrijthe@gmail.com>
Diff between Rtsne versions 0.11 dated 2016-06-30 and 0.13 dated 2017-04-14
Rtsne-0.11/Rtsne/R/bhtsne.R |only Rtsne-0.13/Rtsne/DESCRIPTION | 10 +++---- Rtsne-0.13/Rtsne/MD5 | 23 ++++++++-------- Rtsne-0.13/Rtsne/NAMESPACE | 2 - Rtsne-0.13/Rtsne/R/RcppExports.R | 6 ++-- Rtsne-0.13/Rtsne/R/Rtsne.R | 48 +++++++++++++++++++++++++++-------- Rtsne-0.13/Rtsne/README.md | 4 +- Rtsne-0.13/Rtsne/man/Rtsne.Rd | 34 +++++++++++++++++++++--- Rtsne-0.13/Rtsne/src/RcppExports.cpp | 20 +++++++++----- Rtsne-0.13/Rtsne/src/Rtsne.cpp | 32 ++++++++++++++++++++--- Rtsne-0.13/Rtsne/src/init.c |only Rtsne-0.13/Rtsne/src/tsne.cpp | 22 ++++++---------- Rtsne-0.13/Rtsne/src/tsne.h | 5 ++- Rtsne-0.13/Rtsne/tools |only 14 files changed, 145 insertions(+), 61 deletions(-)
Title: Extended Structural Equation Modelling
Description: Facilitates treatment of statistical model specifications
as things that can be generated and manipulated programmatically.
Structural equation models may be specified with reticular action model matrices or paths,
linear structural relations matrices or paths, or
directly in matrix algebra.
Fit functions include full information maximum likelihood,
maximum likelihood, and weighted least squares.
Example models include confirmatory factor, multiple group, mixture
distribution, categorical threshold, modern test theory, differential
equations, state space, and many others.
Author: Steven M. Boker [aut],
Michael C. Neale [aut],
Hermine H. Maes [aut],
Michael J. Wilde [ctb],
Michael Spiegel [aut],
Timothy R. Brick [aut],
Ryne Estabrook [aut],
Timothy C. Bates [aut],
Paras Mehta [ctb],
Timo von Oertzen [ctb],
Ross J. Gore [aut],
Michael D. Hunter [aut],
Daniel C. Hackett [ctb],
Julian Karch [ctb],
Andreas M. Brandmaier [ctb],
Joshua N. Pritikin [aut, cre],
Mahsa Zahery [aut],
Robert M. Kirkpatrick [aut],
Yang Wang [ctb],
Charles Driver [ctb],
Massachusetts Institute of Technology [cph],
S. G. Johnson [cph],
Association for Computing Machinery [cph],
Dieter Kraft [cph],
Stefan Wilhelm [cph],
Manjunath B G [cph]
Maintainer: Joshua N. Pritikin <jpritikin@pobox.com>
Diff between OpenMx versions 2.7.9-1 dated 2017-04-13 and 2.7.10 dated 2017-04-14
DESCRIPTION | 10 MD5 | 120 ++++---- NEWS | 16 + R/0ClassUnion.R | 5 R/MxAlgebraFunctions.R | 12 R/MxCompare.R | 9 R/MxCompute.R | 63 ++-- R/MxDataWLS.R | 3 R/MxExpectationBA81.R | 9 R/MxExpectationGREML.R | 3 R/MxExpectationLISREL.R | 2 R/MxExpectationNormal.R | 18 + R/MxExpectationRAM.R | 10 R/MxExpectationStateSpace.R | 68 ++++ R/MxFitFunctionWLS.R | 32 +- R/MxInterval.R | 23 + R/MxModel.R | 2 R/MxRun.R | 14 - R/MxSE.R | 22 + R/MxSaturatedModel.R | 6 R/MxUnitTesting.R | 1 R/MxVersion.R | 2 R/sysdata.rda |binary configure | 9 inst/CITATION | 2 inst/models/nightly/thresholdModel1Factor5VariateWLS.R | 5 inst/models/passing/ACELRTCI20160808.R | 34 +- inst/models/passing/AnalyticConstraintJacobians--PowellBenchmark.R | 39 ++ inst/models/passing/DogChain.R | 4 inst/models/passing/NelderMead--bothConstraintTypes.R |only inst/models/passing/NelderMeadErrorTesting.R | 2 inst/models/passing/NelderMeadTest--eqConstraint.R | 29 ++ inst/models/passing/NelderMeadTest--ineqConstraints.R | 22 + inst/models/passing/NelderMeadTest.R | 33 ++ inst/models/passing/SummaryCheck.R | 3 inst/models/passing/Tiny_GREML_model_for_full_debug_logging.R | 1 inst/models/passing/ifa-drm1.R | 13 man/MxVersionType-class.Rd |only man/mxAlgebra.Rd | 8 man/mxComputeEM.Rd | 14 - man/mxComputeNelderMead.Rd | 12 man/mxComputeOnce.Rd | 6 man/omxParallelCI.Rd | 4 man/omxSaturatedModel.Rd | 47 ++- src/AlgebraFunctions.h | 18 + src/Compute.cpp | 104 +++---- src/Compute.h | 1 src/ComputeGD.cpp | 24 + src/ComputeGD.h | 46 +++ src/ComputeNM.cpp | 137 ++++++++-- src/ComputeNM.h | 21 - src/ComputeNR.cpp | 2 src/EnableWarnings.h | 1 src/nloptcpp.cpp | 73 ++++- src/omxAlgebra.cpp | 1 src/omxAlgebra.h | 2 src/omxExpectationBA81.cpp | 2 src/omxExpectationBA81.h | 1 src/omxFitFunction.cpp | 3 src/omxHessianCalculation.cpp | 7 src/omxSymbolTable.cpp | 1 src/omxSymbolTable.h | 1 62 files changed, 867 insertions(+), 315 deletions(-)
Title: One-Way Tests in Independent Groups Designs
Description: Performs one-way tests in independent groups designs, pairwise comparisons, graphical approaches, and assess variance homogeneity and normality of each group via tests and plots.
