Title: Simulate Survival Data
Description: Simulate survival times from standard parametric survival
distributions (exponential, Weibull, Gompertz), 2-component mixture
distributions, or a user-defined hazard, log hazard, cumulative hazard,
or log cumulative hazard function. Baseline
covariates can be included under a proportional hazards assumption. Time
dependent effects (i.e. non-proportional hazards) can be included by
interacting covariates with linear time or some transformation of time.
The 2-component mixture distributions can allow for a variety of flexible
baseline hazard functions. If the user wishes to provide a user-defined
hazard or log hazard function then this is possible, and the resulting
cumulative hazard function does not need to have a closed-form solution.
Note that this package is modelled on the 'survsim' package available in
the 'Stata' software (see Crowther and Lambert (2012)
<http://www.stata-journal.com/sjpdf.html?articlenum=st0275> or
Crowther and Lambert (2013) <doi:10.1002/sim.5823>).
Author: Sam Brilleman [cre, aut, cph]
Maintainer: Sam Brilleman <sam.brilleman@monash.edu>
Diff between simsurv versions 0.1.0 dated 2017-07-27 and 0.2.0 dated 2018-03-05
DESCRIPTION | 18 ++- MD5 | 22 +++- R/brcancer.R |only R/simsurv.R | 194 +++++++++++++++++++++++++++++++++++------- build/partial.rdb |binary build/vignette.rds |only data |only inst |only man/brcancer.Rd |only man/simsurv.Rd | 23 +++- tests/testthat/test_simsurv.R | 2 vignettes |only 12 files changed, 209 insertions(+), 50 deletions(-)
Title: Utilities for Working with Air Quality Monitoring Data
Description: Utilities for working with air quality monitoring data
with a focus on small particulates (PM2.5) generated by wildfire
smoke. Functions are provided for downloading available data from
the United States 'EPA' <https://www.epa.gov/outdoor-air-quality-data> and
it's 'AirNow' air quality site <https://www.airnow.gov>.
Additional sources of PM2.5 data made accessible by the package include:
'AIRSIS' (password protected) <https://www.oceaneering.com/data-management/>
and 'WRCC' <https://wrcc.dri.edu/cgi-bin/smoke.pl>.
Pre-generated data compilations are provided by 'PWFSL'
<https://www.fs.fed.us/pnw/pwfsl/>.
Author: Jonathan Callahan [aut, cre],
Rohan Aras [aut],
Zach Dingels [aut],
Jon Hagg [aut],
Jimin Kim [aut],
Helen Miller [aut],
Rex Thompson [aut],
Alice Yang [aut]
Maintainer: Jonathan Callahan <jonathan.s.callahan@gmail.com>
Diff between PWFSLSmoke versions 1.0.10 dated 2018-01-17 and 1.0.16 dated 2018-03-05
DESCRIPTION | 20 +++++++++--------- MD5 | 34 ++++++++++++++++---------------- NAMESPACE | 1 R/monitor_asDataframe.R |only R/monitor_combine.R | 2 - R/monitor_dailyStatistic.R | 31 +++++++++++++---------------- R/monitor_distance.R | 2 - R/monitor_join.R | 6 +++-- R/monitor_scaleData.R | 1 R/wrcc_downloadData.R | 4 +-- R/wrcc_loadDaily.R | 2 - R/wrcc_loadLatest.R | 2 - inst/doc/Maps_and_Timeseries_Plots.html | 6 ++--- man/monitor_asDataframe.Rd |only man/monitor_distance.Rd | 2 - man/monitor_join.Rd | 2 - man/monitor_scaleData.Rd | 3 ++ man/wrcc_loadDaily.Rd | 2 - man/wrcc_loadLatest.Rd | 2 - 19 files changed, 64 insertions(+), 58 deletions(-)
Title: Colors Palettes for R and 'ggplot2', Additional Themes for
'ggplot2'
Description: Contains a selection of color palettes and 'ggplot2' themes designed by the package author.
Author: Jared Huling [aut, cre]
Maintainer: Jared Huling <jaredhuling@gmail.com>
Diff between jcolors versions 0.0.1 dated 2017-07-08 and 0.0.2 dated 2018-03-05
DESCRIPTION | 8 MD5 | 83 +- NAMESPACE | 54 - R/contin_jcolors.R | 552 +++++++++------- R/ggplot2_themes.R | 282 ++++---- R/jcolors.R | 687 +++++++++++--------- README.md | 623 +++++++++--------- build/vignette.rds |binary inst/doc/using_the_jcolors_package.R | 207 ++---- inst/doc/using_the_jcolors_package.Rmd | 352 ++++------ inst/doc/using_the_jcolors_package.html | 714 +++++++++++++-------- man/display_all_jcolors.Rd | 28 man/display_all_jcolors_contin.Rd | 28 man/display_jcolors.Rd | 36 - man/display_jcolors_contin.Rd | 35 - man/jcolors.Rd | 62 - man/jcolors_contin.Rd | 79 +- man/scale_jcolors.Rd | 158 ++-- man/theme_jcolors.Rd | 68 +- vignettes/readme_figs/contin_example-1.png |binary vignettes/readme_figs/contin_example_display-1.png |only vignettes/readme_figs/darkbg-1.png |binary vignettes/readme_figs/diamonds_light_theme-1.png |binary vignettes/readme_figs/displayall-1.png |binary vignettes/readme_figs/jitterplot-1.png |binary vignettes/readme_figs/moreplots-1.png |binary vignettes/readme_figs/moreplots-2.png |binary vignettes/readme_figs/moreplots-3.png |binary vignettes/readme_figs/moreplots-4.png |binary vignettes/readme_figs/mountain_ex-1.png |binary vignettes/readme_figs/unnamed-chunk-10-1.png |binary vignettes/readme_figs/unnamed-chunk-11-1.png |only vignettes/readme_figs/unnamed-chunk-12-1.png |only vignettes/readme_figs/unnamed-chunk-13-1.png |only vignettes/readme_figs/unnamed-chunk-14-1.png |only vignettes/readme_figs/unnamed-chunk-15-1.png |only vignettes/readme_figs/unnamed-chunk-16-1.png |only vignettes/readme_figs/unnamed-chunk-3-1.png |binary vignettes/readme_figs/unnamed-chunk-3-2.png |binary vignettes/readme_figs/unnamed-chunk-4-1.png |binary vignettes/readme_figs/unnamed-chunk-5-1.png |binary vignettes/readme_figs/unnamed-chunk-6-1.png |binary vignettes/readme_figs/unnamed-chunk-7-1.png |binary vignettes/readme_figs/unnamed-chunk-8-1.png |binary vignettes/readme_figs/unnamed-chunk-9-1.png |binary vignettes/using_the_jcolors_package.Rmd | 352 ++++------ 46 files changed, 2390 insertions(+), 2018 deletions(-)
Title: Dimension Reduction and Estimation Methods
Description: We provide linear and nonlinear dimension reduction techniques.
Intrinsic dimension estimation methods for exploratory analysis are also provided.
For more details on dimensionality techniques, see the paper by
Ma and Zhu (2013) <doi:10.1111/j.1751-5823.2012.00182.x> if you are interested in
statistical approach, or Engel, Huttenberger, and Hamann (2012)
<doi:10.4230/OASIcs.VLUDS.2011.135> for a broader multi-disciplinary overview.
Author: Kisung You [aut, cre] (<https://orcid.org/0000-0002-8584-459X>)
Maintainer: Kisung You <kyou@nd.edu>
Diff between Rdimtools versions 0.3.1 dated 2018-02-06 and 0.3.2 dated 2018-03-05
DESCRIPTION | 12 MD5 | 420 +++---- NAMESPACE | 3 R/auxiliary.R | 193 ++- R/linear_ADR.R | 8 R/linear_AMMC.R | 9 R/linear_ANMM.R | 19 R/linear_ASI.R | 9 R/linear_BPCA.R | 16 R/linear_CCA.R | 2 R/linear_CNPE.R | 8 R/linear_CRP.R | 8 R/linear_DAGDNE.R | 8 R/linear_DNE.R | 8 R/linear_DSPP.R | 8 R/linear_ELDE.R | 10 R/linear_ELPP2.R | 10 R/linear_ENET.R |only R/linear_ESLPP.R | 18 R/linear_EXTLPP.R | 18 R/linear_FA.R | 14 R/linear_FSCORE.R | 18 R/linear_ISOPROJ.R | 8 R/linear_KMVP.R | 31 R/linear_KUDP.R | 35 R/linear_LASSO.R | 31 R/linear_LDAKM.R | 8 R/linear_LDE.R | 8 R/linear_LDP.R | 9 R/linear_LEA.R | 19 R/linear_LFDA.R | 8 R/linear_LLP.R | 9 R/linear_LLTSA.R | 9 R/linear_LMDS.R | 57 R/linear_LPCA.R | 9 R/linear_LPE.R | 9 R/linear_LPFDA.R | 10 R/linear_LPMIP.R | 11 R/linear_LPP.R | 25 R/linear_LQMI.R | 8 R/linear_LSCORE.R | 18 R/linear_LSDA.R | 8 R/linear_LSDF.R | 18 R/linear_LSIR.R | 22 R/linear_LSPP.R | 9 R/linear_MCFS.R | 21 R/linear_MDS.R | 74 - R/linear_MFA.R | 9 R/linear_MLIE.R | 9 R/linear_MMC.R | 9 R/linear_MMP.R | 9 R/linear_MMSD.R | 8 R/linear_MODP.R | 9 R/linear_MSD.R | 11 R/linear_MVP.R | 11 R/linear_NOLPP.R | 10 R/linear_NPCA.R | 9 R/linear_NPE.R | 58 R/linear_ODP.R | 9 R/linear_OLDA.R | 8 R/linear_OLPP.R | 11 R/linear_ONPP.R | 9 R/linear_PCA.R | 11 R/linear_PFLPP.R | 11 R/linear_PPCA.R | 12 R/linear_RNDPROJ.R | 59 R/linear_RSIR.R | 9 R/linear_SAMMC.R | 8 R/linear_SAVE.R | 9 R/linear_SDLPP.R | 8 R/linear_SIR.R | 9 R/linear_SLPE.R | 8 R/linear_SPCA.R | 8 R/linear_SPP.R | 8 R/linear_SSLDP.R | 8 R/linear_UDP.R | 8 R/linear_ULDA.R | 8 R/nonlinear_CISOMAP.R | 25 R/nonlinear_DM.R | 139 +- R/nonlinear_DVE.R | 19 R/nonlinear_ILTSA.R | 8 R/nonlinear_ISOMAP.R | 63 - R/nonlinear_KECA.R | 29 R/nonlinear_KLDE.R | 8 R/nonlinear_KLFDA.R | 8 R/nonlinear_KLSDA.R | 8 R/nonlinear_KMFA.R | 8 R/nonlinear_KMMC.R | 6 R/nonlinear_KPCA.R | 24 R/nonlinear_KQMI.R | 8 R/nonlinear_KSDA.R | 9 R/nonlinear_LAPEIG.R | 17 R/nonlinear_LISOMAP.R | 77 - R/nonlinear_LLE.R | 25 R/nonlinear_LTSA.R | 18 R/nonlinear_MVE.R | 18 R/nonlinear_MVU.R | 27 R/nonlinear_PLP.R | 20 R/nonlinear_REE.R | 24 R/nonlinear_RPCA.R | 21 R/nonlinear_SAMMON.R | 29 R/nonlinear_SNE.R | 20 R/nonlinear_SPE.R | 4 R/nonlinear_SPLAPEIG.R | 18 R/nonlinear_TSNE.R | 19 R/oos_LINEAR.R | 64 - R/oos_LINPROJ.R |only R/package-Rdimtools.R | 17 build/partial.rdb |binary inst/REFERENCES.bib | 2723 +++++++++++++++++++++++----------------------- man/Rdimtools.Rd | 15 man/aux_preprocess.Rd | 41 man/linear_ADR.Rd | 7 man/linear_AMMC.Rd | 7 man/linear_ANMM.Rd | 8 man/linear_ASI.Rd | 7 man/linear_BPCA.Rd | 15 man/linear_CCA.Rd | 2 man/linear_CNPE.Rd | 5 man/linear_CRP.Rd | 7 man/linear_DAGDNE.Rd | 5 man/linear_DNE.Rd | 5 man/linear_DSPP.Rd | 7 man/linear_ELDE.Rd | 11 man/linear_ELPP2.Rd | 8 man/linear_ENET.Rd |only man/linear_ESLPP.Rd | 5 man/linear_EXTLPP.Rd | 5 man/linear_FA.Rd | 7 man/linear_FSCORE.Rd | 7 man/linear_ISOPROJ.Rd | 5 man/linear_KMVP.Rd | 17 man/linear_KUDP.Rd | 17 man/linear_LASSO.Rd | 11 man/linear_LDAKM.Rd | 7 man/linear_LDE.Rd | 5 man/linear_LDP.Rd | 6 man/linear_LEA.Rd | 7 man/linear_LFDA.Rd | 9 man/linear_LLP.Rd | 7 man/linear_LLTSA.Rd | 7 man/linear_LMDS.Rd | 9 man/linear_LPCA.Rd | 5 man/linear_LPE.Rd | 7 man/linear_LPFDA.Rd | 6 man/linear_LPMIP.Rd | 7 man/linear_LPP.Rd | 13 man/linear_LQMI.Rd | 7 man/linear_LSCORE.Rd | 5 man/linear_LSDA.Rd | 7 man/linear_LSDF.Rd | 6 man/linear_LSIR.Rd | 9 man/linear_LSPP.Rd | 7 man/linear_MCFS.Rd | 7 man/linear_MDS.Rd | 19 man/linear_MFA.Rd | 9 man/linear_MLIE.Rd | 9 man/linear_MMC.Rd | 7 man/linear_MMP.Rd | 8 man/linear_MMSD.Rd | 7 man/linear_MODP.Rd | 10 man/linear_MSD.Rd | 7 man/linear_MVP.Rd | 7 man/linear_NOLPP.Rd | 7 man/linear_NPCA.Rd | 7 man/linear_NPE.Rd | 9 man/linear_ODP.Rd | 10 man/linear_OLDA.Rd | 7 man/linear_OLPP.Rd | 2 man/linear_ONPP.Rd | 5 man/linear_PCA.Rd | 7 man/linear_PFLPP.Rd | 6 man/linear_PPCA.Rd | 8 man/linear_RNDPROJ.Rd | 9 man/linear_RSIR.Rd | 8 man/linear_SAMMC.Rd | 7 man/linear_SAVE.Rd | 5 man/linear_SDLPP.Rd | 7 man/linear_SIR.Rd | 5 man/linear_SLPE.Rd | 7 man/linear_SPCA.Rd | 8 man/linear_SPP.Rd | 7 man/linear_SSLDP.Rd | 6 man/linear_UDP.Rd | 5 man/linear_ULDA.Rd | 7 man/nonlinear_CISOMAP.Rd | 8 man/nonlinear_DM.Rd | 53 man/nonlinear_DVE.Rd | 5 man/nonlinear_ILTSA.Rd | 7 man/nonlinear_ISOMAP.Rd | 20 man/nonlinear_KECA.Rd | 11 man/nonlinear_KLDE.Rd | 7 man/nonlinear_KLFDA.Rd | 10 man/nonlinear_KLSDA.Rd | 7 man/nonlinear_KMFA.Rd | 9 man/nonlinear_KMMC.Rd | 3 man/nonlinear_KPCA.Rd | 5 man/nonlinear_KQMI.Rd | 7 man/nonlinear_LAPEIG.Rd | 7 man/nonlinear_LISOMAP.Rd | 17 man/nonlinear_LLE.Rd | 11 man/nonlinear_LTSA.Rd | 7 man/nonlinear_MVE.Rd | 7 man/nonlinear_MVU.Rd | 7 man/nonlinear_PLP.Rd | 6 man/nonlinear_REE.Rd | 10 man/nonlinear_RPCA.Rd | 4 man/nonlinear_SAMMON.Rd | 6 man/nonlinear_SNE.Rd | 5 man/nonlinear_SPLAPEIG.Rd | 7 man/nonlinear_TSNE.Rd | 9 man/oos_LINEAR.Rd | 27 man/oos_LINPROJ.Rd |only 213 files changed, 2930 insertions(+), 3120 deletions(-)
Title: Data-Driven Diagnostic Plots
Description: Designs plots in terms of core structure. See 'example(metaplot)'.
Primary arguments are (unquoted) column names; order and type (numeric or not)
dictate the resulting plot. Specify any y variables, x variable, any groups variable,
and any conditioning variables to metaplot() to generate density plots, boxplots,
mosaic plots, scatterplots, scatterplot matrices, or conditioned plots. Use multiplot()
to arrange plots in grids. Wherever present, scalar column attributes 'label' and 'guide'
are honored, producing fully annotated plots with minimal effort. Attribute 'guide'
is typically units, but may be encoded() to provide interpretations of categorical
values (see '?encode'). Utility unpack() transforms scalar column attributes to row
values and pack() does the reverse, supporting tool-neutral storage of metadata along
with primary data. The package supports customizable aesthetics such as such as reference
lines, unity lines, smooths, log transformation, and linear fits. Compact syntax and
integrated metadata promote workflow scalability.
Author: Tim Bergsma
Maintainer: Tim Bergsma <bergsmat@gmail.com>
Diff between metaplot versions 0.4.4 dated 2018-02-20 and 0.4.6 dated 2018-03-05
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/box.R | 24 ++++++++++++++++-------- man/boxplot_data_frame.Rd | 3 +++ 4 files changed, 25 insertions(+), 14 deletions(-)
Title: Applied Geochemistry EDA
Description: Geological Survey of Canada (GSC) functions for exploratory data analysis with applied geochemical data, with special application to the estimation of background ranges and identification of outliers, 'anomalies', to support mineral exploration and environmental studies. Additional functions are provided to support analytical data QA/QC, ANOVA for investigations of field sampling and analytical variability, and utility tasks. NOTE: function caplot() for concentration-area plots employs package 'akima', however, 'akima' is only licensed for not-for-profit use. Therefore, not-for-profit users of 'rgr' will have to independently make package 'akima' available through library(....); and use of function caplot() by for-profit users will fail.
Author: Robert G. Garrett
Maintainer: Robert G. Garrett <robert.garrett@canada.ca>
Diff between rgr versions 1.1.14 dated 2017-08-25 and 1.1.15 dated 2018-03-05
rgr-1.1.14/rgr/inst/What_is_in_rgr_1-1-14.pdf |only rgr-1.1.14/rgr/inst/rgr_Overview_1-1-14.pdf |only rgr-1.1.14/rgr/inst/rgr_func_list_1-1-14.pdf |only rgr-1.1.14/rgr/man/rgr_1.1.14-package.Rd |only rgr-1.1.15/rgr/DESCRIPTION | 8 +- rgr-1.1.15/rgr/MD5 | 76 ++++++++++++++------------ rgr-1.1.15/rgr/NAMESPACE | 4 - rgr-1.1.15/rgr/R/alr.R | 26 ++++---- rgr-1.1.15/rgr/R/clr.R | 33 ++++------- rgr-1.1.15/rgr/R/gx.eb.R |only rgr-1.1.15/rgr/R/gx.ilr.R |only rgr-1.1.15/rgr/R/gx.quantiles.R |only rgr-1.1.15/rgr/R/gx.rqpca.plot.R | 4 - rgr-1.1.15/rgr/R/gx.symm.coords.R | 6 +- rgr-1.1.15/rgr/R/ilr.R | 54 ++++++++---------- rgr-1.1.15/rgr/data/ad.test.rda |binary rgr-1.1.15/rgr/data/crm.test.new.rda |binary rgr-1.1.15/rgr/data/crm.test.rda |binary rgr-1.1.15/rgr/data/fix.test.asis.rda |binary rgr-1.1.15/rgr/data/fix.test.rda |binary rgr-1.1.15/rgr/data/kola.c.rda |binary rgr-1.1.15/rgr/data/kola.o.rda |binary rgr-1.1.15/rgr/data/ms.data1.rda |binary rgr-1.1.15/rgr/data/ms.data2.rda |binary rgr-1.1.15/rgr/data/ms.data3.rda |binary rgr-1.1.15/rgr/data/nockolds.rda |binary rgr-1.1.15/rgr/data/ogrady.mat2open.rda |binary rgr-1.1.15/rgr/data/ogrady.rda |binary rgr-1.1.15/rgr/data/sind.mat2open.rda |binary rgr-1.1.15/rgr/data/sind.rda |binary rgr-1.1.15/rgr/data/triples.test1.rda |binary rgr-1.1.15/rgr/data/triples.test2.rda |binary rgr-1.1.15/rgr/inst/What_is_in_rgr_1-1-15.pdf |only rgr-1.1.15/rgr/inst/rgr_Overview_1-1-15.pdf |only rgr-1.1.15/rgr/inst/rgr_func_list_1-1-15.pdf |only rgr-1.1.15/rgr/man/alr.Rd | 4 + rgr-1.1.15/rgr/man/clr.Rd | 2 rgr-1.1.15/rgr/man/gx.eb.Rd |only rgr-1.1.15/rgr/man/gx.ilr.Rd |only rgr-1.1.15/rgr/man/gx.quantile.Rd | 2 rgr-1.1.15/rgr/man/gx.quantiles.Rd |only rgr-1.1.15/rgr/man/gx.summary.Rd | 2 rgr-1.1.15/rgr/man/gx.symm.coords.Rd | 4 - rgr-1.1.15/rgr/man/ilr.Rd | 2 rgr-1.1.15/rgr/man/ltdl.fix.df.Rd | 2 rgr-1.1.15/rgr/man/rgr_1.1.15-package.Rd |only 46 files changed, 115 insertions(+), 114 deletions(-)
Title: Extension Package to 'mice'
Description: Extends and builds on the 'mice' package by
adding a functionality to perform multivariate predictive mean matching on
imputed data as well as new functionalities to perform predictive mean
matching on factor variables.
Author: Tobias Schumacher [aut, cre],
Philipp Gaffert [aut],
Stef van Buuren [ctb],
Karin Groothuis-Oudshoorn [ctb]
Maintainer: Tobias Schumacher <tobias.schumacher1@rwth-aachen.de>
Diff between miceExt versions 1.0.0 dated 2018-02-09 and 1.1.0 dated 2018-03-05
DESCRIPTION | 8 MD5 | 45 - R/check.r | 1077 +++++++++++++++++++++++++++++++---------- R/internal.R | 16 R/match_multivariate.r | 13 R/mice.binarize.R | 428 ++++++++++++---- R/mice.factorize.R | 73 ++ R/mice.post.matching.r | 579 ++++++++++++++-------- R/miceExt.R | 3 README.md | 73 +- man/mice.binarize.Rd | 314 ++++++++++- man/mice.factorize.Rd | 72 ++ man/mice.post.matching.Rd | 522 +++++++++++++------ man/miceExt.Rd | 3 tests/testthat/boys_bin1.rds |binary tests/testthat/boys_bin2.rds |binary tests/testthat/boys_bin3.rds |binary tests/testthat/boys_bin4.rds |only tests/testthat/boys_bin5.rds |only tests/testthat/boys_bin6.rds |only tests/testthat/boys_bin7.rds |only tests/testthat/post_nh1.rds |binary tests/testthat/post_nh2.rds |binary tests/testthat/post_nh3.rds |only tests/testthat/test_binarize.R | 18 tests/testthat/test_multpmm.R | 28 - 26 files changed, 2406 insertions(+), 866 deletions(-)
Title: Solving Mixed Model Equations in R
Description: Structural multivariate-univariate linear mixed model solver for multiple random effects allowing the specification of variance-covariance structures for random effects and allowing the fit of heterogeneous variance models (Covarrubias-Pazaran, 2016 <doi:10.1371/journal.pone.0156744>; Maier et al., 2015 <doi:10.1016/j.ajhg.2014.12.006>). ML/REML estimates can be obtained using the Direct-Inversion Newton-Raphson, and Efficient Mixed Model Association algorithms. Designed for genomic prediction and genome wide association studies (GWAS), particularly focused in the p > n problem (more coefficients than observations) to include multiple relationship matrices or other covariance structures.
