Title: Headers for the 'xtensor' Library
Description: The 'xtensor' C++ library for numerical analysis with
multi-dimensional array expressions is provided as a header-only
C++14 library. It offers an extensible expression system enabling
lazy broadcasting; an API following the idioms of the C++ standard
library; and tools to manipulate array expressions and build upon 'xtensor'.
Author: Johan Mabille, Sylvain Corlay and Wolf Vollprecht
Maintainer: Sylvain Corlay <sylvain.corlay@gmail.com>
Diff between xtensor versions 0.2.0-0 dated 2017-10-23 and 0.3.0-0 dated 2017-11-10
DESCRIPTION | 6 MD5 | 133 +-- inst/include/xtensor-r/rarray.hpp | 15 inst/include/xtensor-r/rcontainer.hpp | 34 inst/include/xtensor-r/rtensor.hpp | 17 inst/include/xtensor-r/xtensor_r_config.hpp | 2 inst/include/xtensor/xadapt.hpp | 105 +- inst/include/xtensor/xarray.hpp | 226 +++-- inst/include/xtensor/xassign.hpp | 82 +- inst/include/xtensor/xaxis_iterator.hpp | 4 inst/include/xtensor/xbroadcast.hpp | 6 inst/include/xtensor/xbuffer_adaptor.hpp | 392 ++++----- inst/include/xtensor/xbuilder.hpp | 27 inst/include/xtensor/xcomplex.hpp | 18 inst/include/xtensor/xconcepts.hpp | 16 inst/include/xtensor/xcontainer.hpp | 68 + inst/include/xtensor/xcsv.hpp | 4 inst/include/xtensor/xeval.hpp | 4 inst/include/xtensor/xexception.hpp | 8 inst/include/xtensor/xexpression.hpp | 27 inst/include/xtensor/xfunction.hpp | 26 inst/include/xtensor/xfunctorview.hpp | 14 inst/include/xtensor/xgenerator.hpp | 4 inst/include/xtensor/xindexview.hpp | 4 inst/include/xtensor/xinfo.hpp | 15 inst/include/xtensor/xio.hpp | 51 - inst/include/xtensor/xiterable.hpp | 6 inst/include/xtensor/xiterator.hpp | 4 inst/include/xtensor/xlayout.hpp | 4 inst/include/xtensor/xmath.hpp | 46 - inst/include/xtensor/xnoalias.hpp | 4 inst/include/xtensor/xnorm.hpp |only inst/include/xtensor/xnpy.hpp |only inst/include/xtensor/xoffsetview.hpp | 8 inst/include/xtensor/xoperation.hpp | 162 ++++ inst/include/xtensor/xoptional.hpp | 706 ++++++++++++++++-- inst/include/xtensor/xoptional_assembly.hpp |only inst/include/xtensor/xoptional_assembly_base.hpp |only inst/include/xtensor/xrandom.hpp | 4 inst/include/xtensor/xreducer.hpp | 52 - inst/include/xtensor/xscalar.hpp | 12 inst/include/xtensor/xsemantic.hpp | 194 ++-- inst/include/xtensor/xslice.hpp | 80 +- inst/include/xtensor/xstorage.hpp | 4 inst/include/xtensor/xstridedview.hpp | 118 ++- inst/include/xtensor/xstrides.hpp | 4 inst/include/xtensor/xtensor.hpp | 193 ++-- inst/include/xtensor/xtensor_config.hpp | 4 inst/include/xtensor/xtensor_forward.hpp | 66 + inst/include/xtensor/xtensor_simd.hpp | 20 inst/include/xtensor/xutils.hpp | 324 ++------ inst/include/xtensor/xvectorize.hpp | 4 inst/include/xtensor/xview.hpp | 26 inst/include/xtensor/xview_utils.hpp | 4 inst/include/xtl/xany.hpp | 4 inst/include/xtl/xbase64.hpp |only inst/include/xtl/xbasic_fixed_string.hpp | 33 inst/include/xtl/xclosure.hpp | 36 inst/include/xtl/xdynamic_bitset.hpp |only inst/include/xtl/xhash.hpp | 78 + inst/include/xtl/xiterator_base.hpp | 7 inst/include/xtl/xmeta_utils.hpp |only inst/include/xtl/xoptional.hpp | 395 ++++++---- inst/include/xtl/xoptional_sequence.hpp | 419 ++++++---- inst/include/xtl/xtl_config.hpp | 4 inst/include/xtl/xtype_traits.hpp | 57 + inst/include/xtl/xvariant.hpp |only inst/include/xtl/xvariant_impl.hpp |only inst/lib/cmake/xtensor-r/xtensor-rConfigVersion.cmake | 2 inst/lib/cmake/xtensor/xtensorConfigVersion.cmake | 2 inst/lib/cmake/xtl/xtlConfigVersion.cmake | 2 inst/lib/pkgconfig/xtensor.pc | 2 72 files changed, 2740 insertions(+), 1658 deletions(-)
Title: Supporting Graphs for Analysing Time Series
Description: Provides 'ggplot2' graphics for analysing time series data. It aims
to fit into the 'tidyverse' and grammar of graphics framework for handling
temporal data.
Author: Earo Wang [aut, cre],
Di Cook [aut, ths],
Rob Hyndman [aut, ths]
Maintainer: Earo Wang <earo.wang@gmail.com>
Diff between sugrrants versions 0.1.0 dated 2017-07-28 and 0.1.1 dated 2017-11-10
sugrrants-0.1.0/sugrrants/R/as-period.R |only sugrrants-0.1.0/sugrrants/man/wday2.Rd |only sugrrants-0.1.1/sugrrants/DESCRIPTION | 10 +-- sugrrants-0.1.1/sugrrants/MD5 | 30 +++++------ sugrrants-0.1.1/sugrrants/NAMESPACE | 3 - sugrrants-0.1.1/sugrrants/NEWS.md | 11 ++++ sugrrants-0.1.1/sugrrants/R/calendar-fun.R | 6 +- sugrrants-0.1.1/sugrrants/R/frame-calendar.R | 38 ++++++++------- sugrrants-0.1.1/sugrrants/R/holiday.R | 12 ++-- sugrrants-0.1.1/sugrrants/R/imports.R | 2 sugrrants-0.1.1/sugrrants/R/reexports.R | 2 sugrrants-0.1.1/sugrrants/README.md | 18 +++++-- sugrrants-0.1.1/sugrrants/build/vignette.rds |binary sugrrants-0.1.1/sugrrants/man/au_holiday.Rd | 12 ++-- sugrrants-0.1.1/sugrrants/man/figure/calendar-plot-1.png |binary sugrrants-0.1.1/sugrrants/man/frame-calendar.Rd | 17 +++--- sugrrants-0.1.1/sugrrants/man/reexports.Rd | 4 - 17 files changed, 94 insertions(+), 71 deletions(-)
Title: Analysis and Search of Crossover Designs
Description: Package Crossover provides different crossover designs from
combinatorial or search algorithms as well as from literature and a GUI to
access them.
Author: Kornelius Rohmeyer
Maintainer: Kornelius Rohmeyer <rohmeyer@small-projects.de>
Diff between Crossover versions 0.1-16 dated 2016-09-23 and 0.1-17 dated 2017-11-10
DESCRIPTION | 6 +++--- MD5 | 17 +++++++++-------- NAMESPACE | 2 +- NEWS | 5 +++++ R/functionsTestsAndExploring.R | 2 +- build/vignette.rds |binary inst/doc/Crossover.pdf |binary java/org/mutoss/gui/RControl.java | 7 +++---- src/Crossover_init.c |only tests/testthat/test-r-vs-c.R | 10 +++++----- 10 files changed, 27 insertions(+), 22 deletions(-)
Title: GoodData API Client Package
Description: Export raw reports from 'GoodData' business intelligence platform
(see <http://www.gooddata.com> for more information).
Author: Bulat Yapparov [aut, cre]
Maintainer: Bulat Yapparov <byapparov@gmail.com>
Diff between rGoodData versions 0.1.0 dated 2017-03-22 and 0.1.1 dated 2017-11-10
rGoodData-0.1.0/rGoodData/tests/testthat/test.com/gdc/app/projects/dummy/execute/raw-POST.json |only rGoodData-0.1.1/rGoodData/DESCRIPTION | 6 ++-- rGoodData-0.1.1/rGoodData/MD5 | 15 +++++----- rGoodData-0.1.1/rGoodData/R/login.R | 2 + rGoodData-0.1.1/rGoodData/R/report.R | 4 ++ rGoodData-0.1.1/rGoodData/R/request.R | 7 ++++ rGoodData-0.1.1/rGoodData/man/getUserAgent.Rd |only rGoodData-0.1.1/rGoodData/tests/testthat/test.com/gdc/app/projects/dummy/execute/raw-003666-POST.json |only rGoodData-0.1.1/rGoodData/tests/testthat/test.login.R | 4 +- rGoodData-0.1.1/rGoodData/tests/testthat/test.report.export.R | 6 ++-- 10 files changed, 29 insertions(+), 15 deletions(-)
Title: Ridge Estimation of Vector Auto-Regressive (VAR) Processes
Description: The ragt2ridges-package provides ridge maximum likelihood estimation of vector auto-regressive processes: the VAR(1), VAR(2) and VARX(1) model (more to be added). Prior knowledge may be incorporated in the estimation through a) specification of the edges believed to be absent in the time series chain graph, and b) a shrinkage target towards which the parameter estimate is shrunken for large penalty parameter values. Estimation functionality is accompanied by methodology for penalty parameter selection. In addition, the package offers supporting functionality for the exploitation of estimated models. Among others, i) a procedure to infer the support of the non-sparse ridge estimate (and thereby of the time series chain graph) is implemented, ii) a table of node-wise network summary statistics, iii) mutual information analysis, and iv) impulse response analysis. Cf. Miok et al. (2017) <DOI:10.1002/bimj.201500269> and follow-up work for details on the implemented methods.
