Title: Turner Miscellaneous
Description: Miscellaneous utility functions for data manipulation,
data tidying, and working with gene expression data.
Author: Stephen Turner [aut, cre]
Maintainer: Stephen Turner <vustephen@gmail.com>
Diff between Tmisc versions 0.1.14 dated 2017-05-08 and 0.1.15 dated 2017-05-16
DESCRIPTION | 6 +++--- MD5 | 8 +++++--- NAMESPACE | 1 + NEWS.md | 4 ++++ R/mat2df.R |only man/mat2df.Rd |only 6 files changed, 13 insertions(+), 6 deletions(-)
Title: Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment,
Peak Based Processing, Quantitative Analysis and Visualizations
Description: The speaq package is meant to make Nuclear Magnetic Resonance spectroscopy (NMR spectroscopy) data analysis as easy as possible by only requiring a small set of functions to perform an entire analysis. speaq offers the possibility of raw spectra alignment and quantitation but also an analysis based on features whereby the spectra are converted to peaks which are then grouped and turned into features. These features can be processed with any number of statistical tools either included in speaq or available elsewhere on CRAN.
Author: Charlie Beirnaert, Trung Nghia Vu, Pieter Meysman, Kris Laukens and Dirk Valkenborg
Maintainer: Charlie Beirnaert <charlie_beirnaert@icloud.com>
Diff between speaq versions 1.2.3 dated 2017-02-27 and 2.0.0 dated 2017-05-16
speaq-1.2.3/speaq/NEWS |only speaq-1.2.3/speaq/inst/doc/speaq.R |only speaq-1.2.3/speaq/inst/doc/speaq.Rnw |only speaq-1.2.3/speaq/inst/doc/speaq.pdf |only speaq-1.2.3/speaq/man/speaq-package.Rd |only speaq-1.2.3/speaq/vignettes/speaq.Rnw |only speaq-2.0.0/speaq/DESCRIPTION | 30 + speaq-2.0.0/speaq/MD5 | 109 ++++-- speaq-2.0.0/speaq/NAMESPACE | 72 ++++ speaq-2.0.0/speaq/NEWS.md |only speaq-2.0.0/speaq/R/AddPlottingStuff.R |only speaq-2.0.0/speaq/R/BWR.R | 99 ++++-- speaq-2.0.0/speaq/R/BuildFeatureMatrix.R |only speaq-2.0.0/speaq/R/BuildRawDataMatrix.R |only speaq-2.0.0/speaq/R/GetWinedata.subset.R |only speaq-2.0.0/speaq/R/PeakFilling.R |only speaq-2.0.0/speaq/R/PeakGrouper.R |only speaq-2.0.0/speaq/R/ROIplot.R |only speaq-2.0.0/speaq/R/SCANT.R |only speaq-2.0.0/speaq/R/SilhouetR.R |only speaq-2.0.0/speaq/R/Winedata.R |only speaq-2.0.0/speaq/R/createNullSampling.R | 95 ++++-- speaq-2.0.0/speaq/R/detectSpecPeaks.R | 122 ++++--- speaq-2.0.0/speaq/R/doShift.R | 46 ++ speaq-2.0.0/speaq/R/dohCluster.R | 268 +++++++++-------- speaq-2.0.0/speaq/R/dohClusterCustommedSegments.R | 180 +++++++---- speaq-2.0.0/speaq/R/drawBW.R | 90 ++++- speaq-2.0.0/speaq/R/drawSpec.R | 72 +++- speaq-2.0.0/speaq/R/drawSpecPPM.R |only speaq-2.0.0/speaq/R/findRef.R | 70 +++- speaq-2.0.0/speaq/R/findSegPeakList.R | 45 ++ speaq-2.0.0/speaq/R/findShiftStepFFT.R | 122 ++++--- speaq-2.0.0/speaq/R/getWaveletPeaks.R |only speaq-2.0.0/speaq/R/hClustAlign.R | 227 ++++++++------ speaq-2.0.0/speaq/R/hclust.grouping.R |only speaq-2.0.0/speaq/R/makeSimulatedData.R | 244 ++++++++------- speaq-2.0.0/speaq/R/regroupR.R |only speaq-2.0.0/speaq/R/relevant.features.p.R |only speaq-2.0.0/speaq/R/returnLocalMaxima.R | 33 +- speaq-2.0.0/speaq/build/vignette.rds |binary speaq-2.0.0/speaq/data |only speaq-2.0.0/speaq/inst/doc/classic_speaq_vignette.R |only speaq-2.0.0/speaq/inst/doc/classic_speaq_vignette.Rmd |only speaq-2.0.0/speaq/inst/doc/classic_speaq_vignette.html |only speaq-2.0.0/speaq/inst/doc/speaq2_illustrations.R |only speaq-2.0.0/speaq/inst/doc/speaq2_illustrations.Rmd |only speaq-2.0.0/speaq/inst/doc/speaq2_illustrations.html |only speaq-2.0.0/speaq/man/AddPlottingStuff.Rd |only speaq-2.0.0/speaq/man/BWR.Rd | 64 +--- speaq-2.0.0/speaq/man/BuildFeatureMatrix.Rd |only speaq-2.0.0/speaq/man/BuildRawDataMatrix.Rd |only speaq-2.0.0/speaq/man/GetWinedata.subset.Rd |only speaq-2.0.0/speaq/man/PeakFilling.Rd |only speaq-2.0.0/speaq/man/PeakGrouper.Rd |only speaq-2.0.0/speaq/man/ROIplot.Rd |only speaq-2.0.0/speaq/man/SCANT.Rd |only speaq-2.0.0/speaq/man/SilhouetR.Rd |only speaq-2.0.0/speaq/man/Winedata.Rd |only speaq-2.0.0/speaq/man/createNullSampling.Rd | 71 +--- speaq-2.0.0/speaq/man/detectSpecPeaks.Rd | 76 +--- speaq-2.0.0/speaq/man/doShift.Rd | 50 +-- speaq-2.0.0/speaq/man/dohCluster.Rd | 92 +---- speaq-2.0.0/speaq/man/dohClusterCustommedSegments.Rd | 154 +++------ speaq-2.0.0/speaq/man/drawBW.Rd | 122 ++----- speaq-2.0.0/speaq/man/drawSpec.Rd | 119 ++----- speaq-2.0.0/speaq/man/drawSpecPPM.Rd |only speaq-2.0.0/speaq/man/findRef.Rd | 66 +--- speaq-2.0.0/speaq/man/findSegPeakList.Rd | 73 +--- speaq-2.0.0/speaq/man/findShiftStepFFT.Rd | 68 +--- speaq-2.0.0/speaq/man/getWaveletPeaks.Rd |only speaq-2.0.0/speaq/man/hClustAlign.Rd | 118 ++----- speaq-2.0.0/speaq/man/hclust.grouping.Rd |only speaq-2.0.0/speaq/man/makeSimulatedData.Rd | 39 +- speaq-2.0.0/speaq/man/regroupR.Rd |only speaq-2.0.0/speaq/man/relevant.features.p.Rd |only speaq-2.0.0/speaq/man/returnLocalMaxima.Rd | 41 -- speaq-2.0.0/speaq/vignettes/classic_speaq_vignette.Rmd |only speaq-2.0.0/speaq/vignettes/speaq2_illustrations.Rmd |only 78 files changed, 1672 insertions(+), 1405 deletions(-)
More information about sensitivitymult at CRAN
Permanent link
Title: Penalized Quantile Regression
Description: Performs penalized quantile regression for LASSO, SCAD and MCP functions including group penalties. Provides a function that automatically generates lambdas and evaluates different models with cross validation or BIC, including a large p version of BIC.
Author: Ben Sherwood [aut, cre], Adam Maidman [ctb]
Maintainer: Ben Sherwood <ben.sherwood@ku.edu>
Diff between rqPen versions 1.5.1 dated 2016-11-04 and 2.0 dated 2017-05-16
rqPen-1.5.1/rqPen/R/Adamsfunc.R |only rqPen-1.5.1/rqPen/man/groupQICD.Rd |only rqPen-2.0/rqPen/DESCRIPTION | 9 rqPen-2.0/rqPen/LICENSE | 2 rqPen-2.0/rqPen/MD5 | 39 +- rqPen-2.0/rqPen/NAMESPACE | 16 rqPen-2.0/rqPen/NEWS | 7 rqPen-2.0/rqPen/R/QICD_functions.R |only rqPen-2.0/rqPen/R/mainFunctions.R | 282 +++++++++----- rqPen-2.0/rqPen/R/workHorse.R | 228 ++++------- rqPen-2.0/rqPen/man/LASSO.fit.Rd |only rqPen-2.0/rqPen/man/LASSO.fit.nonpen.Rd |only rqPen-2.0/rqPen/man/QICD.Rd | 68 +-- rqPen-2.0/rqPen/man/QICD.group.Rd |only rqPen-2.0/rqPen/man/QICD.master.Rd |only rqPen-2.0/rqPen/man/QICD.nonpen.Rd |only rqPen-2.0/rqPen/man/cv.rq.group.pen.Rd | 2 rqPen-2.0/rqPen/man/groupMultLambda.Rd | 3 rqPen-2.0/rqPen/man/qaSIS.Rd |only rqPen-2.0/rqPen/man/rq.group.fit.Rd | 4 rqPen-2.0/rqPen/man/rq.group.lin.prog.Rd | 3 rqPen-2.0/rqPen/man/rq.lasso.fit.Rd | 4 rqPen-2.0/rqPen/man/rq.nc.fit.Rd | 2 rqPen-2.0/rqPen/man/rqPen-package.Rd |only rqPen-2.0/rqPen/src/QCD.cpp | 604 ++++++++----------------------- rqPen-2.0/rqPen/src/rqPen_init.c |only 26 files changed, 537 insertions(+), 736 deletions(-)
Title: Embedded Conic Solver in R
Description: R interface to the Embedded COnic Solver (ECOS), an efficient
and robust C library for convex problems. Conic and equality
constraints can be specified in addition to integer and
boolean variable constraints for mixed-integer problems. This
R interface is inspired by the python interface and has
similar calling conventions.