Author: Giovanny Covarrubias-Pazaran
Maintainer: Giovanny Covarrubias-Pazaran <cova_ruber@live.com.mx>
Diff between sommer versions 3.2 dated 2018-01-09 and 3.3 dated 2018-03-05
sommer-3.2/sommer/R/formula_func.R |only sommer-3.2/sommer/man/and.Rd |only sommer-3.2/sommer/man/at.Rd |only sommer-3.2/sommer/man/eig.Rd |only sommer-3.2/sommer/man/g.Rd |only sommer-3.2/sommer/man/grp.Rd |only sommer-3.2/sommer/man/us.Rd |only sommer-3.3/sommer/CHANGELOG | 17 sommer-3.3/sommer/DESCRIPTION | 8 sommer-3.3/sommer/MD5 | 67 +- sommer-3.3/sommer/NAMESPACE | 6 sommer-3.3/sommer/R/GWAS.R | 80 +-- sommer-3.3/sommer/R/GWAS2.R | 621 +++++++++++++++++++++++--- sommer-3.3/sommer/R/NR.R | 14 sommer-3.3/sommer/R/mmer.R | 15 sommer-3.3/sommer/R/mmer2.R | 512 ++++++++++++++++++++- sommer-3.3/sommer/R/overlay.R | 57 ++ sommer-3.3/sommer/R/spatPlots.R |only sommer-3.3/sommer/inst/doc/sommer.R | 28 + sommer-3.3/sommer/inst/doc/sommer.Rmd | 86 ++- sommer-3.3/sommer/inst/doc/sommer.pdf |binary sommer-3.3/sommer/inst/doc/sommer.start.R | 22 sommer-3.3/sommer/inst/doc/sommer.start.Rmd | 139 +++++ sommer-3.3/sommer/inst/doc/sommer.start.pdf |binary sommer-3.3/sommer/man/GWAS.Rd | 22 sommer-3.3/sommer/man/GWAS2.Rd | 72 +-- sommer-3.3/sommer/man/HDdata.Rd | 22 sommer-3.3/sommer/man/MNR.Rd | 3 sommer-3.3/sommer/man/hdm.Rd | 51 -- sommer-3.3/sommer/man/mmer.Rd | 27 - sommer-3.3/sommer/man/mmer2.Rd | 125 +++-- sommer-3.3/sommer/man/overlay.Rd | 16 sommer-3.3/sommer/man/pin.Rd | 2 sommer-3.3/sommer/man/sommer-package.Rd | 48 +- sommer-3.3/sommer/man/spatPlots.Rd |only sommer-3.3/sommer/vignettes/sommer.Rmd | 86 ++- sommer-3.3/sommer/vignettes/sommer.html | 169 +++++-- sommer-3.3/sommer/vignettes/sommer.start.Rmd | 139 +++++ sommer-3.3/sommer/vignettes/sommer.start.html | 177 ++++++- 39 files changed, 2141 insertions(+), 490 deletions(-)
Title: Vowel Manipulation, Normalization, and Plotting
Description: Procedures for the manipulation, normalization, and plotting of phonetic and sociophonetic vowel formant data. vowels is the backend for the NORM website.
Author: Tyler Kendall and Erik R. Thomas
Maintainer: Tyler Kendall <tsk@uoregon.edu>
Diff between vowels versions 1.2-1 dated 2014-11-15 and 1.2-2 dated 2018-03-05
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NAMESPACE | 7 ++++++- R/vowels.R | 26 +++++++++++--------------- man/compute.means.Rd | 2 +- man/convert.bark.Rd | 2 +- man/norm.bark.Rd | 2 +- man/norm.labov.Rd | 2 +- man/norm.lobanov.Rd | 2 +- man/norm.nearey.Rd | 2 +- man/norm.wattfabricius.Rd | 2 +- man/ohiovowels.Rd | 2 +- man/scalevowels.Rd | 2 +- man/vowels-package.Rd | 14 +++++++------- 14 files changed, 50 insertions(+), 49 deletions(-)
Title: Adaptive Management Model Manager
Description: Helps enable adaptive management by codifying knowledge in the
form of models generated from numerous analyses and data sets. Facilitates
this process by storing all models and data sets in a single object that can
be updated and saved, thus tracking changes in knowledge through time. A shiny
application called AM Model Manager (modelMgr()) enables the use of these
functions via a GUI.
Author: Jon Katz <jonkatz4@gmail.com>, Therese Donovan <tdonovan@uvm.edu>
Maintainer: Jon Katz <jonkatz4@gmail.com>
Diff between AMModels versions 0.1.2 dated 2017-02-21 and 0.1.3 dated 2018-03-05
DESCRIPTION | 15 - MD5 | 21 +- R/catwrap.R |only R/grepAMModelLib.R | 2 R/methods-amModelLib.R | 16 + build |only data/mymodels.rda |binary inst/CITATION |only inst/doc/AMModelsCheatSheet.pdf.asis |only inst/doc/journal.pone.0188966.pdf |only inst/doc/journal.pone.0188966.pdf.asis |only inst/modelMgr/mymodels.rda |only inst/modelMgr/server.R | 279 ++++++++++++++++----------------- inst/modelMgr/ui.R | 10 - vignettes |only 15 files changed, 182 insertions(+), 161 deletions(-)
Title: Import from and Export to Amiga Disk Files
Description: Amiga Disk Files (ADF) are virtual
representations of 3.5 inch floppy disks for the
Commodore Amiga. Most disk drives from other systems
(including modern drives) are not able to read these
disks. To be able to emulate this system, the ADF
format was created. This package enables you to read
ADF files and import and export files from and to such
virtual DOS-formatted disks.
Author: Pepijn de Vries [aut, cre, dtc]
Maintainer: Pepijn de Vries <pepijn.devries@outlook.com>
Diff between adfExplorer versions 0.1.2 dated 2017-11-03 and 0.1.4 dated 2018-03-05
DESCRIPTION | 10 - MD5 | 45 ++--- NAMESPACE | 4 NEWS | 20 ++ R/01genericSupport.r | 96 ++++++++++- R/02amigaDiskBasics.r | 74 ++++++-- R/04fileOperations.r | 373 ++++++++++++++++++++++++++++++++++--------- R/data.r | 2 build/vignette.rds |binary inst/doc/amigaDiskFiles.R | 16 + inst/doc/amigaDiskFiles.Rmd | 42 ++++ inst/doc/amigaDiskFiles.html | 22 +- man/amigaDateToRaw.Rd | 3 man/amigaIntToRaw.Rd | 3 man/blank.amigaDOSDisk.Rd | 2 man/boot.block.code.Rd | 2 man/dir.create.adf.Rd |only man/displayRawData.Rd | 3 man/get.blockID.Rd | 2 man/get.diskLocation.Rd | 2 man/put.adf.file.Rd |only man/rawToAmigaDate.Rd | 3 man/rawToAmigaInt.Rd | 2 man/rawToBitmap.Rd |only vignettes/amigaDiskFiles.Rmd | 42 ++++ 25 files changed, 622 insertions(+), 146 deletions(-)
Title: Access iTunes App Store Ratings and Reviews using R
Description: To enable 'iOS' App Developers to access iTunes App Store Ratings and Reviews using R to extract Basic App Information and Reviews submitted by their App users, Since Apple Store does not provide this straightforward.
Author: AbdulMajedRaja R [aut, cre]
Maintainer: AbdulMajedRaja R <amrrs.data@gmail.com>
Diff between itunesr versions 0.1 dated 2017-08-05 and 0.1.1 dated 2018-03-05
DESCRIPTION | 11 +- MD5 | 10 +- R/iTunesR.R | 220 +++++++++++++++++++++++----------------------- README.md | 102 ++++++++++++++++----- tests/testthat.R | 8 - tests/testthat/test-fun.R | 18 +-- 6 files changed, 212 insertions(+), 157 deletions(-)
Title: 'STK++' Core Library Integration to 'R' using 'Rcpp'
Description: 'STK++' <http://www.stkpp.org> is a collection of C++ classes
for statistics, clustering, linear algebra, arrays (with an 'Eigen'-like API),
regression, dimension reduction, etc. The integration of the library to 'R' is
using 'Rcpp'. The 'rtkore' package includes the header files from the 'STK++'
core library. All files contain only template classes and/or inline functions.
'STK++' is licensed under the GNU LGPL version 2 or later. 'rtkore' (the 'stkpp'
integration into 'R') is licensed under the GNU GPL version 2 or later. See file
LICENSE.note for details.
Author: Serge Iovleff [aut, cre],
Parmeet Bhatia [ctb]
Maintainer: Serge Iovleff <serge.iovleff@stkpp.org>
Diff between rtkore versions 1.5.0 dated 2018-01-23 and 1.5.1 dated 2018-03-05
DESCRIPTION | 8 MD5 | 50 - inst/NEWS.Rd | 11 inst/doc/rtkpp-Arrays.pdf |binary inst/doc/rtkpp-ArraysQuickRef.pdf |binary inst/doc/rtkpp-Introduction.pdf |binary inst/doc/rtkpp-Tips.pdf |binary inst/doc/rtkpp-Utilities.pdf |binary inst/projects/Arrays/include/STK_ArrayBase.h | 49 - inst/projects/Arrays/include/STK_ExprBase.h | 30 - inst/projects/Arrays/include/STK_IArrayBase.h | 78 ++ inst/projects/Arrays/include/STK_ICArray.h | 5 inst/projects/Arrays/include/STK_ITContainer.h | 63 ++ inst/projects/Arrays/include/allocators/STK_CAllocator.h | 15 inst/projects/Arrays/include/operators/STK_BinaryOperators.h | 2 inst/projects/Arrays/include/operators/STK_SlicingOperators.h | 51 - inst/projects/Arrays/include/operators/STK_UnaryOperators.h | 2 inst/projects/Arrays/include/products/STK_ProductOperators.h | 8 inst/projects/Classification/include/STK_IClassification.h | 4 inst/projects/DManager/include/STK_DataHandlerBase.h | 35 - inst/projects/Regress/include/STK_BSplineCoefficients.h | 3 inst/projects/Regress/include/STK_BSplineRegression.h | 1 inst/projects/Regress/include/STK_Regress_Util.h | 1 inst/projects/Rtkpp/include/STK_RMatrix.h | 265 ++++++++-- inst/projects/Rtkpp/include/STK_RVector.h | 15 inst/projects/STKernel/include/STK_Functors.h | 17 26 files changed, 469 insertions(+), 244 deletions(-)
Title: Quantitative Analysis of Textual Data
Description: A fast, flexible, and comprehensive framework for
quantitative text analysis in R. Provides functionality for corpus management,
creating and manipulating tokens and ngrams, exploring keywords in context,
forming and manipulating sparse matrices
of documents by features and feature co-occurrences, analyzing keywords, computing feature similarities and
distances, applying content dictionaries, applying supervised and unsupervised machine learning,
visually representing text and text analyses, and more.