Author: Wessel N. van Wieringen <w.vanwieringen@vumc.nl>
Maintainer: Wessel N. van Wieringen <w.vanwieringen@vumc.nl>
Diff between ragt2ridges versions 0.2.4 dated 2017-04-04 and 0.3.0 dated 2017-11-10
ragt2ridges-0.2.4/ragt2ridges/R/momentS.r |only ragt2ridges-0.2.4/ragt2ridges/R/optPenaltyPchordal.r |only ragt2ridges-0.2.4/ragt2ridges/R/ridgePchordal.r |only ragt2ridges-0.2.4/ragt2ridges/R/support4ridgeP.r |only ragt2ridges-0.2.4/ragt2ridges/man/momentS.Rd |only ragt2ridges-0.2.4/ragt2ridges/man/optPenaltyPchordal.Rd |only ragt2ridges-0.2.4/ragt2ridges/man/ridgePchordal.Rd |only ragt2ridges-0.2.4/ragt2ridges/man/support4ridgeP.Rd |only ragt2ridges-0.3.0/ragt2ridges/DESCRIPTION | 16 ragt2ridges-0.3.0/ragt2ridges/MD5 | 157 +- ragt2ridges-0.3.0/ragt2ridges/NAMESPACE | 13 ragt2ridges-0.3.0/ragt2ridges/R/CIGofVAR1.r | 59 - ragt2ridges-0.3.0/ragt2ridges/R/CIGofVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/RcppExports.R | 96 + ragt2ridges-0.3.0/ragt2ridges/R/array2longitudinal.r | 41 ragt2ridges-0.3.0/ragt2ridges/R/centerVAR1data.r | 22 ragt2ridges-0.3.0/ragt2ridges/R/createA.R | 285 +++-- ragt2ridges-0.3.0/ragt2ridges/R/dataVAR1.r | 89 + ragt2ridges-0.3.0/ragt2ridges/R/dataVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/dataVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/evaluateVAR1fit.r | 123 +- ragt2ridges-0.3.0/ragt2ridges/R/graphVAR1.r | 431 +++++-- ragt2ridges-0.3.0/ragt2ridges/R/graphVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/graphVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/impulseResponseVAR1.r | 39 ragt2ridges-0.3.0/ragt2ridges/R/impulseResponseVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/impulseResponseVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVVAR1.r | 92 + ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVVAR1fused.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVcontourVAR1.r | 125 +- ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVcontourVAR1fused.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVcontourVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikLOOCVcontourVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/loglikVAR1.r | 70 - ragt2ridges-0.3.0/ragt2ridges/R/longitudinal2array.r | 20 ragt2ridges-0.3.0/ragt2ridges/R/mutualInfoVAR1.r | 59 - ragt2ridges-0.3.0/ragt2ridges/R/mutualInfoVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/nodeStatsVAR1.r | 194 ++- ragt2ridges-0.3.0/ragt2ridges/R/nodeStatsVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/optPenaltyVAR1.r | 152 ++ ragt2ridges-0.3.0/ragt2ridges/R/optPenaltyVAR1fused.r |only ragt2ridges-0.3.0/ragt2ridges/R/optPenaltyVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/optPenaltyVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/plotVAR1data.r | 48 ragt2ridges-0.3.0/ragt2ridges/R/privateFunctions.r | 39 ragt2ridges-0.3.0/ragt2ridges/R/ridgePathVAR1.r | 168 ++ ragt2ridges-0.3.0/ragt2ridges/R/ridgeVAR1.r | 562 +++++++--- ragt2ridges-0.3.0/ragt2ridges/R/ridgeVAR1fused.r |only ragt2ridges-0.3.0/ragt2ridges/R/ridgeVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/ridgeVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/R/sparsifyVAR1.r | 189 ++- ragt2ridges-0.3.0/ragt2ridges/R/sparsifyVAR2.r |only ragt2ridges-0.3.0/ragt2ridges/R/sparsifyVARX1.r |only ragt2ridges-0.3.0/ragt2ridges/data/hpvP53.rda |binary ragt2ridges-0.3.0/ragt2ridges/inst/CITATION | 33 ragt2ridges-0.3.0/ragt2ridges/inst/NEWS.Rd | 14 ragt2ridges-0.3.0/ragt2ridges/man/CIGofVAR1.Rd | 12 ragt2ridges-0.3.0/ragt2ridges/man/CIGofVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/array2longitudinal.Rd | 6 ragt2ridges-0.3.0/ragt2ridges/man/centerVAR1data.Rd | 2 ragt2ridges-0.3.0/ragt2ridges/man/createA.Rd | 14 ragt2ridges-0.3.0/ragt2ridges/man/dataVAR1.Rd | 12 ragt2ridges-0.3.0/ragt2ridges/man/dataVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/dataVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/evaluateVAR1fit.Rd | 8 ragt2ridges-0.3.0/ragt2ridges/man/graphVAR1.Rd | 34 ragt2ridges-0.3.0/ragt2ridges/man/graphVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/graphVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/hpvP35.Rd | 6 ragt2ridges-0.3.0/ragt2ridges/man/impulseResponseVAR1.Rd | 8 ragt2ridges-0.3.0/ragt2ridges/man/impulseResponseVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/impulseResponseVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVVAR1.Rd | 8 ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVVAR1fused.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVcontourVAR1.Rd | 12 ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVcontourVAR1fused.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVcontourVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikLOOCVcontourVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/loglikVAR1.Rd | 6 ragt2ridges-0.3.0/ragt2ridges/man/longitudinal2array.Rd | 2 ragt2ridges-0.3.0/ragt2ridges/man/mutualInfoVAR1.Rd | 9 ragt2ridges-0.3.0/ragt2ridges/man/mutualInfoVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/nodeStatsVAR1.Rd | 22 ragt2ridges-0.3.0/ragt2ridges/man/nodeStatsVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/optPenaltyVAR1.Rd | 14 ragt2ridges-0.3.0/ragt2ridges/man/optPenaltyVAR1fused.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/optPenaltyVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/optPenaltyVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/plotVAR1data.Rd | 2 ragt2ridges-0.3.0/ragt2ridges/man/ragt2ridges-package.Rd | 21 ragt2ridges-0.3.0/ragt2ridges/man/ridgePathVAR1.Rd | 6 ragt2ridges-0.3.0/ragt2ridges/man/ridgeVAR1.Rd | 19 ragt2ridges-0.3.0/ragt2ridges/man/ridgeVAR1fused.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/ridgeVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/ridgeVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/sparsifyVAR1.Rd | 15 ragt2ridges-0.3.0/ragt2ridges/man/sparsifyVAR2.Rd |only ragt2ridges-0.3.0/ragt2ridges/man/sparsifyVARX1.Rd |only ragt2ridges-0.3.0/ragt2ridges/src/RcppExports.cpp | 438 +++++++ ragt2ridges-0.3.0/ragt2ridges/src/VAR1fused.h |only ragt2ridges-0.3.0/ragt2ridges/src/VAR2.h |only ragt2ridges-0.3.0/ragt2ridges/src/VARX1.h |only ragt2ridges-0.3.0/ragt2ridges/src/ragt2ridges.cpp | 13 ragt2ridges-0.3.0/ragt2ridges/src/registerDynamicSymbol.c | 2 108 files changed, 2828 insertions(+), 999 deletions(-)
Title: Normalize NanoString miRNA and mRNA Data
Description: A set of tools for normalizing, diagnostics and visualization of NanoString nCounter data.
Author: Daryl M. Waggott
Maintainer: Paul Boutros <Paul.Boutros@oicr.on.ca>
Diff between NanoStringNorm versions 1.1.21 dated 2015-11-18 and 1.2.0 dated 2017-11-10
NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Batch_effects.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Check_Traits.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Gene_Summary.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_none.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_none_matrix.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_random.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Output_Formatting_roundT_logT.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Predict_Conc.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Sample_Summary.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_geo.mean_Code_Count_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_housekeeping.geo.mean_SampleContent_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_housekeeping.sum_SampleContent_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_max_Background_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_mean.2sd_Background_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_mean_Background_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_quantile_Other_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_sum_Code_Count_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_top.geo.mean_SampleContent_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_top.mean_SampleContent_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_total.sum_SampleContent_Normalization.txt |only NanoStringNorm-1.1.21/NanoStringNorm/inst/extdata/output/mRNA_TCDD_zscore_Other_Normalization.txt |only NanoStringNorm-1.2.0/NanoStringNorm/DESCRIPTION | 11 - NanoStringNorm-1.2.0/NanoStringNorm/MD5 | 90 +++++----- NanoStringNorm-1.2.0/NanoStringNorm/NAMESPACE | 5 NanoStringNorm-1.2.0/NanoStringNorm/NEWS | 13 + NanoStringNorm-1.2.0/NanoStringNorm/R/NanoStringNorm.R | 8 NanoStringNorm-1.2.0/NanoStringNorm/R/code.count.normalization.R | 18 +- NanoStringNorm-1.2.0/NanoStringNorm/R/read.markup.RCC.R | 65 +++++-- NanoStringNorm-1.2.0/NanoStringNorm/R/read.xls.RCC.R | 2 NanoStringNorm-1.2.0/NanoStringNorm/R/sample.content.normalization.R | 20 +- NanoStringNorm-1.2.0/NanoStringNorm/build/vignette.rds |binary NanoStringNorm-1.2.0/NanoStringNorm/inst/doc/NanoStringNorm_Introduction.Rnw | 2 NanoStringNorm-1.2.0/NanoStringNorm/inst/doc/NanoStringNorm_Introduction.pdf |binary NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Batch_effects.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Check_Traits.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Gene_Summary.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_none.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_none_matrix.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_NSN_random.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Output_Formatting_roundT_logT.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Predict_Conc.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_Sample_Summary.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_geo.mean_Code_Count_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_housekeeping.geomean_SampleContent_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_housekeeping.sum_SampleContent_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_max_Background_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_mean.2sd_Background_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_mean_Background_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_quantile_Other_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_sum_Code_Count_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_top.geo.mean_SampleContent_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_top.mean_SampleContent_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_total.sum_SampleContent_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/extdata/output/mRNA_TCDD_zscore_Other_Normalization.txt.gz |only NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_background.normalization.R | 6 NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_batch.effects.R | 4 NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_code.count.normalization.R | 4 NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_output.formatting.R | 2 NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_predict.concentration.R | 2 NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_sample.content.normalization.R | 10 - NanoStringNorm-1.2.0/NanoStringNorm/inst/unitTests/test_sample.summary.R | 2 NanoStringNorm-1.2.0/NanoStringNorm/man/NanoStringNorm-package.Rd | 6 NanoStringNorm-1.2.0/NanoStringNorm/man/NanoStringNorm.Rd | 6 NanoStringNorm-1.2.0/NanoStringNorm/man/Plot.NanoStringNorm.Rd | 4 NanoStringNorm-1.2.0/NanoStringNorm/man/norm.comp.Rd | 4 NanoStringNorm-1.2.0/NanoStringNorm/man/other.normalization.Rd | 2 NanoStringNorm-1.2.0/NanoStringNorm/vignettes/NanoStringNorm_Introduction.Rnw | 2 67 files changed, 183 insertions(+), 105 deletions(-)
More information about NanoStringNorm at CRAN
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Title: Deconvolution of Tumour Profiles
Description: Deconvolution of mixed tumour profiles into normal and cancer for each patient, using
the ISOpure algorithm in Quon et al. Genome Medicine, 2013 5:29. Deconvolution requires
mixed tumour profiles and a set of unmatched "basis" normal profiles.
Author: Gerald Quon [aut], Catalina V Anghel [aut, trl], Syed Haider [aut], Francis Nguyen [aut], Amit G Deshwar [aut], Quaid D
Morris [aut], Paul C Boutros [aut, cre]
Maintainer: Paul C Boutros <Paul.Boutros@oicr.on.ca>
Diff between ISOpureR versions 1.0.21 dated 2016-08-22 and 1.1.0 dated 2017-11-10
ISOpureR-1.0.21/ISOpureR/inst/extdata/Beer/beer.ISOpureS1model.1000.transcripts.30.patients.RData |only ISOpureR-1.0.21/ISOpureR/inst/extdata/Beer/beer.ISOpureS2model.1000.transcripts.30.patients.rounded.RData |only ISOpureR-1.0.21/ISOpureR/inst/extdata/Beer/beer.normaldata.1000.transcripts.RData |only ISOpureR-1.0.21/ISOpureR/inst/extdata/Beer/beer.tumordata.1000.transcripts.30.patients.RData |only ISOpureR-1.0.21/ISOpureR/inst/tests |only ISOpureR-1.1.0/ISOpureR/DESCRIPTION | 8 ISOpureR-1.1.0/ISOpureR/MD5 | 46 ISOpureR-1.1.0/ISOpureR/NAMESPACE | 5 ISOpureR-1.1.0/ISOpureR/R/ISOpure.calculate.tac.R |only ISOpureR-1.1.0/ISOpureR/R/ISOpureS2.model_optimize.opt_theta.R | 2 ISOpureR-1.1.0/ISOpureR/R/RcppExports.R | 4 ISOpureR-1.1.0/ISOpureR/build/vignette.rds |binary ISOpureR-1.1.0/ISOpureR/inst/doc/ISOpureRGuide.Rnw | 25 ISOpureR-1.1.0/ISOpureR/inst/doc/ISOpureRGuide.pdf |binary ISOpureR-1.1.0/ISOpureR/inst/extdata/Beer/beer.ISOpureS1model.500.transcripts.30.patients.RData |only ISOpureR-1.1.0/ISOpureR/inst/extdata/Beer/beer.ISOpureS2model.500.transcripts.30.patients.RData |only ISOpureR-1.1.0/ISOpureR/inst/extdata/Beer/beer.normaldata.500.transcripts.RData |only ISOpureR-1.1.0/ISOpureR/inst/extdata/Beer/beer.tumordata.500.transcripts.30.patients.RData |only ISOpureR-1.1.0/ISOpureR/inst/extdata/Beer/probeset_names.txt | 500 ---------- ISOpureR-1.1.0/ISOpureR/man/ISOpure.calculate.tac.Rd |only ISOpureR-1.1.0/ISOpureR/src/Makevars |only ISOpureR-1.1.0/ISOpureR/src/RcppExports.cpp | 20 ISOpureR-1.1.0/ISOpureR/src/packagename_init.c |only ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS1.model_optimize.kappa_vv_omega_functions.R | 4 ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS1.model_optimize.mm_functions.R | 4 ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS1.model_optimize.theta_functions.R | 4 ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS2.model_optimize.cc_functions.R | 4 ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS2.model_optimize.kappa_vv_functions.R | 4 ISOpureR-1.1.0/ISOpureR/tests/test.ISOpureS2.model_optimize.theta_functions.R | 4 ISOpureR-1.1.0/ISOpureR/vignettes/ISOpureRGuide.Rnw | 25 30 files changed, 88 insertions(+), 571 deletions(-)
Title: Multivariate Ordinal Regression Models
Description: A flexible framework for fitting multivariate
ordinal regression models with composite likelihood methods.
