Title: Simulation Parameter Analysis R Toolkit ApplicatioN: Spartan
Description: Computer simulations are becoming a popular technique to use in attempts to further our understanding of complex systems. SPARTAN, described in our 2013 publication in PLoS Computational Biology, provides code for four techniques described in available literature which aid the analysis of simulation results, at both single and multiple timepoints in the simulation run. The first technique addresses aleatory uncertainty in the system caused through inherent stochasticity, and determines the number of replicate runs necessary to generate a representative result. The second examines how robust a simulation is to parameter perturbation, through the use of a one-at-a-time parameter analysis technique. Thirdly, a latin hypercube based sensitivity analysis technique is included which can elucidate non-linear effects between parameters and indicate implications of epistemic uncertainty with reference to the system being modelled. Finally, a further sensitivity analysis technique, the extended Fourier Amplitude Sampling Test (eFAST) has been included to partition the variance in simulation results between input parameters, to determine the parameters which have a significant effect on simulation behaviour. Version 1.3 adds support for Netlogo simulations, aiding simulation developers who use Netlogo to build their simulations perform the same analyses. We have also added user support through the group spartan-group[AT]york[DOT]ac[DOT]uk. Version 2.0 added the ability to read all simulations in from a single CSV file in addition to the prescribed folder structure in previous versions.
Author: Kieran Alden, Mark Read, Paul Andrews, Jon Timmis, Henrique Veiga-Fernandes, Mark Coles
Maintainer: Kieran Alden <kieran.alden@gmail.com>
Diff between spartan versions 2.2.1 dated 2015-04-13 and 2.3 dated 2015-10-19
DESCRIPTION | 10 +-- MD5 | 26 +++++--- NAMESPACE | 4 + R/lhc_calculatePRCCForMultipleTimepoints.R |only R/lhc_countSignificantParametersOverTime.R |only R/lhc_generatePRCoEffs.R | 2 R/lhc_generateTimepointFiles.R |only R/lhc_graphPRCCForMultipleTimepoints.R |only R/oat_csv_result_file_analysis.R | 23 +++++-- R/oat_graph_Leish_ATestsMultipleTimepoints.R |only R/plotATestsFromTimepointFiles.R |only R/plotPRCCSFromTimepointFiles.R |only R/ploteFASTSiFromTimepointFiles.R |only R/prepare_parameter_value_list.R | 2 R/subset_results_by_param_value_set.R | 1 man/Technique2-oat_generate_analysis.Rd | 31 +++++++++- man/Technique3-lhc_perform_analysis.Rd | 67 +++++++++++++++++++++- man/Technique4-efast_generate_analysis_results.Rd | 10 +++ 18 files changed, 149 insertions(+), 27 deletions(-)
Title: Pacific Decadal Oscillation Index
Description: Monthly Pacific Decadal Oscillation (PDO) index
values from January 1900 to present.
Author: Joe Thorley [aut, cre],
Nathan Mantua [aut, dtc],
Steven R. Hare [aut, dtc]
Maintainer: Joe Thorley <joe@poissonconsulting.ca>
Diff between rpdo versions 0.0.1 dated 2015-08-21 and 0.1.0 dated 2015-10-19
DESCRIPTION | 14 ++++++-------- MD5 | 12 ++++++------ NEWS.md | 6 +++++- R/data.R | 2 +- README.md | 54 ++++++++++++++++++++++++++++++++---------------------- data/pdo.rda |binary man/pdo.Rd | 2 +- 7 files changed, 51 insertions(+), 39 deletions(-)
Title: Read Tabular Data
Description: Read flat/tabular text files from disk (or a connection).
Author: Hadley Wickham [aut, cre],
Romain Francois [aut],
R Core Team [ctb] (Date time code adapted from R),
RStudio [cph]
Maintainer: ORPHANED
Diff between readr versions 0.1.1 dated 2015-05-29 and 0.2.0 dated 2015-10-19
readr-0.1.1/readr/R/col_names.R |only readr-0.1.1/readr/inst/doc/design.R |only readr-0.1.1/readr/inst/doc/design.Rmd |only readr-0.1.1/readr/inst/doc/design.html |only readr-0.1.1/readr/man/col_names_standardise.Rd |only readr-0.1.1/readr/man/col_types_standardise.Rd |only readr-0.1.1/readr/man/write_csv.Rd |only readr-0.1.1/readr/src/CollectorCharacter.h |only readr-0.1.1/readr/src/CollectorDate.h |only readr-0.1.1/readr/src/CollectorDateTime.h |only readr-0.1.1/readr/src/CollectorDouble.h |only readr-0.1.1/readr/src/CollectorEuroDouble.h |only readr-0.1.1/readr/src/CollectorFactor.h |only readr-0.1.1/readr/src/CollectorInteger.h |only readr-0.1.1/readr/src/CollectorLogical.h |only readr-0.1.1/readr/src/CollectorNumeric.h |only readr-0.1.1/readr/src/CollectorSkip.h |only readr-0.1.1/readr/src/DateTimeLocale.cpp |only readr-0.1.1/readr/src/DateTimeLocale.h |only readr-0.1.1/readr/src/TzManager.h |only readr-0.1.1/readr/src/write_csv.cpp |only readr-0.1.1/readr/tests/testthat/test-datetime.R |only readr-0.1.1/readr/vignettes/design.Rmd |only readr-0.2.0/readr/DESCRIPTION | 19 readr-0.2.0/readr/LICENSE |only readr-0.2.0/readr/MD5 | 198 +++-- readr-0.2.0/readr/NAMESPACE | 40 + readr-0.2.0/readr/R/POSIXct.R |only readr-0.2.0/readr/R/RcppExports.R | 52 - readr-0.2.0/readr/R/col_types.R | 263 +++++-- readr-0.2.0/readr/R/collectors.R | 183 +++-- readr-0.2.0/readr/R/count_fields.R | 5 readr-0.2.0/readr/R/date-symbols.R |only readr-0.2.0/readr/R/encoding.R |only readr-0.2.0/readr/R/input.R | 5 readr-0.2.0/readr/R/locale.R |only readr-0.2.0/readr/R/problems.R | 68 + readr-0.2.0/readr/R/read_delim.R | 125 ++- readr-0.2.0/readr/R/read_fwf.R | 29 readr-0.2.0/readr/R/read_lines.R | 20 readr-0.2.0/readr/R/read_rds.R |only readr-0.2.0/readr/R/read_table.R | 25 readr-0.2.0/readr/R/source.R | 44 - readr-0.2.0/readr/R/sysdata.rda |only readr-0.2.0/readr/R/time.R |only readr-0.2.0/readr/R/tokenizer.R | 28 readr-0.2.0/readr/R/type_convert.R | 27 readr-0.2.0/readr/R/write.R | 150 +++- readr-0.2.0/readr/README.md | 63 - readr-0.2.0/readr/build/vignette.rds |binary readr-0.2.0/readr/inst/doc/column-types.R |only readr-0.2.0/readr/inst/doc/column-types.Rmd |only readr-0.2.0/readr/inst/doc/column-types.html |only readr-0.2.0/readr/inst/doc/locales.R |only readr-0.2.0/readr/inst/doc/locales.Rmd |only readr-0.2.0/readr/inst/doc/locales.html |only readr-0.2.0/readr/man/Tokenizers.Rd | 21 readr-0.2.0/readr/man/collector.Rd | 52 + readr-0.2.0/readr/man/cols.Rd |only readr-0.2.0/readr/man/count_fields.Rd | 9 readr-0.2.0/readr/man/datasource.Rd | 7 readr-0.2.0/readr/man/date_names.Rd |only readr-0.2.0/readr/man/encoding.Rd |only readr-0.2.0/readr/man/locale.Rd |only