Author: Osman Dag [aut, cre], Anil Dolgun [aut], N. Meric Konar [aut]
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Diff between onewaytests versions 1.3 dated 2017-03-16 and 1.4 dated 2017-04-14
onewaytests-1.3/onewaytests/R/multcomp.R |only onewaytests-1.3/onewaytests/R/multcomp.jt.R |only onewaytests-1.3/onewaytests/man/multcomp.Rd |only onewaytests-1.3/onewaytests/man/multcomp.jt.Rd |only onewaytests-1.4/onewaytests/DESCRIPTION | 15 +++--- onewaytests-1.4/onewaytests/MD5 | 54 ++++++++++++------------- onewaytests-1.4/onewaytests/NAMESPACE | 8 +-- onewaytests-1.4/onewaytests/R/ag.test.R | 23 ++++++---- onewaytests-1.4/onewaytests/R/aov.test.R | 21 +++++---- onewaytests-1.4/onewaytests/R/bf.test.R | 24 ++++++----- onewaytests-1.4/onewaytests/R/describe.R | 26 ++---------- onewaytests-1.4/onewaytests/R/gplot.R | 11 +++-- onewaytests-1.4/onewaytests/R/homog.test.R | 12 +++-- onewaytests-1.4/onewaytests/R/james.test.R | 24 ++++++----- onewaytests-1.4/onewaytests/R/kw.test.R | 21 +++++---- onewaytests-1.4/onewaytests/R/nor.test.R | 24 ++++++----- onewaytests-1.4/onewaytests/R/paircomp.R |only onewaytests-1.4/onewaytests/R/paircomp.jt.R |only onewaytests-1.4/onewaytests/R/welch.test.R | 20 +++++---- onewaytests-1.4/onewaytests/man/ag.test.Rd | 13 +++--- onewaytests-1.4/onewaytests/man/aov.test.Rd | 14 +++--- onewaytests-1.4/onewaytests/man/bf.test.Rd | 14 +++--- onewaytests-1.4/onewaytests/man/describe.Rd | 8 +-- onewaytests-1.4/onewaytests/man/gplot.Rd | 14 +++--- onewaytests-1.4/onewaytests/man/homog.test.Rd | 12 ++--- onewaytests-1.4/onewaytests/man/james.test.Rd | 14 +++--- onewaytests-1.4/onewaytests/man/kw.test.Rd | 14 +++--- onewaytests-1.4/onewaytests/man/nor.test.Rd | 16 +++---- onewaytests-1.4/onewaytests/man/onewaytests.Rd | 8 +-- onewaytests-1.4/onewaytests/man/paircomp.Rd |only onewaytests-1.4/onewaytests/man/paircomp.jt.Rd |only onewaytests-1.4/onewaytests/man/welch.test.Rd | 16 ++++--- 32 files changed, 230 insertions(+), 196 deletions(-)
Title: Tools for the Bayesian Discount Prior Function
Description: Functions for data augmentation using the
Bayesian discount prior function for 1 arm and 2 arm clinical trials.
Author: Shawn Balcome [cre],
Donnie Musgrove [aut],
Tarek Haddad [aut],
Christopher Jackson [ctb] (For the ppexp R code that was ported to
C++.)
Maintainer: Shawn Balcome <sbalcome@mdic.org>
Diff between bayesDP versions 1.0.1 dated 2017-04-01 and 1.0.2 dated 2017-04-14
bayesDP-1.0.1/bayesDP/man/plot-methods.Rd |only bayesDP-1.0.1/bayesDP/man/print-methods.Rd |only bayesDP-1.0.1/bayesDP/man/summary-methods.Rd |only bayesDP-1.0.2/bayesDP/DESCRIPTION | 12 bayesDP-1.0.2/bayesDP/MD5 | 48 bayesDP-1.0.2/bayesDP/NAMESPACE | 91 - bayesDP-1.0.2/bayesDP/NEWS.md | 14 bayesDP-1.0.2/bayesDP/R/RcppExports.R | 22 bayesDP-1.0.2/bayesDP/R/bdpbinomial.R | 1069 +++++++------- bayesDP-1.0.2/bayesDP/R/bdpnormal.R | 1151 +++++++-------- bayesDP-1.0.2/bayesDP/R/bdpsurvival.R | 1191 ++++++++-------- bayesDP-1.0.2/bayesDP/R/plot.R | 933 ++++++------ bayesDP-1.0.2/bayesDP/R/ppexp.R | 88 - bayesDP-1.0.2/bayesDP/R/print.R | 214 +- bayesDP-1.0.2/bayesDP/R/summary.R | 483 ++++-- bayesDP-1.0.2/bayesDP/README.md | 60 bayesDP-1.0.2/bayesDP/man/bdpbinomial.Rd | 379 ++--- bayesDP-1.0.2/bayesDP/man/bdpnormal.Rd | 405 ++--- bayesDP-1.0.2/bayesDP/man/bdpsurvival.Rd | 344 ++-- bayesDP-1.0.2/bayesDP/man/final_binomial.Rd |only bayesDP-1.0.2/bayesDP/man/final_normal.Rd |only bayesDP-1.0.2/bayesDP/man/plot-bdpbinomial-method.Rd |only bayesDP-1.0.2/bayesDP/man/plot-bdpnormal-method.Rd |only bayesDP-1.0.2/bayesDP/man/plot-bdpsurvival-method.Rd |only bayesDP-1.0.2/bayesDP/man/ppexp.Rd | 84 - bayesDP-1.0.2/bayesDP/man/print-bdpbinomial-method.Rd |only bayesDP-1.0.2/bayesDP/man/print-bdpnormal-method.Rd |only bayesDP-1.0.2/bayesDP/man/print-bdpsurvival-method.Rd |only bayesDP-1.0.2/bayesDP/man/summary-bdpbinomial-method.Rd |only bayesDP-1.0.2/bayesDP/man/summary-bdpnormal-method.Rd |only bayesDP-1.0.2/bayesDP/man/summary-bdpsurvival-method.Rd |only bayesDP-1.0.2/bayesDP/src/bayesDP-init.c | 7 32 files changed, 3496 insertions(+), 3099 deletions(-)
More information about SeerMapper2010West at CRAN
Permanent link
Title: Utilities for the Simulation and Analysis of Random Fields
Description: Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used. Furthermore, it includes the Struve functions.
