Fri, 03 Feb 2017

Package rdwd updated to version 0.7.0 with previous version 0.6.1 dated 2017-01-25

Title: Select and Download Climate Data from 'DWD' (German Weather Service)
Description: Handle climate data from the 'DWD' ('Deutscher Wetterdienst', see <https://www.dwd.de/EN/climate_environment/cdc/cdc.html> for more information). Choose files with 'selectDWD()', download and process data sets with 'dataDWD()' and 'readDWD()'.
Author: Berry Boessenkool
Maintainer: Berry Boessenkool <berry-b@gmx.de>

Diff between rdwd versions 0.6.1 dated 2017-01-25 and 0.7.0 dated 2017-02-03

 rdwd-0.6.1/rdwd/data/mapDWD.rda          |only
 rdwd-0.6.1/rdwd/man/mapDWD.Rd            |only
 rdwd-0.7.0/rdwd/DESCRIPTION              |   14 +-
 rdwd-0.7.0/rdwd/MD5                      |   78 ++++++-------
 rdwd-0.7.0/rdwd/NAMESPACE                |    2 
 rdwd-0.7.0/rdwd/NEWS                     |   21 +++
 rdwd-0.7.0/rdwd/R/createIndex.R          |   55 +++++----
 rdwd-0.7.0/rdwd/R/dataDWD.R              |    6 -
 rdwd-0.7.0/rdwd/R/dirDWD.R               |    7 -
 rdwd-0.7.0/rdwd/R/fileDWD.R              |   14 +-
 rdwd-0.7.0/rdwd/R/meta.R                 |  179 +++++++++++++++++++------------
 rdwd-0.7.0/rdwd/R/rdwd-package.R         |    5 
 rdwd-0.7.0/rdwd/R/readDWD.R              |    2 
 rdwd-0.7.0/rdwd/README.md                |   15 +-
 rdwd-0.7.0/rdwd/build/vignette.rds       |binary
 rdwd-0.7.0/rdwd/data/fileIndex.rda       |binary
 rdwd-0.7.0/rdwd/data/geoIndex.rda        |binary
 rdwd-0.7.0/rdwd/data/geoIndexAll.rda     |only
 rdwd-0.7.0/rdwd/data/metaIndex.rda       |binary
 rdwd-0.7.0/rdwd/inst/doc/mapDWD.R        |   19 +++
 rdwd-0.7.0/rdwd/inst/doc/mapDWD.Rmd      |   50 ++++++++
 rdwd-0.7.0/rdwd/inst/doc/mapDWD.html     |   32 ++++-
 rdwd-0.7.0/rdwd/inst/doc/rdwd.R          |    7 -
 rdwd-0.7.0/rdwd/inst/doc/rdwd.Rmd        |   29 ++---
 rdwd-0.7.0/rdwd/inst/doc/rdwd.html       |   84 +++++---------
 rdwd-0.7.0/rdwd/man/createIndex.Rd       |   15 +-
 rdwd-0.7.0/rdwd/man/dataDWD.Rd           |   11 -
 rdwd-0.7.0/rdwd/man/dirDWD.Rd            |    7 -
 rdwd-0.7.0/rdwd/man/fileDWD.Rd           |    7 -
 rdwd-0.7.0/rdwd/man/fileIndex.Rd         |    7 -
 rdwd-0.7.0/rdwd/man/findID.Rd            |    7 -
 rdwd-0.7.0/rdwd/man/geoIndex.Rd          |   17 ++
 rdwd-0.7.0/rdwd/man/indexDWD.Rd          |    1 
 rdwd-0.7.0/rdwd/man/metaIndex.Rd         |    7 -
 rdwd-0.7.0/rdwd/man/metaInfo.Rd          |    9 -
 rdwd-0.7.0/rdwd/man/rdwd.Rd              |   13 +-
 rdwd-0.7.0/rdwd/man/readDWD.Rd           |    9 -
 rdwd-0.7.0/rdwd/man/release_questions.Rd |    1 
 rdwd-0.7.0/rdwd/man/rowDisplay.Rd        |only
 rdwd-0.7.0/rdwd/man/selectDWD.Rd         |    7 -
 rdwd-0.7.0/rdwd/vignettes/mapDWD.Rmd     |   50 ++++++++
 rdwd-0.7.0/rdwd/vignettes/rdwd.Rmd       |   29 ++---
 42 files changed, 501 insertions(+), 315 deletions(-)