readr-0.2.0/readr/man/parse_datetime.Rd | 71 +- readr-0.2.0/readr/man/parse_vector.Rd | 18 readr-0.2.0/readr/man/problems.Rd | 5 readr-0.2.0/readr/man/read_delim.Rd | 67 + readr-0.2.0/readr/man/read_file.Rd | 13 readr-0.2.0/readr/man/read_fwf.Rd | 41 - readr-0.2.0/readr/man/read_lines.Rd | 27 readr-0.2.0/readr/man/read_log.Rd | 23 readr-0.2.0/readr/man/read_rds.Rd |only readr-0.2.0/readr/man/read_table.Rd | 36 - readr-0.2.0/readr/man/tokenize.Rd | 9 readr-0.2.0/readr/man/type_convert.Rd | 38 - readr-0.2.0/readr/man/write_delim.Rd |only readr-0.2.0/readr/man/write_rds.Rd |only readr-0.2.0/readr/src/Collector.cpp | 379 +++++++++-- readr-0.2.0/readr/src/Collector.h | 188 +++++ readr-0.2.0/readr/src/CollectorGuess.cpp |only readr-0.2.0/readr/src/DateTime.cpp | 7 readr-0.2.0/readr/src/DateTime.h | 166 ---- readr-0.2.0/readr/src/DateTimeParser.h | 147 ++-- readr-0.2.0/readr/src/Iconv.cpp |only readr-0.2.0/readr/src/Iconv.h | 48 - readr-0.2.0/readr/src/LocaleInfo.cpp |only readr-0.2.0/readr/src/LocaleInfo.h |only readr-0.2.0/readr/src/QiParsers.h |only readr-0.2.0/readr/src/RcppExports.cpp | 117 ++- readr-0.2.0/readr/src/Source.cpp | 10 readr-0.2.0/readr/src/Source.h | 29 readr-0.2.0/readr/src/SourceFile.h | 10 readr-0.2.0/readr/src/SourceRaw.h | 6 readr-0.2.0/readr/src/SourceString.h | 5 readr-0.2.0/readr/src/Token.h | 55 + readr-0.2.0/readr/src/Tokenizer.cpp | 12 readr-0.2.0/readr/src/Tokenizer.h | 8 readr-0.2.0/readr/src/TokenizerDelim.cpp |only readr-0.2.0/readr/src/TokenizerDelim.h | 277 -------- readr-0.2.0/readr/src/TokenizerFwf.cpp | 122 +++ readr-0.2.0/readr/src/TokenizerFwf.h | 101 -- readr-0.2.0/readr/src/TokenizerLine.h | 18 readr-0.2.0/readr/src/TokenizerLog.h | 2 readr-0.2.0/readr/src/Warnings.h | 3 readr-0.2.0/readr/src/boost.h |only readr-0.2.0/readr/src/localtime.c |only readr-0.2.0/readr/src/localtime.h |only readr-0.2.0/readr/src/parse.cpp | 53 + readr-0.2.0/readr/src/read.cpp | 172 +++- readr-0.2.0/readr/src/type_convert.cpp | 13 readr-0.2.0/readr/src/tzfile.h |only readr-0.2.0/readr/src/write_delim.cpp |only readr-0.2.0/readr/tests/testthat/enc-iso-8859-1.txt |only readr-0.2.0/readr/tests/testthat/eol-cr.txt.bz2 |only readr-0.2.0/readr/tests/testthat/eol-cr.txt.gz |only readr-0.2.0/readr/tests/testthat/eol-cr.txt.xz |only readr-0.2.0/readr/tests/testthat/eol-cr.txt.zip |only readr-0.2.0/readr/tests/testthat/raw.csv |only readr-0.2.0/readr/tests/testthat/sample_text.txt |only readr-0.2.0/readr/tests/testthat/test-col-spec.R |only readr-0.2.0/readr/tests/testthat/test-collectors.R |only readr-0.2.0/readr/tests/testthat/test-parsing-character.R |only readr-0.2.0/readr/tests/testthat/test-parsing-count-fields.R |only readr-0.2.0/readr/tests/testthat/test-parsing-datetime.R |only readr-0.2.0/readr/tests/testthat/test-parsing-factors.R |only readr-0.2.0/readr/tests/testthat/test-parsing-logical.R |only readr-0.2.0/readr/tests/testthat/test-parsing-numeric.R |only readr-0.2.0/readr/tests/testthat/test-parsing-time.R |only readr-0.2.0/readr/tests/testthat/test-parsing.R |only readr-0.2.0/readr/tests/testthat/test-read-csv.R | 169 ++++ readr-0.2.0/readr/tests/testthat/test-read-file.R |only readr-0.2.0/readr/tests/testthat/test-read-fwf.R | 24 readr-0.2.0/readr/tests/testthat/test-read-lines.R |only readr-0.2.0/readr/tests/testthat/test-tokenizer-delim.R | 6 readr-0.2.0/readr/tests/testthat/test-type-convert.R |only readr-0.2.0/readr/tests/testthat/test-write-delim.R |only readr-0.2.0/readr/vignettes/column-types.Rmd |only readr-0.2.0/readr/vignettes/locales.Rmd |only 139 files changed, 2546 insertions(+), 1382 deletions(-)
Title: Determine Optimal Clustering Algorithm and Number of Clusters
Description: Cluster analysis using statistical and biological
validation measures for both continuous and count data.
Author: Michael Sekula <michael.sekula@louisville.edu>,
Somnath Datta <somnath.datta@louisville.edu>,
and Susmita Datta <susmita.datta@louisville.edu>
Maintainer: Michael Sekula <michael.sekula@louisville.edu>
Diff between optCluster versions 1.0.0 dated 2015-06-09 and 1.0.1 dated 2015-10-19
DESCRIPTION | 14 ++-- MD5 | 16 ++--- NAMESPACE | 5 + R/optCluster-Functions.R | 13 +++- man/optCluster-class.Rd | 127 ++++++++++++++++++++++---------------------- man/optCluster.Rd | 133 +++++++++++++++++++++++------------------------ man/optHeatmap.Rd | 47 +++++++--------- man/repRankAggreg.Rd | 67 ++++++++++++----------- man/valPlot.Rd | 55 +++++++++---------- 9 files changed, 245 insertions(+), 232 deletions(-)
Title: Tools for Multiple Imputation in Multilevel Modeling
Description: Provides tools for multiple imputation of missing data in multilevel
modeling. Includes a user-friendly interface to the 'pan' package, and
several functions for visualization, data management and the analysis
of multiply imputed data sets.
Author: Simon Grund [aut,cre], Alexander Robitzsch [aut], Oliver Luedtke [aut]
Maintainer: Simon Grund <grund@ipn.uni-kiel.de>
Diff between mitml versions 0.2-3 dated 2015-07-09 and 0.2-4 dated 2015-10-19
DESCRIPTION | 8 - MD5 | 30 ++--- NEWS | 65 +++++++----- R/clusterMeans.R | 17 ++- R/panImpute.R | 12 +- R/print.mitml.summary.R | 52 ++++++--- R/print.mitml.testEstimates.R | 18 +-- R/summary.mitml.R | 76 ++++++-------- R/testConstraints.R | 103 +++++++++++++------ R/testEstimates.R | 221 ++++++++++++++++++++++++++---------------- R/testModels.R | 1 R/zzz.R | 49 +++++++++ man/panImpute.Rd | 13 -- man/summary.mitml.Rd | 24 +++- man/testConstraints.Rd | 38 ++++--- man/testEstimates.Rd | 13 ++ 16 files changed, 469 insertions(+), 271 deletions(-)
Title: Chemical Thermodynamics and Activity Diagrams
Description: Functions and data sets to support chemical thermodynamic modeling in biochemistry
and low-temperature geochemistry. The features include calculation of the standard molal
thermodynamic properties and chemical affinities of reactions involving minerals and/or
biomolecules; a database of thermodynamic properties of aqueous, crystalline and gaseous
species; amino acid group additivity for the standard molal thermodynamic properties of
neutral and ionized proteins; use of the revised Helgeson-Kirkham-Flowers equations of state
for aqueous species; construction of equilibrium activity diagrams as a function of
temperature, pressure, and chemical activities or fugacities of basis species.
