Title: Refined Moving Average Filter
Diff between rmaf versions 3.0 dated 2015-04-13 and 3.0.1 dated 2015-04-15
Description: Uses refined moving average filter based on the optimal and data-driven moving average lag q or smoothing spline to estimate trend and seasonal components, as well as irregularity (residuals) for univariate time series or data.
Author: Debin Qiu
Maintainer: Debin Qiu
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/mafilter.R | 48 +++++++++++++++++++++++++-----------------------
R/ssfilter.R | 48 +++++++++++++++++++++++++-----------------------
man/rmaf-package.Rd | 4 ++--
5 files changed, 60 insertions(+), 56 deletions(-)
Title: Bayesian Graphical Models using MCMC
Diff between rjags versions 3-14 dated 2014-10-27 and 3-15 dated 2015-04-15
Description: Interface to the JAGS MCMC library.
Author: Martyn Plummer [aut, cre],
Alexey Stukalov [ctb],
Matt Denwood [ctb]
Maintainer: Martyn Plummer
DESCRIPTION | 21 +++++---
MD5 | 12 ++---
NAMESPACE | 3 -
R/jags.R | 10 ++--
R/jags.object.R | 2
R/windows/zzz.R | 133 ++++++++++++++++++++++++++++++++------------------------
README | 8 ++-
7 files changed, 109 insertions(+), 80 deletions(-)
Title: Rainbow Plots, Bagplots and Boxplots for Functional Data
Diff between rainbow versions 3.2 dated 2013-08-28 and 3.3 dated 2015-04-15
Description: Functions and data sets for functional data display and outlier detection.
Author: Han Lin Shang and Rob J Hyndman
Maintainer: Han Lin Shang
ChangeLog | 371 ++++++++++++++++++++++++++++++++-----------------
DESCRIPTION | 16 +-
MD5 | 25 +--
R/plot.fds.R | 18 ++
build |only
man/SVDplot.Rd | 118 +++++++--------
man/fboxplot.Rd | 112 +++++++-------
man/fdepth.Rd | 138 +++++++++---------
man/fds.Rd | 82 +++++-----
man/foutliers.Rd | 122 ++++++++--------
man/plot.fdepth.Rd | 52 +++---
man/plot.fds.Rd | 124 +++++++---------
man/rainbow-package.Rd | 44 ++---
man/summaryfunction.Rd | 82 +++++-----
14 files changed, 719 insertions(+), 585 deletions(-)
Title: Local Correlation, Spatial Inequalities and Other Tools
Diff between lctools versions 0.2 dated 2015-04-05 and 0.2-2 dated 2015-04-15
Description: The main purpose of lctools is to assist researchers and educators to use user friendly tools for calculating key spatial statistics. These include: Local Pearson and Geographically Weighted Pearson Coefficients, Spatial Inequality Measures (Gini, Spatial Gini, LQ, Focal LQ), Spatial Autocorrelation (Global and Local Moran's I) and other Spatial Analysis tools (Geographically Weighted Statistics, Inferential Statistics). This package also contains functions for statistical inference for each statistic calculated.
Author: Stamatis Kalogirou [aut, cre]
Maintainer: Stamatis Kalogirou
DESCRIPTION | 9 +++++----
MD5 | 21 ++++++++++++++-------
R/lcorrel.R | 3 +--
R/mc_correl.R | 18 ++++--------------
R/mc_spGini.R | 22 ++++++----------------
R/spGini.R | 13 ++-----------
build |only
inst |only
man/lctools-package.Rd | 6 +++---
vignettes/SpatialInequalities.Rmd | 12 ++++++------
10 files changed, 41 insertions(+), 63 deletions(-)
Title: Knockoff Filter for Controlling the False Discovery Rate
Diff between knockoff versions 0.2 dated 2015-02-05 and 0.2.1 dated 2015-04-15
Description: The knockoff filter is a procedure for controlling the false
discovery rate (FDR) when performing variable selection. For more information,
see the website below and the accompanying paper.