Author: Rainer Hirk [aut, cre],
Kurt Hornik [aut],
Laura Vana [aut],
Alan Genz [ctb] (Fortran Code)
Maintainer: Rainer Hirk <rhirk@wu.ac.at>
Diff between mvord versions 0.1.0 dated 2017-10-17 and 0.2.0 dated 2017-11-10
mvord-0.1.0/mvord/man/claic.Rd |only mvord-0.1.0/mvord/man/clbic.Rd |only mvord-0.1.0/mvord/man/error.structures.Rd |only mvord-0.1.0/mvord/man/get.error.struct.Rd |only mvord-0.1.0/mvord/man/logPL.Rd |only mvord-0.1.0/mvord/tests/check_getInd.R |only mvord-0.1.0/mvord/tests/check_set_error_structure.R |only mvord-0.2.0/mvord/DESCRIPTION | 10 mvord-0.2.0/mvord/MD5 | 74 + mvord-0.2.0/mvord/NAMESPACE | 43 - mvord-0.2.0/mvord/NEWS | 34 mvord-0.2.0/mvord/R/error_struct.R |only mvord-0.2.0/mvord/R/mvlinks.R |only mvord-0.2.0/mvord/R/mvord.R | 683 +++++++++-------- mvord-0.2.0/mvord/R/mvord_fit.R | 228 ++--- mvord-0.2.0/mvord/R/predict.R | 233 ++--- mvord-0.2.0/mvord/R/se.R | 543 +++++++------ mvord-0.2.0/mvord/R/utilities.R | 494 +++--------- mvord-0.2.0/mvord/inst/doc/vignette_mvord.R | 509 +----------- mvord-0.2.0/mvord/inst/doc/vignette_mvord.Rnw | 796 +++++++++++--------- mvord-0.2.0/mvord/inst/doc/vignette_mvord.pdf |binary mvord-0.2.0/mvord/man/constraints.Rd |only mvord-0.2.0/mvord/man/error_struct.Rd |only mvord-0.2.0/mvord/man/fitted.mvord.Rd |only mvord-0.2.0/mvord/man/get.prob.Rd | 4 mvord-0.2.0/mvord/man/get_error_struct.Rd |only mvord-0.2.0/mvord/man/logLik.mvord.Rd |only mvord-0.2.0/mvord/man/marginal.predict.Rd | 2 mvord-0.2.0/mvord/man/model.matrix.mvord.Rd |only mvord-0.2.0/mvord/man/mvlinks.Rd | 55 + mvord-0.2.0/mvord/man/mvord.Rd | 118 +- mvord-0.2.0/mvord/man/mvord2.Rd | 42 - mvord-0.2.0/mvord/man/names_constraints.Rd |only mvord-0.2.0/mvord/man/nobs.mvord.Rd |only mvord-0.2.0/mvord/man/predict.mvord.Rd | 2 mvord-0.2.0/mvord/man/print.error_struct.Rd |only mvord-0.2.0/mvord/man/terms.mvord.Rd |only mvord-0.2.0/mvord/man/vcov.mvord.Rd |only mvord-0.2.0/mvord/tests/check_mvord_data.R | 20 mvord-0.2.0/mvord/tests/check_mvord_errors.R | 28 mvord-0.2.0/mvord/tests/check_set_threshold_type.R | 51 - mvord-0.2.0/mvord/tests/check_toy_example.R | 324 ++++++-- mvord-0.2.0/mvord/tests/check_transf_sigmas.R | 146 ++- mvord-0.2.0/mvord/tests/check_transf_thresholds.R | 16 mvord-0.2.0/mvord/vignettes/mvord.bib | 117 ++ mvord-0.2.0/mvord/vignettes/res_AR1_probit.rda |binary mvord-0.2.0/mvord/vignettes/res_cor_logit.rda |binary mvord-0.2.0/mvord/vignettes/vignette_mvord.Rnw | 796 +++++++++++--------- 48 files changed, 2733 insertions(+), 2635 deletions(-)
Title: Estimating Hidden Population Size using Respondent Driven
Sampling Data
Description: Estimate the size of a networked population based on
respondent-driven sampling data. The package is part of the "RDS Analyst"
suite of packages for the analysis of respondent-driven sampling data.
See Handcock, Gile and Mar (2014) <doi:10.1214/14-EJS923> and
Handcock, Gile and Mar (2015) <doi:10.1111/biom.12255>.
Author: Mark S. Handcock [aut, cre, cph],
Krista J. Gile [aut, cph]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between sspse versions 0.5-2 dated 2017-09-16 and 0.5-3 dated 2017-11-10
DESCRIPTION | 17 +++++++++-------- MD5 | 24 ++++++++++++------------ R/beginendparallel.R | 10 +++------- R/plot.sspse.R | 10 +++------- R/posteriorsize.R | 10 +++------- R/print.summary.sspse.R | 10 +++------- R/summary.size.R | 4 ---- man/beginparallel.Rd | 10 +++------- man/plot.sspse.Rd | 10 +++------- man/posteriorsize.Rd | 10 +++------- man/print.summary.sspse.Rd | 10 +++------- man/summary.sspse.Rd | 4 ---- src/sspse_init.c | 30 +++++------------------------- 13 files changed, 50 insertions(+), 109 deletions(-)
Title: Pattern Discovery in PDB Structures of Metalloproteins
Description: Looks for amino acid and/or nucleotide patterns and/or small
ligands coordinated to a given prosthetic centre. Files have to be in the local
file system and contain proper extension.
Author: Luca Belmonte <luca.belmonte@unimore.it>, Sheref S. Mansy
<sheref.mansy@unitn.it>
Maintainer: Luca Belmonte <luca.belmonte@unimore.it>
Diff between PdPDB versions 1.0 dated 2016-11-18 and 2.0.1 dated 2017-11-10
DESCRIPTION | 19 +- MD5 | 43 +++++- NAMESPACE | 29 ++++ R/AAAtoA.R |only R/PdPDB.R | 322 +++++++++++++++++++++++++++++++++++++++++++++---- R/alignLigands.R |only R/arrangePatterns.R | 12 - R/checkChains.R |only R/closestCenterPos.R |only R/clustering.R |only R/defineADictionary.R |only R/defineSeqRef.R |only R/enrichment.R |only R/enrichmentAnalysis.R |only R/getColor.R |only R/itIsDefined.R |only R/itsALigand.R |only R/makeTheLogo.R |only R/maxFreq.R |only R/moveCharLeft.R |only R/moveNALeft.R |only R/naLas.R |only R/normalizeInterval.R |only R/plotEnrichment.R |only R/scanDictionary.R |only R/shift.R |only R/slide.R |only R/splitChains.R |only R/subPatternsExtract.R |only R/suppressBrackets.R |only R/toFasta.R |only R/trimAlignment.R |only R/zScore.R |only exec/fileManager | 20 ++- exec/findPatterns | 34 +++-- exec/findPatternsX |only man/PdPDB.Rd | 67 +++++++--- 37 files changed, 468 insertions(+), 78 deletions(-)
Title: Toolkit for Encryption, Signatures and Certificates Based on
OpenSSL
Description: Bindings to OpenSSL libssl and libcrypto, plus custom SSH pubkey parsers.
Supports RSA, DSA and EC curves P-256, P-384 and P-521. Cryptographic signatures
can either be created and verified manually or via x509 certificates. AES can be
used in cbc, ctr or gcm mode for symmetric encryption; RSA for asymmetric (public
key) encryption or EC for Diffie Hellman. High-level envelope functions combine
RSA and AES for encrypting arbitrary sized data. Other utilities include key
generators, hash functions (md5, sha1, sha256, etc), base64 encoder, a secure
random number generator, and 'bignum' math methods for manually performing
crypto calculations on large multibyte integers.
Author: Jeroen Ooms [cre, aut],
Oliver Keyes [ctb]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between openssl versions 0.9.8 dated 2017-11-03 and 0.9.9 dated 2017-11-10
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS | 3 +++ R/cert.R | 3 ++- inst/doc/bignum.html | 28 ++++++++++++++-------------- inst/doc/crypto_hashing.html | 4 ++-- inst/doc/keys.html | 42 +++++++++++++++++++++--------------------- inst/doc/secure_rng.html | 18 +++++++++--------- src/ssl.c | 4 ++-- tests/testthat.R | 4 ++++ 10 files changed, 70 insertions(+), 62 deletions(-)
Title: Memory Estimation Utilities
Description: How much ram do you need to store a 100,000 by 100,000 matrix?
How much ram is your current R session using? How much ram do you even have?
Learn the scintillating answer to these and many more such questions with
the 'memuse' package.
Author: Drew Schmidt [aut, cre],
Christian Heckendorf [ctb] (FreeBSD improvements to meminfo),
Wei-Chen Chen [ctb] (Windows build fixes),
Dan Burgess [ctb] (donation of a Mac for development and testing)
Maintainer: Drew Schmidt <wrathematics@gmail.com>
Diff between memuse versions 3.0-1 dated 2016-09-19 and 4.0-0 dated 2017-11-10
memuse-3.0-1/memuse/R/00_classes.r |only memuse-3.0-1/memuse/R/01_constructor.r |only memuse-3.0-1/memuse/R/approx.r |only memuse-3.0-1/memuse/R/data.r |only memuse-3.0-1/memuse/R/meminfo.r |only memuse-3.0-1/memuse/R/util.r |only memuse-3.0-1/memuse/R/util_par.r |only memuse-3.0-1/memuse/TODO |only memuse-3.0-1/memuse/demo |only memuse-3.0-1/memuse/man/approx.size.Rd |only memuse-3.0-1/memuse/man/control.Rd |only memuse-3.0-1/memuse/man/print-approx.Rd |only memuse-3.0-1/memuse/man/replacers.Rd |only memuse-3.0-1/memuse/man/sum.Rd |only memuse-3.0-1/memuse/tests/how.R |only memuse-3.0-1/memuse/tests/valgrind |only memuse-4.0-0/memuse/ChangeLog | 15 memuse-4.0-0/memuse/DESCRIPTION | 8 memuse-4.0-0/memuse/LICENSE | 2 memuse-4.0-0/memuse/MD5 | 151 +++--- memuse-4.0-0/memuse/NAMESPACE | 30 - memuse-4.0-0/memuse/R/00-classes.r |only memuse-4.0-0/memuse/R/000_globalVariables.r | 7 memuse-4.0-0/memuse/R/01-internal_constructor.r |only memuse-4.0-0/memuse/R/02-data.r |only memuse-4.0-0/memuse/R/accessors.r | 155 ------ memuse-4.0-0/memuse/R/arithmetic.r | 124 ++--- memuse-4.0-0/memuse/R/comparators.r | 22 memuse-4.0-0/memuse/R/constructor.r | 59 +- memuse-4.0-0/memuse/R/converters.r | 44 - memuse-4.0-0/memuse/R/howbig.r | 73 --- memuse-4.0-0/memuse/R/howmany.r | 62 -- memuse-4.0-0/memuse/R/hr.r |only memuse-4.0-0/memuse/R/print.r | 18 memuse-4.0-0/memuse/R/sum.r | 55 +- memuse-4.0-0/memuse/R/swap.r | 15 memuse-4.0-0/memuse/R/sysinfo.r |only memuse-4.0-0/memuse/R/utils.r |only memuse-4.0-0/memuse/README.md | 6 memuse-4.0-0/memuse/cleanup | 2 memuse-4.0-0/memuse/inst/RNACI/RNACI.h | 422 ++++++++++--------- memuse-4.0-0/memuse/inst/doc/memuse-guide.Rnw | 8 memuse-4.0-0/memuse/inst/doc/memuse-guide.pdf |binary memuse-4.0-0/memuse/man/accessors.Rd | 41 - memuse-4.0-0/memuse/man/arithmetic.Rd | 21 memuse-4.0-0/memuse/man/cachelinesize.Rd | 5 memuse-4.0-0/memuse/man/cachesize.Rd | 5 memuse-4.0-0/memuse/man/comparators.Rd | 27 - memuse-4.0-0/memuse/man/constructor.Rd | 62 +- memuse-4.0-0/memuse/man/converters.Rd | 34 - memuse-4.0-0/memuse/man/filesize.Rd | 5 memuse-4.0-0/memuse/man/howbig.Rd | 37 - memuse-4.0-0/memuse/man/howmany.Rd | 22 memuse-4.0-0/memuse/man/hr.Rd |only memuse-4.0-0/memuse/man/meminfo.Rd | 5 memuse-4.0-0/memuse/man/memuse-class.Rd | 4 memuse-4.0-0/memuse/man/memuse-package.Rd | 7 memuse-4.0-0/memuse/man/print-hr.Rd |only memuse-4.0-0/memuse/man/print-memuse.Rd | 15 memuse-4.0-0/memuse/man/print-sysinfo.Rd | 3 memuse-4.0-0/memuse/man/procmem.Rd | 5 memuse-4.0-0/memuse/man/sum-memuse-method.Rd |only memuse-4.0-0/memuse/man/swapinfo.Rd | 7 memuse-4.0-0/memuse/man/swaps.Rd | 9 memuse-4.0-0/memuse/src/Makevars | 4 memuse-4.0-0/memuse/src/Makevars.win | 4 memuse-4.0-0/memuse/src/meminfo/src/cacheinfo.c | 5 memuse-4.0-0/memuse/src/meminfo/src/os.h | 59 ++ memuse-4.0-0/memuse/src/meminfo/src/platform.c | 4 memuse-4.0-0/memuse/src/meminfo/src/raminfo.c | 23 - memuse-4.0-0/memuse/src/meminfo/src/swapinfo.c | 9 memuse-4.0-0/memuse/src/memuse_native.c |only memuse-4.0-0/memuse/src/wrappers.c | 42 - memuse-4.0-0/memuse/tests/accessors.R |only memuse-4.0-0/memuse/tests/arithmetic.R |only memuse-4.0-0/memuse/tests/comparators.R | 2 memuse-4.0-0/memuse/tests/constructor.R |only memuse-4.0-0/memuse/tests/converters.r |only memuse-4.0-0/memuse/tests/howbig.R |only memuse-4.0-0/memuse/tests/howmany.r |only memuse-4.0-0/memuse/tests/hr.R |only memuse-4.0-0/memuse/tests/swap.R | 13 memuse-4.0-0/memuse/tests/sysinfo.R |only memuse-4.0-0/memuse/vignettes/build_pdf.sh | 31 - memuse-4.0-0/memuse/vignettes/cover/cover.pdf |binary memuse-4.0-0/memuse/vignettes/include/04-memuse.tex | 22 memuse-4.0-0/memuse/vignettes/include/05-other.tex | 2 memuse-4.0-0/memuse/vignettes/include/06-meminfo.tex | 3 memuse-4.0-0/memuse/vignettes/include/lastpage.sty |only memuse-4.0-0/memuse/vignettes/include/preamble.tex | 11 memuse-4.0-0/memuse/vignettes/memuse-guide.Rnw | 8 91 files changed, 773 insertions(+), 1061 deletions(-)
Title: Convert Data from and to 'GeoJSON' or 'TopoJSON'
Description: Convert data to 'GeoJSON' or 'TopoJSON' from various R classes,
including vectors, lists, data frames, shape files, and spatial classes.