Author: Jeffrey Dick
Maintainer: Jeffrey Dick <j3ffdick@gmail.com>
Diff between CHNOSZ versions 1.0.5 dated 2015-05-19 and 1.0.6 dated 2015-10-19
CHNOSZ-1.0.5/CHNOSZ/demo/cordierite.R |only CHNOSZ-1.0.5/CHNOSZ/demo/orp.R |only CHNOSZ-1.0.5/CHNOSZ/inst/tests |only CHNOSZ-1.0.5/CHNOSZ/tests/test-all.R |only CHNOSZ-1.0.6/CHNOSZ/DESCRIPTION | 13 +- CHNOSZ-1.0.6/CHNOSZ/MD5 | 130 ++++++++++++++------------- CHNOSZ-1.0.6/CHNOSZ/NAMESPACE | 12 ++ CHNOSZ-1.0.6/CHNOSZ/R/IAPWS95.R | 51 ---------- CHNOSZ-1.0.6/CHNOSZ/R/affinity.R | 6 - CHNOSZ-1.0.6/CHNOSZ/R/diagram.R | 5 - CHNOSZ-1.0.6/CHNOSZ/R/equilibrate.R | 8 - CHNOSZ-1.0.6/CHNOSZ/R/examples.R | 12 +- CHNOSZ-1.0.6/CHNOSZ/R/iprotein.R | 7 + CHNOSZ-1.0.6/CHNOSZ/R/mosaic.R | 6 - CHNOSZ-1.0.6/CHNOSZ/R/objective.R | 2 CHNOSZ-1.0.6/CHNOSZ/R/swap.basis.R | 10 +- CHNOSZ-1.0.6/CHNOSZ/R/util.fasta.R | 8 - CHNOSZ-1.0.6/CHNOSZ/R/util.list.R | 50 ++++++---- CHNOSZ-1.0.6/CHNOSZ/R/util.program.R | 19 ++- CHNOSZ-1.0.6/CHNOSZ/R/util.water.R |only CHNOSZ-1.0.6/CHNOSZ/R/water.R | 90 ------------------ CHNOSZ-1.0.6/CHNOSZ/build/vignette.rds |binary CHNOSZ-1.0.6/CHNOSZ/data/OBIGT.csv | 4 CHNOSZ-1.0.6/CHNOSZ/data/opt.csv | 4 CHNOSZ-1.0.6/CHNOSZ/demo/00Index | 4 CHNOSZ-1.0.6/CHNOSZ/demo/ORP.R |only CHNOSZ-1.0.6/CHNOSZ/demo/density.R |only CHNOSZ-1.0.6/CHNOSZ/inst/NEWS | 45 +++++++++ CHNOSZ-1.0.6/CHNOSZ/inst/doc/anintro.pdf |binary CHNOSZ-1.0.6/CHNOSZ/inst/doc/equilibrium.pdf |binary CHNOSZ-1.0.6/CHNOSZ/inst/doc/hotspring.pdf |binary CHNOSZ-1.0.6/CHNOSZ/inst/doc/wjd.pdf |binary CHNOSZ-1.0.6/CHNOSZ/man/CHNOSZ-package.Rd | 3 CHNOSZ-1.0.6/CHNOSZ/man/IAPWS95.Rd | 12 -- CHNOSZ-1.0.6/CHNOSZ/man/data.Rd | 2 CHNOSZ-1.0.6/CHNOSZ/man/examples.Rd | 12 +- CHNOSZ-1.0.6/CHNOSZ/man/swap.basis.Rd | 2 CHNOSZ-1.0.6/CHNOSZ/man/util.fasta.Rd | 2 CHNOSZ-1.0.6/CHNOSZ/man/util.program.Rd | 18 ++- CHNOSZ-1.0.6/CHNOSZ/man/util.water.Rd |only CHNOSZ-1.0.6/CHNOSZ/man/water.Rd | 35 +------ CHNOSZ-1.0.6/CHNOSZ/tests/testthat |only CHNOSZ-1.0.6/CHNOSZ/tests/testthat.R |only 43 files changed, 249 insertions(+), 323 deletions(-)
Title: Functional Clustering Algorithms
Description: Unified framework to cluster functional data according to one of seven models. All models are based on the projection of the curves onto a basis. The main function funcit() calls wrapper functions for the existing algorithms, so that input parameters are the same. A list is returned with each entry representing the same or extended output for the corresponding method. Method specific as well as general visualization tools are available.
Author: Christina Yassouridis [aut, cre],
Dominik Ernst [ctb],
Madison Giacofci [ctb],
Sophie Lambert-Lacroix [ctb],
Guillemette Marot [ctb],
Franck Picard [ctb],
Nicoleta Serban [ctb],
Huijing Jiang [ctb],
Gareth James [ctb],
Catherine Sugar [ctb],
Hans-Georg Mueller [ctb],
Jie Peng [ctb],
Chiou Jeng-Min [ctb],
Pai-Ling Li [ctb]
Maintainer: Christina Yassouridis <c_ya02@yahoo.de>
Diff between funcy versions 0.8 dated 2015-10-13 and 0.8.3 dated 2015-10-19
funcy-0.8.3/funcy/DESCRIPTION | 12 - funcy-0.8.3/funcy/MD5 | 129 +++++--------- funcy-0.8.3/funcy/NEWS.md |only funcy-0.8.3/funcy/R/distclust.R | 2 funcy-0.8.3/funcy/R/funPrinComp.R | 2 funcy-0.8.3/funcy/R/functions.R | 2 funcy-0.8.3/funcy/R/plot.R | 7 funcy-0.8.3/funcy/man/funcit.Rd | 4 funcy-0.8.3/funcy/man/funcyOutList.Rd | 2 funcy-0.8.3/funcy/man/plotFuncy.Rd | 4 funcy-0.8.3/funcy/src/Makevars | 23 +- funcy-0.8.3/funcy/src/base/ansi_colors.h | 2 funcy-0.8.3/funcy/src/base/base.h | 11 + funcy-0.8.3/funcy/src/base/cc.h | 4 funcy-0.8.3/funcy/src/base/ccmem.h | 5 funcy-0.8.3/funcy/src/base/common.c | 39 ++-- funcy-0.8.3/funcy/src/base/common.h | 61 +++--- funcy-0.8.3/funcy/src/base/debug.h | 47 +---- funcy-0.8.3/funcy/src/base/deprecated.h | 4 funcy-0.8.3/funcy/src/base/otrav.cc | 32 +-- funcy-0.8.3/funcy/src/base/otrav.h | 91 +++------- funcy-0.8.3/funcy/src/base/otrav_impl.h | 245 +++++++++++++-------------- funcy-0.8.3/funcy/src/base/test.h | 8 funcy-0.8.3/funcy/src/col/arraylist.h | 176 +++++++++---------- funcy-0.8.3/funcy/src/col/col.cc | 12 - funcy-0.8.3/funcy/src/col/col_string.h | 44 ++-- funcy-0.8.3/funcy/src/col/fastalloc.h | 2 funcy-0.8.3/funcy/src/col/heap.h | 24 +- funcy-0.8.3/funcy/src/col/intmap.h | 18 - funcy-0.8.3/funcy/src/col/rangeset.h | 10 - funcy-0.8.3/funcy/src/data/crossvalidation.h | 80 ++++---- funcy-0.8.3/funcy/src/data/dataset.cc | 110 ++++++------ funcy-0.8.3/funcy/src/data/dataset.h | 46 ++--- funcy-0.8.3/funcy/src/file/textfile.cc | 35 ++- funcy-0.8.3/funcy/src/file/textfile.h | 12 - funcy-0.8.3/funcy/src/fscm.cc | 218 ++++++++++++------------ funcy-0.8.3/funcy/src/fx/datanode.c | 10 - funcy-0.8.3/funcy/src/fx/fx.c | 122 ++++++++----- funcy-0.8.3/funcy/src/fx/stopwatch.c | 12 - funcy-0.8.3/funcy/src/la/la.h | 22 +- funcy-0.8.3/funcy/src/la/matrix.h | 124 +++++++------ funcy-0.8.3/funcy/src/la/uselapack.cc | 42 ++-- funcy-0.8.3/funcy/src/la/uselapack.h | 70 +++---- funcy-0.8.3/funcy/src/libmain.cc | 6 funcy-0.8.3/funcy/src/math/discrete.cc | 22 +- funcy-0.8.3/funcy/src/math/discrete.h | 16 - funcy-0.8.3/funcy/src/math/kernel.h | 14 - funcy-0.8.3/funcy/src/math/math_lib.h | 46 ++--- funcy-0.8.3/funcy/src/par/grain.h | 6 funcy-0.8.3/funcy/src/par/thread.h | 6 funcy-0.8/funcy/src/sparse |only funcy-0.8/funcy/src/thor |only funcy-0.8/funcy/src/tree |only 53 files changed, 1031 insertions(+), 1010 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-03-24 0.1.83
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-07-28 0.4.4
2014-10-06 0.4.2
2014-10-01 0.4.1
Title: Template Model Builder: A General Random Effect Tool Inspired by
ADMB
Description: With this tool, a user should be able to quickly implement complex
random effect models through simple C++ templates. The package combines
CppAD (C++ automatic differentiation), Eigen (templated matrix-vector
library) and CHOLMOD (sparse matrix routines available from R) to obtain an
efficient implementation of the applied Laplace approximation with exact
derivatives. Key features are: Automatic sparseness detection, parallelism
through BLAS and parallel user templates.