Author: Anqi Fu [aut],
Balasubramanian Narasimhan [aut, cre]
Maintainer: Balasubramanian Narasimhan <naras@stat.Stanford.EDU>
Diff between ECOSolveR versions 0.2 dated 2015-11-27 and 0.3 dated 2017-05-16
DESCRIPTION | 16 ++++---- MD5 | 17 ++++---- README.md | 9 +++- build/vignette.rds |binary inst/doc/examples.html | 94 ++++++++++++++++++++++++++++++++++++++++--------- man/ECOS_csolve.Rd | 2 - man/ECOSolveR.Rd | 3 - man/ecos.control.Rd | 1 src/ecos/__.SYMDEF |binary src/ecosolver_init.c |only 10 files changed, 103 insertions(+), 39 deletions(-)
Title: Time-Weighted Dynamic Time Warping for Satellite Image Time
Series Analysis
Description: Provides an implementation of the Time-Weighted Dynamic Time
Warping (TWDTW) method for land cover mapping using satellite image time series.
TWDTW is based on the Dynamic Time Warping technique and has achieved high
accuracy for land cover classification using satellite data. The method is
based on comparing unclassified satellite image time series with a set of known
temporal patterns (e.g. phenological cycles associated with the vegetation).
Using 'dtwSat' the user can build temporal patterns for land cover types, apply
the TWDTW analysis for satellite datasets, visualize the results of the time
series analysis, produce land cover maps, create temporal plots for land cover
change, and compute accuracy assessment metrics.
Author: Victor Maus [aut, cre],
Marius Appel [ctb],
Toni Giorgino [ctb]
Maintainer: Victor Maus <vwmaus1@gmail.com>
Diff between dtwSat versions 0.2.2 dated 2017-03-31 and 0.2.3 dated 2017-05-16
DESCRIPTION | 10 MD5 | 73 +- NAMESPACE | 1 NEWS.md | 10 R/plotAccuracy.R | 1 R/plotAlignments.R | 4 R/plotClassification.R | 1 R/plotPatterns.R | 4 R/plotTimeSeries.R | 4 R/twdtwDist.R |only R/twdtwXtable.R | 27 R/zzz.R | 12 inst/CITATION | 6 inst/doc/applying_twdtw.R | 233 ++++--- inst/doc/applying_twdtw.Rmd | 297 ++++------ inst/doc/applying_twdtw.pdf |binary inst/doc/images_array.pdf |binary inst/doc/images_ts.pdf |binary inst/doc/references.bib | 21 man/twdtwXtable.Rd | 6 vignettes/applying_twdtw.Rmd | 297 ++++------ vignettes/applying_twdtw_files/figure-latex/alignments-all-patterns-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/example-timeseries-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/logist-time-weight-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-accuracy-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-area-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-area-and-uncertainty-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-change-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-dissmilarity-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-dissmilarity2008-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-map-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/plot-map-incorrect-samples-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/temporal-patterns-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/temporal-patterns-soy-cot-mai-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/time-series-classification-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/twdtw-example-1.pdf |binary vignettes/applying_twdtw_files/figure-latex/twdtw-matches-1.pdf |binary vignettes/references.bib | 21 38 files changed, 528 insertions(+), 500 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-03-07 0.2.0
Title: Article Formats for R Markdown
Description: A suite of custom R Markdown formats and templates for
authoring journal articles and conference submissions.
Author: JJ Allaire [aut, cre],
R Foundation [aut, cph],
Hadley Wickham [aut],
Journal of Statistical Software [aut, cph],
Yihui Xie [aut],
RStudio [cph],
Ramnath Vaidyanathan [aut, cph],
Association for Computing Machinery [aut, cph],
Carl Boettiger [aut, cph],
Elsevier [aut, cph],
Karl Broman [aut, cph],
Kirill Mueller [aut, cph],
Bastiaan Quast [aut, cph],
Randall Pruim [aut, cph],
Ben Marwick [aut, cph],
Charlotte Wickham [aut, cph],
Oliver Keyes [aut, cph],
Miao Yu [aut, cph]
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between rticles versions 0.4 dated 2017-05-15 and 0.4.1 dated 2017-05-16
DESCRIPTION | 6 +-- MD5 | 22 ++++++------ R/asa_article.R | 4 +- R/jss_article.R | 4 +- R/rss_article.R | 5 +- R/sim_article.R | 6 +-- inst/rmarkdown/templates/sim_article/resources/template.tex | 2 - inst/rmarkdown/templates/sim_article/skeleton/skeleton.Rmd | 2 - man/asa_article.Rd | 5 ++ man/jss_article.Rd | 5 ++ man/rss_article.Rd | 5 ++ man/sim_article.Rd | 9 ++++ 12 files changed, 46 insertions(+), 29 deletions(-)
Title: Read Rectangular Text Data
Description: The goal of 'readr' is to provide a fast and friendly way to read
rectangular data (like 'csv', 'tsv', and 'fwf'). It is designed to flexibly
parse many types of data found in the wild, while still cleanly failing when
data unexpectedly changes.
Author: Hadley Wickham [aut],
Jim Hester [aut, cre],
Romain Francois [aut],
R Core Team [ctb] (Date time code adapted from R),
RStudio [cph, fnd],
Jukka Jylänki [ctb, cph] (grisu3 implementation),
Mikkel Jørgensen [ctb, cph] (grisu3 implementation)
Maintainer: Jim Hester <james.hester@rstudio.com>
Diff between readr versions 1.1.0 dated 2017-03-22 and 1.1.1 dated 2017-05-16
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ NEWS.md | 6 ++++++ inst/doc/locales.html | 6 +++--- inst/doc/readr.html | 18 +++++++++--------- src/localtime.c | 2 ++ tests/testthat/test-read-fwf.R | 5 ++--- 7 files changed, 31 insertions(+), 24 deletions(-)
Title: Person-Centered Analysis
Description: Provides an easy-to-use yet adaptable set of tools to conduct person-center analysis using a two-step clustering procedure. As described in Bergman and El-Khouri (1999) <DOI:10.1002/(SICI)1521-4036(199910)41:6%3C753::AID-BIMJ753%3E3.0.CO;2-K>, hierarchical clustering is performed to determine the initial partition for the subsequent k-means clustering procedure.
Author: person("Joshua", "M.", "Rosenberg", role = c("aut", "cre"), email = "jmichaelrosenberg@gmail.com")
Maintainer: Joshua Rosenberg <jmichaelrosenberg@gmail.com>
Diff between prcr versions 0.1.2 dated 2017-04-27 and 0.1.3 dated 2017-05-16
DESCRIPTION | 8 +- MD5 | 14 ++-- R/functions.R | 128 ++++++++++++++++++++++--------------- inst/doc/introduction_to_prcr.R | 6 + inst/doc/introduction_to_prcr.Rmd | 8 +- inst/doc/introduction_to_prcr.html | 120 ++++++++++++++++++++++------------ man/create_profiles.Rd | 14 ++-- vignettes/introduction_to_prcr.Rmd | 8 +- 8 files changed, 187 insertions(+), 119 deletions(-)
Title: Less Code, More Results
Description: Each function accomplishes the work of several or more standard R functions. For example, two function calls, Read() and CountAll(), read the data and generate summary statistics for all variables in the data frame, plus histograms and bar charts as appropriate. Other functions provide for descriptive statistics, a comprehensive regression analysis, analysis of variance and t-test, plotting, bar chart, histogram, box plot, density curves, calibrated power curve, reading multiple data formats with the same function call, variable labels, color themes, Trellis graphics and a built-in help system. A confirmatory factor analysis of multiple indicator measurement models is available, as are pedagogical routines for data simulation such as for the Central Limit Theorem. Compatible with 'RStudio' and 'knitr' including generation of R markdown instructions for interpretative output.