Author: Rina Foygel Barber, Emmanuel Candes, Evan Patterson
Maintainer: Evan Patterson
DESCRIPTION | 10 +++++-----
MD5 | 15 ++++++++++-----
NEWS | 6 ++++++
build/vignette.rds |binary
inst/doc/hiv.R |only
inst/doc/hiv.Rmd |only
inst/doc/hiv.html |only
inst/doc/intro.html | 4 ++--
inst/doc/sdp.html | 4 ++--
vignettes/hiv.Rmd |only
vignettes/references.bib |only
11 files changed, 25 insertions(+), 14 deletions(-)
Title: R Console Bindings for the 'Domino Command-Line Client'
Diff between domino versions 0.2-5 dated 2015-04-14 and 0.2-6 dated 2015-04-15
Description: A wrapper on top of the 'Domino Command-Line Client'. It lets you run 'Domino' commands (e.g., "run", "upload", "download") directly from your R environment. Under the hood, it uses R's system function to run the 'Domino' executable, which must be installed as a prerequisite.
Author: Jacek Glodek
Maintainer: Nick Elprin
DESCRIPTION | 6 +++---
MD5 | 6 +++---
NAMESPACE | 3 ++-
man/domino-package.Rd | 4 ++--
4 files changed, 10 insertions(+), 9 deletions(-)
Title: Copula Based Cluster Analysis
Diff between CoClust versions 0.3-0 dated 2014-07-07 and 0.3-1 dated 2015-04-15
Description: Copula Based Cluster Analysis.
Author: Francesca Marta Lilja Di Lascio, Simone Giannerini
Maintainer: Simone Giannerini
ChangeLog | 9 +++++++--
DESCRIPTION | 12 ++++++------
MD5 | 10 +++++-----
R/CoClust.R | 10 +++++-----
R/Internal_functions.R | 6 +++---
inst/CITATION | 8 ++++----
6 files changed, 30 insertions(+), 25 deletions(-)
Title: In-Source Documentation for R
Diff between roxygen2 versions 4.1.0 dated 2014-12-13 and 4.1.1 dated 2015-04-15
Description: A 'Doxygen'-like in-source documentation system
for Rd, collation, and 'NAMESPACE' files.
Author: Hadley Wickham [aut, cre, cph],
Peter Danenberg [aut, cph],
Manuel Eugster [aut, cph],
RStudio [cph]
Maintainer: Hadley Wickham
roxygen2-4.1.0/roxygen2/vignettes/rd-keywords.html |only
roxygen2-4.1.0/roxygen2/vignettes/rd-keywords.md |only
roxygen2-4.1.1/roxygen2/DESCRIPTION | 18 +-
roxygen2-4.1.1/roxygen2/MD5 | 63 +++----
roxygen2-4.1.1/roxygen2/NAMESPACE | 7
roxygen2-4.1.1/roxygen2/R/description.R | 38 ++--
roxygen2-4.1.1/roxygen2/R/rd-file-api.R | 2
roxygen2-4.1.1/roxygen2/R/rd-tag-api.R | 2
roxygen2-4.1.1/roxygen2/R/roclet-rd.R | 6
roxygen2-4.1.1/roxygen2/R/roclet-vignette.R |only
roxygen2-4.1.1/roxygen2/build/vignette.rds |binary
roxygen2-4.1.1/roxygen2/inst/doc/rd.R | 4
roxygen2-4.1.1/roxygen2/inst/doc/rd.Rmd | 21 ++
roxygen2-4.1.1/roxygen2/inst/doc/rd.html | 19 ++
roxygen2-4.1.1/roxygen2/man/is_s3_generic.Rd | 2
roxygen2-4.1.1/roxygen2/man/namespace_roclet.Rd | 2
roxygen2-4.1.1/roxygen2/man/new_roclet.Rd | 2
roxygen2-4.1.1/roxygen2/man/object.Rd | 2
roxygen2-4.1.1/roxygen2/man/rd_roclet.Rd | 2
roxygen2-4.1.1/roxygen2/man/register-parser.Rd | 2
roxygen2-4.1.1/roxygen2/man/roc_proc_text.Rd | 2
roxygen2-4.1.1/roxygen2/man/roxygen.Rd | 2