Author: Martin Schlather [aut, cre], Reinhard Furrer [ctb], Martin Kroll [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between RandomFieldsUtils versions 0.3.23 dated 2017-04-13 and 0.3.25 dated 2017-04-14
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/zzz.R | 2 +- inst/include/Basic_utils.h | 17 +++++------------ src/Basic_utils.h | 17 +++++------------ 5 files changed, 18 insertions(+), 32 deletions(-)
More information about RandomFieldsUtils at CRAN
Permanent link
Title: Graph Kernels
Description: A fast C++ implementation for computing various graph kernels including (1) simple kernels between vertex and/or edge label histograms, (2) random walk kernels (popular baselines), and (3) the Weisfeiler-Lehman graph kernel (state-of-the-art).
Author: Mahito Sugiyama
Maintainer: Mahito Sugiyama <mahito@nii.ac.jp>
Diff between graphkernels versions 1.1 dated 2017-03-27 and 1.2 dated 2017-04-14
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/graphKernels.R | 8 +++++++- man/graphkernels-package.Rd | 2 +- 4 files changed, 16 insertions(+), 10 deletions(-)
Title: A Package for Statistical Analysis in Epidemiology
Description: Functions for demographic and epidemiological analysis in
the Lexis diagram, i.e. register and cohort follow-up data, in
particular representation, manipulation and simulation of multi-state
data - the Lexis suite of functions, which includes interfaces to
'mstate', 'etm' and 'cmprsk' packages.
Also contains functions for Age-Period-Cohort and Lee-Carter
modeling and a function for interval censored data and some useful
functions for tabulation and plotting, as well as a number of
epidemiological data sets.
Author: Bendix Carstensen [aut, cre],
Martyn Plummer [aut],
Esa Laara [ctb],
Michael Hills [ctb]
Maintainer: Bendix Carstensen <b@bxc.dk>
Diff between Epi versions 2.10 dated 2017-02-23 and 2.11 dated 2017-04-14
CHANGES | 10 + DESCRIPTION | 12 - MD5 | 36 ++--- NAMESPACE | 1 R/ci.lin.R | 53 +++++++- R/mcutLexis.R | 10 - build/vignette.rds |binary inst/doc/Follow-up.R | 319 ++++++++++++++++++++++++------------------------- inst/doc/Follow-up.pdf |binary inst/doc/simLexis.R | 42 +++--- inst/doc/simLexis.pdf |binary inst/doc/simLexis.rnw | 27 ++-- inst/doc/yll.R | 95 ++++++-------- inst/doc/yll.pdf |binary inst/doc/yll.rnw | 94 +++++++------- man/ci.lin.Rd | 38 ++++- man/mcutLexis.Rd | 11 + vignettes/simLexis.rnw | 31 ++-- vignettes/yll.rnw | 94 +++++++------- 19 files changed, 480 insertions(+), 393 deletions(-)
Title: A Modern and Flexible Web Client for R
Description: The curl() and curl_download() functions provide highly
configurable drop-in replacements for base url() and download.file() with
better performance, support for encryption (https, ftps), gzip compression,
authentication, and other 'libcurl' goodies. The core of the package implements a
framework for performing fully customized requests where data can be processed
either in memory, on disk, or streaming via the callback or connection
interfaces. Some knowledge of 'libcurl' is recommended; for a more-user-friendly
web client see the 'httr' package which builds on this package with http
specific tools and logic.