Author: David W. Gerbing, School of Business Administration, Portland State University
Maintainer: David W. Gerbing <gerbing@pdx.edu>
Diff between lessR versions 3.6.0 dated 2017-03-31 and 3.6.2 dated 2017-05-16
lessR-3.6.0/lessR/R/global.R |only lessR-3.6.0/lessR/R/hst.zlattice.R |only lessR-3.6.0/lessR/R/theme.R |only lessR-3.6.0/lessR/man/global.Rd |only lessR-3.6.2/lessR/DESCRIPTION | 8 lessR-3.6.2/lessR/MD5 | 163 +++++++------- lessR-3.6.2/lessR/NAMESPACE | 6 lessR-3.6.2/lessR/NEWS | 70 ++++++ lessR-3.6.2/lessR/R/ANOVAz1.R | 23 +- lessR-3.6.2/lessR/R/BarChart.R | 166 ++++++++++----- lessR-3.6.2/lessR/R/BoxPlot.R | 26 +- lessR-3.6.2/lessR/R/Correlation.R | 18 - lessR-3.6.2/lessR/R/Density.R | 38 +-- lessR-3.6.2/lessR/R/Help.R | 65 +++-- lessR-3.6.2/lessR/R/Histogram.R | 93 ++++---- lessR-3.6.2/lessR/R/LineChart.R | 23 +- lessR-3.6.2/lessR/R/Logit.R | 2 lessR-3.6.2/lessR/R/PieChart.R | 12 - lessR-3.6.2/lessR/R/Plot.R | 319 ++++++++++++++++------------- lessR-3.6.2/lessR/R/Recode.R | 6 lessR-3.6.2/lessR/R/SummaryStats.R | 18 - lessR-3.6.2/lessR/R/VariableLabels.R | 10 lessR-3.6.2/lessR/R/bar.zlattice.R |only lessR-3.6.2/lessR/R/bc.data.frame.R | 25 +- lessR-3.6.2/lessR/R/bc.zmain.R | 163 +++++++------- lessR-3.6.2/lessR/R/bx.zmain.R | 32 ++ lessR-3.6.2/lessR/R/corScree.R | 23 +- lessR-3.6.2/lessR/R/cr.data.frame.R | 4 lessR-3.6.2/lessR/R/details.R | 2 lessR-3.6.2/lessR/R/dn.zmain.R | 16 + lessR-3.6.2/lessR/R/dp.zmain.R | 34 +-- lessR-3.6.2/lessR/R/dpmat.zmain.R | 27 +- lessR-3.6.2/lessR/R/hst.stats.R | 5 lessR-3.6.2/lessR/R/hst.zmain.R | 42 +-- lessR-3.6.2/lessR/R/label.R | 6 lessR-3.6.2/lessR/R/lc.zmain.R | 24 +- lessR-3.6.2/lessR/R/logit.z4Pred.R | 24 +- lessR-3.6.2/lessR/R/pc.zmain.R | 60 +++-- lessR-3.6.2/lessR/R/plt.by.zlegend.R | 2 lessR-3.6.2/lessR/R/plt.zbad.R | 39 +++ lessR-3.6.2/lessR/R/plt.zlattice.R | 169 ++++++++------- lessR-3.6.2/lessR/R/plt.zlegend.R | 2 lessR-3.6.2/lessR/R/plt.zmain.R | 241 ++++++++++++--------- lessR-3.6.2/lessR/R/plt.zmat.R | 24 +- lessR-3.6.2/lessR/R/plt.ztxt.R | 44 ++-- lessR-3.6.2/lessR/R/reg.z2Relations.R | 14 - lessR-3.6.2/lessR/R/reg.z3dnResidual.R | 6 lessR-3.6.2/lessR/R/reg.z3resfitResidual.R | 23 +- lessR-3.6.2/lessR/R/reg.z5Plot.R | 30 +- lessR-3.6.2/lessR/R/set.R | 4 lessR-3.6.2/lessR/R/simCLT.R | 6 lessR-3.6.2/lessR/R/ss.znumeric.R | 10 lessR-3.6.2/lessR/R/style.R |only lessR-3.6.2/lessR/R/tt.z1graph.R | 51 ++-- lessR-3.6.2/lessR/R/tt.z1group.R | 8 lessR-3.6.2/lessR/R/tt.z2graph.R | 39 ++- lessR-3.6.2/lessR/R/tt.z2group.R | 36 +-- lessR-3.6.2/lessR/R/tt.zformula.R | 5 lessR-3.6.2/lessR/R/ttest.R | 16 - lessR-3.6.2/lessR/R/ttp2zgraph.R | 17 - lessR-3.6.2/lessR/R/values.R | 10 lessR-3.6.2/lessR/R/zzz.R | 236 +++++++++++++-------- lessR-3.6.2/lessR/man/ANOVA.Rd | 2 lessR-3.6.2/lessR/man/BarChart.Rd | 106 +++++---- lessR-3.6.2/lessR/man/BoxPlot.Rd | 30 +- lessR-3.6.2/lessR/man/Density.Rd | 22 -- lessR-3.6.2/lessR/man/Help.Rd | 2 lessR-3.6.2/lessR/man/Histogram.Rd | 91 ++++---- lessR-3.6.2/lessR/man/LineChart.Rd | 39 +-- lessR-3.6.2/lessR/man/Logit.Rd | 4 lessR-3.6.2/lessR/man/Merge.Rd | 2 lessR-3.6.2/lessR/man/Model.Rd | 2 lessR-3.6.2/lessR/man/PieChart.Rd | 4 lessR-3.6.2/lessR/man/Plot.Rd | 251 ++++++++++++---------- lessR-3.6.2/lessR/man/Read.Rd | 2 lessR-3.6.2/lessR/man/Recode.Rd | 2 lessR-3.6.2/lessR/man/Regression.Rd | 14 - lessR-3.6.2/lessR/man/Sort.Rd | 2 lessR-3.6.2/lessR/man/Subset.Rd | 2 lessR-3.6.2/lessR/man/SummaryStats.Rd | 2 lessR-3.6.2/lessR/man/Transform.Rd | 2 lessR-3.6.2/lessR/man/VariableLabels.Rd | 14 - lessR-3.6.2/lessR/man/corCFA.Rd | 4 lessR-3.6.2/lessR/man/corProp.Rd | 2 lessR-3.6.2/lessR/man/style.Rd |only lessR-3.6.2/lessR/man/ttest.Rd | 2 86 files changed, 1848 insertions(+), 1340 deletions(-)
Title: Kiener Distributions and Fat Tails in Finance
Description: Kiener distributions K1, K2, K3, K4 and K7 to characterize
distributions with left and right, symmetric or asymmetric fat tails in market
finance, neuroscience and other disciplines. Two algorithms to estimate with
a high accuracy distribution parameters, quantiles, value-at-risk and expected
shortfall. Include power hyperbolas and power hyperbolic functions.
Author: Patrice Kiener
Maintainer: Patrice Kiener <fattailsr@inmodelia.com>
Diff between FatTailsR versions 1.7-0 dated 2016-05-15 and 1.7-5 dated 2017-05-16
DESCRIPTION | 10 MD5 | 88 ++-- NEWS | 19 R/a_FatTailsR-package.R | 4 R/b_data.R | 164 +++---- R/j_kiener7.R | 986 ++++++++++++++++++++++++------------------------ R/k_kienerES.R | 372 +++++++++--------- data/datalist | 1 data/mData.rda |only inst/CITATION | 2 man/FatTailsR.Rd | 7 man/aw2k.Rd | 7 man/checkcoefk.Rd | 1 man/checkquantiles.Rd | 1 man/ckiener1234.Rd | 11 man/dfData.Rd | 5 man/dimdim.Rd | 1 man/elevate.Rd | 1 man/elevenprobs.Rd | 3 man/estimkiener11.Rd | 3 man/exfit0.Rd | 1 man/exphp.Rd | 9 man/extractData.Rd | 44 +- man/fatreturns.Rd | 1 man/fitkienerX.Rd | 3 man/getDSdata.Rd | 1 man/getnamesk.Rd | 1 man/kashp.Rd | 5 man/kiener1.Rd | 19 man/kiener2.Rd | 19 man/kiener3.Rd | 19 man/kiener4.Rd | 19 man/kiener7.Rd | 19 man/kmoments.Rd | 14 man/laplacegaussnorm.Rd | 1 man/loghp.Rd | 9 man/logishp.Rd | 15 man/logit.Rd | 5 man/mData.Rd |only man/pk2pk.Rd | 1 man/pprobs0.Rd | 1 man/regkienerLX.Rd | 1 man/roundcoefk.Rd | 1 man/tData.Rd | 5 man/xData.Rd | 5 man/zData.Rd | 5 46 files changed, 947 insertions(+), 962 deletions(-)
Title: Computations over Distributed Data without Aggregation
Description: Implementing algorithms and fitting models when sites (possibly remote) share
computation summaries rather than actual data over HTTP with a master R process (using
'opencpu', for example). A stratified Cox model and a singular value decomposition are
provided. The former makes direct use of code from the R 'survival' package. (That is,
the underlying Cox model code is derived from that in the R 'survival' package.)
Sites may provide data via several means: CSV files, Redcap API, etc. An extensible
design allows for new methods to be added in the future. Web applications are provided
(via 'shiny') for the implemented methods to help in designing and deploying the
computations.
Author: Balasubramanian Narasimhan [aut, cre],
Marina Bendersky [aut],
Sam Gross [aut],
Terry M. Therneau [ctb],
Thomas Lumley [ctb]
Maintainer: Balasubramanian Narasimhan <naras@stat.Stanford.EDU>
Diff between distcomp versions 1.0 dated 2017-04-27 and 1.0-1 dated 2017-05-16
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- README.md | 3 ++- 3 files changed, 8 insertions(+), 7 deletions(-)
Title: Statistical Analysis of Chemistry, Histopathology, and
Reproduction Endpoints Including Repeated Measures and
Multi-Generation Studies
Description: A front end for the statistical analyses involved in the tier II endocrine
disruptor screening program. The analyses available to this package are:
Rao-Scott adjusted Cochran-Armitage test for trend By Slices (RSCABS),
a Standard Cochran-Armitage test for trend By Slices (SCABS),
mixed effects Cox proportional model, Jonckheere-Terpstra step down trend test
Dunn test, one way ANOVA, weighted ANOVA, mixed effects ANOVA, repeated
measures ANOVA, and Dunnett test.
Author: Joe Swintek [aut, cre],
Kevin Flynn [ctb],
Jon Haselman [ctb]
Maintainer: Joe Swintek <swintek.joe@epa.gov>
Diff between StatCharrms versions 0.90.2 dated 2017-05-15 and 0.90.3 dated 2017-05-16
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- inst/doc/StatCharrms.Rnw | 6 +++--- inst/doc/StatCharrms.pdf |binary vignettes/StatCharrms.Rnw | 6 +++--- vignettes/StatCharrms.tex | 6 +++--- 6 files changed, 18 insertions(+), 18 deletions(-)
Title: High Dimensional Locally-Linear Mapping
Description: Provides a tool for non linear mapping (non linear regression) using a mixture of regression model and an inverse regression strategy. The methods include the GLLiM model (see Deleforge et al (2015) <DOI:10.1007/s11222-014-9461-5>) based on Gaussian mixtures and a robust version of GLLiM, named SLLiM (see Perthame et al (2016) <https://hal.archives-ouvertes.fr/hal-01347455>) based on a mixture of Generalized Student distributions. The methods also include BLLiM (see Devijver et al (2017) <https://arxiv.org/abs/1701.07899>) which is an extension of GLLiM with a sparse block diagonal structure for large covariance matrices (particularly interesting for transcriptomic data).
Author: Emeline Perthame (emeline.perthame@inria.fr), Florence Forbes (florence.forbes@inria.fr), Antoine Deleforge (antoine.deleforge@inria.fr), Emilie Devijver (emilie.devijver@kuleuven.be), Melina Gallopin (melina.gallopin@u-psud.fr)
Maintainer: Emeline Perthame <emeline.perthame@pasteur.fr>
Diff between xLLiM versions 1.0 dated 2016-12-05 and 2.0 dated 2017-05-16
DESCRIPTION | 15 +++---- MD5 | 30 ++++++++------ NAMESPACE | 7 ++- R/bllim.R |only R/covParBloc.R |only R/gllim.R | 82 +++++++++++++++++++-------------------- R/sllim.R | 31 ++++++++------ R/thresholdAbsPath2.R |only man/bllim.Rd |only man/data.xllim.Rd | 20 ++++----- man/data.xllim.test.Rd | 2 man/data.xllim.trueparameters.Rd | 10 ++-- man/emgm.Rd | 12 ++--- man/gllim.Rd | 42 ++++++++++--------- man/gllim_inverse_map.Rd | 38 +++++++++++------- man/sllim.Rd | 41 +++++++++---------- man/sllim_inverse_map.Rd | 20 ++++----- man/xLLiM-package.Rd | 46 +++++++++++---------- 18 files changed, 213 insertions(+), 183 deletions(-)
Title: A Collection of Tools for Working with Time Series in R
Description: Get the time series index, signature, and summary from time series objects and
time-based tibbles. Create future time series based on properties of
existing time series index.