roxygen2-4.1.1/roxygen2/man/roxygenize.Rd | 2
roxygen2-4.1.1/roxygen2/man/source_package.Rd | 2
roxygen2-4.1.1/roxygen2/man/update_collate.Rd | 2
roxygen2-4.1.1/roxygen2/man/vignette_roclet.Rd |only
roxygen2-4.1.1/roxygen2/src/RcppExports.cpp | 90 +++-------
roxygen2-4.1.1/roxygen2/src/parser.cpp | 40 ++--
roxygen2-4.1.1/roxygen2/tests/testthat/description-example_2.txt |only
roxygen2-4.1.1/roxygen2/tests/testthat/test-srcref-comment.R | 16 +
roxygen2-4.1.1/roxygen2/tests/testthat/test-wrapFieldIfNecessary.R | 28 ++-
roxygen2-4.1.1/roxygen2/vignettes/collate.md |only
roxygen2-4.1.1/roxygen2/vignettes/namespace.md |only
roxygen2-4.1.1/roxygen2/vignettes/rd.Rmd | 21 ++
roxygen2-4.1.1/roxygen2/vignettes/rd.md | 22 ++
roxygen2-4.1.1/roxygen2/vignettes/rdkeywords.md |only
roxygen2-4.1.1/roxygen2/vignettes/roxygen2.md |only
37 files changed, 269 insertions(+), 150 deletions(-)
Title: Count Longitudinal Data
Diff between cold versions 1.0-3 dated 2013-10-05 and 1.0-4 dated 2015-04-15
Description: Performs regression analysis for longitudinal count
data using a self-decomposable probability distribution,
a random intercept term is also allowed. Estimation is via maximization
of the exact likelihood of a suitably defined model. Missing values and
unbalanced data are allowed.
Author: M. Helena Gonçalves and M. Salomé Cabral,
apart from a set of Fortran-77 subroutines written by R. Piessens
and E. de Doncker, belonging to the suite "Quadpack".
Maintainer: M. Helena Gonçalves
cold-1.0-3/cold/INDEX |only
cold-1.0-3/cold/history.txt |only
cold-1.0-4/cold/DESCRIPTION | 20 +++---
cold-1.0-4/cold/MD5 | 37 +++++------
cold-1.0-4/cold/NEWS |only
cold-1.0-4/cold/inst/CITATION | 94 +++++++++++++++++++-----------
cold-1.0-4/cold/man/anova-methods.Rd | 6 -
cold-1.0-4/cold/man/cold-class.Rd | 2
cold-1.0-4/cold/man/cold-package.Rd | 4 -
cold-1.0-4/cold/man/cold.Rd | 26 ++++----
cold-1.0-4/cold/man/coldControl.Rd | 2
cold-1.0-4/cold/man/coldIntegrate.Rd | 16 ++---
cold-1.0-4/cold/man/datacold.rd | 16 ++---
cold-1.0-4/cold/man/fitted-methods.Rd | 18 ++---
cold-1.0-4/cold/man/plot-methods.Rd | 39 +++++++-----
cold-1.0-4/cold/man/predict-methods.Rd | 2
cold-1.0-4/cold/man/resid-methods.Rd | 14 ++--
cold-1.0-4/cold/man/seizure.rd | 18 ++---
cold-1.0-4/cold/man/show-methods.Rd | 2
cold-1.0-4/cold/man/summary-methods.Rd | 4 -
cold-1.0-4/cold/man/summary.cold-class.Rd | 2
21 files changed, 177 insertions(+), 145 deletions(-)
Title: Functions for Calculating Tolerance Intervals
Diff between tolerance versions 1.0.0 dated 2014-09-03 and 1.1.0 dated 2015-04-15
Description: Statistical tolerance limits provide the limits between which we can expect to find a specified proportion of a sampled population with a given level of confidence. This package provides functions for estimating tolerance limits for various distributions. Plotting is also available for tolerance limits of continuous random variables.