Author: Jeroen Ooms [cre, aut],
Hadley Wickham [ctb],
RStudio [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between curl versions 2.4 dated 2017-03-24 and 2.5 dated 2017-04-14
DESCRIPTION | 12 ++++++---- LICENSE | 2 - MD5 | 37 +++++++++++++++++--------------- NAMESPACE | 1 NEWS | 9 +++++++ R/curl.R | 4 +-- R/echo.R |only R/fetch.R | 11 ++++++--- R/handle.R | 16 +++++++++++++- inst/doc/intro.html | 42 ++++++++++++++++++------------------- man/curl_echo.Rd |only man/curl_fetch.Rd | 2 - src/callbacks.c | 8 ++++++- src/callbacks.h | 4 +++ src/curl.c | 22 +++++++++---------- src/handle.c | 24 +++++++++++++++++++-- tests/testthat/test-blockopen.R | 12 +++++++--- tests/testthat/test-certificates.R | 6 ++++- tests/testthat/test-connection.R |only tests/testthat/test-cookies.R | 5 ++++ tests/testthat/test-handle.R | 29 ------------------------- 21 files changed, 146 insertions(+), 100 deletions(-)
Title: Bayesian Structure Learning in Graphical Models using
Birth-Death MCMC
Description: Provides statistical tools for Bayesian structure learning in undirected graphical models with both continuous and discrete variables. The package is implemented the recent improvements in the Bayesian graphical models literature, including Mohammadi and Wit (2015) <doi:10.1214/14-BA889> and Mohammadi et al. (2017) <doi:10.1111/rssc.12171>.
Author: Abdolreza Mohammadi and Ernst Wit
Maintainer: Abdolreza Mohammadi <a.mohammadi@rug.nl>
Diff between BDgraph versions 2.33 dated 2017-02-12 and 2.34 dated 2017-04-14
DESCRIPTION | 10 - MD5 | 109 ++++++------ NAMESPACE | 5 R/bdgraph.R | 328 +++++++++++++++++++++---------------- R/bdgraph.mpl.R |only R/bdgraph.npn.R | 16 - R/bdgraph.sim.R | 263 +++++++++++++++++------------- R/bdgraph.ts.R | 11 - R/compare.R | 148 +++++++---------- R/gnorm.R | 33 ++- R/hill_climb_algorithm.R |only R/plotroc.R | 203 ++++++++++------------- R/rcwish.R | 2 R/rgcwish.R | 22 +- R/rgwish.R | 22 +- R/rwish.R | 4 R/traceplot.R | 4 data/reinis.RData |only inst/CITATION | 52 ++--- man/BDgraph-internal.Rd | 14 + man/BDgraph-package.Rd | 17 + man/bdgraph.Rd | 10 - man/bdgraph.mpl.Rd |only man/bdgraph.sim.Rd | 43 ++-- man/compare.Rd | 5 man/geneExpression.Rd | 2 man/gnorm.Rd | 22 +- man/pgraph.Rd | 2 man/plinks.Rd | 6 man/plot.bdgraph.Rd | 6 man/plot.sim.Rd | 4 man/plotcoda.Rd | 4 man/plotroc.Rd | 16 + man/print.bdgraph.Rd | 2 man/print.sim.Rd | 2 man/rcwish.Rd | 6 man/reinis.Rd |only man/rgcwish.Rd | 4 man/rgwish.Rd | 9 - man/rwish.Rd | 8 man/select.Rd | 6 man/summary.bdgraph.Rd | 4 man/traceplot.Rd | 6 src/Makevars | 3 src/bd_for_ts.cpp | 205 ++++++++++------------- src/copula.cpp | 21 +- src/copula.h | 13 + src/gcgm_DMH.cpp | 397 +++++++++++++++++++++++---------------------- src/gcgm_bd.cpp | 366 ++++++++++++++++++++++-------------------- src/ggm_DMH.cpp | 399 ++++++++++++++++++++++++---------------------- src/ggm_bd.cpp | 368 ++++++++++++++++++++++-------------------- src/ggm_mpl_bd.cpp |only src/gm_mpl_Hill_Climb.cpp |only src/gm_mpl_bd_dis.cpp |only src/gm_rj.cpp | 72 +++++--- src/init.c |only src/matrix.cpp | 71 +++++++- src/matrix.h | 18 +- src/rgwish.cpp | 89 +++++++--- src/rgwish.h | 20 +- 60 files changed, 1897 insertions(+), 1575 deletions(-)
Title: Who are You? Bayesian Prediction of Racial Category Using
Surname and Geolocation
Description: Predicts individual race/ethnicity using surname, geolocation, and other
attributes, such as gender and age. The method utilizes the Bayes' Rule to compute
the posterior probability of each racial category for any given individual.
The package implements methods described in Imai and Khanna (2015) "Improving
Ecological Inference by Predicting Individual Ethnicity from Voter Registration
Records" <DOI:10.1093/pan/mpw001>.
Author: Kabir Khanna [aut, cre], Kosuke Imai [aut, cre], Hubert Jin [ctb]
Maintainer: Kabir Khanna <kkhanna@princeton.edu>
Diff between wru versions 0.1-2 dated 2017-03-05 and 0.1-3 dated 2017-04-14
ChangeLog | 1 + DESCRIPTION | 19 +++++++++---------- MD5 | 30 +++++++++++++++--------------- R/census_geo_api.R | 19 ++++++++----------- R/census_helper.R | 9 +++++---- R/get_census_api.R | 7 ++++--- R/get_census_api_2.R | 12 +++++++++++- R/get_census_data.R | 23 ++++++++++++++++++----- R/predict_race.R | 13 +++++++------ README.md | 40 ++++++++++++++++++++++++++++------------ man/census_geo_api.Rd | 5 ++++- man/census_helper.Rd | 4 +++- man/get_census_api.Rd | 4 +++- man/get_census_api_2.Rd | 4 +++- man/get_census_data.Rd | 9 ++++++++- man/predict_race.Rd | 8 +++++--- 16 files changed, 132 insertions(+), 75 deletions(-)
Title: Venn Diagrams in 2D and 3D
Description: Calculate and plot Venn diagrams in 2D and 3D.