'geojsonio' does not aim to replace packages like 'sp', 'rgdal', 'rgeos',
but rather aims to be a high level client to simplify conversions of data
from and to 'GeoJSON' and 'TopoJSON'.
Author: Scott Chamberlain [aut, cre],
Andy Teucher [aut]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between geojsonio versions 0.4.2 dated 2017-09-01 and 0.5.0 dated 2017-11-10
geojsonio-0.4.2/geojsonio/inst/img/readme1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-11-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-12-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-14-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-15-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-16-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-17-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-18-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-19-1.png |only geojsonio-0.4.2/geojsonio/inst/img/unnamed-chunk-20-1.png |only geojsonio-0.5.0/geojsonio/DESCRIPTION | 12 geojsonio-0.5.0/geojsonio/MD5 | 93 ++-- geojsonio-0.5.0/geojsonio/NAMESPACE | 12 geojsonio-0.5.0/geojsonio/NEWS.md | 73 ++- geojsonio-0.5.0/geojsonio/R/file_to_geojson.r | 77 ++-- geojsonio-0.5.0/geojsonio/R/geo_topo.R | 18 geojsonio-0.5.0/geojsonio/R/geojson_atomize.R |only geojsonio-0.5.0/geojsonio/R/geojson_json.R | 189 +++++----- geojsonio-0.5.0/geojsonio/R/geojson_sp.R | 40 +- geojsonio-0.5.0/geojsonio/R/geojsonio-package.r | 85 ++-- geojsonio-0.5.0/geojsonio/R/projections.r | 9 geojsonio-0.5.0/geojsonio/R/topojson_json.R |only geojsonio-0.5.0/geojsonio/R/topojson_list.R |only geojsonio-0.5.0/geojsonio/R/topojson_write.R | 175 ++++----- geojsonio-0.5.0/geojsonio/R/validate.R | 5 geojsonio-0.5.0/geojsonio/R/zzz.r | 55 ++ geojsonio-0.5.0/geojsonio/README.md | 114 ++++-- geojsonio-0.5.0/geojsonio/build/vignette.rds |binary geojsonio-0.5.0/geojsonio/inst/doc/geojsonio_vignette.Rmd | 90 +++- geojsonio-0.5.0/geojsonio/inst/doc/geojsonio_vignette.html | 85 +++- geojsonio-0.5.0/geojsonio/inst/examples/swiss_cantons.topojson |only geojsonio-0.5.0/geojsonio/inst/img/unnamed-chunk-21-1.png |binary geojsonio-0.5.0/geojsonio/inst/img/unnamed-chunk-23-1.png |only geojsonio-0.5.0/geojsonio/inst/vign/geojsonio_vignette.Rmd | 33 + geojsonio-0.5.0/geojsonio/inst/vign/geojsonio_vignette.md | 90 +++- geojsonio-0.5.0/geojsonio/man/canada_cities.Rd | 10 geojsonio-0.5.0/geojsonio/man/file_to_geojson.Rd | 21 - geojsonio-0.5.0/geojsonio/man/geo2topo.Rd | 6 geojsonio-0.5.0/geojsonio/man/geojson_atomize.Rd |only geojsonio-0.5.0/geojsonio/man/geojson_json.Rd | 107 +++-- geojsonio-0.5.0/geojsonio/man/geojson_sp.Rd | 20 - geojsonio-0.5.0/geojsonio/man/geojsonio-deprecated.Rd | 2 geojsonio-0.5.0/geojsonio/man/geojsonio.Rd | 44 +- geojsonio-0.5.0/geojsonio/man/projections.Rd | 4 geojsonio-0.5.0/geojsonio/man/states.Rd | 2 geojsonio-0.5.0/geojsonio/man/topojson_json.Rd |only geojsonio-0.5.0/geojsonio/man/topojson_list.Rd |only geojsonio-0.5.0/geojsonio/man/topojson_write.Rd | 19 - geojsonio-0.5.0/geojsonio/man/us_cities.Rd | 10 geojsonio-0.5.0/geojsonio/man/validate.Rd | 2 geojsonio-0.5.0/geojsonio/tests/testthat/test-file_to_geojson.R | 2 geojsonio-0.5.0/geojsonio/tests/testthat/test-geojson_atomize.R |only geojsonio-0.5.0/geojsonio/tests/testthat/test-geojson_json.R | 57 ++- geojsonio-0.5.0/geojsonio/tests/testthat/test-projections.R | 19 - geojsonio-0.5.0/geojsonio/tests/testthat/test-sf_classes.R | 90 ++-- geojsonio-0.5.0/geojsonio/tools |only geojsonio-0.5.0/geojsonio/vignettes/geojsonio_vignette.Rmd | 90 +++- 57 files changed, 1064 insertions(+), 696 deletions(-)
Title: 'fastText' Wrapper for Text Classification and Word
Representation
Description: Learning text representations and text classifiers may rely
on the same simple and efficient approach. 'fastText' is an open-source, free,
lightweight library that allows users to perform both tasks.
It transforms text into continuous vectors that can later
be used on many language related task.
It works on standard, generic hardware (no 'GPU' required).
It also includes model size reduction feature.
'fastText' original source code is available
at <https://github.com/facebookresearch/fastText>.
Author: Michaël Benesty [aut, cre, cph],
Facebook, Inc [cph]
Maintainer: Michaël Benesty <michael@benesty.fr>
Diff between fastrtext versions 0.2.2 dated 2017-11-06 and 0.2.3 dated 2017-11-10
DESCRIPTION |only LICENSE |only MD5 |only NAMESPACE |only NEWS.md |only R |only build |only cleanup |only data |only inst/doc |only inst/extdata/model_classification_test.bin |only inst/extdata/model_unsupervised_test.bin |binary man |only src |only tests |only tools |only vignettes |only 17 files changed
Title: R Wrapper to the spaCy NLP Library
Description: An R wrapper to the 'Python' 'spaCy' 'NLP' library,
from <http://spacy.io>.
Author: Kenneth Benoit [aut, cre, cph],
Akitaka Matsuo [aut]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between spacyr versions 0.9.0 dated 2017-05-20 and 0.9.3 dated 2017-11-10
DESCRIPTION | 6 +- MD5 | 32 +++++++-------- NEWS.md | 16 +++++++ R/parse-extractor-functions.R | 6 +- R/python-functions.R | 4 - R/spacy_initialize.R | 39 +++++++++++++------ R/spacy_parse.R | 24 +++++++---- README.md | 63 +++++++++++++++++++------------ inst/python/initialize_spacyPython.py | 5 ++ inst/python/spacyr_class.py | 15 ++++--- man/find_spacy.Rd | 7 ++- man/get-functions.Rd | 2 man/spacy_initialize.Rd | 7 ++- man/spacy_parse.Rd | 3 - tests/testthat/test-2-spacy_parse.R | 2 tests/testthat/test-3-entity-functions.R | 12 ++--- tests/testthat/test-4-quanteda-methods.R | 10 ++-- 17 files changed, 163 insertions(+), 90 deletions(-)
Title: Tools for Remote Sensing Data Analysis
Description: Toolbox for remote sensing image processing and analysis such as
calculating spectral indices, principal component transformation, unsupervised
and supervised classification or fractional cover analyses.
Author: Benjamin Leutner [cre, aut],
Ned Horning [aut]
Maintainer: Benjamin Leutner <benjamin.leutner@uni-wuerzburg.de>
Diff between RStoolbox versions 0.1.9 dated 2017-08-28 and 0.1.10 dated 2017-11-10
DESCRIPTION | 7 ++++--- MD5 | 22 +++++++++++----------- NEWS | 5 +++++ R/classifyQA.R | 2 ++ R/encodeQA.R | 5 +++++ man/classifyQA.Rd | 2 ++ man/decodeQA.Rd | 2 ++ man/encodeQA.Rd | 2 ++ man/saveRSTBX.Rd | 1 - src/classQA.cpp | 1 + src/init.c | 6 +++++- tests/testthat/test-normImage.R | 11 ++++------- 12 files changed, 43 insertions(+), 23 deletions(-)
Title: Mocking Library for R
Description: The two main functionalities of this package are creating mock
objects (functions) and selectively intercepting calls to a given
function that originate in some other function. It can be used
with any testing framework available for R. Mock objects can
be injected with either this package's own stub() function or a
similar with_mock() facility present in the testthat package.
Author: Noam Finkelstein [aut, cre],
Lukasz Bartnik [aut]
Maintainer: Noam Finkelstein <noam.finkelstein@jhu.edu>
Diff between mockery versions 0.4.0 dated 2017-11-07 and 0.4.1 dated 2017-11-10
DESCRIPTION | 6 +++--- MD5 | 9 +++++---- NEWS |only R/stub.R | 6 +++--- README.md | 8 +++++--- tests/testthat/test_stub.R | 7 +++++++ 6 files changed, 23 insertions(+), 13 deletions(-)
Title: Text Generation from Data
Description: Linguistic Descriptions of Complex Phenomena (LDCP) is an architecture and methodology that allows us to model complex phenomena, interpreting input data, and generating automatic text reports customized to the user needs (see <doi:10.1016/j.ins.2016.11.002> and <doi:10.1007/s00500-016-2430-5>). The proposed package contains a set of methods that facilitates the development of LDCP systems. It main goal is increasing the visibility and practical use of this research line.