Coerce between time-based tibbles ('tbl') and 'xts', 'zoo', and 'ts'.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between timekit versions 0.2.0 dated 2017-04-30 and 0.3.0 dated 2017-05-16
DESCRIPTION | 18 MD5 | 42 + NEWS.md | 12 R/global_vars.R | 2 R/tk_get_timeseries.R | 8 R/tk_make_timeseries.R | 300 ++++++++++--- README.md | 92 ++- build/vignette.rds |binary inst/doc/TK00_Time_Series_Coercion.html | 108 ++-- inst/doc/TK01_Working_With_Time_Series_Index.R | 23 inst/doc/TK01_Working_With_Time_Series_Index.Rmd | 57 -- inst/doc/TK01_Working_With_Time_Series_Index.html | 128 +---- inst/doc/TK02_Making_A_Future_Time_Series_Index.R |only inst/doc/TK02_Making_A_Future_Time_Series_Index.Rmd |only inst/doc/TK02_Making_A_Future_Time_Series_Index.html |only inst/doc/TK03_Forecasting_Using_Time_Series_Signature.R |only inst/doc/TK03_Forecasting_Using_Time_Series_Signature.Rmd |only inst/doc/TK03_Forecasting_Using_Time_Series_Signature.html |only man/tk_make_future_timeseries.Rd | 51 +- tests/testthat/test_tk_augment_timeseries.R | 9 tests/testthat/test_tk_get_timeseries.R | 10 tests/testthat/test_tk_make_future_timeseries.R | 155 ++++++ tools/bikes_forecast.png |only vignettes/TK01_Working_With_Time_Series_Index.Rmd | 57 -- vignettes/TK02_Making_A_Future_Time_Series_Index.Rmd |only vignettes/TK03_Forecasting_Using_Time_Series_Signature.Rmd |only vignettes/day.csv |only 27 files changed, 651 insertions(+), 421 deletions(-)
Title: Log-Linear Poisson Graphical Model with Hot-Deck Multiple
Imputation
Description: Infer log-linear Poisson Graphical Model with an auxiliary data
set. Hot-deck multiple imputation method is used to improve the reliability
of the inference with an auxiliary dataset. Standard log-linear Poisson
graphical model can also be used for the inference and the Stability
Approach for Regularization Selection (StARS) is implemented to drive the
selection of the regularization parameter.
Author: Alyssa Imbert [aut],
Nathalie Villa-Vialaneix [aut, cre]
Maintainer: Nathalie Villa-Vialaneix <nathalie.villa-vialaneix@inra.fr>
Diff between RNAseqNet versions 0.1.0 dated 2017-04-19 and 0.1.1 dated 2017-05-16
DESCRIPTION | 14 ++++++----- MD5 | 53 ++++++++++++++++++++++++++------------------- NAMESPACE | 3 ++ NEWS | 18 +++++++++++++++ R/data.R | 2 - R/donors.R | 21 +++++++---------- R/main.R | 51 +++++++++++++++++++++++++------------------ R/poisson_net.R | 4 ++- R/user_guide.R |only README.md | 6 +++-- build |only inst/CITATION | 10 ++++---- inst/doc |only man/GLMnetToGraph.Rd | 30 +++++++++++++------------ man/GLMnetwork.Rd | 9 +++---- man/GLMpath.Rd | 9 +++---- man/HDImputed.Rd | 11 ++++----- man/HDpath.Rd | 11 ++++----- man/RNAseqNetUsersGuide.Rd |only man/chooseSigma.Rd | 16 +++++-------- man/imputeHD.Rd | 16 +++++-------- man/imputedGLMnetwork.Rd | 12 ++++------ man/lung.Rd | 1 man/stabilitySelection.Rd | 12 +++++----- man/stars.Rd | 11 ++++----- man/thyroid.Rd | 3 -- man/varIntra.Rd | 16 +++++-------- vignettes |only 28 files changed, 184 insertions(+), 155 deletions(-)
Title: Accesses the Monkeylearn API for Text Classifiers and Extractors
Description: Allows using some services of Monkeylearn <http://monkeylearn.com/> which is
a Machine Learning platform on the cloud for text analysis (classification and extraction).
Author: Maëlle Salmon [aut, cre],
Thomas Leeper [ctb] (Thomas Leeper reviewed the package for rOpenSci,
see https://github.com/ropensci/onboarding/issues/45),
Jeroen Ooms [ctb]
Maintainer: Maëlle Salmon <maelle.salmon@yahoo.se>
Diff between monkeylearn versions 0.1.1 dated 2016-09-11 and 0.1.3 dated 2017-05-16
monkeylearn-0.1.1/monkeylearn/inst/doc/monkeylearn_and_gutenbergr.R |only monkeylearn-0.1.1/monkeylearn/inst/doc/monkeylearn_and_gutenbergr.Rmd |only monkeylearn-0.1.1/monkeylearn/inst/doc/monkeylearn_and_gutenbergr.html |only monkeylearn-0.1.1/monkeylearn/vignettes/monkeylearn_and_gutenbergr.Rmd |only monkeylearn-0.1.3/monkeylearn/DESCRIPTION | 21 +- monkeylearn-0.1.3/monkeylearn/MD5 | 31 +-- monkeylearn-0.1.3/monkeylearn/NEWS.md |only monkeylearn-0.1.3/monkeylearn/R/classify.R | 86 +++++----- monkeylearn-0.1.3/monkeylearn/R/extractor.R | 73 +++++--- monkeylearn-0.1.3/monkeylearn/R/utils.R | 34 ++- monkeylearn-0.1.3/monkeylearn/build/vignette.rds |binary monkeylearn-0.1.3/monkeylearn/man/monkeylearn_classifiers.Rd | 1 monkeylearn-0.1.3/monkeylearn/man/monkeylearn_classify.Rd | 1 monkeylearn-0.1.3/monkeylearn/man/monkeylearn_extract.Rd | 1 monkeylearn-0.1.3/monkeylearn/man/monkeylearn_key.Rd | 37 ++-- monkeylearn-0.1.3/monkeylearn/tests/testthat.R | 12 - monkeylearn-0.1.3/monkeylearn/tests/testthat/test_output.R | 6 monkeylearn-0.1.3/monkeylearn/tests/testthat/test_text_size.R | 24 ++ monkeylearn-0.1.3/monkeylearn/vignettes/monkeylearn_intro.Rmd | 32 --- 19 files changed, 190 insertions(+), 169 deletions(-)
Title: Interface to the Geoparser.io API for Identifying and
Disambiguating Places Mentioned in Text
Description: A wrapper for the Geoparser.io API version 0.4.0 (see <https://geoparser.io/>), which is a web service
that identifies places mentioned in text, disambiguates those places, and
returns detailed data about the places found in the text. Basic, limited
API access is free with paid plans to accommodate larger workloads.
Author: Maëlle Salmon [aut, cre],
Bob Rudis [ctb] (Bob Rudis reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/43)
Maintainer: Maëlle Salmon <maelle.salmon@yahoo.se>
Diff between geoparser versions 0.1.0 dated 2016-07-05 and 0.1.1 dated 2017-05-16
DESCRIPTION | 12 +++++------ MD5 | 16 +++++++-------- NEWS.md | 7 +----- README.md | 18 ++++++++--------- inst/doc/geoparser.Rmd | 9 ++++++++ inst/doc/geoparser.html | 49 +++++++++++++++++++++++++++++++++++------------- man/geoparser_key.Rd | 1 man/geoparser_q.Rd | 1 vignettes/geoparser.Rmd | 9 ++++++++ 9 files changed, 79 insertions(+), 43 deletions(-)
Title: Text Corpus Analysis
Description: Text corpus data analysis, with full support for Unicode text. The package provides the ability to seamlessly read and process text from large JSON files without holding all of the data in memory simultaneously.