Author: Zehao Xu [aut, cre],
R. Wayne Oldford [ctb],
Martin Lysy [ctb]
Maintainer: Zehao Xu <z267xu@uwaterloo.ca>
Diff between vennplot versions 0.9 dated 2017-04-09 and 0.9.01 dated 2017-04-14
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NAMESPACE | 34 ++++++++++++++++++---------------- src/vennCpp2.cpp | 50 +++++++++++++++++++++++++------------------------- 4 files changed, 49 insertions(+), 47 deletions(-)
More information about SeerMapper2010East at CRAN
Permanent link
Title: Fluid Use of Big Data in R
Description: Methods to get a grip on working with remote data sources ('SQL' databases,
'sparklyr' 'Spark' 2.0.0 and above) through 'dplyr'. Adds convenience functions to make such tasks more like
working with an in-memory 'data.frame'. Results do depend on which 'dplyr' data service you use.
Author: John Mount, Nina Zumel
Maintainer: John Mount <jmount@win-vector.com>
Diff between replyr versions 0.2.4 dated 2017-03-14 and 0.2.5 dated 2017-04-14
DESCRIPTION | 10 +++--- MD5 | 61 +++++++++++++++++++++----------------- NAMESPACE | 12 +++---- NEWS.md | 7 +++- R/bind_rows.R | 19 ++++++----- R/coalesce.R | 2 - R/filter.R | 2 - R/groupedApply.R | 33 +------------------- R/inTest.R | 2 - R/let.R | 6 ++- R/nrow.R | 3 + R/quantile.R | 6 +-- R/renameRestrictCols.R | 22 ------------- R/rowscols.R |only R/summary.R | 2 - R/underscoreReplacements.R |only R/uniqueValues.R | 12 ++++--- README.md | 6 +-- inst/doc/BizarroPipe.html | 16 ++------- inst/doc/NArm.html | 8 ++-- inst/doc/ParametricExample.html | 4 +- inst/doc/coalesce.html | 8 ++-- inst/doc/letExample.html | 8 ++-- inst/doc/replyr.html | 8 ++-- inst/doc/summary.html | 8 ++-- man/letp.Rd | 4 +- man/replyr_arrange.Rd | 22 ++++++------- man/replyr_group_by.Rd |only man/replyr_moveValuesToColumns.Rd |only man/replyr_moveValuesToRows.Rd |only man/replyr_nrow.Rd | 1 man/replyr_rename.Rd | 2 - man/replyr_select.Rd |only man/replyr_uniqueValues.Rd | 4 +- tests/testthat/test_pivot.R |only 35 files changed, 131 insertions(+), 167 deletions(-)
Title: Neyman Smooth Tests of Normality for the Errors of ARMA Models
Description: Tests the goodness-of-fit to the Normal distribution for the errors of an ARMA model.
Author: Pierre Duchesne and Pierre Lafaye de Micheaux
Maintainer: Pierre Lafaye de Micheaux <lafaye@unsw.edu.au>
Diff between nortestARMA versions 1.0.1 dated 2017-04-12 and 1.0.2 dated 2017-04-14
DESCRIPTION | 8 ++-- MD5 | 28 ++++++++-------- inst/HISTORY | 7 ++++ src/calcstat.cpp | 20 ++++++----- src/polys/H1.cpp | 2 - src/polys/H10.cpp | 2 - src/polys/H2.cpp | 2 - src/polys/H3.cpp | 2 - src/polys/H4.cpp | 2 - src/polys/H5.cpp | 2 - src/polys/H6.cpp | 2 - src/polys/H7.cpp | 2 - src/polys/H8.cpp | 2 - src/polys/H9.cpp | 2 - src/quantile.cpp | 93 +++++++++++++++++++++++++++--------------------------- 15 files changed, 94 insertions(+), 82 deletions(-)
Title: Functions that Apply to Rows and Columns of Matrices (and to
Vectors)
Description: High-performing functions operating on rows and columns of matrices, e.g. col / rowMedians(), col / rowRanks(), and col / rowSds(). Functions optimized per data type and for subsetted calculations such that both memory usage and processing time is minimized. There are also optimized vector-based methods, e.g. binMeans(), madDiff() and weightedMedian().
Author: Henrik Bengtsson [aut, cre, cph], Hector Corrada Bravo [ctb], Robert Gentleman [ctb], Ola Hossjer [ctb], Harris Jaffee [ctb], Dongcan Jiang [ctb], Peter Langfelder [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between matrixStats versions 0.52.0 dated 2017-04-04 and 0.52.2 dated 2017-04-14
DESCRIPTION | 8 +++--- MD5 | 44 +++++++++++++++++++------------------- NEWS | 25 +++++++++++++++++++++ R/999.package.R | 4 +-- R/rowAlls.R | 8 +++--- R/rowCollapse.R | 4 +-- R/rowDiffs.R | 2 - R/rowProds.R | 4 +-- R/rowQuantiles.R | 32 +++++++++++++-------------- R/rowRanks.R | 14 ++++++------ R/rowTabulates.R | 21 ++++++------------ R/rowVars.R | 12 +++++----- R/rowWeightedMeans.R | 16 ++++++------- R/rowWeightedMedians.R | 16 ++++++------- R/weightedMad.R | 10 ++++---- R/weightedMedian.R | 12 +++++----- R/weightedVar.R | 3 ++ inst/doc/matrixStats-methods.html | 4 +-- man/matrixStats-package.Rd | 4 +-- man/validateIndices.Rd | 3 -- man/weightedMad.Rd | 1 src/000.utils.h | 8 ++++++ tests/benchmark.R | 12 +++++++--- 23 files changed, 149 insertions(+), 118 deletions(-)
Title: Automatic Differentiation of Multivariate Operations
Description: An object that supports automatic differentiation
of matrix- and multidimensional-valued functions with
respect to multidimensional independent variables.