Author: Patricia Conde-Clemente [aut, cre], Jose M. Alonso [aut], Gracian Trivino [aut]
Maintainer: Patricia Conde-Clemente <patricia.condeclemente@gmail.com>
Diff between rLDCP versions 1.0.1 dated 2017-02-09 and 1.0.2 dated 2017-11-10
DESCRIPTION | 10 ++++---- MD5 | 55 ++++++++++++++++++++++----------------------- NAMESPACE | 1 NEWS.md | 1 R/glmp.R | 6 ++-- R/pm.R | 24 ++++++++++++++++++- demo/inprofilephoto.R | 13 +++++++--- inst/CITATION | 10 ++++---- man/cp.Rd | 1 man/data_structure.Rd | 1 man/degree_mf.Rd | 1 man/fuzzy_partitions.Rd | 1 man/fuzzy_rule.Rd | 1 man/fuzzy_rules.Rd | 1 man/generate_code.Rd | 1 man/glmp.Rd | 1 man/infer_rules.Rd | 1 man/ldcp.Rd | 1 man/ldcp_run.Rd | 1 man/operator.Rd | 1 man/pm.Rd | 1 man/pm_infer.Rd | 1 man/pm_multidimensional.Rd |only man/pm_report.Rd | 1 man/report_template.Rd | 1 man/trapezoid_mf.Rd | 1 man/triangle_mf.Rd | 1 man/validate_xml.Rd | 1 man/xml2rldcp.Rd | 1 29 files changed, 76 insertions(+), 64 deletions(-)
Title: Statistical Toolbox for Radiometric Geochronology
Description: Plots U-Pb data on Wetherill and Tera-Wasserburg concordia diagrams. Calculates concordia and discordia ages. Performs linear regression of measurements with correlated errors using 'York', 'Titterington' and 'Ludwig' approaches. Generates Kernel Density Estimates (KDEs) and Cumulative Age Distributions (CADs). Produces Multidimensional Scaling (MDS) configurations and Shepard plots of multi-sample detrital datasets using the Kolmogorov-Smirnov distance as a dissimilarity measure. Calculates 40Ar/39Ar ages, isochrons, and age spectra. Computes weighted means accounting for overdispersion. Calculates U-Th-He (single grain and central) ages, logratio plots and ternary diagrams. Processes fission track data using the external detector method and LA-ICP-MS, calculates central ages and plots fission track and other data on radial (a.k.a. 'Galbraith') plots. Constructs total Pb-U, Pb-Pb, Re-Os, Sm-Nd, Lu-Hf, Rb-Sr and 230Th-U isochrons as well as 230Th-U evolution plots.
Author: Pieter Vermeesch [aut, cre]
Maintainer: Pieter Vermeesch <p.vermeesch@ucl.ac.uk>
Diff between IsoplotR versions 0.18 dated 2017-09-29 and 1.0 dated 2017-11-10
IsoplotR-0.18/IsoplotR/inst/KDE.csv |only IsoplotR-0.18/IsoplotR/inst/MountTom.csv |only IsoplotR-0.18/IsoplotR/inst/Namib.csv |only IsoplotR-0.18/IsoplotR/inst/average.csv |only IsoplotR-0.18/IsoplotR/inst/spectrum.csv |only IsoplotR-1.0/IsoplotR/DESCRIPTION | 8 IsoplotR-1.0/IsoplotR/MD5 | 122 ++++---- IsoplotR-1.0/IsoplotR/R/ArAr.R | 1 IsoplotR-1.0/IsoplotR/R/IsoplotR.R | 22 - IsoplotR-1.0/IsoplotR/R/PD.R | 1 IsoplotR-1.0/IsoplotR/R/PbPb.R | 17 - IsoplotR-1.0/IsoplotR/R/ThU.R | 1 IsoplotR-1.0/IsoplotR/R/UPb.R | 156 +--------- IsoplotR-1.0/IsoplotR/R/UThHe.R | 2 IsoplotR-1.0/IsoplotR/R/age.R | 368 +++++-------------------- IsoplotR-1.0/IsoplotR/R/agespectrum.R | 48 ++- IsoplotR-1.0/IsoplotR/R/cad.R | 37 ++ IsoplotR-1.0/IsoplotR/R/central.R | 273 ++++++++++++------ IsoplotR-1.0/IsoplotR/R/commonPb.R |only IsoplotR-1.0/IsoplotR/R/concordia.R | 187 +++++++++++- IsoplotR-1.0/IsoplotR/R/constants.R | 32 +- IsoplotR-1.0/IsoplotR/R/discordia.R | 78 +++-- IsoplotR-1.0/IsoplotR/R/documentation.R | 59 +--- IsoplotR-1.0/IsoplotR/R/errorellipse.R | 13 IsoplotR-1.0/IsoplotR/R/evolution.R | 214 ++++++++++---- IsoplotR-1.0/IsoplotR/R/fissiontracks.R | 73 ++++ IsoplotR-1.0/IsoplotR/R/helioplot.R | 240 +++++++++++----- IsoplotR-1.0/IsoplotR/R/io.R | 127 ++++---- IsoplotR-1.0/IsoplotR/R/isochron.R | 380 +++++++++++++++++--------- IsoplotR-1.0/IsoplotR/R/kde.R | 199 +++++++------ IsoplotR-1.0/IsoplotR/R/ludwig.R | 284 +++++++++++++------ IsoplotR-1.0/IsoplotR/R/mds.R | 87 ++++- IsoplotR-1.0/IsoplotR/R/peakfit.R | 78 +++-- IsoplotR-1.0/IsoplotR/R/radialplot.R | 217 +++++++++----- IsoplotR-1.0/IsoplotR/R/regression.R | 78 ++++- IsoplotR-1.0/IsoplotR/R/titterington.R | 52 ++- IsoplotR-1.0/IsoplotR/R/toolbox.R | 14 IsoplotR-1.0/IsoplotR/R/weightedmean.R | 134 ++++++--- IsoplotR-1.0/IsoplotR/R/york.R | 39 +- IsoplotR-1.0/IsoplotR/data/examples.rda |binary IsoplotR-1.0/IsoplotR/inst/LudwigKDE.csv |only IsoplotR-1.0/IsoplotR/inst/LudwigMean.csv |only IsoplotR-1.0/IsoplotR/inst/LudwigMixture.csv |only IsoplotR-1.0/IsoplotR/inst/LudwigSpectrum.csv |only IsoplotR-1.0/IsoplotR/inst/UThSmHe.csv | 2 IsoplotR-1.0/IsoplotR/man/IsoplotR.Rd | 23 - IsoplotR-1.0/IsoplotR/man/age.Rd | 344 ++++------------------- IsoplotR-1.0/IsoplotR/man/agespectrum.Rd | 38 +- IsoplotR-1.0/IsoplotR/man/cad.Rd | 27 + IsoplotR-1.0/IsoplotR/man/central.Rd | 119 +++++--- IsoplotR-1.0/IsoplotR/man/concordia.Rd | 160 +++++++++- IsoplotR-1.0/IsoplotR/man/ellipse.Rd | 6 IsoplotR-1.0/IsoplotR/man/evolution.Rd | 65 ++++ IsoplotR-1.0/IsoplotR/man/examples.Rd | 53 +-- IsoplotR-1.0/IsoplotR/man/helioplot.Rd | 98 ++++++ IsoplotR-1.0/IsoplotR/man/isochron.Rd | 227 +++++++++++---- IsoplotR-1.0/IsoplotR/man/kde.Rd | 135 +++++---- IsoplotR-1.0/IsoplotR/man/ludwig.Rd | 54 +++ IsoplotR-1.0/IsoplotR/man/mds.Rd | 79 ++++- IsoplotR-1.0/IsoplotR/man/peakfit.Rd | 77 +++-- IsoplotR-1.0/IsoplotR/man/radialplot.Rd | 125 +++++--- IsoplotR-1.0/IsoplotR/man/read.data.Rd | 46 +-- IsoplotR-1.0/IsoplotR/man/set.zeta.Rd | 74 ++++- IsoplotR-1.0/IsoplotR/man/settings.Rd | 25 + IsoplotR-1.0/IsoplotR/man/titterington.Rd | 46 ++- IsoplotR-1.0/IsoplotR/man/weightedmean.Rd | 111 +++++-- IsoplotR-1.0/IsoplotR/man/york.Rd | 20 + 67 files changed, 3526 insertions(+), 2069 deletions(-)
Title: A Sound Interface for R
Description: Basic functions for dealing with wav files and sound samples.
Author: Matthias Heymann <mail@MatthiasHeymann.de>
Maintainer: Stefan Langenberg <langenberg@uni-bonn.de>
Diff between sound versions 1.4.4 dated 2016-05-12 and 1.4.5 dated 2017-11-10
DESCRIPTION | 10 ++++-- MD5 | 65 ++++++++++++++++++++++----------------------- NAMESPACE | 2 - R/sound.R | 31 +++++++++++---------- build |only man/Ops.Sample.Rd | 6 +++- man/Sample.Rd | 6 +++- man/Sine.Rd | 6 +++- man/WavPlayer.Rd | 14 +++++---- man/appendSample.Rd | 6 +++- man/bits.Rd | 6 +++- man/center.Rd | 6 +++- man/channels.Rd | 6 +++- man/cutSample.Rd | 6 +++- man/cutSampleEnds.Rd | 6 +++- man/duration.Rd | 6 +++- man/fitSampleParameters.Rd | 6 +++- man/left.Rd | 6 +++- man/loadSample.Rd | 6 +++- man/mirror.Rd | 6 +++- man/noSilence.Rd | 6 +++- man/normalize.Rd | 6 +++- man/nullSample.Rd | 6 +++- man/panorama.Rd | 6 +++- man/pitch.Rd | 6 +++- man/play.Rd | 6 +++- man/plot.Sample.Rd | 6 +++- man/print.Sample.Rd | 6 +++- man/rate.Rd | 6 +++- man/reverse.Rd | 6 +++- man/sampleLength.Rd | 6 +++- man/saveSample.Rd | 6 +++- man/sound.Rd | 7 ++++ man/stereo.Rd | 6 +++- 34 files changed, 206 insertions(+), 85 deletions(-)
Title: Climate Window Analysis
Description: Contains functions to detect and visualise periods of climate
sensitivity (climate windows) for a given biological response.
Author: Liam D. Bailey and Martijn van de Pol
Maintainer: Liam D. Bailey <liam.bailey@anu.edu.au>
Diff between climwin versions 1.1.0 dated 2016-12-20 and 1.2.0 dated 2017-11-10
DESCRIPTION | 11 MD5 | 140 +- NAMESPACE | 4 NEWS.md | 61 + R/autowin.R | 382 +++++--- R/crosswin.R | 20 R/datasets.R | 17 R/explore.R | 2 R/otherfunctions.R | 1737 ++++++++++++++++++++++++++++--------- R/plotall.R | 9 R/plotbest.R | 6 R/plotbetas.R | 2 R/plotdelta.R | 2 R/plothist.R | 2 R/plotweights.R | 48 - R/pvalue.R | 22 R/randwin.R | 23 R/singlewin.R | 580 +++++++++--- R/slidingwin.R | 31 R/weightwin.R | 63 - R/zzz.R | 4 README.md | 4 build/vignette.rds |binary data/Mass.rda |binary data/Monthly_data.rda |only inst/doc/advanced_climwin.R | 73 + inst/doc/advanced_climwin.Rmd | 178 +++ inst/doc/advanced_climwin.html | 881 +++++++++--------- inst/doc/climwin.R | 49 - inst/doc/climwin.Rmd | 213 +++- inst/doc/climwin.html | 1033 +++++++++------------- man/Chaff.Rd | 1 man/ChaffClim.Rd | 1 man/Mass.Rd | 6 man/MassClimate.Rd | 1 man/MassOutput.Rd | 1 man/MassRand.Rd | 1 man/Monthly_data.Rd |only man/Offspring.Rd | 1 man/OffspringClimate.Rd | 1 man/Size.Rd | 1 man/SizeClimate.Rd | 1 man/autowin.Rd | 1 man/crosswin.Rd | 3 man/explore.Rd | 3 man/medwin.Rd | 1 man/merge_results.Rd | 1 man/plotall.Rd | 1 man/plotbest.Rd | 1 man/plotbetas.Rd | 3 man/plotcor.Rd | 1 man/plotdelta.Rd | 1 man/plothist.Rd | 1 man/plotweights.Rd | 1 man/plotwin.Rd | 1 man/pvalue.Rd | 1 man/randwin.Rd | 1 man/singlewin.Rd | 1 man/slidingwin.Rd | 10 man/weightwin.Rd | 44 tests/testthat/testautowin.R | 8 tests/testthat/testcrosswin.R | 7 tests/testthat/testdateconverter.R | 51 - tests/testthat/testmedwin.R | 4 tests/testthat/testpvalue.R | 3 tests/testthat/testrandwin.R | 32 tests/testthat/testsinglewin.R | 70 + tests/testthat/testslidingwin.R | 791 ++++++++++++++-- tests/testthat/testweightfuncWG.R | 51 - tests/testthat/testweightwin.R | 574 ++++++++++++ vignettes/advanced_climwin.Rmd | 178 +++ vignettes/climwin.Rmd | 213 +++- 72 files changed, 5471 insertions(+), 2199 deletions(-)
Title: Box-Cox Power Transformation
Description: Performs Box-Cox power transformation for different purposes, graphical approaches, assesses the success of the transformation via tests and plots, computes mean and confidence interval for back transformed data.