Author: Derek S. Young [aut, cre]
Maintainer: Derek S. Young
DESCRIPTION | 12 ++++++------
MD5 | 12 +++++++++---
NEWS | 12 ++++++++++++
R/Kfactor.R | 2 +-
R/poislind.R |only
R/poislindll.R |only
R/poislindtolint.R |only
man/poislind.Rd |only
man/poislindll.Rd |only
man/poislindtolint.Rd |only
10 files changed, 28 insertions(+), 10 deletions(-)
Title: Miscellaneous Functions for Survival Data
Diff between survMisc versions 0.4.5 dated 2015-02-25 and 0.4.6 dated 2015-04-15
Description: A collection of functions for analysis of survival data. These
extend the methods available in the package survival.
Author: Chris Dardis
Maintainer: Chris Dardis
survMisc-0.4.5/survMisc/inst/doc/pbcDx.pdf |only
survMisc-0.4.6/survMisc/DESCRIPTION | 16 +--
survMisc-0.4.6/survMisc/MD5 | 109 ++++++++++++------------
survMisc-0.4.6/survMisc/NAMESPACE | 1
survMisc-0.4.6/survMisc/R/air.R | 2
survMisc-0.4.6/survMisc/R/autoplotRpart.R | 57 +++++-------
survMisc-0.4.6/survMisc/R/autoplotSurvfit.R | 105 +++++++++++------------
survMisc-0.4.6/survMisc/R/ci.R | 6 -
survMisc-0.4.6/survMisc/R/comp.R | 5 -
survMisc-0.4.6/survMisc/R/cutp.R | 44 ++++-----
survMisc-0.4.6/survMisc/R/dx.R | 12 +-
survMisc-0.4.6/survMisc/R/gamTerms.R | 2
survMisc-0.4.6/survMisc/R/gof.R | 13 +-
survMisc-0.4.6/survMisc/R/local.R | 53 +++++------
survMisc-0.4.6/survMisc/R/mpip.R | 8 -
survMisc-0.4.6/survMisc/R/multiCoxph.R | 28 ++----
survMisc-0.4.6/survMisc/R/plotMultiCoxph.R | 55 ++++++------
survMisc-0.4.6/survMisc/R/plotSurv.R | 67 +++++++-------
survMisc-0.4.6/survMisc/R/plotTerm.R | 2
survMisc-0.4.6/survMisc/R/profLik.R | 14 +--
survMisc-0.4.6/survMisc/R/quantile.R | 77 ++++++++--------
survMisc-0.4.6/survMisc/R/rsq.R | 3
survMisc-0.4.6/survMisc/R/sf.R | 25 ++---
survMisc-0.4.6/survMisc/R/sig.R | 21 ++--
survMisc-0.4.6/survMisc/R/survMisc_package.R | 38 +++++---
survMisc-0.4.6/survMisc/R/tne.R | 40 +++-----
survMisc-0.4.6/survMisc/R/tneBMT.R | 9 -
survMisc-0.4.6/survMisc/R/tneKidney.R | 4
survMisc-0.4.6/survMisc/R/whas100.R | 5 -
survMisc-0.4.6/survMisc/R/whas500.R | 5 -
survMisc-0.4.6/survMisc/man/air.Rd | 1
survMisc-0.4.6/survMisc/man/autoplotRpart.Rd | 46 ++++------
survMisc-0.4.6/survMisc/man/autoplotSurvfit.Rd | 92 +++++++++-----------
survMisc-0.4.6/survMisc/man/ci.Rd | 4
survMisc-0.4.6/survMisc/man/comp.Rd | 5 -
survMisc-0.4.6/survMisc/man/dx.Rd | 6 -
survMisc-0.4.6/survMisc/man/gamTerms.Rd | 2
survMisc-0.4.6/survMisc/man/gof.Rd | 7 -
survMisc-0.4.6/survMisc/man/local.Rd | 5 -
survMisc-0.4.6/survMisc/man/mpip.Rd | 8 -
survMisc-0.4.6/survMisc/man/plot.Surv.Rd | 3
survMisc-0.4.6/survMisc/man/plotMultiCoxph.Rd | 40 ++++----
survMisc-0.4.6/survMisc/man/plotTerm.Rd | 2
survMisc-0.4.6/survMisc/man/profLik.Rd | 2
survMisc-0.4.6/survMisc/man/quantile.Rd | 28 +++---
survMisc-0.4.6/survMisc/man/rsq.Rd | 3
survMisc-0.4.6/survMisc/man/sf.Rd | 23 ++---
survMisc-0.4.6/survMisc/man/sig.Rd | 6 -