Automatic differentiation is via 'forward accumulation'.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between madness versions 0.2.0 dated 2016-01-20 and 0.2.1 dated 2017-04-14
DESCRIPTION | 8 ++++---- MD5 | 32 ++++++++++++++++++-------------- NAMESPACE | 1 + R/Ops.r | 5 +++++ R/madness_pkg.r | 13 +++++++++++++ R/matwise.r | 1 - R/reshape.r | 1 - README.md | 23 +++++++++++++++-------- build/vignette.rds |binary inst/doc/introducing_madness.pdf |binary man/NEWS.Rd | 17 +++++++++++++++++ man/matwise.Rd | 2 +- man/outer.Rd | 3 +++ man/reshapes.Rd | 2 +- tests/testthat/test-basic.r | 3 +++ tools |only 16 files changed, 81 insertions(+), 30 deletions(-)
Title: Interactive Cluster Heat Maps Using 'plotly'
Description: Create interactive cluster 'heatmaps' that can be saved as a stand-
alone HTML file, embedded in 'R Markdown' documents or in a 'Shiny' app, and
available in the 'RStudio' viewer pane. Hover the mouse pointer over a cell to
show details or drag a rectangle to zoom. A 'heatmap' is a popular graphical
method for visualizing high-dimensional data, in which a table of numbers
are encoded as a grid of colored cells. The rows and columns of the matrix
are ordered to highlight patterns and are often accompanied by 'dendrograms'.
'Heatmaps' are used in many fields for visualizing observations, correlations,
missing values patterns, and more. Interactive 'heatmaps' allow the inspection
of specific value by hovering the mouse over a cell, as well as zooming into
a region of the 'heatmap' by dragging a rectangle around the relevant area.
This work is based on the 'ggplot2' and 'plotly.js' engine. It produces
similar 'heatmaps' as 'heatmap.2' or 'd3heatmap', with the advantage of speed
('plotly.js' is able to handle larger size matrix), the ability to zoom from
the 'dendrogram' panes, and the placing of factor variables in the sides of the
'heatmap'.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com),
Jonathan Sidi [ctb] (https://github.com/yonicd),
Alan O'Callaghan [ctb] (https://github.com/Alanocallaghan),
Yoav Benjamini [ths]
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between heatmaply versions 0.8.2 dated 2017-03-21 and 0.9.1 dated 2017-04-14
heatmaply-0.8.2/heatmaply/R/ggheatmap.R |only heatmaply-0.8.2/heatmaply/man/ggheatmap.Rd |only heatmaply-0.9.1/heatmaply/DESCRIPTION | 48 - heatmaply-0.9.1/heatmaply/MD5 | 56 - heatmaply-0.9.1/heatmaply/NAMESPACE | 13 heatmaply-0.9.1/heatmaply/NEWS | 80 + heatmaply-0.9.1/heatmaply/NEWS.md | 89 + heatmaply-0.9.1/heatmaply/R/RColorBrewer.R | 1 heatmaply-0.9.1/heatmaply/R/heatmaply.R | 863 ++++++++++--------- heatmaply-0.9.1/heatmaply/R/heatmapr.R | 119 +- heatmaply-0.9.1/heatmaply/R/is.na10.R | 5 heatmaply-0.9.1/heatmaply/R/percentize.R | 15 heatmaply-0.9.1/heatmaply/R/plots.R |only heatmaply-0.9.1/heatmaply/R/zzz.R | 23 heatmaply-0.9.1/heatmaply/README.md | 1 heatmaply-0.9.1/heatmaply/inst/doc/heatmaply.R | 112 +- heatmaply-0.9.1/heatmaply/inst/doc/heatmaply.Rmd | 185 ++-- heatmaply-0.9.1/heatmaply/inst/doc/heatmaply.html | 310 ++++-- heatmaply-0.9.1/heatmaply/man/RColorBrewer_colors.Rd | 24 heatmaply-0.9.1/heatmaply/man/col2plotlyrgb.Rd |only heatmaply-0.9.1/heatmaply/man/heatmaply.Rd | 233 ++++- heatmaply-0.9.1/heatmaply/man/heatmapr.Rd | 23 heatmaply-0.9.1/heatmaply/man/is.heatmapr.Rd | 1 heatmaply-0.9.1/heatmaply/man/is.na10.Rd | 6 heatmaply-0.9.1/heatmaply/man/is.plotly.Rd |only heatmaply-0.9.1/heatmaply/man/normalize.Rd | 13 heatmaply-0.9.1/heatmaply/man/percentize.Rd | 6 heatmaply-0.9.1/heatmaply/man/side_color_plot.Rd | 14 heatmaply-0.9.1/heatmaply/tests |only heatmaply-0.9.1/heatmaply/vignettes/heatmaply.Rmd | 185 ++-- heatmaply-0.9.1/heatmaply/vignettes/heatmaply.md |only 31 files changed, 1531 insertions(+), 894 deletions(-)
Title: Classes and Methods for Working with Spectral Data with
Space-Time Attributes
Description: Provides S4 classes and data import, preprocessing, graphing,
manipulation and export methods for geo-Spectral datasets (datasets with space/time/spectral
dimensions). These type of data are frequently collected within earth observation projects
(remote sensing, spectroscopy, bio-optical oceanography, mining, agricultural, atmospheric,
environmental or similar branch of science).