Author: Kasper Kristensen [aut, cre, cph],
Brad Bell [cph],
Hans Skaug [ctb],
Arni Magnusson [ctb],
Casper Berg [ctb],
Anders Nielsen [ctb],
Martin Maechler [ctb],
Theo Michelot [ctb],
Mollie Brooks [ctb]
Maintainer: Kasper Kristensen <kaskr@dtu.dk>
Diff between TMB versions 1.6.1 dated 2015-10-15 and 1.6.2 dated 2015-10-19
TMB-1.6.1/TMB/inst/include/Eigen |only TMB-1.6.2/TMB/DESCRIPTION | 34 + TMB-1.6.2/TMB/MD5 | 419 +---------------- TMB-1.6.2/TMB/R/TMB.R | 14 TMB-1.6.2/TMB/R/benchmark.R | 3 TMB-1.6.2/TMB/R/config.R | 3 TMB-1.6.2/TMB/R/examples.R | 9 TMB-1.6.2/TMB/R/gdbsource.R | 3 TMB-1.6.2/TMB/R/sdreport.R | 3 TMB-1.6.2/TMB/R/tmbprofile.R | 3 TMB-1.6.2/TMB/R/validation.R | 6 TMB-1.6.2/TMB/R/zzz.R | 7 TMB-1.6.2/TMB/inst/COPYRIGHTS |only TMB-1.6.2/TMB/inst/include/Rstream.hpp | 6 TMB-1.6.2/TMB/inst/include/TMB.hpp | 3 TMB-1.6.2/TMB/inst/include/Vectorize.hpp | 3 TMB-1.6.2/TMB/inst/include/atomic_macro.hpp | 3 TMB-1.6.2/TMB/inst/include/atomic_math.hpp | 13 TMB-1.6.2/TMB/inst/include/checkpoint_macro.hpp | 3 TMB-1.6.2/TMB/inst/include/config.hpp | 3 TMB-1.6.2/TMB/inst/include/convenience.hpp | 3 TMB-1.6.2/TMB/inst/include/convert.hpp | 3 TMB-1.6.2/TMB/inst/include/distributions_R.hpp | 5 TMB-1.6.2/TMB/inst/include/dnorm.hpp | 3 TMB-1.6.2/TMB/inst/include/expm.hpp | 7 TMB-1.6.2/TMB/inst/include/lgamma.hpp | 3 TMB-1.6.2/TMB/inst/include/start_parallel.hpp | 3 TMB-1.6.2/TMB/inst/include/tmb_core.hpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/R_inla.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/array.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/autodiff.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/density.cpp | 5 TMB-1.6.2/TMB/inst/include/tmbutils/kronecker.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/matexp.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/order.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/romberg.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/splines.cpp | 15 TMB-1.6.2/TMB/inst/include/tmbutils/spmat.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/tmbutils.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/tmbutils_extra.cpp | 3 TMB-1.6.2/TMB/inst/include/tmbutils/vector.cpp | 3 TMB-1.6.2/TMB/man/compile.Rd | 3 TMB-1.6.2/TMB/man/oneStepPredict.Rd | 3 TMB-1.6.2/TMB/man/precompile.Rd | 2 TMB-1.6.2/TMB/man/runExample.Rd | 4 TMB-1.6.2/TMB/man/template.Rd | 6 TMB-1.6.2/TMB/src/external_metis.c | 3 TMB-1.6.2/TMB/src/local_stubs.c | 3 TMB-1.6.2/TMB/src/solve_subset.c | 13 TMB-1.6.2/TMB/src/utils.c | 3 50 files changed, 245 insertions(+), 416 deletions(-)
Title: Fitting Separable Nonlinear Models in Spectroscopy and
Microscopy
Description: A problem-solving environment (PSE) for fitting
separable nonlinear models to measurements arising in physics
and chemistry experiments; has been extensively applied to
time-resolved spectroscopy and FLIM-FRET data.
Author: Katharine M. Mullen, Joris J. Snellenburg, Sergey P. Laptenok, David Nicolaides, Ivo H.M. van Stokkum
Maintainer: Joris J. Snellenburg <j.snellenburg@vu.nl>
Diff between TIMP versions 1.12.1 dated 2014-12-11 and 1.13.0 dated 2015-10-19
DESCRIPTION | 21 ++++++++----------- MD5 | 40 ++++++++++++++++++++----------------- NAMESPACE | 46 +++++++++++++++++++++++++++---------------- R/compCoh.R | 4 ++- R/displayEst.R | 38 +++++++++++++++++++---------------- R/initModelClassTest.R |only R/matlinlogplot.R | 28 +++++++++++++------------- R/plotFLIM.R | 1 R/set_plotter_kin.R | 1 R/set_plotter_spec.R | 1 data/denS4.rda |binary data/denS5.rda |binary data/donorAcceptorTagged.rda |binary data/donorTagged.rda |binary data/mea_IRF.rda |binary data/target.rda |binary man/TIMP-package.Rd | 7 ++---- man/readData.Rd | 5 ++-- man/spec-class.Rd | 2 - man/target.Rd | 2 - tests/_paramEst.txt |only tests/_selectedtraces.ps |only tests/_summary.ps |only 23 files changed, 109 insertions(+), 87 deletions(-)
Title: Constrained Single Index Model Estimation
Description: Estimation of function and index vector in single index model with and without shape constraints including different smoothness conditions.
Author: Arun Kumar Kuchibhotla <arunku@wharton.upenn.edu>,
Rohit Kumar Patra <rkp2117@columbia.edu>
Maintainer: Arun Kumar Kuchibhotla <arunku@wharton.upenn.edu>
Diff between simest versions 0.1 dated 2015-09-20 and 0.2 dated 2015-10-19
DESCRIPTION | 13 ++-- MD5 | 33 ++++++------ NAMESPACE | 3 - R/CvxLipReg.r | 4 + R/CvxLseReg.r | 22 ++++---- R/CvxPenReg.r | 137 ++++++++------------------------------------------ R/SimEst.r | 43 +++++++++------ R/SolvePenta.r | 8 +- R/merge.r | 3 - README | 5 + inst/CITATION | 5 + man/cvx.lip.reg.Rd | 2 man/cvx.lse.reg.Rd | 7 ++ man/cvx.pen.reg.Rd | 2 man/sim.est.Rd | 13 ++-- man/smooth.pen.reg.Rd | 2 src/Mfun.c | 6 +- src/pred.c |only 18 files changed, 120 insertions(+), 188 deletions(-)
Title: Seawater Carbonate Chemistry
Description: Calculates parameters of the seawater carbonate system and assists the design of ocean acidification perturbation experiments.
Author: Jean-Pierre Gattuso [aut, cre, cph],
Jean-Marie Epitalon [aut],
Heloise Lavigne [aut],
James Orr [ctb],
Bernard Gentili [ctb],
Andreas Hofmann [ctb],
Aurélien Proye [ctb],
Karline Soetaert [ctb],
James Rae [ctb]
Maintainer: Jean-Pierre Gattuso <gattuso@obs-vlfr.fr>
Diff between seacarb versions 3.0.8 dated 2015-07-24 and 3.0.11 dated 2015-10-19
ChangeLog | 13 +++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 44 ++++++++++++++++++++++---------------------- R/K1.R | 39 ++++++++++++++++++++++++++++++++++++++- R/K2.R | 39 ++++++++++++++++++++++++++++++++++++++- R/pCa.R | 2 +- R/pTA.R | 2 +- R/pmix.R | 2 +- R/ppH.R | 2 +- man/K1.Rd | 8 ++++++-- man/K2.Rd | 8 ++++++-- man/Om.Rd | 2 +- man/buffer.Rd | 2 +- man/buffesm.Rd | 2 +- man/carb.Rd | 4 +++- man/oa.Rd | 4 +++- man/pCa.Rd | 6 ++++-- man/pHinsi.Rd | 4 +++- man/pTA.Rd | 4 +++- man/pgas.Rd | 4 +++- man/pmix.Rd | 4 +++- man/ppH.Rd | 4 +++- man/psi.Rd | 4 +++- 23 files changed, 162 insertions(+), 49 deletions(-)
More information about RcmdrPlugin.Export at CRAN
Permanent link
Title: JavaScript Charts API Tool
Description: API for using 'AmCharts' Library. Based on the 'htmlwidgets'
package, it provides a global architecture to generate 'JavaScript' source
code for charts. Most of classes in the library have their equivalent in R
with S4 classes; for those classes, not all properties have been referenced
but can easily be added in the constructors. Complex properties (e.g.
'JavaScript' object) can be passed as named list. See examples at <http://
dataknowledge.github.io/rAmCharts/>. and <http://www.amcharts.com/> for
more information about the library. The package includes the free version of
'AmCharts' Library. Its only limitation is that a small link to the web site
will be displayed in your charts. If you enjoy this library, do not hesitate
to refer to this page <http://www.amcharts.com/online-store/> to purchase a
licence, and thus support its creators and get a period of Priority Support.