Author: Patrick O. Perry [aut, cre],
Martin Porter and Richard Boulton [ctb, cph] (Snowball),
Unicode, Inc. [ctb, cph] (Unicode Character Database)
Maintainer: Patrick O. Perry <pperry@stern.nyu.edu>
Diff between corpus versions 0.3.1 dated 2017-05-05 and 0.4.0 dated 2017-05-16
corpus-0.3.1/corpus/src/corpus/lib/strntod_c.c |only corpus-0.3.1/corpus/src/corpus/src/xalloc.c |only corpus-0.3.1/corpus/src/corpus/src/xalloc.h |only corpus-0.3.1/corpus/src/text_proc.c |only corpus-0.4.0/corpus/DESCRIPTION | 10 corpus-0.4.0/corpus/MD5 | 147 +- corpus-0.4.0/corpus/R/jsondata.R | 39 corpus-0.4.0/corpus/R/text-proc.R | 29 corpus-0.4.0/corpus/man/read_ndjson.Rd | 50 corpus-0.4.0/corpus/man/tokens.Rd | 25 corpus-0.4.0/corpus/src/Makevars | 15 corpus-0.4.0/corpus/src/corpus/Makefile | 188 +- corpus-0.4.0/corpus/src/corpus/NEWS.md | 17 corpus-0.4.0/corpus/src/corpus/corpus.xcodeproj/project.pbxproj | 36 corpus-0.4.0/corpus/src/corpus/lib/strntod.c |only corpus-0.4.0/corpus/src/corpus/lib/strntoimax.c | 4 corpus-0.4.0/corpus/src/corpus/src/array.c | 39 corpus-0.4.0/corpus/src/corpus/src/array.h | 9 corpus-0.4.0/corpus/src/corpus/src/census.c | 110 - corpus-0.4.0/corpus/src/corpus/src/census.h | 31 corpus-0.4.0/corpus/src/corpus/src/data.c | 216 +-- corpus-0.4.0/corpus/src/corpus/src/data.h | 86 - corpus-0.4.0/corpus/src/corpus/src/datatype.c | 666 +++++----- corpus-0.4.0/corpus/src/corpus/src/datatype.h | 90 - corpus-0.4.0/corpus/src/corpus/src/error.c | 28 corpus-0.4.0/corpus/src/corpus/src/error.h | 32 corpus-0.4.0/corpus/src/corpus/src/filebuf.c | 95 - corpus-0.4.0/corpus/src/corpus/src/filebuf.h | 27 corpus-0.4.0/corpus/src/corpus/src/main.c | 46 corpus-0.4.0/corpus/src/corpus/src/main_get.c | 61 corpus-0.4.0/corpus/src/corpus/src/main_scan.c | 51 corpus-0.4.0/corpus/src/corpus/src/main_sentences.c | 68 - corpus-0.4.0/corpus/src/corpus/src/main_tokens.c | 105 - corpus-0.4.0/corpus/src/corpus/src/memory.c |only corpus-0.4.0/corpus/src/corpus/src/memory.h |only corpus-0.4.0/corpus/src/corpus/src/private |only corpus-0.4.0/corpus/src/corpus/src/render.c | 100 - corpus-0.4.0/corpus/src/corpus/src/render.h | 53 corpus-0.4.0/corpus/src/corpus/src/sentscan.c | 64 corpus-0.4.0/corpus/src/corpus/src/sentscan.h | 41 corpus-0.4.0/corpus/src/corpus/src/symtab.c | 184 +- corpus-0.4.0/corpus/src/corpus/src/symtab.h | 52 corpus-0.4.0/corpus/src/corpus/src/table.c | 122 + corpus-0.4.0/corpus/src/corpus/src/table.h | 39 corpus-0.4.0/corpus/src/corpus/src/text.c | 225 +-- corpus-0.4.0/corpus/src/corpus/src/text.h | 51 corpus-0.4.0/corpus/src/corpus/src/token.c | 206 +-- corpus-0.4.0/corpus/src/corpus/src/token.h | 88 - corpus-0.4.0/corpus/src/corpus/src/unicode.c | 58 corpus-0.4.0/corpus/src/corpus/src/unicode.h | 120 - corpus-0.4.0/corpus/src/corpus/src/unicode/compose.h | 144 +- corpus-0.4.0/corpus/src/corpus/src/wordscan.c | 66 corpus-0.4.0/corpus/src/corpus/src/wordscan.h | 47 corpus-0.4.0/corpus/src/corpus/tests/check_census.c | 24 corpus-0.4.0/corpus/src/corpus/tests/check_data.c | 123 - corpus-0.4.0/corpus/src/corpus/tests/check_sentscan.c | 30 corpus-0.4.0/corpus/src/corpus/tests/check_symtab.c | 34 corpus-0.4.0/corpus/src/corpus/tests/check_text.c | 27 corpus-0.4.0/corpus/src/corpus/tests/check_token.c | 77 - corpus-0.4.0/corpus/src/corpus/tests/check_unicode.c | 116 - corpus-0.4.0/corpus/src/corpus/tests/check_wordscan.c | 30 corpus-0.4.0/corpus/src/corpus/tests/testutil.c | 16 corpus-0.4.0/corpus/src/corpus/tests/testutil.h | 18 corpus-0.4.0/corpus/src/corpus/util/gen-compose.py | 4 corpus-0.4.0/corpus/src/corpus/util/gen-stopwords.py |only corpus-0.4.0/corpus/src/decode.c | 120 - corpus-0.4.0/corpus/src/filebuf.c | 22 corpus-0.4.0/corpus/src/init.c | 2 corpus-0.4.0/corpus/src/json.c | 18 corpus-0.4.0/corpus/src/jsondata.c | 339 ++--- corpus-0.4.0/corpus/src/logging.c | 4 corpus-0.4.0/corpus/src/mkchar.c | 23 corpus-0.4.0/corpus/src/rcorpus.h | 47 corpus-0.4.0/corpus/src/schema.c | 20 corpus-0.4.0/corpus/src/sentences.c |only corpus-0.4.0/corpus/src/text.c | 55 corpus-0.4.0/corpus/src/text_filter.c | 35 corpus-0.4.0/corpus/src/text_methods.c | 20 corpus-0.4.0/corpus/src/tokens.c |only corpus-0.4.0/corpus/tests/testthat/test-read_ndjson.R | 2 80 files changed, 2821 insertions(+), 2365 deletions(-)
Title: Handling, Visualisation and Analysis of Epidemiological Contacts
Description: A collection of tools for representing epidemiological contact data, composed of case line lists and contacts between cases. Also contains procedures for data handling, interactive graphics, and statistics.
Author: VP Nagraj [aut, cre],
Thibaut Jombart [aut],
Nistara Randhawa [aut],
Bertrand Sudre [aut],
Finlay Campbell [aut],
Thomas Crellen [aut]
Maintainer: VP Nagraj <vpnagraj@virginia.edu>
Diff between epicontacts versions 1.0.0 dated 2017-04-27 and 1.0.1 dated 2017-05-16
DESCRIPTION | 10 - MD5 | 104 +++++++-------- NEWS.md | 16 ++ R/as.igraph.epicontacts.R | 2 R/get_clusters.R | 10 - R/get_degree.R | 6 R/get_id.R | 2 R/handling.R | 20 +-- R/make_epicontacts.R | 40 +++--- R/subset.epicontacts.R | 24 +-- R/subset_clusters_by_id.R | 2 R/subset_clusters_by_size.R | 2 R/thin.R | 8 - inst/doc/epicontacts.R | 2 inst/doc/epicontacts.Rmd | 2 inst/doc/epicontacts.html | 16 +- inst/doc/epicontacts_class.html | 30 ++-- man/as.igraph.epicontacts.Rd | 2 man/get_clusters.Rd | 4 man/get_degree.Rd | 2 man/get_id.Rd | 2 man/make_epicontacts.Rd | 4 man/sub-.epicontacts.Rd | 2 man/subset.epicontacts.Rd | 2 man/subset_clusters_by_id.Rd | 2 man/subset_clusters_by_size.Rd | 2 man/thin.Rd | 2 tests/testthat/rds/print1.rds |binary tests/testthat/rds/vis1.rds |binary tests/testthat/rds/vis2.rds |binary tests/testthat/rds/vis3.rds |binary tests/testthat/rds/vis4.rds |binary tests/testthat/rds/vis5.rds |binary tests/testthat/rds/vis6.rds |binary tests/testthat/rds/vis7.rds |binary tests/testthat/rds/z.rds |binary tests/testthat/rds/zz.rds |binary tests/testthat/test_as.igraph.epicontacts.R | 20 +-- tests/testthat/test_get_clusters.R | 54 ++++---- tests/testthat/test_get_degree.R | 36 ++--- tests/testthat/test_get_id.R | 4 tests/testthat/test_get_pairwise.R | 32 ++-- tests/testthat/test_graph3D.R | 36 ++--- tests/testthat/test_handling.R | 6 tests/testthat/test_make_epicontacts.R | 170 +++++++++++++++----------- tests/testthat/test_plot.epicontacts.R | 18 +- tests/testthat/test_print.epicontacts.R | 6 tests/testthat/test_subset.epicontacts.R | 28 ++-- tests/testthat/test_subset_clusters_by_id.R | 4 tests/testthat/test_subset_clusters_by_size.R | 6 tests/testthat/test_thin.R | 6 tests/testthat/test_vis_epicontacts.R | 4 vignettes/epicontacts.Rmd | 2 53 files changed, 402 insertions(+), 350 deletions(-)
Title: R Tools for Inferring New Immunoglobulin Alleles from Rep-Seq
Data
Description: Infers the V genotype of an individual from immunoglobulin (Ig)
repertoire-sequencing (Rep-Seq) data, including detection of any novel
alleles. This information is then used to correct existing V allele calls
from among the sample sequences.
Author: Daniel Gadala-Maria [aut, cre],
Jason Vander Heiden [ctb],
Steven Kleinstein [aut, cph]
Maintainer: Daniel Gadala-Maria <daniel.gadala-maria@yale.edu>
Diff between tigger versions 0.2.8 dated 2016-08-28 and 0.2.9.999 dated 2017-05-16
tigger-0.2.8/tigger/inst/staticdocs |only tigger-0.2.9.999/tigger/DESCRIPTION | 14 ++-- tigger-0.2.9.999/tigger/MD5 | 59 ++++++++--------- tigger-0.2.9.999/tigger/NEWS.md | 16 ++++ tigger-0.2.9.999/tigger/R/functions.R | 54 ++++++++++----- tigger-0.2.9.999/tigger/R/tigger.R | 4 - tigger-0.2.9.999/tigger/inst/doc/Tigger-Vignette.Rmd | 2 tigger-0.2.9.999/tigger/inst/doc/Tigger-Vignette.pdf |binary tigger-0.2.9.999/tigger/man/cleanSeqs.Rd | 1 tigger-0.2.9.999/tigger/man/findNovelAlleles.Rd | 3 tigger-0.2.9.999/tigger/man/findUnmutatedCalls.Rd | 2 tigger-0.2.9.999/tigger/man/genotype.Rd | 1 tigger-0.2.9.999/tigger/man/genotypeFasta.Rd | 1 tigger-0.2.9.999/tigger/man/germline_ighv.Rd | 1 tigger-0.2.9.999/tigger/man/getMutCount.Rd | 1 tigger-0.2.9.999/tigger/man/getMutatedPositions.Rd | 1 tigger-0.2.9.999/tigger/man/getPopularMutationCount.Rd | 1 tigger-0.2.9.999/tigger/man/inferGenotype.Rd | 1 tigger-0.2.9.999/tigger/man/insertPolymorphisms.Rd | 1 tigger-0.2.9.999/tigger/man/novel_df.Rd | 1 tigger-0.2.9.999/tigger/man/plotGenotype.Rd | 1 tigger-0.2.9.999/tigger/man/plotNovel.Rd | 1 tigger-0.2.9.999/tigger/man/readIgFasta.Rd | 1 tigger-0.2.9.999/tigger/man/reassignAlleles.Rd | 1 tigger-0.2.9.999/tigger/man/sample_db.Rd | 1 tigger-0.2.9.999/tigger/man/selectNovel.Rd | 1 tigger-0.2.9.999/tigger/man/sortAlleles.Rd | 1 tigger-0.2.9.999/tigger/man/tigger.Rd | 2 tigger-0.2.9.999/tigger/man/updateAlleleNames.Rd | 1 tigger-0.2.9.999/tigger/man/writeFasta.Rd | 1 tigger-0.2.9.999/tigger/vignettes/Tigger-Vignette.Rmd | 2 31 files changed, 92 insertions(+), 85 deletions(-)
Title: Predicted Values and Discrete Changes for GLM
Description: Functions to calculate predicted values and the difference between
the two cases with confidence interval for glm(), glm.nb(), polr() and multinom().