Author: Servet Ahmet Cizmeli
Maintainer: Servet Ahmet Cizmeli <ahmet@pranageo.com>
Diff between geoSpectral versions 0.17 dated 2017-03-24 and 0.17.3 dated 2017-04-14
geoSpectral-0.17.3/geoSpectral/DESCRIPTION | 6 - geoSpectral-0.17.3/geoSpectral/MD5 | 20 +-- geoSpectral-0.17.3/geoSpectral/NAMESPACE | 1 geoSpectral-0.17.3/geoSpectral/R/SpcList-Class.R | 3 geoSpectral-0.17.3/geoSpectral/R/Spectra-Methods.R | 58 ++++++---- geoSpectral-0.17.3/geoSpectral/README.md | 32 ++--- geoSpectral-0.17.3/geoSpectral/man/SpcList-class.Rd | 2 geoSpectral-0.17.3/geoSpectral/man/Spectra-coerce.Rd | 1 geoSpectral-0.17.3/geoSpectral/man/spc.select.Rd |only geoSpectral-0.17.3/geoSpectral/tests/testthat/SpcHeader_tests.R |only geoSpectral-0.17.3/geoSpectral/tests/testthat/SpcList_tests.R |only geoSpectral-0.17.3/geoSpectral/tests/testthat/Spectra_tests.R |only geoSpectral-0.17/geoSpectral/inst/Unused |only geoSpectral-0.17/geoSpectral/tests/testthat/Rplots.pdf |only 14 files changed, 70 insertions(+), 53 deletions(-)
Title: A Method to Search for Differentially Expressed Genes and to
Detect Recurrent Chromosomal Copy Number Aberrations
Description: A fold change rank based method is presented to search for genes with changing
expression and to detect recurrent chromosomal copy number aberrations. This
method may be useful for high-throughput biological data (micro-array, sequencing, ...).
Probabilities are associated with genes or probes in the data set and there is no
problem of multiple tests when using this method. For array-based comparative genomic
hybridization data, segmentation results are obtained by merging the significant
probes detected.
Author: Doulaye Dembele
Maintainer: Doulaye Dembele <doulaye@igbmc.fr>
Diff between fcros versions 1.5.3 dated 2017-04-03 and 1.5.4 dated 2017-04-14
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- R/fcros.R | 10 +++++----- R/fcrosMod.R | 10 +++++----- R/pfco.R | 14 +++++++------- R/pfcoMod.R | 14 +++++++------- man/fcros-package.Rd | 4 ++-- src/fcros.c | 2 +- 8 files changed, 37 insertions(+), 37 deletions(-)
Title: Bayesian Additive Models for Location Scale and Shape (and
Beyond)
Description: Infrastructure for estimating probabilistic distributional regression models in a Bayesian framework.
The distribution parameters may capture location, scale, shape, etc. and every parameter may depend
on complex additive terms (fixed, random, smooth, spatial, etc.) similar to a generalized additive model.
The conceptual and computational framework is introduced in Umlauf, Klein, Zeileis (2017)
<http://EconPapers.RePEc.org/RePEc:inn:wpaper:2017-05>.
Author: Nikolaus Umlauf [aut, cre],
Nadja Klein [aut],
Achim Zeileis [aut],
Meike Koehler [aut]
Maintainer: Nikolaus Umlauf <Nikolaus.Umlauf@uibk.ac.at>
Diff between bamlss versions 0.1-1 dated 2017-02-22 and 0.1-2 dated 2017-04-14
ChangeLog |only DESCRIPTION | 14 MD5 | 43 NAMESPACE | 7 R/BAMLSS.R |14824 +++++++++++++++++++++++++------------------------ R/BayesX.R | 284 R/JM.R | 7428 ++++++++++++------------ R/families.R | 237 R/maps.R | 2 R/optimizers.R | 1017 +-- R/samplers.R | 13 R/survival.R | 12 R/vis.R | 38 man/BayesX.Rd | 31 man/bamlss.formula.Rd | 3 man/family.bamlss.Rd | 2 man/jm_bamlss.Rd | 2 man/lasso.Rd | 21 man/plot3d.Rd | 24 man/plotmap.Rd | 9 man/simJM.Rd | 1 src/bamlss_functions.c | 478 + src/bamlss_init.c | 11 23 files changed, 12888 insertions(+), 11613 deletions(-)
Title: A Statistically Sound 'data.frame' Processor/Conditioner
Description: A 'data.frame' processor/conditioner that prepares real-world data for predictive modeling in a statistically sound manner.
'vtreat' prepares variables so that data has fewer exceptional cases, making
it easier to safely use models in production. Common problems 'vtreat' defends
against: 'Inf', 'NA', too many categorical levels, rare categorical levels, and new
categorical levels (levels seen during application, but not during training).
'vtreat::prepare' should be used as you would use 'model.matrix'.