See also <http://www.amcharts.com/about/> for more information about
'AmCharts' company.
Author: Jeffery Petit [aut, cre],
Antanas Marcelionis [aut, cph] ('AmCharts' library in th directory
htmlwidgets/lib/amcharts, refer to http://www.amcharts.com/),
Benoit Thieurmel [aut, ctb],
DataKnowledge [ctb] (See official web site at http://www.datak.fr)
Maintainer: Jeffery Petit <jeff@datak.fr>
Diff between rAmCharts versions 1.1.1 dated 2015-09-16 and 1.1.2 dated 2015-10-19
rAmCharts-1.1.1/rAmCharts/R/AmChart_getSet.R |only rAmCharts-1.1.1/rAmCharts/R/AmChart_plot.R |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amAngularGauge.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amAngularGauge.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amFunnelChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amFunnelChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amGanttChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amGanttChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amPieChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amPieChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amRadarChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amRadarChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amSerialChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amSerialChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amStockChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amStockChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amXYChart.js |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/amXYChart.yaml |only rAmCharts-1.1.1/rAmCharts/inst/htmlwidgets/lib/amcharts |only rAmCharts-1.1.1/rAmCharts/man/addArrow.Rd |only rAmCharts-1.1.1/rAmCharts/man/addAxe.Rd |only rAmCharts-1.1.1/rAmCharts/man/addGraph.Rd |only rAmCharts-1.1.1/rAmCharts/man/addGuide.Rd |only rAmCharts-1.1.1/rAmCharts/man/addLabel.Rd |only rAmCharts-1.1.1/rAmCharts/man/addSegment.Rd |only rAmCharts-1.1.1/rAmCharts/man/addSubData.Rd |only rAmCharts-1.1.1/rAmCharts/man/addTitle.Rd |only rAmCharts-1.1.1/rAmCharts/man/addTrendLine.Rd |only rAmCharts-1.1.1/rAmCharts/man/addValueAxes.Rd |only rAmCharts-1.1.1/rAmCharts/man/setAllLabels.Rd |only rAmCharts-1.1.1/rAmCharts/man/setArrows.Rd |only rAmCharts-1.1.1/rAmCharts/man/setAxes.Rd |only rAmCharts-1.1.1/rAmCharts/man/setBalloon.Rd |only rAmCharts-1.1.1/rAmCharts/man/setCategoryAxis.Rd |only rAmCharts-1.1.1/rAmCharts/man/setCategoryField.Rd |only rAmCharts-1.1.1/rAmCharts/man/setChartCursor.Rd |only rAmCharts-1.1.1/rAmCharts/man/setChartScrollbar.Rd |only rAmCharts-1.1.1/rAmCharts/man/setCreditsPosition.Rd |only rAmCharts-1.1.1/rAmCharts/man/setDataProvider.Rd |only rAmCharts-1.1.1/rAmCharts/man/setExport.Rd |only rAmCharts-1.1.1/rAmCharts/man/setGraph.Rd |only rAmCharts-1.1.1/rAmCharts/man/setGraphs.Rd |only rAmCharts-1.1.1/rAmCharts/man/setGuides.Rd |only rAmCharts-1.1.1/rAmCharts/man/setLegend.Rd |only rAmCharts-1.1.1/rAmCharts/man/setSubChartProperties.Rd |only rAmCharts-1.1.1/rAmCharts/man/setTitles.Rd |only rAmCharts-1.1.1/rAmCharts/man/setTrendLines.Rd |only rAmCharts-1.1.1/rAmCharts/man/setType.Rd |only rAmCharts-1.1.1/rAmCharts/man/setValueAxes.Rd |only rAmCharts-1.1.1/rAmCharts/man/setValueAxis.Rd |only rAmCharts-1.1.2/rAmCharts/DESCRIPTION | 52 rAmCharts-1.1.2/rAmCharts/MD5 | 697 ++++----- rAmCharts-1.1.2/rAmCharts/NAMESPACE | 19 rAmCharts-1.1.2/rAmCharts/R/AmBalloon.R | 16 rAmCharts-1.1.2/rAmCharts/R/AmChart.R | 284 ++-- rAmCharts-1.1.2/rAmCharts/R/AmChart_constructors.R | 14 rAmCharts-1.1.2/rAmCharts/R/AmChart_setters.R |only rAmCharts-1.1.2/rAmCharts/R/AmChart_shinyUtils.R | 55 rAmCharts-1.1.2/rAmCharts/R/AmCharts_plot.R |only rAmCharts-1.1.2/rAmCharts/R/AmGraph.R | 53 rAmCharts-1.1.2/rAmCharts/R/AmLegend.R | 22 rAmCharts-1.1.2/rAmCharts/R/AmObject.R | 45 rAmCharts-1.1.2/rAmCharts/R/AmStockChart.R | 706 +--------- rAmCharts-1.1.2/rAmCharts/R/AmStockChart_setters.R |only rAmCharts-1.1.2/rAmCharts/R/AxisBase.R | 48 rAmCharts-1.1.2/rAmCharts/R/AxisBase_setters.R |only rAmCharts-1.1.2/rAmCharts/R/CategoryAxis.R | 49 rAmCharts-1.1.2/rAmCharts/R/ChartCursor.R | 106 - rAmCharts-1.1.2/rAmCharts/R/ChartCursor_setters.R |only rAmCharts-1.1.2/rAmCharts/R/ChartScrollbar.R | 124 - rAmCharts-1.1.2/rAmCharts/R/ChartScrollbar_setters.R |only rAmCharts-1.1.2/rAmCharts/R/DataSet.R | 112 - rAmCharts-1.1.2/rAmCharts/R/DataSetSelector.R |only rAmCharts-1.1.2/rAmCharts/R/DataSet_setters.R |only rAmCharts-1.1.2/rAmCharts/R/GaugeArrow.R | 64 rAmCharts-1.1.2/rAmCharts/R/GaugeArrow_setters.R |only rAmCharts-1.1.2/rAmCharts/R/GaugeAxis.R | 68 rAmCharts-1.1.2/rAmCharts/R/GaugeAxis_setters.R |only rAmCharts-1.1.2/rAmCharts/R/GaugeBand.R | 21 rAmCharts-1.1.2/rAmCharts/R/Guide.R | 100 - rAmCharts-1.1.2/rAmCharts/R/Guide_setters.R |only rAmCharts-1.1.2/rAmCharts/R/Label.R | 21 rAmCharts-1.1.2/rAmCharts/R/PeriodSelector.R | 17 rAmCharts-1.1.2/rAmCharts/R/StockEvent.R | 53 rAmCharts-1.1.2/rAmCharts/R/StockEvent_setters.R |only rAmCharts-1.1.2/rAmCharts/R/StockPanel.R | 288 +--- rAmCharts-1.1.2/rAmCharts/R/StockPanel_setters.R |only rAmCharts-1.1.2/rAmCharts/R/Title.R | 22 rAmCharts-1.1.2/rAmCharts/R/TrendLine.R | 186 -- rAmCharts-1.1.2/rAmCharts/R/TrendLine_setters.R |only rAmCharts-1.1.2/rAmCharts/R/ValueAxis.R | 56 rAmCharts-1.1.2/rAmCharts/R/amBoxplot.R |only rAmCharts-1.1.2/rAmCharts/R/amHist.R | 95 - rAmCharts-1.1.2/rAmCharts/R/basicClassUnions.R |only rAmCharts-1.1.2/rAmCharts/R/classUnion.R |only rAmCharts-1.1.2/rAmCharts/R/data.R |only rAmCharts-1.1.2/rAmCharts/R/sharedGenerics.R | 14 rAmCharts-1.1.2/rAmCharts/R/shinyExamples.R | 2 rAmCharts-1.1.2/rAmCharts/data |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/amDrillChart.js | 8 rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/amDrillChart.yaml | 28 rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/amcharts.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/amstock.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/funnel.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/gantt.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/gauge.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/images |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/lang |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/patterns |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/pie.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/plugins |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/radar.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/serial.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/themes |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/lib/xy.