Author: Osman Dag [aut, cre], Ozgur Asar [aut], Ozlem Ilk [aut]
Maintainer: Osman Dag <osman.dag@hacettepe.edu.tr>
Diff between AID versions 2.2 dated 2017-07-18 and 2.3 dated 2017-11-10
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- inst/citation | 14 +++++++------- man/boxcoxfr.Rd | 2 +- 4 files changed, 15 insertions(+), 15 deletions(-)
Title: Statistical Analysis of Mixed Ploidy Populations
Description: Allows users to calculate pairwise Nei's Genetic Distances (Nei 1972), pairwise Fixation
Indexes (Fst) (Weir & Cockerham 1984) and also Genomic Relationship matrixes following Yang et al. (2010) in mixed and single
ploidy populations. Bootstrapping across loci is implemented during Fst calculation to generate confidence intervals and p-values
around pairwise Fst values. StAMPP utilises SNP genotype data of any ploidy level (with the ability to handle missing data) and is coded to
utilise multithreading where available to allow efficient analysis of large datasets. StAMPP is able to handle genotype data from genlight objects
allowing integration with other packages such adegenet.
Please refer to LW Pembleton, NOI Cogan & JW Forster, 2013, Molecular Ecology Resources, 13(5), 946-952. <doi:10.1111/1755-0998.12129> for the appropriate citation and user manual. Thank you in advance.
Author: LW Pembleton
Maintainer: LW Pembleton <luke.pembleton@ecodev.vic.gov.au>
Diff between StAMPP versions 1.4 dated 2015-07-06 and 1.5.1 dated 2017-11-10
ChangeLog | 12 ++++++++++++ DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ R/stamppAmova.R | 3 ++- R/stamppConvert.R | 3 ++- R/stamppFst.R | 5 +++-- R/stamppGmatrix.R | 3 ++- R/stamppNeisD.R | 3 ++- inst/CITATION | 2 +- man/StAMPP-package.Rd | 16 ++++++++-------- man/stamppAmova.Rd | 2 +- man/stamppFst.Rd | 4 ++-- man/stamppGmatrix.Rd | 2 +- 13 files changed, 53 insertions(+), 36 deletions(-)
Title: Dynamic Documents for R
Description: Convert R Markdown documents into a variety of formats.
Author: JJ Allaire [aut],
Yihui Xie [aut, cre] (0000-0003-0645-5666),
Jonathan McPherson [aut],
Javier Luraschi [aut],
Kevin Ushey [aut],
Aron Atkins [aut],
Hadley Wickham [aut],
Joe Cheng [aut],
Winston Chang [aut],
Jeff Allen [ctb],
Roy Storey [ctb],
Rob Hyndman [ctb],
Ruben Arslan [ctb],
RStudio, Inc. [cph],
jQuery Foundation [cph] (jQuery library),
jQuery contributors [ctb, cph] (jQuery library; authors listed in
inst/rmd/h/jquery-AUTHORS.txt),
jQuery UI contributors [ctb, cph] (jQuery UI library; authors listed in
inst/rmd/h/jqueryui-AUTHORS.txt),
Mark Otto [ctb] (Bootstrap library),
Jacob Thornton [ctb] (Bootstrap library),
Bootstrap contributors [ctb] (Bootstrap library),
Twitter, Inc [cph] (Bootstrap library),
Alexander Farkas [ctb, cph] (html5shiv library),
Scott Jehl [ctb, cph] (Respond.js library),
Ivan Sagalaev [ctb, cph] (highlight.js library),
Greg Franko [ctb, cph] (tocify library),
John MacFarlane [ctb, cph] (Pandoc templates),
Google, Inc. [ctb, cph] (ioslides library),
Dave Raggett [ctb] (slidy library),
W3C [cph] (slidy library),
Dave Gandy [ctb, cph] (Font-Awesome),
Ben Sperry [ctb] (Ionicons),
Drifty [cph] (Ionicons),
Aidan Lister [ctb, cph] (jQuery StickyTabs)
Maintainer: Yihui Xie <xie@yihui.name>
Diff between rmarkdown versions 1.6 dated 2017-06-15 and 1.7 dated 2017-11-10
rmarkdown-1.6/rmarkdown/inst/rmd/h/highlightjs-1.1 |only rmarkdown-1.6/rmarkdown/inst/rmd/h/navigation-1.1/FileSaver.min.js |only rmarkdown-1.7/rmarkdown/DESCRIPTION | 49 ++- rmarkdown-1.7/rmarkdown/MD5 | 90 +++---- rmarkdown-1.7/rmarkdown/NAMESPACE | 2 rmarkdown-1.7/rmarkdown/R/base64.R | 1 rmarkdown-1.7/rmarkdown/R/beamer_presentation.R | 39 ++- rmarkdown-1.7/rmarkdown/R/github_document.R | 2 rmarkdown-1.7/rmarkdown/R/html_dependencies.R | 10 rmarkdown-1.7/rmarkdown/R/html_document.R | 2 rmarkdown-1.7/rmarkdown/R/html_document_base.R | 10 rmarkdown-1.7/rmarkdown/R/html_paged.R | 3 rmarkdown-1.7/rmarkdown/R/html_resource_copy.R | 2 rmarkdown-1.7/rmarkdown/R/html_resources.R | 2 rmarkdown-1.7/rmarkdown/R/html_vignette.R | 6 rmarkdown-1.7/rmarkdown/R/latex_dependencies.R | 9 rmarkdown-1.7/rmarkdown/R/md_document.R | 2 rmarkdown-1.7/rmarkdown/R/odt_document.R | 2 rmarkdown-1.7/rmarkdown/R/output_format.R | 5 rmarkdown-1.7/rmarkdown/R/pandoc.R | 26 +- rmarkdown-1.7/rmarkdown/R/params.R | 18 + rmarkdown-1.7/rmarkdown/R/pdf_document.R | 54 ++-- rmarkdown-1.7/rmarkdown/R/render.R | 78 ++---- rmarkdown-1.7/rmarkdown/R/render_site.R | 22 + rmarkdown-1.7/rmarkdown/R/shiny.R | 26 +- rmarkdown-1.7/rmarkdown/R/shiny_prerendered.R | 12 rmarkdown-1.7/rmarkdown/R/slidy_presentation.R | 18 - rmarkdown-1.7/rmarkdown/R/util.R | 51 +++- rmarkdown-1.7/rmarkdown/R/word_document.R | 16 + rmarkdown-1.7/rmarkdown/inst/NEWS | 63 +++++ rmarkdown-1.7/rmarkdown/inst/rmarkdown/templates/html_vignette/skeleton/skeleton.Rmd | 7 rmarkdown-1.7/rmarkdown/inst/rmd/fragment/default.tex |only rmarkdown-1.7/rmarkdown/inst/rmd/h/default.html | 10 rmarkdown-1.7/rmarkdown/inst/rmd/h/highlightjs |only rmarkdown-1.7/rmarkdown/inst/rmd/h/navigation-1.1/sourceembed.js | 11 rmarkdown-1.7/rmarkdown/inst/rmd/ioslides/ioslides_presentation.lua | 72 +++++ rmarkdown-1.7/rmarkdown/inst/rmd/latex/default.tex | 2 rmarkdown-1.7/rmarkdown/man/beamer_presentation.Rd | 14 - rmarkdown-1.7/rmarkdown/man/html_vignette.Rd | 6 rmarkdown-1.7/rmarkdown/man/pandoc_args.Rd | 2 rmarkdown-1.7/rmarkdown/man/pdf_document.Rd | 12 rmarkdown-1.7/rmarkdown/man/slidy_presentation.Rd | 16 - rmarkdown-1.7/rmarkdown/man/word_document.Rd | 10 rmarkdown-1.7/rmarkdown/tests/testthat/test-formats.R | 23 + rmarkdown-1.7/rmarkdown/tests/testthat/test-ioslides.R | 124 ++++++++-- rmarkdown-1.7/rmarkdown/tests/testthat/test-params.R | 13 - 46 files changed, 690 insertions(+), 252 deletions(-)
Title: Furniture for Quantitative Scientists
Description: Contains three main functions (i.e., three pieces of furniture):
table1() which produces a well-formatted table of descriptives common as Table 1
in research articles, tableC() which produces a well-formatted table of correlations,
and washer() which is helpful in cleaning up the data. In addition,
long() and wide(), built on the stats::reshape(), can help reformat the data.
These furniture functions are designed to simplify common tasks in
quantitative analysis. Other data summary and cleaning tools are also available.
Author: Tyson S. Barrett [aut, cre] (0000-0002-2137-1391),
Emily Brignone [aut],
Daniel J. Laxman [aut]
Maintainer: Tyson S. Barrett <t.barrett@aggiemail.usu.edu>
Diff between furniture versions 1.6.0 dated 2017-09-16 and 1.7.2 dated 2017-11-10
furniture-1.6.0/furniture/man/table1_format_condense.Rd |only furniture-1.6.0/furniture/man/table1_format_nocondense.Rd |only furniture-1.6.0/furniture/man/table1_summarizing.Rd |only furniture-1.7.2/furniture/DESCRIPTION | 23 furniture-1.7.2/furniture/MD5 | 56 - furniture-1.7.2/furniture/NAMESPACE | 7 furniture-1.7.2/furniture/NEWS.md | 11 furniture-1.7.2/furniture/R/Table1.R | 626 +++----------- furniture-1.7.2/furniture/R/table1_utils.R |only furniture-1.7.2/furniture/R/tableF.R |only furniture-1.7.2/furniture/R/tableX.R |only furniture-1.7.2/furniture/R/table_cor.R | 39 furniture-1.7.2/furniture/R/utils.R |only furniture-1.7.2/furniture/R/washer.R | 2 furniture-1.7.2/furniture/R/zzz.R | 2 furniture-1.7.2/furniture/build/vignette.rds |binary furniture-1.7.2/furniture/inst/doc/Furniture.R | 48 - furniture-1.7.2/furniture/inst/doc/Furniture.Rmd | 89 + furniture-1.7.2/furniture/inst/doc/Furniture.html | 423 +++++++-- furniture-1.7.2/furniture/inst/doc/Table1.R | 22 furniture-1.7.2/furniture/inst/doc/Table1.Rmd | 44 furniture-1.7.2/furniture/inst/doc/Table1.html | 419 ++++----- furniture-1.7.2/furniture/man/figures |only furniture-1.7.2/furniture/man/selecting.Rd | 2 furniture-1.7.2/furniture/man/table1.Rd | 33 furniture-1.7.2/furniture/man/tableC.Rd | 7 furniture-1.7.2/furniture/man/tableF.Rd |only furniture-1.7.2/furniture/man/tableX.Rd |only furniture-1.7.2/furniture/man/washer.Rd | 2 furniture-1.7.2/furniture/tests/testthat/test_table1.R | 26 furniture-1.7.2/furniture/tests/testthat/test_tableF.R |only furniture-1.7.2/furniture/tests/testthat/test_tableX.R |only furniture-1.7.2/furniture/vignettes/Furniture.Rmd | 89 + furniture-1.7.2/furniture/vignettes/Table1.Rmd | 44 34 files changed, 1135 insertions(+), 879 deletions(-)
Title: Multivariate Exploratory Data Analysis and Data Mining
Description: Exploratory data analysis methods to summarize, visualize and describe datasets. The main principal component methods are available, those with the largest potential in terms of applications: principal component analysis (PCA) when variables are quantitative, correspondence analysis (CA) and multiple correspondence analysis (MCA) when variables are categorical, Multiple Factor Analysis when variables are structured in groups, etc. and hierarchical cluster analysis. F. Husson, S. Le and J. Pages (2017) <DOI:10.1201/b10345-2>.