Author: Kenneth Benoit [aut, cre, cph],
Kohei Watanabe [ctb],
Paul Nulty [ctb],
Adam Obeng [ctb],
Haiyan Wang [ctb],
Stefan Müller [ctb],
Benjamin Lauderdale [ctb],
Will Lowe [ctb]
Maintainer: Kenneth Benoit <kbenoit@lse.ac.uk>
Diff between quanteda versions 1.0.0 dated 2018-01-28 and 1.1.0 dated 2018-03-05
quanteda-1.0.0/quanteda/man/is.dfm.Rd |only quanteda-1.1.0/quanteda/DESCRIPTION | 17 quanteda-1.1.0/quanteda/MD5 | 129 +- quanteda-1.1.0/quanteda/NAMESPACE | 16 quanteda-1.1.0/quanteda/NEWS.md | 32 quanteda-1.1.0/quanteda/R/RcppExports.R | 4 quanteda-1.1.0/quanteda/R/corpus-methods-base.R | 83 + quanteda-1.1.0/quanteda/R/corpus.R | 3 quanteda-1.1.0/quanteda/R/dfm-classes.R | 29 quanteda-1.1.0/quanteda/R/dfm-methods.R | 72 + quanteda-1.1.0/quanteda/R/dfm_group.R | 49 quanteda-1.1.0/quanteda/R/dfm_trim.R | 21 quanteda-1.1.0/quanteda/R/dfm_weight.R | 8 quanteda-1.1.0/quanteda/R/docvars.R | 8 quanteda-1.1.0/quanteda/R/textmodel-methods.R | 13 quanteda-1.1.0/quanteda/R/textmodel_affinity.R | 2 quanteda-1.1.0/quanteda/R/textmodel_nb.R | 2 quanteda-1.1.0/quanteda/R/textmodel_wordfish.R | 13 quanteda-1.1.0/quanteda/R/textmodel_wordscores.R | 38 quanteda-1.1.0/quanteda/R/textplot_keyness.R | 202 ++-- quanteda-1.1.0/quanteda/R/textplot_network.R | 46 quanteda-1.1.0/quanteda/R/textplot_wordcloud.R | 494 +++++++++- quanteda-1.1.0/quanteda/R/textstat_frequency.R | 2 quanteda-1.1.0/quanteda/R/textstat_simil.R | 2 quanteda-1.1.0/quanteda/R/tokens.R | 28 quanteda-1.1.0/quanteda/R/utils.R | 23 quanteda-1.1.0/quanteda/R/zzz.R | 12 quanteda-1.1.0/quanteda/README.md | 102 +- quanteda-1.1.0/quanteda/build/vignette.rds |binary quanteda-1.1.0/quanteda/inst/doc/design.Rmd | 6 quanteda-1.1.0/quanteda/inst/doc/design.html | 349 +------ quanteda-1.1.0/quanteda/man/as.dfm.Rd |only quanteda-1.1.0/quanteda/man/as.matrix.dfm.Rd | 27 quanteda-1.1.0/quanteda/man/check_font.Rd |only quanteda-1.1.0/quanteda/man/dfm_group.Rd | 20 quanteda-1.1.0/quanteda/man/dfm_weight.Rd | 4 quanteda-1.1.0/quanteda/man/predict.textmodel_wordscores.Rd | 4 quanteda-1.1.0/quanteda/man/print.coefficients_textmodel.Rd | 4 quanteda-1.1.0/quanteda/man/textmodel_affinity.Rd | 2 quanteda-1.1.0/quanteda/man/textmodel_nb.Rd | 2 quanteda-1.1.0/quanteda/man/textmodel_wordfish.Rd | 7 quanteda-1.1.0/quanteda/man/textmodel_wordscores.Rd | 15 quanteda-1.1.0/quanteda/man/textplot_keyness.Rd | 55 - quanteda-1.1.0/quanteda/man/textplot_network.Rd | 7 quanteda-1.1.0/quanteda/man/textplot_wordcloud.Rd | 116 +- quanteda-1.1.0/quanteda/man/textstat_frequency.Rd | 2 quanteda-1.1.0/quanteda/man/textstat_simil.Rd | 2 quanteda-1.1.0/quanteda/man/tokens.Rd | 4 quanteda-1.1.0/quanteda/man/tokens_serialize.Rd | 2 quanteda-1.1.0/quanteda/man/wordcloud.Rd |only quanteda-1.1.0/quanteda/man/wordcloud_comparison.Rd |only quanteda-1.1.0/quanteda/src/RcppExports.cpp | 16 quanteda-1.1.0/quanteda/src/wordcloud.cpp |only quanteda-1.1.0/quanteda/tests/depedency |only quanteda-1.1.0/quanteda/tests/testthat.R | 1 quanteda-1.1.0/quanteda/tests/testthat/test-as.dfm.R | 70 + quanteda-1.1.0/quanteda/tests/testthat/test-corpus.R | 43 quanteda-1.1.0/quanteda/tests/testthat/test-corpus_segment.R | 3 quanteda-1.1.0/quanteda/tests/testthat/test-default-methods.R | 2 quanteda-1.1.0/quanteda/tests/testthat/test-dfm_group.R | 40 quanteda-1.1.0/quanteda/tests/testthat/test-dfm_trim.R | 22 quanteda-1.1.0/quanteda/tests/testthat/test-dfm_weight.R | 9 quanteda-1.1.0/quanteda/tests/testthat/test-textmodel_wordfish.R | 8 quanteda-1.1.0/quanteda/tests/testthat/test-textmodel_wordscores.R | 83 + quanteda-1.1.0/quanteda/tests/testthat/test-textplot.R | 82 + quanteda-1.1.0/quanteda/tests/testthat/test-textstat_keyness.R | 7 quanteda-1.1.0/quanteda/tests/testthat/test-tokens.R | 32 quanteda-1.1.0/quanteda/tests/testthat/test-utils.R | 12 quanteda-1.1.0/quanteda/vignettes/design.Rmd | 6 69 files changed, 1708 insertions(+), 806 deletions(-)
Title: Google Encoded Polyline Algorithm Format
Description: Encode and decode the Google Encoded Polyline Algorithm Format (<https://developers.google.com/maps/documentation/utilities/polylinealgorithm>).
Author: Matthieu Viry [aut],
Timothée Giraud [ctb, cre]
Maintainer: Timothée Giraud <timothee.giraud@cnrs.fr>
Diff between gepaf versions 0.1.0 dated 2016-05-04 and 0.1.1 dated 2018-03-05
DESCRIPTION | 14 +++++++------- MD5 | 11 ++++++----- NEWS |only R/gepaf.R | 2 +- man/decodePolyline.Rd | 1 - man/encodePolyline.Rd | 1 - man/gepaf.Rd | 1 - 7 files changed, 14 insertions(+), 16 deletions(-)
Title: Time Series Clustering Along with Optimizations for the Dynamic
Time Warping Distance
Description: Time series clustering along with optimized techniques related
to the Dynamic Time Warping distance and its corresponding lower bounds.
Implementations of partitional, hierarchical, fuzzy, k-Shape and TADPole
clustering are available. Functionality can be easily extended with
custom distance measures and centroid definitions. Implementations of
DTW barycenter averaging and a distance based on global alignment kernels
are also provided. All included distance functions have custom loops
optimized for the calculation of cross-distance matrices, including
parallelization support. Several cluster validity indices are included.
Author: Alexis Sarda-Espinosa
Maintainer: Alexis Sarda <alexis.sarda@gmail.com>
Diff between dtwclust versions 5.2.0 dated 2018-01-29 and 5.3.0 dated 2018-03-05
dtwclust-5.2.0/dtwclust/R/UTILS-expressions-proxy.R |only dtwclust-5.2.0/dtwclust/src/distance-calculators/DistanceCalculatorFactory.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/DtwBasicCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/GakCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/LbiCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/LbkCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/SbdCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/SdtwCalculator.cpp |only dtwclust-5.2.0/dtwclust/src/distance-calculators/concrete-calculators.h |only dtwclust-5.2.0/dtwclust/src/distmat-fillers/DistmatFillerFactory.cpp |only dtwclust-5.2.0/dtwclust/src/distmat-fillers/PairwiseFiller.cpp |only dtwclust-5.2.0/dtwclust/src/distmat-fillers/PrimaryFiller.cpp |only dtwclust-5.2.0/dtwclust/src/distmat-fillers/SymmetricFiller.cpp |only dtwclust-5.2.0/dtwclust/src/distmat-fillers/concrete-fillers.h |only dtwclust-5.2.0/dtwclust/src/distmat/DistmatFactory.cpp |only dtwclust-5.2.0/dtwclust/src/distmat/RDistmat.cpp |only dtwclust-5.2.0/dtwclust/src/distmat/concrete-distmat.h |only dtwclust-5.2.0/dtwclust/src/utils/SparseDistmatIndices.cpp |only dtwclust-5.3.0/dtwclust/DESCRIPTION | 27 dtwclust-5.3.0/dtwclust/MD5 | 184 dtwclust-5.3.0/dtwclust/NAMESPACE | 9 dtwclust-5.3.0/dtwclust/R/CENTROIDS-dba.R | 3 dtwclust-5.3.0/dtwclust/R/CLUSTERING-compare-clusterings.R | 1857 ++++------ dtwclust-5.3.0/dtwclust/R/CLUSTERING-ddist2.R | 4 dtwclust-5.3.0/dtwclust/R/CLUSTERING-repeat-clustering.R |only dtwclust-5.3.0/dtwclust/R/CLUSTERING-tsclust-controls.R | 402 +- dtwclust-5.3.0/dtwclust/R/CLUSTERING-tsclust.R | 1564 ++++---- dtwclust-5.3.0/dtwclust/R/DISTANCES-dtw-basic.R | 345 - dtwclust-5.3.0/dtwclust/R/DISTANCES-gak.R | 508 +- dtwclust-5.3.0/dtwclust/R/DISTANCES-lb-improved.R | 348 - dtwclust-5.3.0/dtwclust/R/DISTANCES-lb-keogh.R | 296 - dtwclust-5.3.0/dtwclust/R/DISTANCES-sbd.R | 388 +- dtwclust-5.3.0/dtwclust/R/DISTANCES-sdtw.R | 184 dtwclust-5.3.0/dtwclust/R/S4-PairTracker.R |only dtwclust-5.3.0/dtwclust/R/S4-TSClusters-classes.R | 4 dtwclust-5.3.0/dtwclust/R/S4-TSClusters-methods.R | 2 dtwclust-5.3.0/dtwclust/R/SHINY-interactive-clustering.R |only dtwclust-5.3.0/dtwclust/R/SHINY-ssdtwclust.R |only dtwclust-5.3.0/dtwclust/R/SHINY-utils.R |only dtwclust-5.3.0/dtwclust/R/UTILS-expressions.R |only dtwclust-5.3.0/dtwclust/R/UTILS-globals-internal.R | 43 dtwclust-5.3.0/dtwclust/R/UTILS-rng.R |only dtwclust-5.3.0/dtwclust/R/UTILS-utils.R | 620 +-- dtwclust-5.3.0/dtwclust/R/pkg.R | 9 dtwclust-5.3.0/dtwclust/inst/NEWS.Rd | 14 dtwclust-5.3.0/dtwclust/inst/doc/dtwclust.Rnw | 2 dtwclust-5.3.0/dtwclust/inst/doc/dtwclust.pdf |binary dtwclust-5.3.0/dtwclust/inst/doc/parallelization-considerations.R | 2 dtwclust-5.3.0/dtwclust/inst/doc/parallelization-considerations.Rmd | 2 dtwclust-5.3.0/dtwclust/inst/doc/parallelization-considerations.html | 28 dtwclust-5.3.0/dtwclust/inst/doc/timing-experiments.html | 172 dtwclust-5.3.0/dtwclust/inst/interactive-clustering |only dtwclust-5.3.0/dtwclust/inst/ssdtwclust |only dtwclust-5.3.0/dtwclust/man/DBA.Rd | 3 dtwclust-5.3.0/dtwclust/man/PairTracker-class.Rd |only dtwclust-5.3.0/dtwclust/man/TSClusters-class.Rd | 4 dtwclust-5.3.0/dtwclust/man/compare_clusterings.Rd | 7 dtwclust-5.3.0/dtwclust/man/dtw_basic.Rd | 3 dtwclust-5.3.0/dtwclust/man/dtwclust-package.Rd | 7 dtwclust-5.3.0/dtwclust/man/explore__plot.Rd |only dtwclust-5.3.0/dtwclust/man/explore__tidy_series.Rd |only dtwclust-5.3.0/dtwclust/man/interactive_clustering.Rd |only dtwclust-5.3.0/dtwclust/man/parse_input.Rd |only dtwclust-5.3.0/dtwclust/man/repeat_clustering.Rd |only dtwclust-5.3.0/dtwclust/man/ssdtwclust.Rd |only dtwclust-5.3.0/dtwclust/man/tsclust-controls.Rd | 7 dtwclust-5.3.0/dtwclust/man/tsclust.Rd | 22 dtwclust-5.3.0/dtwclust/man/tsclusters-methods.Rd | 2 dtwclust-5.3.0/dtwclust/src/centroids/centroids.h | 19 dtwclust-5.3.0/dtwclust/src/centroids/dba.cpp | 18 dtwclust-5.3.0/dtwclust/src/centroids/sdtw-cent.cpp | 113 dtwclust-5.3.0/dtwclust/src/distance-calculators/distance-calculators.cpp |only dtwclust-5.3.0/dtwclust/src/distance-calculators/distance-calculators.h | 163 dtwclust-5.3.0/dtwclust/src/distances/distances-details.h |only dtwclust-5.3.0/dtwclust/src/distances/distances.cpp |only dtwclust-5.3.0/dtwclust/src/distances/distances.h | 64 dtwclust-5.3.0/dtwclust/src/distances/dtw-basic.cpp | 77 dtwclust-5.3.0/dtwclust/src/distances/lbi.cpp | 33 dtwclust-5.3.0/dtwclust/src/distances/lbk.cpp | 25 dtwclust-5.3.0/dtwclust/src/distances/logGAK.cpp | 61 dtwclust-5.3.0/dtwclust/src/distances/soft-dtw.cpp | 96 dtwclust-5.3.0/dtwclust/src/distmat-fillers/distmat-fillers.cpp |only dtwclust-5.3.0/dtwclust/src/distmat-fillers/distmat-fillers.h | 40 dtwclust-5.3.0/dtwclust/src/distmat-loops/distmat-loop.cpp | 9 dtwclust-5.3.0/dtwclust/src/distmat-loops/distmat-loops.h | 13 dtwclust-5.3.0/dtwclust/src/distmat-loops/dtw-lb.cpp | 2 dtwclust-5.3.0/dtwclust/src/distmat/distmat.cpp |only dtwclust-5.3.0/dtwclust/src/distmat/distmat.h | 24 dtwclust-5.3.0/dtwclust/src/dtwclust.h | 2 dtwclust-5.3.0/dtwclust/src/init.cpp | 3 dtwclust-5.3.0/dtwclust/src/tadpole/tadpole.cpp | 2 dtwclust-5.3.0/dtwclust/src/tadpole/tadpole.h | 7 dtwclust-5.3.0/dtwclust/src/utils/KahanSummer.cpp | 10 dtwclust-5.3.0/dtwclust/src/utils/R-utils.cpp |only dtwclust-5.3.0/dtwclust/src/utils/R-utils.h |only dtwclust-5.3.0/dtwclust/src/utils/SurrogateMatrix.h |only dtwclust-5.3.0/dtwclust/src/utils/TSTSList.h | 23 dtwclust-5.3.0/dtwclust/src/utils/UndirectedGraph.cpp |only dtwclust-5.3.0/dtwclust/src/utils/UndirectedGraph.h |only dtwclust-5.3.0/dtwclust/src/utils/envelope.cpp | 25 dtwclust-5.3.0/dtwclust/src/utils/utils.cpp | 72 dtwclust-5.3.0/dtwclust/src/utils/utils.h | 30 dtwclust-5.3.0/dtwclust/tests/testthat/helper-all.R | 86 dtwclust-5.3.0/dtwclust/tests/testthat/system/comparisons.R | 572 +-- dtwclust-5.3.0/dtwclust/tests/testthat/system/partitional.R | 489 +- dtwclust-5.3.0/dtwclust/tests/testthat/test-04-system.R | 4 dtwclust-5.3.0/dtwclust/tests/testthat/test-06-parallel.R | 8 dtwclust-5.3.0/dtwclust/tests/testthat/unit/misc.R | 220 - dtwclust-5.3.0/dtwclust/vignettes/dtwclust.Rnw | 2 dtwclust-5.3.0/dtwclust/vignettes/parallelization-considerations.Rmd | 2 110 files changed, 4689 insertions(+), 4697 deletions(-)
Title: Regularized Wasserstein Distances and Barycenters
Description: Computations of Sinkhorn Distances (upper bounds to the Wasserstein Distance a.k.a. Earth Mover's Distance) and regularized Wasserstein Barycenters. Relevant papers are Marco Cuturi (2013) <arXiv:1306.0895>, Marco Cuturi (2014) <arXiv:1310.4375> and Jason Altschuler et al. <arXiv:1705.09634>. To speed up the computation time the main iteration steps are based on 'RcppArmadillo'.
Author: Marcel Klatt
Maintainer: Marcel Klatt <marcel.klatt@stud.uni-goettingen.de>
Diff between Barycenter versions 1.2 dated 2017-09-04 and 1.3 dated 2018-03-05
Barycenter-1.2/Barycenter/data/MNIST_three.RData |only Barycenter-1.2/Barycenter/man/MNIST_three.Rd |only Barycenter-1.3/Barycenter/DESCRIPTION | 10 +++--- Barycenter-1.3/Barycenter/MD5 | 26 +++++++++-------- Barycenter-1.3/Barycenter/NAMESPACE | 2 - Barycenter-1.3/Barycenter/R/Barycenter.R | 32 ++++++++++----------- Barycenter-1.3/Barycenter/R/RcppExports.R | 8 +++-- Barycenter-1.3/Barycenter/data/datalist | 2 - Barycenter-1.3/Barycenter/data/three.RData |only Barycenter-1.3/Barycenter/man/Greenkhorn.Rd |only Barycenter-1.3/Barycenter/man/SinkhornDistance.Rd | 26 ++++++++--------- Barycenter-1.3/Barycenter/man/WaBarycenter.Rd | 18 +++++------ Barycenter-1.3/Barycenter/man/eight.Rd | 2 - Barycenter-1.3/Barycenter/man/three.Rd |only Barycenter-1.3/Barycenter/src/Greenkhorn.cpp |only Barycenter-1.3/Barycenter/src/RcppExports.cpp | 29 +++++++++++++++---- Barycenter-1.3/Barycenter/src/SinkhornDistance.cpp | 25 ++++------------ 17 files changed, 96 insertions(+), 84 deletions(-)
Title: Association Rule Classification
Description: Implements the Classification-based on
Association Rules (CBA) (Bing Liu, Wynne Hsu, Yiming Ma (1999) <http://dl.acm.org/citation.cfm?id=3000292.3000305>) algorithm for association rule classification (ARC).
The package also contains several convenience methods that allow to automatically
set CBA parameters (minimum confidence, minimum support) and it also natively
handles numeric attributes by integrating a pre-discretization step.
The rule generation phase is handled by the 'arules' package.
To further decrease the size of the CBA models produced by the 'arc' package, postprocessing by the
'qCBA' package is suggested.
Author: Tomas Kliegr [aut, cre]
Maintainer: Tomas Kliegr <kliegr@gmail.com>
Diff between arc versions 1.1.3 dated 2017-11-15 and 1.1.4 dated 2018-03-05
DESCRIPTION | 19 +++++++++++++------ MD5 | 17 +++++++++-------- NEWS |only R/cba.R | 2 +- R/m1prune.R | 2 +- R/mdlp2.R | 1 + R/toprules.R | 2 +- man/discrNumeric.Rd | 1 + man/prune.Rd | 2 +- man/topRules.Rd | 2 +- 10 files changed, 29 insertions(+), 19 deletions(-)
More information about OptimClassifier at CRAN
Permanent link
More information about NormExpression at CRAN
Permanent link
Title: Simulating Community Assembly and Ecological Diversification
Using Ecospace Frameworks
Description: Implements stochastic simulations of community assembly (ecological
diversification) using customizable ecospace frameworks (functional trait
spaces). Provides a wrapper to calculate common ecological disparity and
functional ecology statistical dynamics as a function of species richness.
Functions are written so they will work in a parallel-computing environment.
Author: Phil Novack-Gottshall [aut, cre]
Maintainer: Phil Novack-Gottshall <pnovack-gottshall@ben.edu>
Diff between ecospace versions 1.2.3 dated 2018-02-18 and 1.3.1 dated 2018-03-05
DESCRIPTION | 8 +- MD5 | 36 +++++------ R/calc_metrics.R | 114 ++++++++++++++++++++++++---------- R/create_ecospace.R | 160 +++++++++++++++++++++++++++++++------------------ R/expansion.R | 65 ++++++++++++------- R/neutral.R | 20 +++--- R/partitioning.R | 73 ++++++++++++++-------- R/prep_data.R | 41 +++++++++--- R/rbind_listdf.R | 30 ++++----- R/redundancy.R | 28 +++++--- R/sample2.R | 3 R/unique2.R | 5 - inst/NEWS.Rd | 15 ++++ inst/doc/ecospace.Rmd | 8 -- inst/doc/ecospace.html | 25 +------ man/calc_metrics.Rd | 4 - man/create_ecospace.Rd | 18 +++-- man/rbind_listdf.Rd | 5 - vignettes/ecospace.Rmd | 8 -- 19 files changed, 410 insertions(+), 256 deletions(-)
Title: Empirical Data Platform Client
Description: R client for Empirical Data Platform. More information is at <https://empirical.com>. For support, contact support@empirical.com.
Author: Empirical Engineering
Maintainer: Madeleine Thompson <madeleine@empirical.com>
Diff between edpclient versions 0.2.0 dated 2017-08-24 and 0.3.1 dated 2018-03-05
DESCRIPTION | 11 + MD5 | 35 +++-- NAMESPACE | 8 + R/create_population.R | 38 +++++- R/dataframes.R | 29 ++++ R/popmod.R | 190 ++++++++++++++++++++------------ R/population.R | 35 +++++ R/session.R | 2 build/partial.rdb |binary man/build_popmod.Rd | 5 man/col_assoc.Rd | 4 man/joint_probability.Rd |only man/precision.Rd |only man/schema.Rd | 9 - man/simulate.edp_population_model.Rd | 14 +- tests/testthat/test_create_population.R | 34 ++++- tests/testthat/test_dataframes.R | 12 ++ tests/testthat/test_date_populations.R |only tests/testthat/test_population.R | 2 tests/testthat/test_session.R | 55 +++++++-- 20 files changed, 356 insertions(+), 127 deletions(-)
Title: Wicked-Fast Streaming 'JSON' ('ndjson') Reader
Description: Streaming 'JSON' ('ndjson') has one 'JSON' record per-line and
many modern 'ndjson' files contain large numbers of records. These constructs
may not be columnar in nature, but it is often useful to read in these files
and "flatten" the structure out to enable working with the data in an R
'data.frame'-like context. Functions are provided that make it possible to read
in plain 'ndjson' files or compressed ('gz') 'ndjson' files and either validate
the format of the records or create "flat" 'data.table' structures from them.
Author: Bob Rudis (bob@rud.is), Niels Lohmann (C++ json parser),
Deepak Bandyopadhyay (C++ gzstream), Lutz Kettner (C++ gzstream)
Maintainer: Bob Rudis <bob@rud.is>
Diff between ndjson versions 0.5.0 dated 2017-06-28 and 0.6.0 dated 2018-03-05
DESCRIPTION | 13 LICENSE |only MD5 | 19 NEWS.md | 9 R/RcppExports.R | 12 R/ndjson.R | 6 README.md | 178 src/RcppExports.cpp | 30 src/json.h |18021 ++++++++++++++++++++++++------------------- src/ndjson.cpp | 6 tests/testthat/test-ndjson.R | 9 11 files changed, 10484 insertions(+), 7819 deletions(-)
Title: Functional Rarity Indices Computation
Description: Computes functional rarity indices as proposed by Violle et al.