Author: John Mount, Nina Zumel
Maintainer: John Mount <jmount@win-vector.com>
Diff between vtreat versions 0.5.30 dated 2017-01-21 and 0.5.31 dated 2017-04-14
vtreat-0.5.30/vtreat/man/vtreat-package.Rd |only vtreat-0.5.31/vtreat/DESCRIPTION | 10 vtreat-0.5.31/vtreat/MD5 | 75 ++-- vtreat-0.5.31/vtreat/R/vtreat.R | 38 ++ vtreat-0.5.31/vtreat/README.md | 152 +++++----- vtreat-0.5.31/vtreat/build/vignette.rds |binary vtreat-0.5.31/vtreat/inst/doc/SavingTreamentPlans.html | 4 vtreat-0.5.31/vtreat/inst/doc/vtreat.html | 44 +- vtreat-0.5.31/vtreat/inst/doc/vtreatCrossFrames.html | 52 +-- vtreat-0.5.31/vtreat/inst/doc/vtreatGrouping.html | 4 vtreat-0.5.31/vtreat/inst/doc/vtreatOverfit.html | 36 +- vtreat-0.5.31/vtreat/inst/doc/vtreatRareLevels.R | 4 vtreat-0.5.31/vtreat/inst/doc/vtreatRareLevels.Rmd | 6 vtreat-0.5.31/vtreat/inst/doc/vtreatRareLevels.html | 10 vtreat-0.5.31/vtreat/inst/doc/vtreatScaleMode.html | 4 vtreat-0.5.31/vtreat/inst/doc/vtreatSignificance.html | 22 - vtreat-0.5.31/vtreat/inst/doc/vtreatSplitting.html | 4 vtreat-0.5.31/vtreat/inst/doc/vtreatVariableTypes.html | 72 ++-- vtreat-0.5.31/vtreat/man/buildEvalSets.Rd | 1 vtreat-0.5.31/vtreat/man/catScore.Rd | 1 vtreat-0.5.31/vtreat/man/designTreatmentsC.Rd | 1 vtreat-0.5.31/vtreat/man/designTreatmentsN.Rd | 1 vtreat-0.5.31/vtreat/man/designTreatmentsZ.Rd | 1 vtreat-0.5.31/vtreat/man/format.vtreatment.Rd | 1 vtreat-0.5.31/vtreat/man/getSplitPlanAppLabels.Rd | 1 vtreat-0.5.31/vtreat/man/kWayCrossValidation.Rd | 1 vtreat-0.5.31/vtreat/man/kWayStratifiedY.Rd | 1 vtreat-0.5.31/vtreat/man/linScore.Rd | 1 vtreat-0.5.31/vtreat/man/makekWayCrossValidationGroupedByColumn.Rd | 1 vtreat-0.5.31/vtreat/man/mkCrossFrameCExperiment.Rd | 1 vtreat-0.5.31/vtreat/man/mkCrossFrameNExperiment.Rd | 1 vtreat-0.5.31/vtreat/man/oneWayHoldout.Rd | 1 vtreat-0.5.31/vtreat/man/prepare.Rd | 15 vtreat-0.5.31/vtreat/man/print.vtreatment.Rd | 1 vtreat-0.5.31/vtreat/man/problemAppPlan.Rd | 1 vtreat-0.5.31/vtreat/man/vnames.Rd | 1 vtreat-0.5.31/vtreat/man/vorig.Rd | 1 vtreat-0.5.31/vtreat/man/vtreat.Rd |only vtreat-0.5.31/vtreat/tools |only vtreat-0.5.31/vtreat/vignettes/vtreatRareLevels.Rmd | 6 40 files changed, 293 insertions(+), 283 deletions(-)
Title: Data Frames in R for Make
Description: Reproducible build system for any project. Understands
the dependency structure of your project, builds out-of-date
targets, skips up-to-date targets, and offers two forms of
parallel computing.
Author: William Michael Landau [aut, cre],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau@lilly.com>
Diff between drake versions 2.1.0 dated 2017-03-31 and 2.1.1 dated 2017-04-14
drake-2.1.0/drake/inst/logo.png |only drake-2.1.1/drake/DESCRIPTION | 13 +++-- drake-2.1.1/drake/MD5 | 53 +++++++++++------------ drake-2.1.1/drake/NAMESPACE | 2 drake-2.1.1/drake/R/Makefile.R | 6 ++ drake-2.1.1/drake/R/check.R | 3 - drake-2.1.1/drake/R/config.R | 23 ++++++--- drake-2.1.1/drake/R/current.R | 2 drake-2.1.1/drake/R/hash.R | 4 - drake-2.1.1/drake/R/make.R | 2 drake-2.1.1/drake/R/namespace.R | 3 - drake-2.1.1/drake/R/parallel.R | 1 drake-2.1.1/drake/R/plan.R | 6 ++ drake-2.1.1/drake/R/timestamp.R | 4 + drake-2.1.1/drake/build/vignette.rds |binary drake-2.1.1/drake/inst/doc/caution.Rmd | 8 +-- drake-2.1.1/drake/inst/doc/caution.html | 6 +- drake-2.1.1/drake/inst/doc/drake.Rmd | 2 drake-2.1.1/drake/inst/doc/drake.html | 2 drake-2.1.1/drake/inst/doc/quickstart.Rmd | 4 - drake-2.1.1/drake/inst/doc/quickstart.html | 18 +++---- drake-2.1.1/drake/inst/logo.md |only drake-2.1.1/drake/man/check.Rd | 3 + drake-2.1.1/drake/man/make.Rd | 2 drake-2.1.1/drake/tests/testthat/test-Makefile.R | 33 +++++++++++++- drake-2.1.1/drake/vignettes/caution.Rmd | 8 +-- drake-2.1.1/drake/vignettes/drake.Rmd | 2 drake-2.1.1/drake/vignettes/logo.png |only drake-2.1.1/drake/vignettes/quickstart.Rmd | 4 - 29 files changed, 135 insertions(+), 79 deletions(-)