More information about rdwd at CRAN
Permanent link

Package maxnet updated to version 0.1.1 with previous version 0.1.0 dated 2016-11-16

Title: Fitting 'Maxent' Species Distribution Models with 'glmnet'
Description: Procedures to fit species distributions models from occurrence records and environmental variables, using 'glmnet' for model fitting. Model structure is the same as for the 'Maxent' Java package, version 3.4.0, with the same feature types and regularization options. See the 'Maxent' website <http://biodiversityinformatics.amnh.org/open_source/maxent> for more details.
Author: Steven Phillips
Maintainer: Steven Phillips <mrmaxent@gmail.com>

Diff between maxnet versions 0.1.0 dated 2016-11-16 and 0.1.1 dated 2017-02-03

 DESCRIPTION |    9 +++++----
 MD5         |    4 ++--
 R/maxnet.R  |   15 ++++++++-------
 3 files changed, 15 insertions(+), 13 deletions(-)

More information about maxnet at CRAN
Permanent link

Package jocre updated to version 0.3 with previous version 0.1 dated 2016-10-05

Title: Joint Confidence Regions
Description: Computing and plotting joint confidence regions and intervals. Regions include classical ellipsoids, minimum-volume or minimum-length regions, and an empirical Bayes region. Intervals include the TOST procedure with ordinary or expanded intervals and a fixed-sequence procedure. Such regions and intervals are useful e.g., for the assessment of multi-parameter (bio-)equivalence. Joint confidence regions for the mean and variance of a normal distribution are available as well.
Author: Philip Pallmann [aut, cre]
Maintainer: Philip Pallmann <p.pallmann@lancaster.ac.uk>

Diff between jocre versions 0.1 dated 2016-10-05 and 0.3 dated 2017-02-03

 jocre-0.1/jocre/R/confints.R         |only
 jocre-0.1/jocre/R/confset.R          |only
 jocre-0.1/jocre/R/plot2D.R           |only
 jocre-0.1/jocre/R/plotMV2D.R         |only
 jocre-0.1/jocre/man/confints.Rd      |only
 jocre-0.1/jocre/man/confset.Rd       |only
 jocre-0.1/jocre/man/plot2D.Rd        |only
 jocre-0.1/jocre/man/plotMV2D.Rd      |only
 jocre-0.3/jocre/DESCRIPTION          |   10 +++++-----
 jocre-0.3/jocre/MD5                  |   30 +++++++++++++++---------------
 jocre-0.3/jocre/NAMESPACE            |   11 ++++++++++-
 jocre-0.3/jocre/R/cset.R             |only
 jocre-0.3/jocre/R/csetMV.R           |only
 jocre-0.3/jocre/R/helpers.R          |only
 jocre-0.3/jocre/R/translate.R        |only
 jocre-0.3/jocre/inst/CITATION        |    6 +++---
 jocre-0.3/jocre/inst/NEWS            |   12 ++++++++++++
 jocre-0.3/jocre/man/cset.Rd          |only
 jocre-0.3/jocre/man/csetMV.Rd        |only
 jocre-0.3/jocre/man/helpers.Rd       |only
 jocre-0.3/jocre/man/jocre-package.Rd |   16 ++++++++--------
 jocre-0.3/jocre/man/marzo.Rd         |    4 ++--
 jocre-0.3/jocre/man/translate.Rd     |only
 jocre-0.3/jocre/man/wires.Rd         |    6 +++---
 24 files changed, 58 insertions(+), 37 deletions(-)

More information about jocre at CRAN
Permanent link

Package httptest updated to version 1.1.0 with previous version 1.0.0 dated 2016-12-31

Title: A Test Environment for HTTP Requests
Description: Testing code and packages that communicate with remote servers can be painful. Dealing with authentication, bootstrapping server state, cleaning up objects that may get created during the test run, network flakiness, and other complications can make testing seem too costly to bother with. But it doesn't need to be that hard. This package enables one to test all of the logic on the R sides of the API in your package without requiring access to the remote service. Importantly, it provides three test contexts that mock the network connection in different ways, and it offers additional expectations to assert that HTTP requests were--or were not--made. Using these tools, one can test that code is making the intended requests and that it handles the expected responses correctly, all without depending on a connection to a remote API.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal.p.richardson@gmail.com>