(2017) <doi:10.1016/j.tree.2017.02.002>. Various indices can be computed
using both regional and local information. Functional Rarity combines both
the functional aspect of rarity as well as the extent aspect of rarity.
'funrar' is presented in Grenié et al. (2017) <doi:10.1111/ddi.12629>.
Author: Matthias Grenié [aut, cre] (<https://orcid.org/0000-0002-4659-7522>),
Pierre Denelle [aut] (<https://orcid.org/0000-0001-5037-2281>),
Caroline Tucker [aut] (<https://orcid.org/0000-0002-4871-2010>),
François Munoz [ths] (<https://orcid.org/0000-0001-8776-4705>),
Cyrille Violle [ths] (<https://orcid.org/0000-0002-2471-9226>)
Maintainer: Matthias Grenié <matthias.grenie@gmail.com>
Diff between funrar versions 1.2.1 dated 2018-02-19 and 1.2.2 dated 2018-03-05
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- NEWS.md | 4 ++++ build/vignette.rds |binary inst/doc/rarity_indices.Rmd | 4 ++-- inst/doc/rarity_indices.html | 6 +++--- inst/doc/sparse_matrices.Rmd | 4 ++-- inst/doc/sparse_matrices.html | 26 +++++++++++++------------- tests/testthat/test-rarity_dimensions.R | 10 ++-------- vignettes/rarity_indices.Rmd | 4 ++-- vignettes/sparse_matrices.Rmd | 4 ++-- 11 files changed, 44 insertions(+), 46 deletions(-)
Title: Somoclu
Description: Somoclu is a massively parallel implementation of self-organizing maps. It exploits multicore CPUs and it can be accelerated by CUDA. The topology of the map can be planar or toroid and the grid of neurons can be rectangular or hexagonal .
Author: Peter Wittek [aut],
Shichao Gao [cre]
Maintainer: Shichao Gao <xgdgsc@gmail.com>
Diff between Rsomoclu versions 1.7.5 dated 2018-03-03 and 1.7.5.1 dated 2018-03-05
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- data/rgbs.txt.gz |binary src/training.cpp | 22 +++++++++++----------- tests/R_interface_test.R | 2 +- 5 files changed, 19 insertions(+), 19 deletions(-)
Title: Miscellaneous R Functions and Aliases
Description: Provides utility functions for, and drawing on, the 'data.table' package. The package also collates useful miscellaneous functions extending base R not available elsewhere. The name is a portmanteau of 'utils' and the author.
Author: Hugh Parsonage [aut, cre]
Maintainer: Hugh Parsonage <hugh.parsonage@gmail.com>
Diff between hutils versions 0.10.0 dated 2018-01-24 and 1.0.0 dated 2018-03-05
hutils-0.10.0/hutils/R/find_pattern_in_windows.R |only hutils-0.10.0/hutils/R/print_transpose_data.table.R |only hutils-0.10.0/hutils/man/print_transpose_data.table.Rd |only hutils-0.10.0/hutils/tests/testthat/test_aliases.R |only hutils-0.10.0/hutils/tests/testthat/test_bearing.R |only hutils-0.10.0/hutils/tests/testthat/test_coalesce.R |only hutils-0.10.0/hutils/tests/testthat/test_cols_first.R |only hutils-0.10.0/hutils/tests/testthat/test_dir.R |only hutils-0.10.0/hutils/tests/testthat/test_drop_colr.R |only hutils-0.10.0/hutils/tests/testthat/test_drop_cols.R |only hutils-0.10.0/hutils/tests/testthat/test_drop_constant_cols.R |only hutils-0.10.0/hutils/tests/testthat/test_drop_empty_cols.R |only hutils-0.10.0/hutils/tests/testthat/test_duplicated_rows.R |only hutils-0.10.0/hutils/tests/testthat/test_ein.R |only hutils-0.10.0/hutils/tests/testthat/test_generate_LaTeX_manual.R |only hutils-0.10.0/hutils/tests/testthat/test_haversine_distance.R |only hutils-0.10.0/hutils/tests/testthat/test_if_else.R |only hutils-0.10.0/hutils/tests/testthat/test_mutate_other.R |only hutils-0.10.0/hutils/tests/testthat/test_ngrep.R |only hutils-0.10.0/hutils/tests/testthat/test_notin.R |only hutils-0.10.0/hutils/tests/testthat/test_pin.R |only hutils-0.10.0/hutils/tests/testthat/test_print_transpose_data_table.R |only hutils-0.10.0/hutils/tests/testthat/test_report_error.R |only hutils-0.10.0/hutils/tests/testthat/test_select_which.R |only hutils-0.10.0/hutils/tests/testthat/test_unique-keys.R |only hutils-0.10.0/hutils/tests/testthat/test_weight2var.R |only hutils-0.10.0/hutils/tests/testthat/transpose |only hutils-1.0.0/hutils/DESCRIPTION | 11 hutils-1.0.0/hutils/MD5 | 82 +++---- hutils-1.0.0/hutils/NAMESPACE | 2 hutils-1.0.0/hutils/NEWS.md | 4 hutils-1.0.0/hutils/R/find_pattern.R | 113 ++++++---- hutils-1.0.0/hutils/R/implies.R | 52 +++- hutils-1.0.0/hutils/R/mutate_other.R | 4 hutils-1.0.0/hutils/R/notchin.R |only hutils-1.0.0/hutils/R/notin.R | 10 hutils-1.0.0/hutils/R/unique-keys.R | 56 ++-- hutils-1.0.0/hutils/inst/doc/hutils.html | 49 ++-- hutils-1.0.0/hutils/man/find_pattern_in.Rd | 19 + hutils-1.0.0/hutils/man/grapes-notchin-grapes.Rd |only hutils-1.0.0/hutils/man/grapes-notin-grapes.Rd | 6 hutils-1.0.0/hutils/man/implies.Rd | 8 hutils-1.0.0/hutils/tests/testthat/test-1-0-0-major-aliases.R |only hutils-1.0.0/hutils/tests/testthat/test-1-0-0-major-coalesce.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-aliases.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-bearing.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-coalesce.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-cols_first.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-dir.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0-major-drop_colr.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_aliases.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_coalesce.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_drop_colr.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_drop_cols.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_drop_constant_cols.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_drop_empty_cols.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_duplicated_rows.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_ein.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_generate_LaTeX_manual.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_haversine_distance.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_if_else.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_mutate_other.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_ngrep.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_notin.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_pin.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_report_error.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_select_which.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_unique-keys.R |only hutils-1.0.0/hutils/tests/testthat/test_1-0-0_weight2var.R |only hutils-1.0.0/hutils/tests/testthat/test_find_pattern_in.R | 85 ++++++- 70 files changed, 323 insertions(+), 178 deletions(-)
Title: Discrete Bayesian Additive Regression Trees Sampler
Description: Fits Bayesian additive regression trees (BART; Chipman, George, and McCulloch (2010) <doi:10.1214/09-AOAS285>) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/MH sampler. Also serves as a drop-in replacement for package 'BayesTree'.
Author: Vincent Dorie [aut, cre],
Hugh Chipman [aut],
Robert McCulloch [aut]
Maintainer: Vincent Dorie <vdorie@gmail.com>
Diff between dbarts versions 0.9-0 dated 2018-03-03 and 0.9-1 dated 2018-03-05
DESCRIPTION | 10 +++--- MD5 | 30 ++++++++++---------- configure | 29 ++++++------------- configure.ac | 3 -- src/config.hpp.win | 4 +- src/dbarts/bartFit.cpp | 45 ++++++++++++++++++++++++------- src/dbarts/config.hpp.win | 4 +- src/external/adaptiveRadixTree.c | 32 +++++++++++++++++++--- src/external/config.h.in | 3 -- src/external/config.h.win | 4 +- src/external/randomBase.c | 29 ++++++------------- src/include/external/random.h | 2 + src/makeModelMatrixFromDataFrame.c | 15 +++++++--- tests/testthat/test-02-dbartsModelArgs.R | 4 ++ tests/testthat/test-03-dbartsControl.R | 4 +- tests/testthat/test-06-dbartsSampler.R | 11 ++++--- 16 files changed, 133 insertions(+), 96 deletions(-)
Title: Quantile Regression for Random Variables on the Unit Interval
Description: Employs a two-parameter family of
distributions for modelling random variables on the (0, 1) interval by
applying the cumulative distribution function (cdf) of one parent
distribution to the quantile function of another.
Author: Yiyun Shou [aut, cre],
Michael Smithson [aut]
Maintainer: Yiyun Shou <yiyun.shou@anu.edu.au>
Diff between cdfquantreg versions 1.1.3 dated 2017-08-28 and 1.2.0 dated 2018-03-05
DESCRIPTION | 8 - MD5 | 45 ++++++---- NAMESPACE | 18 ++++ NEWS | 7 + R/cdfquantregCensor.R |only R/cdfquantregHurdle.R |only R/data.R | 24 +++++ R/qrFitted.R | 104 +++++++++++++++++++++++ R/qrHMethod.R |only R/qrInfluence.R | 123 ++++++++++++++++++++++++++++ R/qrLRT.R | 35 +++++++ R/qrMethod.R | 2 R/qrPlot.R | 1 build/vignette.rds |binary data/cdfqrExampleData.rda |binary inst/doc/HurdleModelVignetteDraft.R |only inst/doc/HurdleModelVignetteDraft.Rmd |only inst/doc/HurdleModelVignetteDraft.html |only inst/doc/IPCCExample.html | 12 +- inst/doc/Smithson_Verkuilen2006Example.html | 24 ++--- man/ExtEvent.Rd |only man/anova.cdfqr.Rd | 3 man/cdfquantregC.Rd |only man/cdfquantregH.Rd |only man/influence.cdfqr.Rd | 13 ++ man/predict.cdfqr.Rd | 8 + man/summary.cdfqr.Rd | 2 man/summary.cdfqrH.Rd |only vignettes/HurdleModelVignetteDraft.Rmd |only 29 files changed, 386 insertions(+), 43 deletions(-)
Title: Utilities from 'Seminar fuer Statistik' ETH Zurich
Description: Useful utilities ['goodies'] from Seminar fuer Statistik ETH Zurich,
some of which were ported from S-plus in the 1990's.
For graphics, have pretty (Log-scale) axes, an enhanced Tukey-Anscombe
plot, combining histogram and boxplot, 2d-residual plots, a 'tachoPlot()',
pretty arrows, etc.
For robustness, have a robust F test and robust range().
For system support, notably on Linux, provides 'Sys.*()' functions with
more access to system and CPU information.
Finally, miscellaneous utilities such as simple efficient prime numbers,
integer codes, Duplicated(), toLatex.numeric() and is.whole().