Author: Benjamin Schlegel [aut,cre]
Maintainer: Benjamin Schlegel <kontakt@benjaminschlegel.ch>
Diff between glm.predict versions 2.4-0 dated 2016-11-17 and 2.5-0 dated 2017-05-16
DESCRIPTION | 10 ++--- MD5 | 53 +++++++++++++------------- NAMESPACE | 2 - R/discrete.change.R | 79 ++++++++++++++++++++-------------------- R/discrete.changes.R | 33 +++------------- R/getDummies.R |only R/nominal_discrete.change.R | 6 ++- R/nominal_discrete.changes.R | 31 +++------------ R/ordinal_discrete.changes.R | 33 +++------------- R/ordinal_discrete_change.R | 5 ++ R/predict_glm.R | 5 ++ R/predict_multinom.R | 5 ++ R/predict_polr.R | 5 ++ R/predicts_glm.R | 23 +---------- R/predicts_multinom.R | 23 +---------- R/predicts_polr.R | 23 +---------- man/discrete.change.Rd | 6 ++- man/discrete.changes.Rd | 37 +++++++++++------- man/nominal_discrete.change.Rd | 5 ++ man/nominal_discrete.changes.Rd | 36 ++++++++++-------- man/ordinal_discrete.change.Rd | 5 ++ man/ordinal_discrete.changes.Rd | 36 ++++++++++-------- man/predict_glm.Rd | 5 ++ man/predict_multinom.Rd | 5 ++ man/predict_polr.Rd | 5 ++ man/predicts_glm.Rd | 37 +++++++++++------- man/predicts_multinom.Rd | 36 ++++++++++-------- man/predicts_polr.Rd | 36 ++++++++++-------- 28 files changed, 273 insertions(+), 312 deletions(-)
Title: Functions for Medical Statistics Book with some Demographic Data
Description: Several utility functions for the book entitled
"Practices of Medical and Health Data Analysis using R"
(Pearson Education Japan, 2007) with Japanese demographic
data and some demographic analysis related functions.
Author: Minato Nakazawa <minato-nakazawa@umin.net>
Maintainer: Minato Nakazawa <minato-nakazawa@umin.net>
Diff between fmsb versions 0.6.0 dated 2017-03-20 and 0.6.1 dated 2017-05-16
DESCRIPTION | 8 ++++---- MD5 | 11 +++++++---- NAMESPACE | 7 +++++-- NEWS | 6 ++++++ R/demogjpn.R | 33 +++++++++++++++++++++++++++++++-- man/CaretakerRatio.Rd |only man/IndexOfDissimilarity.Rd |only man/WhipplesIndex.Rd |only 8 files changed, 53 insertions(+), 12 deletions(-)
Title: Clustering and Visualization of Mixed-Type Data
Description: Provides utilities for clustering subjects and variables of mixed data types. Similarities between subjects are measured by Gower's general similarity coefficient with an extension of Podani for ordinal variables. Similarities between variables are assessed by combination of appropriate measures of association for different pairs of data types. Alternatively, variables can also be clustered by the 'ClustOfVar' approach. The main feature of the package is the generation of a mixed-data heatmap. For visualizing similarities between either subjects or variables, a heatmap of the corresponding distance matrix can be drawn. Associations between variables can be explored by a 'confounderPlot', which allows visual detection of possible confounding, collinear, or surrogate factors for some variables of primary interest. Distance matrices and dendrograms for subjects and variables can be derived and used for further visualizations and applications. This work was supported by BMBF grant 01ZX1609B, Germany.
Author: M. Hummel, D. Edelmann, A. Kopp-Schneider
Maintainer: Manuela Hummel <m.hummel@dkfz.de>
Diff between CluMix versions 1.3.1 dated 2016-12-29 and 2.0 dated 2017-05-16
DESCRIPTION | 12 ++++----- MD5 | 53 ++++++++++++++++++++++---------------------- NEWS | 12 ++++++++- R/confounderPlot.R | 10 +++++--- R/dendro.subjects.R | 4 +-- R/dendro.variables.R | 15 ++++++++---- R/dist.subjects.R | 6 ++-- R/dist.variables.R | 17 ++++++++++---- R/distcor.R |only R/distmap.R | 26 +++++++++++++++------ R/mix.heatmap.R | 17 +++++++------- R/similarity.subjects.R | 2 - R/similarity.variables.R | 14 +++++++++-- build/partial.rdb |binary inst/doc/CluMix.R | 18 ++++++++------ inst/doc/CluMix.Rnw | 39 +++++++++++++------------------- inst/doc/CluMix.pdf |binary man/CluMix-package.Rd | 4 ++- man/confounderPlot.Rd | 6 +++- man/dendro.subjects.Rd | 5 ++-- man/dendro.variables.Rd | 21 ++++++++++++----- man/dist.subjects.Rd | 5 ++-- man/dist.variables.Rd | 22 +++++++++++++----- man/distmap.Rd | 18 ++++++++++---- man/mix.heatmap.Rd | 20 ++++++++++++---- man/similarity.variables.Rd | 25 ++++++++++++++------ vignettes/CluMix.Rnw | 39 +++++++++++++------------------- vignettes/references.bib | 6 ++-- 28 files changed, 253 insertions(+), 163 deletions(-)
Title: Access OpenDota Services in R
Description: Provides a client for the API of OpenDota. OpenDota is a web service which is provide DOTA2 real time data. Data is collected through the Steam WebAPI. With ROpenDota you can easily grab the latest DOTA2 statistics in R programming such as latest match on official international competition, analyzing your or enemy performance to learn their strategies,etc. Please see <https://github.com/rosdyana/ROpenDota> for more information.
Author: Rosdyana Kusuma [aut, cre]
Maintainer: Rosdyana Kusuma <rosdyana.kusuma@gmail.com>
Diff between ROpenDota versions 0.1.0 dated 2017-05-04 and 0.1.1 dated 2017-05-16
DESCRIPTION | 6 +++--- MD5 | 38 +++++++++++++++++++++----------------- NAMESPACE | 1 + R/count_in_categories.R | 5 ++++- R/get_hero_benchmarks.R | 1 + R/get_hero_rankings.R | 1 + R/get_hero_stats.R | 1 + R/get_heroes.R | 1 + R/get_items.R |only R/get_match_details.R | 5 +++-- R/get_matches.R | 1 + R/get_played_heroes.R | 1 + R/get_played_with.R | 1 + R/get_player_ratings.R | 1 + R/get_player_recent_matches.R | 1 + R/get_player_summaries.R | 1 + R/get_wardmap.R | 1 + R/global.R |only R/top_player_by_hero.R | 1 + R/total_stats.R | 1 + README.md |only man/get_items.Rd |only 22 files changed, 45 insertions(+), 23 deletions(-)
Title: A Package to Test for Pleiotropic Effects
Description: Performs genetic association tests between SNPs
(one-at-a-time) and multiple phenotypes (separately or in joint
model).
Author: Lachlan Coin, Paul O'Reilly, Yotsawat Pompyen, Clive Hoggart
and Federico Calboli
Maintainer: Lachlan Coin <l.coin@imb.uq.edu.au>
Diff between MultiPhen versions 2.0.1 dated 2015-07-06 and 2.0.2 dated 2017-05-16
MultiPhen-2.0.1/MultiPhen/vignettes/ALL.chr21.integrated_phase1_v3.20101123.snps_indels_svs.genotypes_extract.vcf.gz |only MultiPhen-2.0.1/MultiPhen/vignettes/ALL.chr21.integrated_phase1_v3.20101123.snps_indels_svs.genotypes_extract.zip |only MultiPhen-2.0.2/MultiPhen/DESCRIPTION | 10 ++++---- MultiPhen-2.0.2/MultiPhen/MD5 | 12 ++++------ MultiPhen-2.0.2/MultiPhen/R/mPhen.R | 2 - MultiPhen-2.0.2/MultiPhen/build/vignette.rds |binary MultiPhen-2.0.2/MultiPhen/inst/doc/MultiPhen.pdf |binary MultiPhen-2.0.2/MultiPhen/man/read.plink.Rd | 4 +-- 8 files changed, 13 insertions(+), 15 deletions(-)
Title: R Interface to the 'LTP'-Cloud Service
Description: R interface to the 'LTP'-Cloud service for Natural Language Processing
in Chinese (http://www.ltp-cloud.com/).
Author: Tong He [aut, cre], Oliver Keyes [ctb]
Maintainer: Tong He <hetong007@gmail.com>
Diff between rLTP versions 0.1.2 dated 2015-07-05 and 0.1.3 dated 2017-05-16
rLTP-0.1.2/rLTP/R/isBIG5.R |only rLTP-0.1.2/rLTP/R/isGB18030.R |only rLTP-0.1.2/rLTP/R/isGB2312.R |only rLTP-0.1.2/rLTP/R/isGBK.R |only rLTP-0.1.2/rLTP/R/isUTF8.R |only rLTP-0.1.2/rLTP/R/rLTP-package.r |only rLTP-0.1.2/rLTP/README.md |only rLTP-0.1.3/rLTP/DESCRIPTION | 18 ++++----- rLTP-0.1.3/rLTP/MD5 | 44 ++++++++++-------------- rLTP-0.1.3/rLTP/NAMESPACE | 5 +- rLTP-0.1.3/rLTP/R/commLTP.R | 4 +- rLTP-0.1.3/rLTP/R/encoding_check.R |only rLTP-0.1.3/rLTP/R/ltp.R | 10 ++--- rLTP-0.1.3/rLTP/R/rLTP-package.R |only rLTP-0.1.3/rLTP/man/isBIG5.Rd | 7 ++- rLTP-0.1.3/rLTP/man/isGB18030.Rd | 11 +++--- rLTP-0.1.3/rLTP/man/isGB2312.Rd | 11 +++--- rLTP-0.1.3/rLTP/man/isGBK.Rd | 7 ++- rLTP-0.1.3/rLTP/man/isUTF8.Rd | 7 ++- rLTP-0.1.3/rLTP/man/ltp.Rd | 2 - rLTP-0.1.3/rLTP/man/rLTP.Rd | 4 +- rLTP-0.1.3/rLTP/man/toUTF8.Rd | 2 - rLTP-0.1.3/rLTP/src/init.c |only rLTP-0.1.3/rLTP/src/tmcn_encoding_isbig5.cpp | 9 +--- rLTP-0.1.3/rLTP/src/tmcn_encoding_isgb18030.cpp | 5 -- rLTP-0.1.3/rLTP/src/tmcn_encoding_isgb2312.cpp | 5 -- rLTP-0.1.3/rLTP/src/tmcn_encoding_isgbk.cpp | 5 -- rLTP-0.1.3/rLTP/src/tmcn_encoding_isutf8.cpp | 5 -- 28 files changed, 74 insertions(+), 87 deletions(-)
Title: Routines for Performing Empirical Calibration of Observational
Study Estimates
Description: Routines for performing empirical calibration of observational
study estimates. By using a set of negative control hypotheses we can
estimate the empirical null distribution of a particular observational
study setup. This empirical null distribution can be used to compute a
calibrated p-value, which reflects the probability of observing an
estimated effect size when the null hypothesis is true taking both random
and systematic error into account.