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/ramcharts_base.js |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/ramcharts_base.yaml |only rAmCharts-1.1.2/rAmCharts/inst/htmlwidgets/style.css | 86 - rAmCharts-1.1.2/rAmCharts/inst/shiny/server.R | 6 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/drilldown/drilldown_server.R | 67 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/drilldown/drilldown_ui.R | 2 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/funnel/funnel_server.R | 110 + rAmCharts-1.1.2/rAmCharts/inst/shiny/src/funnel/funnel_ui.R | 22 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/gauge/gauge_server.R | 58 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/gauge/gauge_ui.R | 12 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/pie/pie_server.R | 160 +- rAmCharts-1.1.2/rAmCharts/inst/shiny/src/pie/pie_ui.R | 52 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/radar/radar_server.R | 94 - rAmCharts-1.1.2/rAmCharts/inst/shiny/src/radar/radar_ui.R | 2 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/serial/serial_server.R | 608 ++++++-- rAmCharts-1.1.2/rAmCharts/inst/shiny/src/serial/serial_ui.R | 49 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/stock |only rAmCharts-1.1.2/rAmCharts/inst/shiny/src/xy/xy_server.R | 50 rAmCharts-1.1.2/rAmCharts/inst/shiny/src/xy/xy_ui.R | 2 rAmCharts-1.1.2/rAmCharts/inst/shiny/ui.R | 13 rAmCharts-1.1.2/rAmCharts/man/AmBalloon-class.Rd | 15 rAmCharts-1.1.2/rAmCharts/man/AmChart-class.Rd | 132 - rAmCharts-1.1.2/rAmCharts/man/AmGraph-class.Rd | 21 rAmCharts-1.1.2/rAmCharts/man/AmLegend-class.Rd | 13 rAmCharts-1.1.2/rAmCharts/man/AmObject-class.Rd | 6 rAmCharts-1.1.2/rAmCharts/man/AmStockChart-class.Rd | 153 -- rAmCharts-1.1.2/rAmCharts/man/AxisBase-class.Rd | 13 rAmCharts-1.1.2/rAmCharts/man/CategoryAxis-class.Rd | 14 rAmCharts-1.1.2/rAmCharts/man/ChartCursor-class.Rd | 16 rAmCharts-1.1.2/rAmCharts/man/ChartScrollbar-class.Rd | 15 rAmCharts-1.1.2/rAmCharts/man/DataSet-class.Rd | 19 rAmCharts-1.1.2/rAmCharts/man/DataSetSelector-class.Rd |only rAmCharts-1.1.2/rAmCharts/man/GaugeArrow-class.Rd | 15 rAmCharts-1.1.2/rAmCharts/man/GaugeAxis-class.Rd | 15 rAmCharts-1.1.2/rAmCharts/man/GaugeBand-class.Rd | 17 rAmCharts-1.1.2/rAmCharts/man/Guide-class.Rd | 18 rAmCharts-1.1.2/rAmCharts/man/Label-class.Rd | 21 rAmCharts-1.1.2/rAmCharts/man/PeriodSelector-class.Rd | 6 rAmCharts-1.1.2/rAmCharts/man/StockEvent-class.Rd | 17 rAmCharts-1.1.2/rAmCharts/man/StockPanel-class.Rd | 138 + rAmCharts-1.1.2/rAmCharts/man/Title-class.Rd | 17 rAmCharts-1.1.2/rAmCharts/man/TrendLine-class.Rd | 34 rAmCharts-1.1.2/rAmCharts/man/ValueAxis-class.Rd | 18 rAmCharts-1.1.2/rAmCharts/man/amBoxplot.Rd |only rAmCharts-1.1.2/rAmCharts/man/amChartsOutput.Rd | 7 rAmCharts-1.1.2/rAmCharts/man/amHist.Rd | 37 rAmCharts-1.1.2/rAmCharts/man/controlShinyPlot.Rd |only rAmCharts-1.1.2/rAmCharts/man/data_gdp.Rd |only rAmCharts-1.1.2/rAmCharts/man/data_stock1.Rd |only rAmCharts-1.1.2/rAmCharts/man/initialize-AmChart.Rd | 566 +++++++- rAmCharts-1.1.2/rAmCharts/man/initialize-AmGraph.Rd | 12 rAmCharts-1.1.2/rAmCharts/man/initialize-AmStockChart.Rd | 202 +- rAmCharts-1.1.2/rAmCharts/man/initialize-AxisBase.Rd | 27 rAmCharts-1.1.2/rAmCharts/man/initialize-ChartCursor.Rd | 28 rAmCharts-1.1.2/rAmCharts/man/initialize-ChartScrollbar.Rd | 59 rAmCharts-1.1.2/rAmCharts/man/initialize-DataSet.Rd | 20 rAmCharts-1.1.2/rAmCharts/man/initialize-DataSetSelector.Rd |only rAmCharts-1.1.2/rAmCharts/man/initialize-GaugeArrow.Rd | 18 rAmCharts-1.1.2/rAmCharts/man/initialize-GaugeAxis.Rd | 28 rAmCharts-1.1.2/rAmCharts/man/initialize-Guide.Rd | 23 rAmCharts-1.1.2/rAmCharts/man/initialize-PeriodSelector.Rd | 4 rAmCharts-1.1.2/rAmCharts/man/initialize-StockEvent.Rd | 15 rAmCharts-1.1.2/rAmCharts/man/initialize-StockPanel.Rd | 55 rAmCharts-1.1.2/rAmCharts/man/initialize-TrendLine.Rd | 41 rAmCharts-1.1.2/rAmCharts/man/listProperties-AmChart-method.Rd | 2 rAmCharts-1.1.2/rAmCharts/man/listProperties-AmObject.Rd | 11 rAmCharts-1.1.2/rAmCharts/man/plot.AmChart.Rd | 14 rAmCharts-1.1.2/rAmCharts/man/print-AmObject-method.Rd | 13 rAmCharts-1.1.2/rAmCharts/man/renderAmCharts.Rd | 7 rAmCharts-1.1.2/rAmCharts/man/runShinyExamples.Rd | 2 rAmCharts-1.1.2/rAmCharts/man/shared-generics.Rd | 20 rAmCharts-1.1.2/rAmCharts/man/show-AmChart-method.Rd |only rAmCharts-1.1.2/rAmCharts/man/show-AmObject-method.Rd | 11 rAmCharts-1.1.2/rAmCharts/man/show-AmStockChart-method.Rd |only rAmCharts-1.1.2/rAmCharts/tests |only 190 files changed, 3544 insertions(+), 3249 deletions(-)
Title: Profile Analysis of Multivariate Data in R
Description: Fit profile analytic models. This includes the multivariate methods and data visualization tools
to implement profile analysis and cross-validation techniques described
in Davison & Davenport (2002) and Bulut (2013).
Author: Okan Bulut <okanbulut84@gmail.com>, Christopher David Desjardins <cddesjardins@gmail.com>
Maintainer: Christopher David Desjardins <cddesjardins@gmail.com>
Diff between profileR versions 0.3 dated 2015-08-26 and 0.3-1 dated 2015-10-19
DESCRIPTION | 12 ++++++------ MD5 | 44 +++++++++++++++++++++++++++++--------------- NAMESPACE | 4 ++-- NEWS | 9 ++++++++- R/anova.critpat.R | 3 ++- R/print.critpat.R | 4 ++-- README.md |only build |only data/spouse.rda |only inst |only man/EEGS.Rd | 4 ++-- man/IPMMc.Rd | 6 +++--- man/PS.Rd | 2 +- man/leisure.Rd | 5 ++--- man/mod_data.Rd | 2 +- man/nutrient.Rd | 3 +-- man/pams.Rd | 2 +- man/pbg.Rd | 3 +-- man/pr.Rd | 2 +- man/profiler-package.Rd | 2 +- man/spouse.Rd |only vignettes |only 22 files changed, 63 insertions(+), 44 deletions(-)
Title: Predictive Toxicity Assessment of Chemical Mixtures
Description: Toxicity prediction of chemical mixtures using reference models such as
'concentration addition' and 'independent action' (Backhaus, T., Faust, M., Environmental
Science and Technology. 2012, 46, 2564-2573. doi:10.1021/es2034125).
Author: Xiangwei Zhu
Maintainer: Xiangwei Zhu <xwzhunc@gmail.com>
Diff between mixtox versions 1.0 dated 2015-06-03 and 1.1 dated 2015-10-19
DESCRIPTION | 15 ++++++++------- MD5 | 32 ++++++++++++++++---------------- NAMESPACE | 5 +++++ R/curveFit.R | 10 ++++++---- R/ecaPred.R | 2 ++ R/eiaPred.R | 2 ++ man/CEx.Rd | 2 +- man/ECx.Rd | 2 +- man/NOEC.Rd | 2 +- man/caPred.Rd | 2 +- man/curveFit.Rd | 2 +- man/cytotox.Rd | 2 +- man/ecaPred.Rd | 2 +- man/eiaPred.Rd | 2 +- man/gcaPred.Rd | 2 +- man/iaPred.Rd | 2 +- man/mixtox-package.Rd | 4 ++-- 17 files changed, 51 insertions(+), 39 deletions(-)
Title: Iterative Bias Reduction
Description: Multivariate smoothing using iterative bias reduction with kernel, thin plate splines, Duchon splines or low rank splines.