Author: Francois Husson, Julie Josse, Sebastien Le, Jeremy Mazet
Maintainer: Francois Husson <francois.husson@agrocampus-ouest.fr>
Diff between FactoMineR versions 1.38 dated 2017-10-07 and 1.39 dated 2017-11-10
FactoMineR-1.38/FactoMineR/inst/doc/FactoMineR.html |only FactoMineR-1.39/FactoMineR/DESCRIPTION | 10 ++++---- FactoMineR-1.39/FactoMineR/MD5 | 23 +++++++++---------- FactoMineR-1.39/FactoMineR/R/MCA.R | 4 +-- FactoMineR-1.39/FactoMineR/R/MFA.R | 2 - FactoMineR-1.39/FactoMineR/R/plot.MFA.R | 10 +++----- FactoMineR-1.39/FactoMineR/build/vignette.rds |binary FactoMineR-1.39/FactoMineR/data/children.rda |binary FactoMineR-1.39/FactoMineR/data/poison.rda |binary FactoMineR-1.39/FactoMineR/data/poison.text.rda |binary FactoMineR-1.39/FactoMineR/inst/doc/FactoMineR.Rmd | 5 ++++ FactoMineR-1.39/FactoMineR/inst/doc/FactoMineR.pdf |only FactoMineR-1.39/FactoMineR/vignettes/FactoMineR.Rmd | 5 ++++ FactoMineR-1.39/FactoMineR/vignettes/FactoMineR.html |only 14 files changed, 34 insertions(+), 25 deletions(-)
More information about CoordinateCleaner at CRAN
Permanent link
Title: Function Collection Related to Plotting and Hydrology
Description: Draw horizontal histograms, color scattered points by 3rd dimension,
enhance date- and log-axis plots, zoom in X11 graphics, trace errors and warnings,
use the unit hydrograph in a linear storage cascade, convert lists to data.frames and arrays,
fit multiple functions.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>
Diff between berryFunctions versions 1.16.0 dated 2017-11-03 and 1.16.3 dated 2017-11-10
berryFunctions-1.16.0/berryFunctions/man/dataDWD.Rd |only berryFunctions-1.16.3/berryFunctions/DESCRIPTION | 8 - berryFunctions-1.16.3/berryFunctions/MD5 | 47 +++++----- berryFunctions-1.16.3/berryFunctions/NAMESPACE | 2 berryFunctions-1.16.3/berryFunctions/NEWS | 11 ++ berryFunctions-1.16.3/berryFunctions/R/berryFunctions-package.R | 20 ---- berryFunctions-1.16.3/berryFunctions/R/combineFiles.R | 3 berryFunctions-1.16.3/berryFunctions/R/createPres.R | 2 berryFunctions-1.16.3/berryFunctions/R/exTime.R | 4 berryFunctions-1.16.3/berryFunctions/R/exp4p.R | 3 berryFunctions-1.16.3/berryFunctions/R/gof.R | 4 berryFunctions-1.16.3/berryFunctions/R/lsc.R | 5 - berryFunctions-1.16.3/berryFunctions/R/newFilename.R | 4 berryFunctions-1.16.3/berryFunctions/R/normalizePathCP.R |only berryFunctions-1.16.3/berryFunctions/R/seasonality.R | 2 berryFunctions-1.16.3/berryFunctions/R/timer.R | 4 berryFunctions-1.16.3/berryFunctions/inst/doc/berryFunctions.html | 4 berryFunctions-1.16.3/berryFunctions/man/berryFunctions-package.Rd | 7 - berryFunctions-1.16.3/berryFunctions/man/combineFiles.Rd | 2 berryFunctions-1.16.3/berryFunctions/man/createPres.Rd | 2 berryFunctions-1.16.3/berryFunctions/man/exp4p.Rd | 3 berryFunctions-1.16.3/berryFunctions/man/gof.Rd | 4 berryFunctions-1.16.3/berryFunctions/man/lsc.Rd | 5 - berryFunctions-1.16.3/berryFunctions/man/normalizePathCP.Rd |only berryFunctions-1.16.3/berryFunctions/man/seasonality.Rd | 2 berryFunctions-1.16.3/berryFunctions/man/timer.Rd | 4 26 files changed, 79 insertions(+), 73 deletions(-)
More information about berryFunctions at CRAN
Permanent link
Title: Suite of GR Hydrological Models for Precipitation-Runoff
Modelling
Description: Hydrological modelling tools developed at Irstea-Antony (HBAN Research Unit, France). The package includes several conceptual rainfall-runoff models (GR4H, GR4J, GR5J, GR6J, GR2M, GR1A), a snow accumulation and melt model (CemaNeige) and the associated functions for their calibration and evaluation. Use help(airGR) for package description.
Author: Laurent Coron [aut, trl],
Charles Perrin [aut, ths],
Olivier Delaigue [aut, cre],
Guillaume Thirel [aut],
Claude Michel [aut, ths],
Vazken Andréassian [ctb, ths],
François Bourgin [ctb] ('Parameter estimation' vignettes),
Pierre Brigode [ctb],
Nicolas Le Moine [ctb],
Thibaut Mathevet [ctb],
Safouane Mouelhi [ctb],
Ludovic Oudin [ctb],
Raji Pushpalatha [ctb],
Audrey Valéry [ctb]
Maintainer: Olivier Delaigue <airGR@irstea.fr>
Diff between airGR versions 1.0.5.12 dated 2017-01-23 and 1.0.9.64 dated 2017-11-10
airGR-1.0.5.12/airGR/NEWS |only airGR-1.0.5.12/airGR/inst/doc/airGR.R |only airGR-1.0.5.12/airGR/inst/doc/airGR.Rmd |only airGR-1.0.5.12/airGR/inst/doc/airGR.html |only airGR-1.0.5.12/airGR/vignettes/airGR.Rmd |only airGR-1.0.9.64/airGR/DESCRIPTION | 28 airGR-1.0.9.64/airGR/MD5 | 168 ++- airGR-1.0.9.64/airGR/NAMESPACE | 3 airGR-1.0.9.64/airGR/R/Calibration_Michel.R | 9 airGR-1.0.9.64/airGR/R/CreateCalibOptions.R | 466 +++++++--- airGR-1.0.9.64/airGR/R/CreateIniStates.R |only airGR-1.0.9.64/airGR/R/CreateInputsCrit.R | 166 ++- airGR-1.0.9.64/airGR/R/CreateInputsModel.R | 424 ++++++--- airGR-1.0.9.64/airGR/R/CreateRunOptions.R | 152 ++- airGR-1.0.9.64/airGR/R/DataAltiExtrapolation_Valery.R | 248 +++-- airGR-1.0.9.64/airGR/R/ErrorCrit_KGE.R | 18 airGR-1.0.9.64/airGR/R/ErrorCrit_KGE2.R | 20 airGR-1.0.9.64/airGR/R/RunModel.R | 5 airGR-1.0.9.64/airGR/R/RunModel_CemaNeige.R | 16 airGR-1.0.9.64/airGR/R/RunModel_CemaNeigeGR4J.R | 48 - airGR-1.0.9.64/airGR/R/RunModel_CemaNeigeGR5J.R | 43 airGR-1.0.9.64/airGR/R/RunModel_CemaNeigeGR6J.R | 52 - airGR-1.0.9.64/airGR/R/RunModel_GR1A.R | 9 airGR-1.0.9.64/airGR/R/RunModel_GR2M.R | 31 airGR-1.0.9.64/airGR/R/RunModel_GR4H.R | 34 airGR-1.0.9.64/airGR/R/RunModel_GR4J.R | 40 airGR-1.0.9.64/airGR/R/RunModel_GR5J.R | 39 airGR-1.0.9.64/airGR/R/RunModel_GR6J.R | 42 airGR-1.0.9.64/airGR/R/TransfoParam.R | 5 airGR-1.0.9.64/airGR/R/TransfoParam_CemaNeige.R | 48 - airGR-1.0.9.64/airGR/R/TransfoParam_GR1A.R | 45 - airGR-1.0.9.64/airGR/R/TransfoParam_GR2M.R | 51 - airGR-1.0.9.64/airGR/R/plot.OutputsModel.R | 668 ++++++++------- airGR-1.0.9.64/airGR/R/plot_OutputsModel.R | 4 airGR-1.0.9.64/airGR/build/vignette.rds |binary airGR-1.0.9.64/airGR/data/Param_Sets_GR4J.rda |only airGR-1.0.9.64/airGR/inst/CITATION | 55 - airGR-1.0.9.64/airGR/inst/NEWS.Rd |only airGR-1.0.9.64/airGR/inst/doc/V01_get_started.R |only airGR-1.0.9.64/airGR/inst/doc/V01_get_started.Rmd |only airGR-1.0.9.64/airGR/inst/doc/V01_get_started.html |only airGR-1.0.9.64/airGR/inst/doc/V02.1_param_optim.R |only airGR-1.0.9.64/airGR/inst/doc/V02.1_param_optim.Rmd |only airGR-1.0.9.64/airGR/inst/doc/V02.1_param_optim.html |only airGR-1.0.9.64/airGR/inst/doc/V02.2_param_mcmc.R |only airGR-1.0.9.64/airGR/inst/doc/V02.2_param_mcmc.Rmd |only airGR-1.0.9.64/airGR/inst/doc/V02.2_param_mcmc.html |only airGR-1.0.9.64/airGR/inst/doc/V03_param_sets_GR4J.R |only airGR-1.0.9.64/airGR/inst/doc/V03_param_sets_GR4J.Rmd |only airGR-1.0.9.64/airGR/inst/doc/V03_param_sets_GR4J.html |only airGR-1.0.9.64/airGR/man/BasinInfo.Rd | 15 airGR-1.0.9.64/airGR/man/BasinObs.Rd | 18 airGR-1.0.9.64/airGR/man/Calibration.Rd | 31 airGR-1.0.9.64/airGR/man/Calibration_Michel.Rd | 38 airGR-1.0.9.64/airGR/man/CreateCalibOptions.Rd | 32 airGR-1.0.9.64/airGR/man/CreateIniStates.Rd |only airGR-1.0.9.64/airGR/man/CreateInputsCrit.Rd | 28 airGR-1.0.9.64/airGR/man/CreateInputsModel.Rd | 28 airGR-1.0.9.64/airGR/man/CreateRunOptions.Rd | 78 + airGR-1.0.9.64/airGR/man/DataAltiExtrapolation_Valery.Rd | 28 airGR-1.0.9.64/airGR/man/ErrorCrit.Rd | 18 airGR-1.0.9.64/airGR/man/ErrorCrit_KGE.Rd | 36 airGR-1.0.9.64/airGR/man/ErrorCrit_KGE2.Rd | 36 airGR-1.0.9.64/airGR/man/ErrorCrit_NSE.Rd | 28 airGR-1.0.9.64/airGR/man/ErrorCrit_RMSE.Rd | 26 airGR-1.0.9.64/airGR/man/PEdaily_Oudin.Rd | 20 airGR-1.0.9.64/airGR/man/Param_Sets_GR4J.Rd |only airGR-1.0.9.64/airGR/man/RunModel.Rd | 22 airGR-1.0.9.64/airGR/man/RunModel_CemaNeige.Rd | 53 - airGR-1.0.9.64/airGR/man/RunModel_CemaNeigeGR4J.Rd | 36 airGR-1.0.9.64/airGR/man/RunModel_CemaNeigeGR5J.Rd | 36 airGR-1.0.9.64/airGR/man/RunModel_CemaNeigeGR6J.Rd | 100 +- airGR-1.0.9.64/airGR/man/RunModel_GR1A.Rd | 29 airGR-1.0.9.64/airGR/man/RunModel_GR2M.Rd | 30 airGR-1.0.9.64/airGR/man/RunModel_GR4H.Rd | 32 airGR-1.0.9.64/airGR/man/RunModel_GR4J.Rd | 40 airGR-1.0.9.64/airGR/man/RunModel_GR5J.Rd | 36 airGR-1.0.9.64/airGR/man/RunModel_GR6J.Rd | 56 - airGR-1.0.9.64/airGR/man/SeriesAggreg.Rd | 26 airGR-1.0.9.64/airGR/man/TransfoParam.Rd | 48 - airGR-1.0.9.64/airGR/man/TransfoParam_CemaNeige.Rd | 48 - airGR-1.0.9.64/airGR/man/TransfoParam_GR1A.Rd | 18 airGR-1.0.9.64/airGR/man/TransfoParam_GR2M.Rd | 16 airGR-1.0.9.64/airGR/man/TransfoParam_GR4H.Rd | 16 airGR-1.0.9.64/airGR/man/TransfoParam_GR4J.Rd | 48 - airGR-1.0.9.64/airGR/man/TransfoParam_GR5J.Rd | 48 - airGR-1.0.9.64/airGR/man/TransfoParam_GR6J.Rd | 48 - airGR-1.0.9.64/airGR/man/airGR.Rd | 41 airGR-1.0.9.64/airGR/man/plot.OutputsModel.Rd | 43 airGR-1.0.9.64/airGR/src/airGR.c |only airGR-1.0.9.64/airGR/src/frun_GR4H.f | 2 airGR-1.0.9.64/airGR/src/frun_GR4J.f | 27 airGR-1.0.9.64/airGR/src/frun_GR5J.f | 33 airGR-1.0.9.64/airGR/src/frun_GR6J.f | 49 - airGR-1.0.9.64/airGR/vignettes/V00_airgr_ref.bib |only airGR-1.0.9.64/airGR/vignettes/V01_get_started.Rmd |only airGR-1.0.9.64/airGR/vignettes/V02.1_param_optim.Rmd |only airGR-1.0.9.64/airGR/vignettes/V02.2_param_mcmc.Rmd |only airGR-1.0.9.64/airGR/vignettes/V03_param_sets_GR4J.Rmd |only 99 files changed, 2992 insertions(+), 1386 deletions(-)
Title: Inference Using Simulation
Description: Implements functions for simulation-based inference. In particular, implements functions to perform likelihood inference from data summaries whose distributions are simulated (Rousset et al. 2017 <doi:10.1111/1755-0998.12627>).