survMisc-0.4.6/survMisc/man/survMisc-package.Rd | 22 +++-
survMisc-0.4.6/survMisc/man/tne.Rd | 5 -
survMisc-0.4.6/survMisc/man/tneBMT.Rd | 9 -
survMisc-0.4.6/survMisc/man/tneKidney.Rd | 4
survMisc-0.4.6/survMisc/man/whas100.Rd | 5 -
survMisc-0.4.6/survMisc/man/whas500.Rd | 5 -
survMisc-0.4.6/survMisc/vignettes |only
55 files changed, 575 insertions(+), 584 deletions(-)
Title: Sample Size Estimation
Diff between sse versions 0.5-1 dated 2014-05-19 and 0.5-4 dated 2015-04-15
Description: Provides functions to evaluate user-defined power functions for a parameter range, and draws a sensitivity plot. It also provides a resampling procedure for semi-parametric sample size estimation and methods for adding information to a Sweave report.
Author: Thomas Fabbro
Maintainer: Thomas Fabbro
DESCRIPTION | 17 +++++++++--------
MD5 | 18 +++++++++---------
NAMESPACE | 2 +-
R/power.R | 35 ++++++++++++++++++++---------------
build/vignette.rds |binary
inst/doc/examples.Rnw | 30 +++++++++++++++---------------
inst/doc/examples.pdf |binary
man/n.Rd | 7 +++----
man/plot-methods.Rd | 16 ++++++++--------
vignettes/examples.Rnw | 30 +++++++++++++++---------------
10 files changed, 80 insertions(+), 75 deletions(-)
Title: Syntax Highlighter
Diff between highlight versions 0.4.4 dated 2013-12-16 and 0.4.5 dated 2015-04-15
Description: Syntax highlighter for R code based
on the results of the R parser. Rendering in HTML and latex
markup. Custom Sweave driver performing syntax highlighting
of R code chunks.
Author: Romain Francois [aut, cre],
Andre Simon [ctb]
Maintainer: Romain Francois
highlight-0.4.4/highlight/R/httpd.R |only
highlight-0.4.4/highlight/build |only
highlight-0.4.4/highlight/inst/rook |only
highlight-0.4.4/highlight/man/dummy_detective.Rd |only
highlight-0.4.4/highlight/man/highlight.httpd.handler.Rd |only
highlight-0.4.4/highlight/man/renderer_verbatim.Rd |only
highlight-0.4.5/highlight/DESCRIPTION | 26 -
highlight-0.4.5/highlight/MD5 | 72 +--
highlight-0.4.5/highlight/NAMESPACE | 63 +-
highlight-0.4.5/highlight/NEWS | 4
highlight-0.4.5/highlight/R/SweaveLatexDriver.R | 82 +++
highlight-0.4.5/highlight/R/css.R | 45 +-
highlight-0.4.5/highlight/R/detectives.R | 26 -
highlight-0.4.5/highlight/R/external_highlight.R | 34 +
highlight-0.4.5/highlight/R/highlight.R | 278 ++++++++----
highlight-0.4.5/highlight/R/renderer.R | 332 +++++++++++++--
highlight-0.4.5/highlight/R/zzz.R | 9
highlight-0.4.5/highlight/man/HighlightWeaveLatex.Rd | 74 +--
highlight-0.4.5/highlight/man/Hweave.Rd | 87 +--
highlight-0.4.5/highlight/man/boxes_latex.Rd | 30 -
highlight-0.4.5/highlight/man/css.parser.Rd | 69 +--
highlight-0.4.5/highlight/man/external_highlight.Rd | 63 +-
highlight-0.4.5/highlight/man/formatter_html.Rd | 39 -
highlight-0.4.5/highlight/man/formatter_latex.Rd | 35 -
highlight-0.4.5/highlight/man/getStyleFile.Rd | 44 -