Author: Pierre-Andre Cornillon, Nicolas Hengartner, Eric Matzner-Lober
Maintainer: "Pierre-Andre Cornillon" <pierre-andre.cornillon@univ-rennes2.fr>
Diff between ibr versions 1.4.5 dated 2013-09-02 and 2.0-0 dated 2015-10-19
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Title: Estimation in Dual Frame Surveys
Description: Point and interval estimation in dual frame surveys. In contrast
to classic sampling theory, where only one sampling frame is considered,
dual frame methodology assumes that there are two frames available for
sampling and that, overall, they cover the entire target population. Then,
two probability samples (one from each frame) are drawn and information
collected is suitably combined to get estimators of the parameter of
interest.
Author: Antonio Arcos <arcos@ugr.es>, Maria del Mar Rueda <mrueda@ugr.es>,
Maria Giovanna Ranalli <giovanna.ranalli@stat.unipg.it> and David Molina
<dmolinam@ugr.es>
Maintainer: David Molina <dmolinam@ugr.es>
Diff between Frames2 versions 0.1.1 dated 2015-04-20 and 0.1.2 dated 2015-10-19
DESCRIPTION | 10 ++-- MD5 | 91 +++++++++++++++++++++--------------------- NAMESPACE | 2 R/BKA.R | 2 R/Dat.R | 9 ++-- R/JackCalDF.R | 6 +- R/JackCalSF.R | 6 +- R/JackHartley.R | 2 R/JackPEL.R | 8 +-- R/PEL.R | 12 ++--- build/vignette.rds |binary data/Dat.txt.gz |binary inst/CITATION |only inst/doc/estimation.Rnw | 2 inst/doc/estimation.pdf |binary inst/doc/formatting.data.Rnw | 2 inst/doc/formatting.data.pdf |binary man/BKA.Rd | 3 - man/CalDF.Rd | 3 - man/CalSF.Rd | 3 - man/Compare.Rd | 3 - man/CovHT.Rd | 3 - man/Dat.Rd | 9 +++- man/DatA.Rd | 3 - man/DatB.Rd | 3 - man/Domains.Rd | 3 - man/FB.Rd | 3 - man/HT.Rd | 3 - man/Hartley.Rd | 3 - man/JackBKA.Rd | 3 - man/JackCalDF.Rd | 3 - man/JackCalSF.Rd | 3 - man/JackFB.Rd | 3 - man/JackHartley.Rd | 3 - man/JackPEL.Rd | 3 - man/JackPML.Rd | 3 - man/JackSFRR.Rd | 3 - man/PEL.Rd | 5 +- man/PML.Rd | 3 - man/PiklA.Rd | 3 - man/PiklB.Rd | 3 - man/SFRR.Rd | 3 - man/VarHT.Rd | 3 - man/WeightsCalDF.Rd | 3 - man/WeightsCalSF.Rd | 3 - vignettes/estimation.Rnw | 2 vignettes/formatting.data.Rnw | 2 47 files changed, 142 insertions(+), 106 deletions(-)
Title: EM Algorithm for Model-Based Clustering of Finite Mixture
Gaussian Distribution
Description: EM algorithms and several efficient
initialization methods for model-based clustering of finite
mixture Gaussian distribution with unstructured dispersion
in both of unsupervised and semi-supervised learning.
Author: Wei-Chen Chen [aut, cre],
Ranjan Maitra [aut],
Volodymyr Melnykov [ctb]
Maintainer: Wei-Chen Chen <wccsnow@gmail.com>
Diff between EMCluster versions 0.2-4 dated 2013-12-14 and 0.2-5 dated 2015-10-19
EMCluster-0.2-4/EMCluster/data/myiris.rda |only EMCluster-0.2-4/EMCluster/vignettes/EMCluster-include/jss.bst |only EMCluster-0.2-4/EMCluster/vignettes/EMCluster-include/jss.cls |only EMCluster-0.2-5/EMCluster/COPYING | 711 +++++----- EMCluster-0.2-5/EMCluster/ChangeLog | 28 EMCluster-0.2-5/EMCluster/DESCRIPTION | 21 EMCluster-0.2-5/EMCluster/INSTALL | 2 EMCluster-0.2-5/EMCluster/MD5 | 133 + EMCluster-0.2-5/EMCluster/NAMESPACE | 19 EMCluster-0.2-5/EMCluster/R/000_globalVariables.r |only EMCluster-0.2-5/EMCluster/R/fcn_Jaccard.r |only EMCluster-0.2-5/EMCluster/R/fcn_dlmvnorm.r | 11 EMCluster-0.2-5/EMCluster/R/fcn_emcluster.r | 2 EMCluster-0.2-5/EMCluster/R/fcn_emgroup.r | 2 EMCluster-0.2-5/EMCluster/R/fcn_init_EM.r | 1 EMCluster-0.2-5/EMCluster/R/fcn_init_other_shortem.r | 2 EMCluster-0.2-5/EMCluster/R/fcn_init_svd.r | 2 EMCluster-0.2-5/EMCluster/R/fcn_m_step.r | 2 EMCluster-0.2-5/EMCluster/R/lmt_information.r |only EMCluster-0.2-5/EMCluster/R/lmt_libControurPlotNew.r |only EMCluster-0.2-5/EMCluster/R/lmt_main.r |only EMCluster-0.2-5/EMCluster/R/lmt_project_to_2d.r |only EMCluster-0.2-5/EMCluster/R/lmt_q.map.new.r |only EMCluster-0.2-5/EMCluster/R/logit_PI_I_information.r |only EMCluster-0.2-5/EMCluster/R/partial_logL.r |only EMCluster-0.2-5/EMCluster/R/partial_q.r |only EMCluster-0.2-5/EMCluster/R/post_I_information.r |only EMCluster-0.2-5/EMCluster/R/recolor.r |only EMCluster-0.2-5/EMCluster/README |only EMCluster-0.2-5/EMCluster/data/color.ppcontour.r |only EMCluster-0.2-5/EMCluster/demo/00Index | 3 EMCluster-0.2-5/EMCluster/demo/lmt.r |only EMCluster-0.2-5/EMCluster/demo/logit.r |only EMCluster-0.2-5/EMCluster/demo/myiris.r | 2 EMCluster-0.2-5/EMCluster/demo/ppcontour.r |only EMCluster-0.2-5/EMCluster/inst/CITATION | 20 EMCluster-0.2-5/EMCluster/inst/doc/EMCluster-guide.Rnw | 17 EMCluster-0.2-5/EMCluster/inst/doc/EMCluster-guide.pdf |binary EMCluster-0.2-5/EMCluster/inst/workflow |only EMCluster-0.2-5/EMCluster/man/00_EMCluster-package.Rd | 3 EMCluster-0.2-5/EMCluster/man/11_d.EMControl.Rd | 5 EMCluster-0.2-5/EMCluster/man/12_d.dataset.Rd | 3 EMCluster-0.2-5/EMCluster/man/21_init.EM.Rd | 5 EMCluster-0.2-5/EMCluster/man/22_emcluster.Rd | 5 EMCluster-0.2-5/EMCluster/man/23_emgroup.Rd | 5 EMCluster-0.2-5/EMCluster/man/30_assign.class.Rd | 5 EMCluster-0.2-5/EMCluster/man/31_em.ic.Rd | 5 EMCluster-0.2-5/EMCluster/man/32_em.step.Rd | 5 EMCluster-0.2-5/EMCluster/man/40_lmt.Rd |only EMCluster-0.2-5/EMCluster/man/91_mvn.Rd | 12 EMCluster-0.2-5/EMCluster/man/92_convert.Rd | 5 EMCluster-0.2-5/EMCluster/man/99_plotem.Rd | 5 EMCluster-0.2-5/EMCluster/man/99_plotmd.Rd | 5 EMCluster-0.2-5/EMCluster/man/a0_project.on.2d.Rd |only EMCluster-0.2-5/EMCluster/man/a1_plotppcontour.Rd |only EMCluster-0.2-5/EMCluster/man/xx_Jaccard.Rd |only EMCluster-0.2-5/EMCluster/man/xx_RRand.Rd | 5 EMCluster-0.2-5/EMCluster/man/xx_recolor.Rd |only EMCluster-0.2-5/EMCluster/man/yy_print.summary.Rd | 5 EMCluster-0.2-5/EMCluster/man/zx_all.post_I_information.Rd |only EMCluster-0.2-5/EMCluster/man/zy_all.lmt.Rd |only EMCluster-0.2-5/EMCluster/man/zz_all.internal.Rd | 3 EMCluster-0.2-5/EMCluster/src/RRand.c | 32 EMCluster-0.2-5/EMCluster/vignettes/EMCluster-guide.Rnw | 17 EMCluster-0.2-5/EMCluster/vignettes/EMCluster-include/01-acknowledgement.tex | 23 EMCluster-0.2-5/EMCluster/vignettes/EMCluster-include/01-introduction.tex | 13 EMCluster-0.2-5/EMCluster/vignettes/EMCluster-include/EMCluster.bib | 6 EMCluster-0.2-5/EMCluster/vignettes/EMCluster-include/my_jss.cls |only EMCluster-0.2-5/EMCluster/vignettes/build_pdf.sh | 11 69 files changed, 668 insertions(+), 493 deletions(-)
Title: A More Scalable Alternative to Venn and Euler Diagrams for
Visualizing Intersecting Sets
Description: Creates visualizations of intersecting sets using a novel matrix design,
along with visualizations of several common set, element and attribute
related tasks.