Diff between httptest versions 1.0.0 dated 2016-12-31 and 1.1.0 dated 2017-02-03

 DESCRIPTION                         |   10 +++++-----
 MD5                                 |   35 +++++++++++++++++++----------------
 NAMESPACE                           |    4 ++++
 NEWS.md                             |    5 +++++
 R/expect-header.R                   |only
 R/fake-http.R                       |    3 ++-
 R/mock-api.R                        |   13 +++++--------
 README.md                           |    1 +
 man/buildMockURL.Rd                 |    1 -
 man/expect-verb.Rd                  |    8 ++++++--
 man/expect_header.Rd                |only
 man/expect_json_equivalent.Rd       |    1 -
 man/fakeResponse.Rd                 |    1 -
 man/public.Rd                       |    1 -
 man/skip_if_disconnected.Rd         |    1 -
 man/with_fake_HTTP.Rd               |    1 -
 man/with_mock_API.Rd                |    1 -
 man/without_internet.Rd             |    1 -
 tests/testthat/test-expect-header.R |only
 tests/testthat/test-mock-api.R      |    2 ++
 20 files changed, 49 insertions(+), 40 deletions(-)

More information about httptest at CRAN
Permanent link

Package dplR updated to version 1.6.5 with previous version 1.6.4 dated 2016-03-16

Title: Dendrochronology Program Library in R
Description: Perform tree-ring analyses such as detrending, chronology building, and cross dating. Read and write standard file formats used in dendrochronology.
Author: Andy Bunn [aut, cph, cre, trl], Mikko Korpela [aut, trl], Franco Biondi [aut, cph], Filipe Campelo [aut, cph], Pierre Mérian [aut, cph], Fares Qeadan [aut, cph], Christian Zang [aut, cph], Allan Buras [ctb], Jacob Cecile [ctb], Manfred Mudelsee [ctb], Michael Schulz [ctb]
Maintainer: Andy Bunn <andy.bunn@wwu.edu>

Diff between dplR versions 1.6.4 dated 2016-03-16 and 1.6.5 dated 2017-02-03

 ChangeLog                    |   52 +++++++++++++++++++++++++++++++++++++++++++
 DESCRIPTION                  |   15 ++++++------
 MD5                          |   47 +++++++++++++++++++++-----------------
 NAMESPACE                    |    5 +++-
 R/combine.rwl.R              |    4 ++-
 R/crn.plot.R                 |   19 +++++++++++----
 R/detrend.R                  |    2 -
 R/helpers.R                  |   25 ++++++++++++++++++++
 R/rwl.report.R               |only
 R/sea.R                      |   44 ++++++++++++++++--------------------
 R/zzz.R                      |only
 TODO                         |    2 -
 build/vignette.rds           |binary
 inst/COPYRIGHTS              |only
 inst/doc/chron-dplR.pdf      |binary
 inst/doc/intro-dplR.R        |   13 +++++-----
 inst/doc/intro-dplR.pdf      |binary
 inst/doc/timeseries-dplR.pdf |binary
 inst/doc/xdate-dplR.pdf      |binary
 man/combine.rwl.Rd           |    3 +-
 man/crn.plot.Rd              |    4 ++-
 man/detrend.Rd               |    4 +--
 man/detrend.series.Rd        |    4 +--
 man/print.rwl.report.Rd      |only
 man/rwl.report.Rd            |only
 tests/testthat/test-dplR.R   |   10 ++++----
 vignettes/intro-dplR.Rnw     |   20 ++++++----------
 27 files changed, 183 insertions(+), 90 deletions(-)

More information about dplR at CRAN
Permanent link

Package devEMF updated to version 3.2 with previous version 2.0 dated 2015-01-29

Title: EMF Graphics Output Device
Description: Output graphics to EMF+/EMF.
Author: Philip Johnson
Maintainer: Philip Johnson <plfj@umd.edu>

Diff between devEMF versions 2.0 dated 2015-01-29 and 3.2 dated 2017-02-03

 DESCRIPTION       |   14 -
 MD5               |   39 ++
 NAMESPACE         |    1 
 NEWS              |   23 +
 R/emf.R           |    6 
 configure         |  387 ++++++++++++----------------
 configure.ac      |   34 ++
 configure.win     |only
 inst              |only
 man/emf.Rd        |   59 ++--
 src/devEMF.cpp    |  741 +++++++++++++++++++++++++++++-------------------------
 src/emf+.h        |only
 src/emf.h         |  641 +++++++++++++++++++++++++++++++++++++++++-----
 src/fontmetrics.h |  308 ++++++++++++++++++++--
 tools             |only
 15 files changed, 1561 insertions(+), 692 deletions(-)