Author: Martijn Schuemie, Marc Suchard
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between EmpiricalCalibration versions 1.2.0 dated 2016-08-16 and 1.3.1 dated 2017-05-16
EmpiricalCalibration-1.2.0/EmpiricalCalibration/inst/doc/EmpiricalCalibrationVignette.R |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/inst/doc/EmpiricalCalibrationVignette.Rmd |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/inst/doc/EmpiricalCalibrationVignette.pdf |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/vignettes/EmpiricalCalibrationVignette.Rmd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/DESCRIPTION | 10 EmpiricalCalibration-1.3.1/EmpiricalCalibration/MD5 | 81 + EmpiricalCalibration-1.3.1/EmpiricalCalibration/NAMESPACE | 4 EmpiricalCalibration-1.3.1/EmpiricalCalibration/NEWS | 20 EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/ConfidenceIntervalCalibration.R | 171 +++ EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/Data.R | 77 + EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/EmpiricalCalibration.R | 2 EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/EmpiricalCalibrationUsingAsymptotics.R | 12 EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/EmpiricalCalibrationUsingMcmc.R | 4 EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/EmpiricalCalibrationUsingPLikelihood.R | 2 EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/Evaluation.R |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/Plots.R | 452 +++++++--- EmpiricalCalibration-1.3.1/EmpiricalCalibration/R/Simulation.R | 4 EmpiricalCalibration-1.3.1/EmpiricalCalibration/README.md | 10 EmpiricalCalibration-1.3.1/EmpiricalCalibration/build/vignette.rds |binary EmpiricalCalibration-1.3.1/EmpiricalCalibration/data/grahamReplication.rda |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/data/southworthReplication.rda |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalCiCalibrationVignette.R |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalCiCalibrationVignette.Rmd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalCiCalibrationVignette.pdf |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalPCalibrationVignette.R |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalPCalibrationVignette.Rmd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/inst/doc/EmpiricalPCalibrationVignette.pdf |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/EmpiricalCalibration.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/calibrateConfidenceInterval.Rd | 4 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/calibrateP.Rd | 9 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/caseControl.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/cohortMethod.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/computeTraditionalCi.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/computeTraditionalP.Rd | 3 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/evaluateCiCalibration.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/fitMcmcNull.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/fitNull.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/fitSystematicErrorModel.Rd | 17 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/grahamReplication.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotCalibration.Rd | 19 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotCalibrationEffect.Rd | 8 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotCiCalibration.Rd | 47 - EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotCiCoverage.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotErrorModel.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotForest.Rd | 6 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotMcmcTrace.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/plotTrueAndObserved.Rd | 5 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/sccs.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/simulateControls.Rd | 1 EmpiricalCalibration-1.3.1/EmpiricalCalibration/man/southworthReplication.Rd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/vignettes/EmpiricalCiCalibrationVignette.Rmd |only EmpiricalCalibration-1.3.1/EmpiricalCalibration/vignettes/EmpiricalPCalibrationVignette.Rmd |only 52 files changed, 711 insertions(+), 264 deletions(-)
More information about EmpiricalCalibration at CRAN
Permanent link
Title: Client for 'Neuroscience' Information Framework 'APIs'
Description: Client for 'Neuroscience' Information Framework ('NIF') 'APIs'
(<https://neuinfo.org/>; <https://neuinfo.org/about/webservices>).
Package includes functions for each 'API' route, and gives back data
in tidy data.frame format.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between rif versions 0.1.0 dated 2017-03-16 and 0.2.0 dated 2017-05-16
rif-0.1.0/rif/inst/doc/rif_vignette.R |only rif-0.2.0/rif/DESCRIPTION | 12 rif-0.2.0/rif/MD5 | 155 +++--- rif-0.2.0/rif/NEWS.md | 14 rif-0.2.0/rif/R/federation_data.R | 8 rif-0.2.0/rif/R/federation_facet.R | 7 rif-0.2.0/rif/R/federation_search.R | 4 rif-0.2.0/rif/R/lexical_chunks.R | 6 rif-0.2.0/rif/R/lexical_entities.R | 6 rif-0.2.0/rif/R/lexical_pmchunks.R | 7 rif-0.2.0/rif/R/lexical_pmentities.R | 7 rif-0.2.0/rif/R/lexical_pos.R | 6 rif-0.2.0/rif/R/lexical_sentences.R | 6 rif-0.2.0/rif/R/literature_mlpmid.R | 9 rif-0.2.0/rif/R/literature_mltext.R | 9 rif-0.2.0/rif/R/literature_pmid.R | 7 rif-0.2.0/rif/R/literature_retractions.R | 6 rif-0.2.0/rif/R/literature_search.R | 6 rif-0.2.0/rif/R/rif-package.R | 15 rif-0.2.0/rif/R/rif_query.R | 7 rif-0.2.0/rif/R/rif_query_categories.R | 6 rif-0.2.0/rif/R/summary.R | 4 rif-0.2.0/rif/R/vocabulary.R | 10 rif-0.2.0/rif/R/vocabulary_categories.R | 8 rif-0.2.0/rif/R/vocabulary_providers.R | 8 rif-0.2.0/rif/R/vocabulary_search.R | 8 rif-0.2.0/rif/R/vocabulary_suggest.R | 8 rif-0.2.0/rif/R/zzz.R | 15 rif-0.2.0/rif/README.md | 207 +++++---- rif-0.2.0/rif/build/vignette.rds |binary rif-0.2.0/rif/inst/doc/rif_vignette.Rmd | 243 ++++++++-- rif-0.2.0/rif/inst/doc/rif_vignette.html | 294 ++++--------- rif-0.2.0/rif/inst/vign |only rif-0.2.0/rif/man/federation_data.Rd | 15 rif-0.2.0/rif/man/federation_facet.Rd | 15 rif-0.2.0/rif/man/federation_search.Rd | 15 rif-0.2.0/rif/man/lexical_chunks.Rd | 5 rif-0.2.0/rif/man/lexical_entities.Rd | 5 rif-0.2.0/rif/man/lexical_pmchunks.Rd | 5 rif-0.2.0/rif/man/lexical_pmentities.Rd | 5 rif-0.2.0/rif/man/lexical_pos.Rd | 5 rif-0.2.0/rif/man/lexical_sentences.Rd | 5 rif-0.2.0/rif/man/literature_mlpmid.Rd | 5 rif-0.2.0/rif/man/literature_mltext.Rd | 5 rif-0.2.0/rif/man/literature_pmid.Rd | 5 rif-0.2.0/rif/man/literature_retractions.Rd | 5 rif-0.2.0/rif/man/literature_search.Rd | 16 rif-0.2.0/rif/man/rif-package.Rd | 17 rif-0.2.0/rif/man/rif_query.Rd | 15 rif-0.2.0/rif/man/rif_query_categories.Rd | 5 rif-0.2.0/rif/man/rif_summary.Rd | 15 rif-0.2.0/rif/man/vocabulary.Rd | 5 rif-0.2.0/rif/man/vocabulary_categories.Rd | 5 rif-0.2.0/rif/man/vocabulary_providers.Rd | 5 rif-0.2.0/rif/man/vocabulary_search.Rd | 5 rif-0.2.0/rif/man/vocabulary_suggest.Rd | 5 rif-0.2.0/rif/tests/testthat/test-federation_data.R | 2 rif-0.2.0/rif/tests/testthat/test-federation_facet.R | 2 rif-0.2.0/rif/tests/testthat/test-federation_search.R | 2 rif-0.2.0/rif/tests/testthat/test-lexical_chunks.R | 4 rif-0.2.0/rif/tests/testthat/test-lexical_entities.R | 4 rif-0.2.0/rif/tests/testthat/test-lexical_pmchunks.R | 4 rif-0.2.0/rif/tests/testthat/test-lexical_pmentities.R | 6 rif-0.2.0/rif/tests/testthat/test-lexical_pos.R | 4 rif-0.2.0/rif/tests/testthat/test-lexical_sentences.R | 4 rif-0.2.0/rif/tests/testthat/test-literature_mlpmid.R | 4 rif-0.2.0/rif/tests/testthat/test-literature_mltext.R | 2 rif-0.2.0/rif/tests/testthat/test-literature_pmid.R | 4 rif-0.2.0/rif/tests/testthat/test-literature_retractions.R | 5 rif-0.2.0/rif/tests/testthat/test-literature_search.R | 4 rif-0.2.0/rif/tests/testthat/test-rif_query.R | 4 rif-0.2.0/rif/tests/testthat/test-rif_query_categories.R | 8 rif-0.2.0/rif/tests/testthat/test-rif_summary.R | 4 rif-0.2.0/rif/tests/testthat/test-vocabulary.R | 4 rif-0.2.0/rif/tests/testthat/test-vocabulary_categories.R | 4 rif-0.2.0/rif/tests/testthat/test-vocabulary_providers.R | 4 rif-0.2.0/rif/tests/testthat/test-vocabulary_search.R | 4 rif-0.2.0/rif/tests/testthat/test-vocabulary_suggest.R | 4 rif-0.2.0/rif/vignettes/rif_vignette.Rmd | 243 ++++++++-- 79 files changed, 1044 insertions(+), 582 deletions(-)
Title: Accessing Environmental Data from ERD's ERDDAP Server
Description: Contains three functions that access
environmental data from ERD's ERDDAP service <http://coastwatch.pfeg.noaa.gov/erddap>. The xtracto() function extracts
data along a trajectory for a given "radius" around the point. The
xtracto_3D() function extracts data in a box. The xtractogon() function
extracts data in a polygon. There are also two helper functions to obtain
information about available data.