Author: Jake Conway [cre],
Nils Gehlenborg [aut]
Maintainer: Jake Conway <jake_conway@student.uml.edu>
Diff between UpSetR versions 0.0.5 dated 2015-07-28 and 1.0.0 dated 2015-10-19
DESCRIPTION | 6 +++--- MD5 | 22 +++++++++++++--------- NAMESPACE | 2 ++ NEWS | 11 +++++++++++ R/Helper.funcs.R | 15 ++++++++++++--- R/MainBar.R | 20 +++++++++----------- R/fromExpression.R |only R/fromList.R |only R/upset.R | 8 ++++---- README.md | 10 ++++++++++ man/fromExpression.Rd |only man/fromList.Rd |only man/upset.Rd | 15 +++++++++------ vignettes/basic.usage.Rmd | 17 +++++++++++++++++ 14 files changed, 90 insertions(+), 36 deletions(-)
Title: A Tool Set for Analyzing Political Behavior Data
Description: Provides miscellaneous functions for carrying out political behaviour analysis, including measures of political fragmentation, seats allocation, and graphical demonstrations.
Author: Daniel Marcelino [aut, cre]
Maintainer: Daniel Marcelino <dmarcelino@live.com>
Diff between SciencesPo versions 1.3.7 dated 2015-08-13 and 1.3.8 dated 2015-10-19
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SciencesPo-1.3.8/SciencesPo/R/domain.R |only SciencesPo-1.3.8/SciencesPo/R/electoralTool.R | 23 + SciencesPo-1.3.8/SciencesPo/R/freq.R | 168 ++------ SciencesPo-1.3.8/SciencesPo/R/hamilton.R | 2 SciencesPo-1.3.8/SciencesPo/R/imputation.R |only SciencesPo-1.3.8/SciencesPo/R/insert.row.R |only SciencesPo-1.3.8/SciencesPo/R/jackknife.R | 4 SciencesPo-1.3.8/SciencesPo/R/label.R |only SciencesPo-1.3.8/SciencesPo/R/lm2eqn.R |only SciencesPo-1.3.8/SciencesPo/R/make.R |only SciencesPo-1.3.8/SciencesPo/R/mcmc.table.R |only SciencesPo-1.3.8/SciencesPo/R/multiplot.R |only SciencesPo-1.3.8/SciencesPo/R/new.range.R |only SciencesPo-1.3.8/SciencesPo/R/nobs.R | 2 SciencesPo-1.3.8/SciencesPo/R/normalize.R | 2 SciencesPo-1.3.8/SciencesPo/R/pause.R |only SciencesPo-1.3.8/SciencesPo/R/permutate.R | 14 SciencesPo-1.3.8/SciencesPo/R/pie.plot.R |only SciencesPo-1.3.8/SciencesPo/R/psum.R | 8 SciencesPo-1.3.8/SciencesPo/R/random.block.R |only SciencesPo-1.3.8/SciencesPo/R/recode.R | 6 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Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Milan Bouchet-Valat [aut],
Liviu Andronic [ctb],
Michael Ash [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ctb],
Kosar Karimi Pour [ctb],
G. Jay Kerns [ctb],
Renaud Lancelot [ctb],
Matthieu Lesnoff [ctb],
Uwe Ligges [ctb],
Samir Messad [ctb],
Martin Maechler [ctb],
Robert Muenchen [ctb],
Duncan Murdoch [ctb],
Erich Neuwirth [ctb],
Dan Putler [ctb],
Brian Ripley [ctb],
Miroslav Ristic [ctb],
Peter Wolf [ctb],
Kevin Wright [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between Rcmdr versions 2.2-1 dated 2015-09-17 and 2.2-2 dated 2015-10-19
DESCRIPTION | 8 MD5 | 38 NEWS | 748 +-- R/commander.R | 2732 +++++------ R/data-menu.R | 28 R/distributions-sample.R | 4 R/startup.R | 32 R/statistics-models-menu.R | 12 R/utilities.R | 6204 ++++++++++++------------- inst/etc/R-logo-old.gif |only inst/etc/R-logo-old.ico |only inst/etc/R-logo.gif |binary inst/etc/R-logo.ico |binary inst/po/gl/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/zh/LC_MESSAGES/R-Rcmdr.mo |binary man/Rcmdr-package.Rd | 136 man/Rcmdr.Utilities.Rd | 1248 ++--- po/R-Rcmdr.pot | 88 po/R-fr.po | 6 po/R-gl.po | 9160 +++++++++++++++++++------------------- po/R-zh.po | 161 21 files changed, 10402 insertions(+), 10203 deletions(-)
Title: Moment-Based Estimation for Hierarchical Models
Description:
Implements methods from the paper "Fast Moment-Based Estimation
for Hierarchical Models," by Perry (2015).
Author: Patrick O. Perry
Maintainer: Patrick O. Perry <pperry@stern.nyu.edu>
Diff between mbest versions 0.3 dated 2015-04-20 and 0.4 dated 2015-10-19
mbest-0.3/mbest/README.md |only mbest-0.4/mbest/DESCRIPTION | 8 ++++---- mbest-0.4/mbest/MD5 | 5 ++--- mbest-0.4/mbest/NAMESPACE | 18 ++++++++++++++---- 4 files changed, 20 insertions(+), 11 deletions(-)
Title: Model and Analyse Interval Data
Description: Implements methodologies for modelling interval data, considering appropriate parameterizations of the variance-covariance matrix that take into account the intrinsic nature of interval data, and lead to five different possible configuration structures.
Author: Pedro Duarte Silva <psilva@porto.ucp.pt>, Paula Brito <mpbrito.fep.up.pt>
Maintainer: Pedro Duarte Silva <psilva@porto.ucp.pt>
Diff between MAINT.Data versions 0.4 dated 2015-05-03 and 0.5 dated 2015-10-19
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 7 ++----- R/ClasGenMetDef.R | 4 ++-- man/MAINT.Data-package.Rd | 4 ++-- 5 files changed, 15 insertions(+), 18 deletions(-)
Title: High Dimensional Discriminant Analysis
Description: Performs linear discriminant analysis in high dimensional
problems based on reliable covariance estimators for problems
with (many) more variables than observations. Includes routines
for classifier training, prediction, cross-validation and
variable selection.
Author: Antonio Pedro Duarte Silva <psilva@porto.ucp.pt>
Maintainer: Antonio Pedro Duarte Silva <psilva@porto.ucp.pt>
Diff between HiDimDA versions 0.2-3 dated 2015-03-27 and 0.2-4 dated 2015-10-19
CHANGELOG | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- NAMESPACE | 2 ++ man/HiDimDA-package.Rd | 4 ++-- 5 files changed, 17 insertions(+), 10 deletions(-)
Title: Clinical Significance Functions
Description: Functions for calculating clinical significance.
Author: Jim Lemon <drjimlemon@gmail.com>,
Maintainer: Jim Lemon <drjimlemon@gmail.com>
Diff between clinsig versions 1.0-5 dated 2015-01-20 and 1.1 dated 2015-10-19
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- NAMESPACE | 4 ++++ NEWS | 4 ++++ 4 files changed, 16 insertions(+), 8 deletions(-)