More information about devEMF at CRAN
Permanent link

Package dbhydroR updated to version 0.2-2 with previous version 0.2-1 dated 2016-11-24

Title: 'DBHYDRO' Hydrologic and Water Quality Data
Description: Client for programmatic access to the South Florida Water Management District's 'DBHYDRO' database at <http://sfwmd.gov/dbhydro>, with functions for accessing hydrologic and water quality data.
Author: Joseph Stachelek [aut, cre]
Maintainer: Joseph Stachelek <stachel2@msu.edu>

Diff between dbhydroR versions 0.2-1 dated 2016-11-24 and 0.2-2 dated 2017-02-03

 DESCRIPTION     |    6 +++---
 MD5             |    4 ++--
 R/dbhydro_get.R |    8 ++++----
 3 files changed, 9 insertions(+), 9 deletions(-)

More information about dbhydroR at CRAN
Permanent link

Package d3r updated to version 0.6.1 with previous version 0.6.0 dated 2016-12-13

Title: 'd3.js' Utilities for R
Description: Helper functions for using 'd3.js' in R.
Author: Mike Bostock [aut, cph] (d3.js library in htmlwidgets/lib, http://d3js.org), Kent Russell [aut, cre] (R interface)
Maintainer: Kent Russell <kent.russell@timelyportfolio.com>

Diff between d3r versions 0.6.0 dated 2016-12-13 and 0.6.1 dated 2017-02-03

 DESCRIPTION                   |   10 +++++-----
 LICENSE                       |    2 +-
 MD5                           |   14 +++++++-------
 NEWS.md                       |    6 ++++++
 R/dependencies.R              |    2 +-
 inst/www/d3/v4/dist/d3.min.js |   16 ++++++++--------
 tests/testthat/test_deps.R    |    1 +
 tests/testthat/test_igraph.R  |   30 ++++++++++++++++++++----------
 8 files changed, 49 insertions(+), 32 deletions(-)

More information about d3r at CRAN
Permanent link

Package ALSM updated to version 0.1.9 with previous version 0.1.5 dated 2016-12-27

Title: Companion to Applied Linear Statistical Models
Description: Functions and Data set presented in Applied Linear Statistical Models Fifth Edition (Chapters 1-9 and 16-25), Michael H. Kutner; Christopher J. Nachtsheim; John Neter; William Li, 2005. (ISBN-10: 0071122214, ISBN-13: 978-0071122214) that do not exist in R, are gathered in this package. The whole book will be covered in the next versions.
Author: Ali Ghanbari <a.ghanbari541@gmail.com>
Maintainer: Ali Ghanbari <a.ghanbari541@gmail.com>

Diff between ALSM versions 0.1.5 dated 2016-12-27 and 0.1.9 dated 2017-02-03

 DESCRIPTION                      |   10 -
 MD5                              |   46 +++-
 NAMESPACE                        |    9 
 R/19_aligned.dot.plot.R          |   37 +++
 R/19_towway.ci.R                 |  386 ++++++++++++++++++++-------------------
 R/25_MLS.R                       |only
 R/25_onerandom.R                 |only
 R/25_satterthwaiteeeee.R         |only
 R/6_ci.reg.R                     |    4 
 R/normal.cor.test.R              |only
 data/ApexEnterprises.rda         |only
 data/AuditorTraining_10.rda      |binary
 data/CashOffers.rda              |binary
 data/CrackerPromotion.rda        |only
 data/DiskDriveService.rda        |only
 data/GrowthHormone.rda           |only
 data/ProductivityImprovement.rda |binary
 data/RoadPaintWear.rda           |only
 data/SalableFlowers.rda          |only
 man/ApexEnterprises.Rd           |only
 man/AuditorTraining_10.Rd        |    1 
 man/AuditorTraining_5.Rd         |    1 
 man/CashOffers.Rd                |    1 
 man/CrackerPromotion.Rd          |only
 man/DiskDriveService.Rd          |only
 man/GrowthHormone.Rd             |only
 man/MLS.Rd                       |only
 man/ProductivityImprovement.Rd   |    5 
 man/RoadPaintWear.Rd             |only
 man/SalableFlowers.Rd            |only
 man/normal.cor.test.Rd           |only
 man/onerandom.Rd                 |only
 man/satterthwaite.Rd             |only
 man/towway.ci.Rd                 |    9 
 34 files changed, 294 insertions(+), 215 deletions(-)