Author: Roy Mendelssohn [aut, cre],
Cindy Bessey [ctb],
Dave Foley [ctb]
Maintainer: Roy Mendelssohn <roy.mendelssohn@noaa.gov>
Diff between xtractomatic versions 3.2.0 dated 2017-01-04 and 3.3.0 dated 2017-05-16
DESCRIPTION | 12 MD5 | 62 - NEWS.md | 11 R/getInfo.R | 46 - R/getMaxTime.R | 7 R/searchData.R | 58 - R/sysdata.rda |binary R/xtracto.R | 52 - R/xtracto_3D.R | 42 - R/xtractogon.R | 20 README.md | 9 build/vignette.rds |binary inst/doc/Usingxtractomatic.R | 129 +-- inst/doc/Usingxtractomatic.Rmd | 167 ++-- inst/doc/Usingxtractomatic.html | 1349 ++++++++++++++++++---------------------- man/Marlintag38606.Rd | 1 man/buildURL.Rd | 1 man/checkBounds.Rd | 1 man/getETOPO.Rd | 1 man/getETOPOtrack.Rd | 1 man/getErddapURL.Rd | 1 man/getInfo.Rd | 3 man/getMaxTime.Rd | 1 man/getfileCoords.Rd | 1 man/make180.Rd | 1 man/make360.Rd | 1 man/mbnms.Rd | 1 man/searchData.Rd | 12 man/xtracto.Rd | 10 man/xtracto_3D.Rd | 10 man/xtractogon.Rd | 4 vignettes/Usingxtractomatic.Rmd | 167 ++-- 32 files changed, 1049 insertions(+), 1132 deletions(-)
Title: Sotkanet Open Data Access and Analysis
Description: Access data from the sotkanet open data portal
<https://www.sotkanet.fi/sotkanet/fi/index>.
Author: Leo Lahti, Einari Happonen, Juuso Parkkinen, Joona Lehtomaki
Maintainer: Leo Lahti <louhos@googlegroups.com>
Diff between sotkanet versions 0.9.21 dated 2015-10-03 and 0.9.48 dated 2017-05-16
sotkanet-0.9.21/sotkanet/man/GetDataSotkanetSingleIndicator.Rd |only sotkanet-0.9.21/sotkanet/man/SotkanetCollect.Rd |only sotkanet-0.9.21/sotkanet/man/SotkanetData.Rd |only sotkanet-0.9.21/sotkanet/man/sotkanet.csv_query.Rd |only sotkanet-0.9.21/sotkanet/man/sotkanet.json_query.Rd |only sotkanet-0.9.48/sotkanet/DESCRIPTION | 23 sotkanet-0.9.48/sotkanet/LICENSE | 2 sotkanet-0.9.48/sotkanet/MD5 | 57 +- sotkanet-0.9.48/sotkanet/NAMESPACE | 2 sotkanet-0.9.48/sotkanet/NEWS.md |only sotkanet-0.9.48/sotkanet/R/GetDataSotkanet.R | 92 --- sotkanet-0.9.48/sotkanet/R/GetDataSotkanetSingleIndicator.R |only sotkanet-0.9.48/sotkanet/R/SotkanetData.R | 31 - sotkanet-0.9.48/sotkanet/R/SotkanetIndicators.R | 17 sotkanet-0.9.48/sotkanet/R/base_url.R | 17 sotkanet-0.9.48/sotkanet/R/csv.R | 13 sotkanet-0.9.48/sotkanet/R/firstlib.R | 2 sotkanet-0.9.48/sotkanet/R/internal.R | 26 - sotkanet-0.9.48/sotkanet/R/json.R | 21 sotkanet-0.9.48/sotkanet/R/sotkanet-package.R | 25 - sotkanet-0.9.48/sotkanet/R/sotkanet.R | 23 sotkanet-0.9.48/sotkanet/README.md | 53 +- sotkanet-0.9.48/sotkanet/build/vignette.rds |binary sotkanet-0.9.48/sotkanet/inst/doc/tutorial.R | 35 - sotkanet-0.9.48/sotkanet/inst/doc/tutorial.Rmd | 54 +- sotkanet-0.9.48/sotkanet/inst/doc/tutorial.html | 245 +++++----- sotkanet-0.9.48/sotkanet/man/GetDataSotkanet.Rd | 28 - sotkanet-0.9.48/sotkanet/man/SotkanetIndicators.Rd | 18 sotkanet-0.9.48/sotkanet/man/SotkanetRegions.Rd | 24 sotkanet-0.9.48/sotkanet/man/base_url.Rd | 17 sotkanet-0.9.48/sotkanet/man/sotkanet-package.Rd | 33 - sotkanet-0.9.48/sotkanet/tests |only sotkanet-0.9.48/sotkanet/vignettes/tutorial.Rmd | 54 +- 33 files changed, 423 insertions(+), 489 deletions(-)
Title: Kernel Smoothing for Bivariate Copula Densities
Description: Provides fast implementations of kernel smoothing techniques for
bivariate copula densities, in particular density estimation and resampling.
Author: Thomas Nagler [aut, cre],
Kuangyu Wen [ctb]
Maintainer: Thomas Nagler <thomas.nagler@tum.de>
Diff between kdecopula versions 0.8.1 dated 2017-04-11 and 0.9.0 dated 2017-05-16
DESCRIPTION | 6 - MD5 | 90 ++++++++++++---------- NAMESPACE | 6 + NEWS.md | 15 +++ R/RcppExports.R | 30 +++++++ R/bandwidths.R | 65 ++++++++-------- R/berncop.R | 11 ++ R/dep_measures.R |only R/dprhkdecop.R | 147 ++++++++++++------------------------- R/eval_tt.R | 2 R/generics.R | 140 +++++++++++++++++++++++++++++------ R/helpers.R | 16 +++- R/kdecop.R | 62 ++++++++------- R/kdecopula-package.R | 15 ++- R/plot.kdecopula.R | 6 - R/tll_functions.R | 7 - README.md | 30 +++---- inst/README-unnamed-chunk-10-1.png |binary inst/README-unnamed-chunk-12-1.png |binary inst/README-unnamed-chunk-3-1.png |binary inst/README-unnamed-chunk-6-1.png |binary inst/README-unnamed-chunk-7-1.png |binary inst/README-unnamed-chunk-8-1.png |binary inst/README-unnamed-chunk-9-1.png |binary inst/doc/kdecopula.pdf |binary man/bw_bern.Rd | 2 man/bw_beta.Rd | 4 - man/bw_mr.Rd | 4 - man/bw_t.Rd | 2 man/bw_tll.Rd | 2 man/bw_tll_nn.Rd | 21 +++-- man/bw_tt_pi.Rd | 2 man/dep_measures.Rd |only man/dkdecop.Rd | 45 ++++------- man/fitted.kdecopula.Rd |only man/hkdecop.Rd | 22 ++--- man/kdecop.Rd | 43 +++++----- man/kdecopula.Rd | 9 +- man/logLik.kdecopula.Rd | 10 +- man/predict.kdecopula.Rd |only man/simulate.kdecopula.Rd |only man/wdbc.Rd | 6 - src/RcppExports.cpp | 12 +-- src/init.c | 2 src/integrate.cpp | 133 +++++++++++++++++---------------- src/interp.cpp | 126 ++++++++++++++++--------------- src/kernels.cpp | 28 +------ tests/testthat/Rplots.pdf |only tests/testthat/test-dep-measures.R |only tests/testthat/test-generics.R |only 50 files changed, 616 insertions(+), 505 deletions(-)
Title: Population Assignment using Genetic, Non-Genetic or Integrated
Data in a Machine Learning Framework
Description: Use Monte-Carlo and K-fold cross-validation coupled with machine-learning classification algorithms to perform population assignment, with functionalities of evaluating discriminatory power of independent training samples, identifying informative loci, reducing data dimensionality for genomic data, integrating genetic and non-genetic data, and visualizing results.
Author: Kuan-Yu (Alex) Chen [aut, cre], Elizabeth A. Marschall [aut], Michael G. Sovic [aut], Anthony C. Fries [aut], H. Lisle Gibbs [aut], Stuart A. Ludsin [aut]
Maintainer: Kuan-Yu (Alex) Chen <alexkychen@gmail.com>
Diff between assignPOP versions 1.1.1 dated 2016-12-29 and 1.1.2 dated 2017-05-16
assignPOP-1.1.1/assignPOP/R/read.genpop.R |only assignPOP-1.1.1/assignPOP/inst/doc |only assignPOP-1.1.1/assignPOP/man/read.genpop.Rd |only assignPOP-1.1.2/assignPOP/DESCRIPTION | 21 +- assignPOP-1.1.2/assignPOP/MD5 | 27 +- assignPOP-1.1.2/assignPOP/NAMESPACE | 3 assignPOP-1.1.2/assignPOP/R/assign.MC.R | 10 - assignPOP-1.1.2/assignPOP/R/assign.X.R | 10 - assignPOP-1.1.2/assignPOP/R/assign.kfold.R | 10 - assignPOP-1.1.2/assignPOP/R/compile.data.R | 230 ++++++++++++------------ assignPOP-1.1.2/assignPOP/R/read.Genepop.R |only assignPOP-1.1.2/assignPOP/R/read.Structure.R |only assignPOP-1.1.2/assignPOP/R/reduce.allele.R | 112 +++++------ assignPOP-1.1.2/assignPOP/README.md | 70 ++++--- assignPOP-1.1.2/assignPOP/man/compile.data.Rd | 2 assignPOP-1.1.2/assignPOP/man/read.Genepop.Rd |only assignPOP-1.1.2/assignPOP/man/read.Structure.Rd |only assignPOP-1.1.2/assignPOP/man/reduce.allele.Rd | 2 18 files changed, 265 insertions(+), 232 deletions(-)