Author: Martin Maechler [aut, cre],
Werner Stahel [ctb] (Functions: compresid2way(), f.robftest(), last(),
p.scales(), p.dnorm()),
Andreas Ruckstuhl [ctb] (Functions: p.arrows(), p.profileTraces(),
p.res.2x()),
Christian Keller [ctb] (Functions: histBxp(), p.tachoPlot()),
Kjetil Halvorsen [ctb] (Functions: KSd(), ecdf.ksCI()),
Alain Hauser [ctb] (Functions: cairoSwd(), is.whole(),
toLatex.numeric()*),
Christoph Buser [ctb] (to function Duplicated()),
Lorenz Gygax [ctb] (to function p.res.2fact()),
Bill Venables [ctb] (Functions: empty.dimnames(), primes()),
Tony Plate [ctb] (to inv.seq()),
Isabelle Flckiger [ctb],
Marcel Wolbers [ctb],
Markus Keller [ctb],
Sandrine Dudoit [ctb],
Jane Fridlyand [ctb],
Greg Snow [ctb] (to loessDemo()),
Henrik Aa. Nielsen [ctb] (to loessDemo()),
Vincent Carey [ctb],
Ben Bolker [ctb],
Philippe Grosjean [ctb],
Frdric Ibanez [ctb],
Caterina Savi [ctb],
Charles Geyer [ctb],
Jens Oehlschlgel [ctb]
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between sfsmisc versions 1.1-1 dated 2017-06-08 and 1.1-2 dated 2018-03-05
DESCRIPTION | 84 ++++++++++++++++++++++++++++++++++++++++++++----- MD5 | 66 +++++++++++++++++++------------------- NAMESPACE | 2 + R/misc-goodies.R | 37 +++++++++++++++------ R/p.goodies.R | 2 - R/sourceAttach.R | 4 +- R/unix/Sys.ps.R | 1 R/unix/package-props.R |only R/zzz.R | 5 ++ TODO | 3 + inst/NEWS.Rd | 30 +++++++++++++++-- man/Duplicated.Rd | 2 - man/TA.plot.Rd | 3 - man/diagDA.Rd | 8 ++-- man/digitsBase.Rd | 4 +- man/ecdf.ksCI.Rd | 5 +- man/errbar.Rd | 2 - man/f.robftest.Rd | 2 - man/factorize.Rd | 2 - man/funEnv.Rd |only man/histBxp.Rd | 4 +- man/last.Rd | 2 - man/loessDemo.Rd | 8 ---- man/mat2tex.Rd | 2 - man/nearcor.Rd | 2 - man/p.res.2x.Rd | 36 ++++++++++++++------- man/polyn.eval.Rd | 4 +- man/posdefify.Rd | 4 +- man/pretty10exp.Rd | 2 - man/primes.Rd | 2 - man/read.org.table.Rd | 2 - man/toLatex.numeric.Rd | 3 - man/u.datumdecode.Rd | 2 - man/wrapFormula.Rd | 4 +- tests/misc.R | 1 35 files changed, 233 insertions(+), 107 deletions(-)
Title: Translate CSS Selectors to XPath Expressions
Description: Translates a CSS3 selector into an equivalent XPath
expression. This allows us to use CSS selectors when working with
the XML package as it can only evaluate XPath expressions. Also
provided are convenience functions useful for using CSS selectors on
XML nodes. This package is a port of the Python package 'cssselect'
(<https://pythonhosted.org/cssselect/>).
Author: Simon Potter [aut, trl, cre],
Simon Sapin [aut],
Ian Bicking [aut]
Maintainer: Simon Potter <simon@sjp.co.nz>
Diff between selectr versions 0.3-1 dated 2016-12-19 and 0.3-2 dated 2018-03-05
DESCRIPTION | 8 - MD5 | 14 +-- R/main.R | 4 R/xpath.R | 68 ++++++++++++++-- R/zzz.R | 112 +++++++++----------------- inst/NEWS.Rd | 24 +++++ tests/testthat/test-method-registration.R | 126 ------------------------------ tests/testthat/test-select-xml2.R | 12 +- 8 files changed, 141 insertions(+), 227 deletions(-)
Title: 'Entrez' in R
Description: Provides an R interface to the NCBI's 'EUtils' API,
allowing users to search databases like 'GenBank'
<https://www.ncbi.nlm.nih.gov/genbank/> and 'PubMed'
<https://www.ncbi.nlm.nih.gov/pubmed/>, process the
results of those searches and pull data into their R sessions.
Author: David Winter [aut, cre] (<https://orcid.org/0000-0002-6165-0029>),
Scott Chamberlain [ctb] (<https://orcid.org/0000-0003-1444-9135>),
Han Guangchun [ctb] (<https://orcid.org/0000-0001-9277-2507>)
Maintainer: David Winter <david.winter@gmail.com>
Diff between rentrez versions 1.2.0 dated 2018-02-11 and 1.2.1 dated 2018-03-05
DESCRIPTION | 26 MD5 | 16 NEWS | 10 R/entrez_fetch.r | 17 build/vignette.rds |binary inst/doc/rentrez_tutorial.html | 1395 ++++++++++++++++++++++++++++------------- man/entrez_fetch.Rd | 18 tests/testthat/test_fetch.r | 4 tests/testthat/test_summary.r | 8 9 files changed, 1017 insertions(+), 477 deletions(-)
Title: Dictionaries and Word Lists for the 'qdap' Package
Description: A collection of text analysis dictionaries and word lists for use with
the 'qdap' package.
Author: Tyler Rinker
Maintainer: Tyler Rinker <tyler.rinker@gmail.com>
Diff between qdapDictionaries versions 1.0.6 dated 2015-05-20 and 1.0.7 dated 2018-03-05
DESCRIPTION | 12 +- MD5 | 170 ++++++++++++++++++------------------- NAMESPACE | 2 NEWS | 14 ++- R/left.just.R | 2 R/qdapDictionaries-package.R | 12 -- R/view_data.R | 2 README.md | 14 --- data/BuckleySaltonSWL.rda |binary data/DICTIONARY.rda |binary data/Dolch.rda |binary data/Fry_1000.rda |binary data/GradyAugmented.rda |binary data/Leveled_Dolch.rda |binary data/NAMES.rda |binary data/NAMES_LIST.rda |binary data/NAMES_SEX.rda |binary data/OnixTxtRetToolkitSWL1.rda |binary data/Top100Words.rda |binary data/Top200Words.rda |binary data/Top25Words.rda |binary data/abbreviations.rda |binary data/action.verbs.rda |binary data/adverb.rda |binary data/amplification.words.rda |binary data/contractions.rda |binary data/deamplification.words.rda |binary data/discourse.markers.alemany.rda |binary data/emoticon.rda |binary data/function.words.rda |binary data/interjections.rda |binary data/key.pol.rda |binary data/key.power.rda |binary data/key.strength.rda |binary data/key.syl.rda |binary data/key.syn.rda |binary data/labMT.rda |binary data/negation.words.rda |binary data/negative.words.rda |binary data/positive.words.rda |binary data/power.words.rda |binary data/preposition.rda |binary data/strong.words.rda |binary data/submit.words.rda |binary data/weak.words.rda |binary inst/CITATION | 4 man/BuckleySaltonSWL.Rd | 3 man/DICTIONARY.Rd | 13 +- man/Dolch.Rd | 3 man/Fry_1000.Rd | 5 - man/GradyAugmented.Rd | 19 +--- man/Leveled_Dolch.Rd | 5 - man/NAMES.Rd | 9 - man/NAMES_LIST.Rd | 13 +- man/NAMES_SEX.Rd | 11 +- man/OnixTxtRetToolkitSWL1.Rd | 3 man/Top100Words.Rd | 11 +- man/Top200Words.Rd | 11 +- man/Top25Words.Rd | 11 +- man/abbreviations.Rd | 5 - man/action.verbs.Rd | 12 -- man/adverb.Rd | 12 -- man/amplification.words.Rd | 5 - man/contractions.Rd | 5 - man/deamplification.words.Rd | 5 - man/discourse.markers.alemany.Rd | 27 ++--- man/emoticon.Rd | 7 - man/function.words.Rd | 9 - man/interjections.Rd | 3 man/key.pol.Rd | 7 - man/key.power.Rd | 3 man/key.strength.Rd | 3 man/key.syl.Rd | 3 man/key.syn.Rd | 5 - man/labMT.Rd | 17 +-- man/negation.words.Rd | 5 - man/negative.words.Rd | 7 - man/positive.words.Rd | 7 - man/power.words.Rd | 7 - man/preposition.Rd | 3 man/print.view_data.Rd | 3 man/qdapDictionaries.Rd | 5 - man/strong.words.Rd | 7 - man/submit.words.Rd | 7 - man/view_data.Rd | 3 man/weak.words.Rd | 7 - 86 files changed, 245 insertions(+), 293 deletions(-)
More information about qdapDictionaries at CRAN
Permanent link
Title: Photobiological Calculations
Description: Definitions of classes, methods, operators and functions for use in
photobiology and radiation meteorology and climatology. Calculation of
effective (weighted) and not-weighted irradiances/doses, fluence rates,
transmittance, reflectance, absorptance, absorbance and diverse
ratios and other derived quantities from spectral data. Local maxima and
minima. Conversion between energy- and photon-based units. Wavelength
interpolation. Astronomical calculations related solar angles and day
length. Colours and vision. This package is part of the
'r4photobiology' suite, Aphalo P. J. (2015) <doi:10.19232/uv4pb.2015.1.14>.