More information about ALSM at CRAN
Permanent link

Package subniche updated to version 0.9.2 with previous version 0.9.1 dated 2016-11-19

Title: Within Outlying Mean Indexes: Refining the OMI Analysis
Description: Complementary multivariate analysis to the Outlying Mean Index analysis to explore niche shift of a community and biological constraint within an Euclidean space, with graphical displays.
Author: Stephane Karasiewicz
Maintainer: Stephane Karasiewicz <stephane.karasiewicz@wanadoo.fr>

Diff between subniche versions 0.9.1 dated 2016-11-19 and 0.9.2 dated 2017-02-03

 DESCRIPTION     |   12 ++++++------
 MD5             |    6 +++---
 R/subniche.R    |   50 +++++++++++++++++++++++++++-----------------------
 man/subniche.Rd |   49 ++++++++++++++++++++++++++-----------------------
 4 files changed, 62 insertions(+), 55 deletions(-)

More information about subniche at CRAN
Permanent link

Package stdReg updated to version 2.1 with previous version 1.1 dated 2016-04-04

Title: Regression Standardization
Description: Contains functionality for regression standardization. Three general classes of models are allowed; generalized linear models, Cox proportional hazards models and shared gamma-Weibull frailty models.
Author: Arvid Sjolander and Elisabeth Dahlqwist
Maintainer: Arvid Sjolander <arvid.sjolander@ki.se>

Diff between stdReg versions 1.1 dated 2016-04-04 and 2.1 dated 2017-02-03

 DESCRIPTION                        |   12 
 MD5                                |   27 -
 NAMESPACE                          |   10 
 R/sourcecode.R                     |  802 ++++++++++++++++++++++++++++++-------
 build/partial.rdb                  |binary
 man/parfrailty.rd                  |only
 man/plot.stdCoxph.Rd               |   11 
 man/plot.stdGlm.Rd                 |    4 
 man/plot.stdParfrailty.rd          |only
 man/print.summary.parfrailty.rd    |only
 man/print.summary.stdParfrailty.rd |only
 man/stdCoxph.Rd                    |   36 -
 man/stdGlm.Rd                      |   42 -
 man/stdParfrailty.rd               |only
 man/summary.parfrailty.rd          |only
 man/summary.stdCoxph.Rd            |    4 
 man/summary.stdGlm.Rd              |    4 
 man/summary.stdParfrailty.rd       |only
 18 files changed, 748 insertions(+), 204 deletions(-)

More information about stdReg at CRAN
Permanent link

Package sjstats updated to version 0.8.0 with previous version 0.7.1 dated 2016-12-18

Title: Collection of Convenient Functions for Common Statistical Computations
Description: Collection of convenient functions for common statistical computations, which are not directly provided by R's base or stats packages. This package aims at providing, first, shortcuts for statistical measures, which otherwise could only be calculated with additional effort (like standard errors or root mean squared errors). Second, these shortcut functions are generic (if appropriate), and can be applied not only to vectors, but also to other objects as well (e.g., the Coefficient of Variation can be computed for vectors, linear models, or linear mixed models; the r2()-function returns the r-squared value for 'lm', 'glm', 'merMod' or 'lme' objects). The focus of most functions lies on summary statistics or fit measures for regression models, including generalized linear models and mixed effects models. However, some of the functions also deal with other statistical measures, like Cronbach's Alpha, Cramer's V, Phi etc.
Author: Daniel Lüdecke <d.luedecke@uke.de>
Maintainer: Daniel Lüdecke <d.luedecke@uke.de>