Author: François Rousset [aut, cre, cph]
Maintainer: François Rousset <francois.rousset@umontpellier.fr>
Diff between Infusion versions 1.1.0 dated 2017-03-24 and 1.1.8 dated 2017-11-10
DESCRIPTION | 17 +++++++-------- MD5 | 51 +++++++++++++++++++++++---------------------- NAMESPACE | 10 ++++---- R/Infusion_internals.R |only R/MSL.R | 18 +++++++-------- R/Rmixmod.R | 2 - R/SLikSQuant.R | 27 +++++++++++++++++------ R/add_simulation.R | 2 - R/check_logLs_input.R | 2 - R/confintLR.SLik.R | 4 +-- R/coresWrapper.R |only R/generate_data.R |only R/infer_logLs.R | 53 +++++++++++++++++++++-------------------------- R/infer_surface.R | 7 +++--- R/jointDens.R | 4 +-- R/newParameters.R | 20 ++++++++--------- R/plotProfiles.R | 4 +-- R/profile.R | 21 +++++++++++------- R/project.R | 5 ++-- R/quantiles.R | 51 ++++++++++++++++++++++++++++++++++----------- R/undocumentedFns.R | 16 +++++++------- data/densb.RData |binary data/densv.RData |binary inst/NEWS.Rd | 12 ++++++++++ man/Infusion-internal.Rd | 51 ++++++++++++++++++++------------------------- man/infer_logLs.Rd | 7 +++++- man/options.Rd | 5 ---- man/project.Rd | 1 28 files changed, 222 insertions(+), 168 deletions(-)
Title: A Suite of Checks for Identification of Potential Errors in a
Data Frame as Part of the Data Screening Process
Description: Data screening is an important first step of any statistical
analysis. dataMaid autogenerates a customizable data report with a thorough
summary of the checks and the results that a human can use to identify possible
errors. It provides an extendable suite of test for common potential
errors in a dataset.
Author: Anne Helby Petersen [aut],
Claus Thorn Ekstrøm [aut, cre]
Maintainer: Claus Thorn Ekstrøm <ekstrom@sund.ku.dk>
Diff between dataMaid versions 0.9.2 dated 2017-01-02 and 1.0.0 dated 2017-11-10
dataMaid-0.9.2/dataMaid/man/isEmpty.Rd |only dataMaid-1.0.0/dataMaid/DESCRIPTION | 41 - dataMaid-1.0.0/dataMaid/MD5 | 189 +++--- dataMaid-1.0.0/dataMaid/NAMESPACE | 30 dataMaid-1.0.0/dataMaid/R/aggregateForBarplot.R |only dataMaid-1.0.0/dataMaid/R/aggregateForHistogram.R |only dataMaid-1.0.0/dataMaid/R/allCheckFunctions.R | 2 dataMaid-1.0.0/dataMaid/R/allSummaryFunctions.R | 2 dataMaid-1.0.0/dataMaid/R/allVisualFunctions.R | 3 dataMaid-1.0.0/dataMaid/R/basicVisual.R | 36 - dataMaid-1.0.0/dataMaid/R/centralValue.R | 8 dataMaid-1.0.0/dataMaid/R/check.R | 186 ++++-- dataMaid-1.0.0/dataMaid/R/checkFunction.R | 10 dataMaid-1.0.0/dataMaid/R/clean.R | 453 ++++++++++++--- dataMaid-1.0.0/dataMaid/R/countMissing.R | 4 dataMaid-1.0.0/dataMaid/R/dataMaid-package.R | 88 ++ dataMaid-1.0.0/dataMaid/R/identifyCaseIssues.R | 22 dataMaid-1.0.0/dataMaid/R/identifyLoners.R | 19 dataMaid-1.0.0/dataMaid/R/identifyMissing.R | 34 - dataMaid-1.0.0/dataMaid/R/identifyNums.R | 24 dataMaid-1.0.0/dataMaid/R/identifyOutliers.R | 19 dataMaid-1.0.0/dataMaid/R/identifyOutliersTBStyle.R | 17 dataMaid-1.0.0/dataMaid/R/identifyWhitespace.R | 20 dataMaid-1.0.0/dataMaid/R/isCPR.R | 8 dataMaid-1.0.0/dataMaid/R/isEmpty.R | 59 - dataMaid-1.0.0/dataMaid/R/isKey.R | 2 dataMaid-1.0.0/dataMaid/R/isSingular.R |only dataMaid-1.0.0/dataMaid/R/isSupported.R |only dataMaid-1.0.0/dataMaid/R/makeDataReport.R |only dataMaid-1.0.0/dataMaid/R/messageGenerator.R | 129 ++-- dataMaid-1.0.0/dataMaid/R/minMax.R | 25 dataMaid-1.0.0/dataMaid/R/quartiles.R | 2 dataMaid-1.0.0/dataMaid/R/render.R | 2 dataMaid-1.0.0/dataMaid/R/setChecks.R |only dataMaid-1.0.0/dataMaid/R/setSummaries.R |only dataMaid-1.0.0/dataMaid/R/setVisuals.R |only dataMaid-1.0.0/dataMaid/R/smartNum.R | 11 dataMaid-1.0.0/dataMaid/R/standardVisual.R | 70 ++ dataMaid-1.0.0/dataMaid/R/summarize.R | 299 ++++++++- dataMaid-1.0.0/dataMaid/R/summaryFunction.R | 10 dataMaid-1.0.0/dataMaid/R/summaryResult.R | 21 dataMaid-1.0.0/dataMaid/R/uniqueValues.R | 19 dataMaid-1.0.0/dataMaid/R/variableType.R | 4 dataMaid-1.0.0/dataMaid/R/visualFunction.R | 8 dataMaid-1.0.0/dataMaid/R/visualize.R | 123 ++-- dataMaid-1.0.0/dataMaid/build |only dataMaid-1.0.0/dataMaid/data/artData.rda |only dataMaid-1.0.0/dataMaid/data/presidentData.rda |only dataMaid-1.0.0/dataMaid/data/toyData.RData |binary dataMaid-1.0.0/dataMaid/inst |only dataMaid-1.0.0/dataMaid/man/allCheckFunctions.Rd | 2 dataMaid-1.0.0/dataMaid/man/allSummaryFunctions.Rd | 2 dataMaid-1.0.0/dataMaid/man/allVisualFunctions.Rd | 2 dataMaid-1.0.0/dataMaid/man/artData.Rd |only dataMaid-1.0.0/dataMaid/man/basicVisual.Rd | 2 dataMaid-1.0.0/dataMaid/man/check.Rd | 38 - dataMaid-1.0.0/dataMaid/man/checkFunction.Rd | 10 dataMaid-1.0.0/dataMaid/man/clean.Rd | 53 + dataMaid-1.0.0/dataMaid/man/countMissing.Rd | 2 dataMaid-1.0.0/dataMaid/man/defaultCharacterChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultCharacterSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/defaultDateChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultDateSummaries.Rd | 12 dataMaid-1.0.0/dataMaid/man/defaultFactorChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultFactorSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/defaultIntegerChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultIntegerSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/defaultLabelledChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultLabelledSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/defaultLogicalChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultLogicalSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/defaultNumericChecks.Rd | 11 dataMaid-1.0.0/dataMaid/man/defaultNumericSummaries.Rd | 15 dataMaid-1.0.0/dataMaid/man/exampleData.Rd | 2 dataMaid-1.0.0/dataMaid/man/identifyCaseIssues.Rd | 8 dataMaid-1.0.0/dataMaid/man/identifyLoners.Rd | 7 dataMaid-1.0.0/dataMaid/man/identifyMissing.Rd | 7 dataMaid-1.0.0/dataMaid/man/identifyNums.Rd | 11 dataMaid-1.0.0/dataMaid/man/identifyOutliers.Rd | 6 dataMaid-1.0.0/dataMaid/man/identifyOutliersTBStyle.Rd | 7 dataMaid-1.0.0/dataMaid/man/identifyWhitespace.Rd | 8 dataMaid-1.0.0/dataMaid/man/isCPR.Rd | 4 dataMaid-1.0.0/dataMaid/man/isKey.Rd | 2 dataMaid-1.0.0/dataMaid/man/isSingular.Rd |only dataMaid-1.0.0/dataMaid/man/isSupported.Rd |only dataMaid-1.0.0/dataMaid/man/makeDataReport.Rd |only dataMaid-1.0.0/dataMaid/man/messageGenerator.Rd | 18 dataMaid-1.0.0/dataMaid/man/minMax.Rd | 2 dataMaid-1.0.0/dataMaid/man/presidentData.Rd |only dataMaid-1.0.0/dataMaid/man/render.Rd | 2 dataMaid-1.0.0/dataMaid/man/setChecks.Rd |only dataMaid-1.0.0/dataMaid/man/setSummaries.Rd |only dataMaid-1.0.0/dataMaid/man/setVisuals.Rd |only dataMaid-1.0.0/dataMaid/man/standardVisual.Rd | 2 dataMaid-1.0.0/dataMaid/man/summarize.Rd | 41 + dataMaid-1.0.0/dataMaid/man/summaryFunction.Rd | 10 dataMaid-1.0.0/dataMaid/man/testData.Rd | 2 dataMaid-1.0.0/dataMaid/man/toyData.Rd | 20 dataMaid-1.0.0/dataMaid/man/variableType.Rd | 4 dataMaid-1.0.0/dataMaid/man/visualFunction.Rd | 8 dataMaid-1.0.0/dataMaid/man/visualize.Rd | 47 - dataMaid-1.0.0/dataMaid/tests |only dataMaid-1.0.0/dataMaid/vignettes |only 103 files changed, 1774 insertions(+), 733 deletions(-)