Author: Pedro J. Aphalo [aut, cre] (<https://orcid.org/0000-0003-3385-972X>),
Titta K. Kotilainen [ctb]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiology versions 0.9.18-1 dated 2017-12-18 and 0.9.19 dated 2018-03-05
DESCRIPTION | 15 MD5 | 476 ++++++------ NAMESPACE | 7 NEWS | 16 R/as.energy.r | 14 R/as.quantum.mol.r | 13 R/as.quantum.r | 11 R/auto.hinges.r | 19 R/calc.multipliers.r | 38 - R/calc.source.output.r | 54 - R/check.spectrum.r | 12 R/color.of.R | 15 R/copy.attr.R | 131 +++ R/d2.spectrum.r | 4 R/div.spectra.r | 24 R/e2qmol.multipliers.r | 4 R/e2quantum.multipliers.r | 8 R/energy.irradiance.r | 31 R/energy.ratio.r | 36 R/filter.data.r | 2 R/head-tail.R | 9 R/insert.hinges.r | 58 - R/integrate.xy.r | 6 R/interpolate.spectrum.r | 48 - R/irradiance.r | 55 - R/join.mspct.R | 77 +- R/meeus.r | 40 - R/mspct.methods.R | 55 + R/na.rm.R | 2 R/oper.spectra.r | 12 R/photobiology.r | 13 R/photon.irradiance.r | 42 - R/photon.ratio.r | 64 - R/photons.energy.ratio.r | 49 - R/prod.spectra.r | 33 R/rbindspct.r | 9 R/response.data.r | 2 R/s.e.irrad2rgb.r | 110 +- R/spct.absorbance.R | 30 R/spct.absorptance.R | 33 R/spct.classes.r | 49 - R/spct.clean.r | 80 +- R/spct.conversion.R | 4 R/spct.fscale.r | 83 +- R/spct.fshift.r | 66 + R/spct.insert.spct.hinges.r | 2 R/spct.integrate.r | 44 - R/spct.irrad.r | 235 ++++-- R/spct.new.r | 13 R/spct.normalize.r | 64 + R/spct.operators.r | 196 ++++- R/spct.peaks.r | 50 + R/spct.ratios.R | 136 ++- R/spct.reflectance.r | 35 R/spct.response.R | 122 ++- R/spct.smooth.spct.r | 23 R/spct.summaries.r | 2 R/spct.tag.r | 51 - R/spct.transmittance.r | 50 - R/spct.trim.r | 108 +- R/split.energy.irradiance.r | 43 - R/split.irradiance.r | 46 - R/split.photon.irradiance.r | 75 -- R/subt.spectra.r | 33 R/sum.spectra.r | 39 - R/sun.calc.r | 47 - R/sun.data.r | 2 R/trim.tails.r | 39 - R/trim.waveband.r | 13 R/w.length.range2rgb.r | 16 R/waveband.class.r | 14 R/waveband.new.r | 20 R/waveband.ratio.r | 42 - R/zmspct.classes.R | 16 README.md | 4 data/black_body.spct.rda |binary data/clear.spct.rda |binary data/clear_body.spct.rda |binary data/opaque.spct.rda |binary data/polyester.spct.rda |binary data/sun.daily.spct.rda |binary data/sun.spct.rda |binary data/white-led-spct.rda |binary data/white_body.spct.rda |binary inst/doc/userguide1-intro.html | 6 inst/doc/userguide2-radiation.R | 19 inst/doc/userguide2-radiation.Rmd | 80 -- inst/doc/userguide2-radiation.html | 1380 ++++++++++++++++++------------------- inst/doc/userguide3-astronomy.html | 132 +-- man/A2T.Rd | 15 man/D2_spectrum.Rd | 4 man/MathFun.Rd | 2 man/T2A.Rd | 14 man/T2Afr.Rd | 16 man/T2T.Rd | 18 man/Trig.Rd | 2 man/absorbance.Rd | 25 man/absorptance.Rd | 25 man/add_attr2tb.Rd | 8 man/as.generic_spct.Rd | 2 man/as.solar_date.Rd | 2 man/as_energy.Rd | 35 man/as_quantum.Rd | 15 man/as_quantum_mol.Rd | 35 man/as_tod.Rd | 2 man/auto_hinges.Rd |only man/average_spct.Rd | 2 man/calc_multipliers.Rd | 35 man/calc_source_output.Rd | 31 man/ccd.spct.Rd | 2 man/checkMspctVersion.Rd | 2 man/check_spectrum.Rd | 8 man/clean.Rd | 24 man/clear.spct.Rd | 2 man/clear_photobio.cache.Rd | 2 man/clip_wl.Rd | 13 man/color_of.Rd | 12 man/convolve_each.Rd | 2 man/copy_attributes.Rd | 3 man/cps2irrad.Rd | 4 man/day_night.Rd | 10 man/div_spectra.Rd | 38 - man/e2q.Rd | 22 man/e2qmol_multipliers.Rd | 7 man/e2quantum_multipliers.Rd | 5 man/e_fluence.Rd | 30 man/e_irrad.Rd | 43 - man/e_ratio.Rd | 38 - man/e_response.Rd | 29 man/energy_irradiance.Rd | 46 - man/energy_ratio.Rd | 54 - man/eq_ratio.Rd | 30 man/extract.Rd | 2 man/find_peaks.Rd | 4 man/fluence.Rd | 44 - man/fscale.Rd | 33 man/fscale_spct.Rd | 2 man/fshift.Rd | 27 man/fshift_spct.Rd | 2 man/generic_mspct.Rd | 4 man/getBSWFUsed.Rd | 2 man/getInstrDesc.Rd | 1 man/getInstrSettings.Rd | 1 man/getMspctVersion.Rd | 2 man/getNormalized.Rd | 2 man/getScaled.Rd | 2 man/getWhatMeasured.Rd | 1 man/getWhenMeasured.Rd | 1 man/getWhereMeasured.Rd | 1 man/get_attributes.Rd |only man/head_tail.Rd | 9 man/insert_hinges.Rd | 34 man/insert_spct_hinges.Rd | 2 man/integrate_xy.Rd | 23 man/interpolate_spct.Rd | 15 man/interpolate_spectrum.Rd | 46 - man/interpolate_wl.Rd | 15 man/irrad.Rd | 37 man/irradiance.Rd | 53 - man/isValidInstrDesc.Rd | 1 man/isValidInstrSettings.Rd | 1 man/is_absorbance_based.Rd | 2 man/is_effective.Rd | 4 man/is_photon_based.Rd | 4 man/is_scaled.Rd | 2 man/is_tagged.Rd | 2 man/join_mspct.Rd | 39 - man/julian_day.Rd | 18 man/l_insert_hinges.Rd | 31 man/log.Rd | 2 man/merge2object_spct.Rd | 4 man/msmsply.Rd | 20 man/na.omit.source_spct.Rd | 2 man/normalization.Rd | 2 man/normalize.Rd | 30 man/oper_spectra.Rd | 29 man/peaks.Rd | 13 man/photobiology-package.Rd | 18 man/photon_irradiance.Rd | 44 - man/photon_ratio.Rd | 50 - man/photons_energy_ratio.Rd | 42 - man/prod_spectra.Rd | 34 man/q2e.Rd | 20 man/q_fluence.Rd | 42 - man/q_irrad.Rd | 44 - man/q_ratio.Rd | 33 man/q_response.Rd | 29 man/qe_ratio.Rd | 32 man/rbindspct.Rd | 4 man/reflectance.Rd | 20 man/reflectance_spct.Rd | 5 man/resp_spct.Rd | 20 man/response.Rd | 33 man/rgb_spct.Rd | 3 man/rmDerivedMspct.Rd | 4 man/rmDerivedSpct.Rd | 2 man/round.Rd | 2 man/s_e_irrad2rgb.Rd | 35 man/setGenericSpct.Rd | 2 man/setInstrDesc.Rd | 1 man/setInstrSettings.Rd | 1 man/setNormalized.Rd | 2 man/setScaled.Rd | 2 man/setTimeUnit.Rd | 2 man/setWhatMeasured.Rd | 1 man/setWhenMeasured.Rd | 1 man/setWhereMeasured.Rd | 1 man/smooth_spct.Rd | 10 man/solar_time.Rd | 8 man/source_spct.Rd | 6 man/split2mspct.Rd | 2 man/split_bands.Rd | 6 man/split_energy_irradiance.Rd | 55 - man/split_irradiance.Rd | 35 man/split_photon_irradiance.Rd | 55 - man/stepsize.Rd | 2 man/subset2mspct.Rd | 2 man/subt_spectra.Rd | 34 man/sum_spectra.Rd | 40 - man/sun.daily.spct.Rd | 2 man/sun_angles.Rd | 4 man/tag.Rd | 23 man/transmittance.Rd | 27 man/transmittance_spct.Rd | 16 man/trimInstrDesc.Rd | 1 man/trimInstrSettings.Rd | 1 man/trim_spct.Rd | 49 - man/trim_tails.Rd | 51 - man/trim_waveband.Rd | 16 man/trim_wl.Rd | 29 man/untag.Rd | 6 man/v_insert_hinges.Rd | 43 - man/valleys.Rd | 13 man/w_length2rgb.Rd | 1 man/w_length_range2rgb.Rd | 12 man/waveband.Rd | 14 man/waveband_ratio.Rd | 29 man/wb2rect_spct.Rd | 2 man/wb2tagged_spct.Rd | 11 vignettes/userguide2-radiation.Rmd | 80 -- 240 files changed, 4643 insertions(+), 3012 deletions(-)
Title: DIF and DDF Detection by Non-Linear Regression Models
Description: Detection of differential item functioning (DIF) among dichotomously scored items and differential distractor functioning (DDF) among unscored items with non-linear regression procedures based on generalized logistic regression models (Drabinova and Martinkova, 2017, <doi:10.1111/jedm.12158>).
Author: Adela Drabinova [aut, cre],
Patricia Martinkova [aut],
Karel Zvara [aut]
Maintainer: Adela Drabinova <drabinova@cs.cas.cz>
Diff between difNLR versions 1.1.1 dated 2017-08-29 and 1.2.1 dated 2018-03-05
DESCRIPTION | 24 - MD5 | 83 +-- NAMESPACE | 14 NEWS | 159 ++++++ R/GMAT.R | 2 R/GMAT2.R | 6 R/GMAT2key.R | 6 R/GMAT2test.R | 6 R/GMATkey.R | 2 R/GMATtest.R | 2 R/MLR.R | 33 + R/MSATB.R | 7 R/MSATBkey.R | 7 R/MSATBtest.R | 7 R/NLR.R | 373 ++++++++++------ R/checkInterval.R |only R/ddfMLR.R | 117 ++++- R/difNLR-package.R | 26 - R/difNLR.R | 1146 +++++++++++++++++++++++++++++++++++--------------- R/estimNLR.R |only R/formulaNLR.R | 48 +- R/genNLR.R | 228 ++++++++- R/startNLR.R | 179 +++++-- README.md | 22 inst |only man/GMAT.Rd | 2 man/GMAT2.Rd | 6 man/GMAT2key.Rd | 6 man/GMAT2test.Rd | 6 man/GMATkey.Rd | 2 man/GMATtest.Rd | 2 man/MLR.Rd | 18 man/MSATB.Rd | 7 man/MSATBkey.Rd | 7 man/MSATBtest.Rd | 7 man/NLR.Rd | 62 +- man/checkInterval.Rd |only man/ddfMLR.Rd | 20 man/difNLR-package.Rd | 26 - man/difNLR.Rd | 191 ++++---- man/estimNLR.Rd |only man/formulaNLR.Rd | 18 man/genNLR.Rd | 118 +++-- man/plot.difNLR.Rd |only man/predict.difNLR.Rd |only man/startNLR.Rd | 29 + 46 files changed, 2095 insertions(+), 929 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-12 3.0.1
2016-06-06 2.0.11
2015-07-20 2.0.10
2014-05-21 2.0.8
2013-11-28 2.0.7
2013-10-26 2.0.6
2013-09-08 2.0.5
2013-08-02 2.0.4
2013-05-30 2.0.3
2013-05-28 2.0.2
2013-01-16 1.1.16
2012-10-15 1.1.15
2012-07-06 1.1.14
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-09-16 0.1
Title: Group Sequential Enrichment Design
Description: Provides function to apply "Group sequential enrichment design incorporating subgroup selection" (GSED) method proposed by Magnusson and Turnbull (2013) <doi:10.1002/sim.5738>.
Author: Marie-Karelle Riviere
Maintainer: Marie-Karelle Riviere <eldamjh@gmail.com>
Diff between GSED versions 1.5 dated 2017-05-18 and 1.6 dated 2018-03-05
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 1 + R/GSED.R | 45 +++++++++++++++++---------------------------- man/GSED-package.Rd | 4 ++-- 5 files changed, 29 insertions(+), 39 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-05-15 0.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-03-07 0.2
2015-01-21 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-01 0.3.2
2015-08-24 0.3.1
2014-05-06 0.2.17
2014-02-04 0.2.16
2013-06-25 0.2.12
2013-06-25 0.2.13
2013-03-11 0.2.11
2012-12-17 0.2.10
2012-10-22 0.2.9
2012-09-08 0.2.8
2012-04-09 0.2.7
2011-10-11 0.2.6
2011-02-28 0.2.4
2011-02-28 0.2.5
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-07-12 0.9-2.1
2014-01-30 0.9-2
2013-11-07 0.9-1
2011-12-07 0.9-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-05-06 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-06-14 0.75
2011-05-26 0.70
2011-04-28 0.65
2010-10-20 0.55
2010-10-07 0.5
2010-07-25 0.4
2010-06-19 0.3
2010-05-07 0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-11-07 0.5-7
2009-04-19 0.5-4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-12-03 2.0.0
2015-09-07 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-09-12 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-04-20 0.2-18
2016-09-21 0.2-17
2015-01-13 0.2-15
2013-01-22 0.2-6
2012-06-07 0.2-5
2012-02-01 0.2-2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-31 1.1.11
2017-09-15 1.1.10
2017-07-19 1.1.9
2017-05-23 1.1.8
2017-01-11 1.1.7
2016-12-28 1.1.2
2016-12-09 1.0.2
2016-11-10 1.0.1
2016-10-19 0.99.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-07-29 0.10
2009-06-14 0.09
Title: Semi-Confirmatory Structural Equation Modeling via Penalized
Likelihood
Description: Fits semi-confirmatory structural equation modeling (SEM) via penalized likelihood (PL) with lasso or minimax concave penalty (MCP).
Author: Po-Hsien Huang [cre, aut],
Wen-Hsin Hu [aut]
Maintainer: Po-Hsien Huang <psyphh@gmail.com>
Diff between lslx versions 0.6.1 dated 2018-01-17 and 0.6.2 dated 2018-03-05
DESCRIPTION | 16 ++++++++-------- MD5 | 7 ++++--- R/lslx-print-method.R |only R/lslxData.R | 2 ++ R/lslxModel.R | 4 +++- 5 files changed, 17 insertions(+), 12 deletions(-)