highlight-0.4.5/highlight/man/header_html.Rd | 47 --
highlight-0.4.5/highlight/man/header_latex.Rd | 45 --
highlight-0.4.5/highlight/man/highlight-package.Rd | 65 +-
highlight-0.4.5/highlight/man/highlight.Rd | 162 ++-----
highlight-0.4.5/highlight/man/highlight_output_types.Rd | 18
highlight-0.4.5/highlight/man/highlight_themes.Rd | 14
highlight-0.4.5/highlight/man/renderer.Rd | 131 ++---
highlight-0.4.5/highlight/man/renderer_html.Rd | 129 ++---
highlight-0.4.5/highlight/man/renderer_latex.Rd | 138 ++----
highlight-0.4.5/highlight/man/simple_detective.Rd | 33 -
highlight-0.4.5/highlight/man/styler.Rd | 57 +-
highlight-0.4.5/highlight/man/styler_assistant_latex.Rd | 42 -
highlight-0.4.5/highlight/man/translator_latex.Rd | 33 -
38 files changed, 1253 insertions(+), 1073 deletions(-)
Title: Statistical Methods for Phenology Analysis in Temperate Fruit
Trees
Diff between chillR versions 0.54 dated 2013-05-16 and 0.55 dated 2015-04-15
Description: The phenology of plants (i.e. the timing of their annual life phases) depends on climatic cues. For temperate trees and many other plants, spring phases, such as leaf emergence and flowering, have been found to result from the effects of both cool (chilling) conditions and heat. Fruit tree scientists (pomologists) have developed some metrics to quantify chilling and heat. 'chillR' contains functions for processing temperature records into chilling (Chilling Hours, Utah Chill Units and Chill Portions) and heat units (Growing Degree Hours). Regarding chilling metrics, Chill Portions are often considered the most promising, but they are difficult to calculate. This package makes it easy. 'chillR' also contains procedures for conducting a PLS analysis relating phenological dates (e.g. bloom dates) to either mean temperatures or mean chill and heat accumulation rates, based on long-term weather and phenology records.
Author: Eike Luedeling
Maintainer: Eike Luedeling
DESCRIPTION | 20 +--
MD5 | 52 ++++---
NAMESPACE | 3
R/PLS_chill_force.R | 171 +++++--------------------
R/PLS_pheno.R | 264 +++++++++++++---------------------------
R/bloom_prediction.R | 17 ++
R/daily_chill.R | 20 ---
R/make_all_day_table.R |only
R/make_daily_chill_figures.R | 1
R/make_pheno_trend_plot.R | 7 -
R/plot_pheno_results.R |only
man/KA_bloom.Rd | 2
man/KA_weather.Rd | 2
man/PLS_chill_force.Rd | 41 +++---
man/PLS_pheno.Rd | 44 +++---
man/VIP.Rd | 79 +----------
man/bloom_prediction.Rd | 80 +++++-------
man/chillR-package.Rd | 36 ++---
man/chilling.Rd | 30 ++++
man/chilling_hourtable.Rd | 29 +++-
man/color_bar_maker.Rd | 17 --
man/daily_chill.Rd | 30 ++++
man/interpolate_gaps.Rd | 5
man/make_all_day_table.Rd |only
man/make_daily_chill_figures.Rd | 30 ++++
man/make_hourly_temps.Rd | 6
man/make_pheno_trend_plot.Rd | 28 +---
man/plot_PLS.Rd |only
man/stack_hourly_temps.Rd | 6
29 files changed, 418 insertions(+), 602 deletions(-)