Diff between sjstats versions 0.7.1 dated 2016-12-18 and 0.8.0 dated 2017-02-03

 DESCRIPTION                 |   21 +-
 MD5                         |  110 +++++++-------
 NAMESPACE                   |  296 +++++++++++++++++++++------------------
 NEWS                        |   17 ++
 NEWS.md                     |   20 ++
 R/S3-methods.R              |   18 ++
 R/bootstrap.R               |  192 ++++++++++++-------------
 R/check_model_assumptions.R |only
 R/cv.R                      |    2 
 R/helpfunctions.R           |   25 +++
 R/merMod_p.R                |  213 +++++++++++++---------------
 R/overdisp.R                |  224 +++++++++++++++++------------
 R/predictive_accuracy.R     |only
 R/prop.R                    |  329 +++++++++++++++++++++++++-------------------
 R/pseudo_r2.R               |   38 ++++-
 R/robust.R                  |   57 +++++++
 R/se.R                      |   82 +++++++++-
 R/sjStatistics.R            |    2 
 R/std.R                     |  221 +++++++++++++++--------------
 build/partial.rdb           |binary
 man/boot_ci.Rd              |  247 ++++++++++++++++-----------------
 man/bootstrap.Rd            |  161 ++++++++++-----------
 man/check_assumptions.Rd    |only
 man/chisq_gof.Rd            |  119 +++++++--------
 man/cod.Rd                  |   91 ++++++------
 man/converge_ok.Rd          |  105 ++++++--------
 man/cv.Rd                   |  123 ++++++++--------
 man/deff.Rd                 |   85 +++++------
 man/efc.Rd                  |   67 ++++----
 man/eta_sq.Rd               |   85 +++++------
 man/get_model_pval.Rd       |  116 +++++++--------
 man/hoslem_gof.Rd           |   87 +++++------
 man/icc.Rd                  |  245 ++++++++++++++++----------------
 man/inequ_trend.Rd          |  141 +++++++++---------
 man/levene_test.Rd          |   43 ++---
 man/mean_n.Rd               |  139 +++++++++---------
 man/mwu.Rd                  |  105 ++++++--------
 man/odds_to_rr.Rd           |  123 ++++++++--------
 man/overdisp.Rd             |  135 +++++++++---------
 man/phi.Rd                  |   73 ++++-----
 man/pred_accuracy.Rd        |only
 man/pred_vars.Rd            |   77 +++++-----
 man/prop.Rd                 |  151 ++++++++++----------
 man/r2.Rd                   |  227 +++++++++++++++---------------
 man/re_var.Rd               |  125 ++++++++--------
 man/reliab_test.Rd          |  313 ++++++++++++++++++++---------------------
 man/rmse.Rd                 |  153 ++++++++++----------
 man/robust.Rd               |  136 ++++++++++--------
 man/se.Rd                   |  205 +++++++++++++++------------
 man/se_ybar.Rd              |   59 +++----
 man/sjstats-package.Rd      |   55 ++-----
 man/smpsize_lmm.Rd          |  129 ++++++++---------
 man/std.Rd                  |  128 ++++++++---------
 man/std_beta.Rd             |  137 +++++++++---------
 man/table_values.Rd         |   73 ++++-----
 man/var_pop.Rd              |   79 +++++-----
 man/weight.Rd               |  115 +++++++--------
 man/wtd_sd.Rd               |   67 ++++----
 58 files changed, 3373 insertions(+), 3013 deletions(-)

More information about sjstats at CRAN
Permanent link

Package RNifti updated to version 0.4.0 with previous version 0.3.0 dated 2016-12-08

Title: Fast R and C++ Access to NIfTI Images
Description: Provides very fast access to images stored in the NIfTI-1 file format <http://nifti.nimh.nih.gov/nifti-1>, with seamless synchronisation between compiled C and interpreted R code. Not to be confused with 'RNiftyReg', which provides tools for image registration.
Author: Jon Clayden [cre, aut], Bob Cox [aut], Mark Jenkinson [aut], Rick Reynolds [ctb], Kate Fissell [ctb], Jean-loup Gailly [cph], Mark Adler [cph]
Maintainer: Jon Clayden <code@clayden.org>

Diff between RNifti versions 0.3.0 dated 2016-12-08 and 0.4.0 dated 2017-02-03

 RNifti-0.3.0/RNifti/src/init.cpp                                  |only
 RNifti-0.4.0/RNifti/DESCRIPTION                                   |    8 
 RNifti-0.4.0/RNifti/MD5                                           |   24 
 RNifti-0.4.0/RNifti/NAMESPACE                                     |    1 
 RNifti-0.4.0/RNifti/NEWS                                          |   12 
 RNifti-0.4.0/RNifti/R/xform.R                                     |   12 
 RNifti-0.4.0/RNifti/README.md                                     |    4 
 RNifti-0.4.0/RNifti/inst/doxygen/html/_nifti_image_8h_source.html |   82 +-
 RNifti-0.4.0/RNifti/inst/include/lib/NiftiImage.h                 |  311 +++++-----
 RNifti-0.4.0/RNifti/inst/include/lib/NiftiImage_internal.h        |only
 RNifti-0.4.0/RNifti/man/voxelToWorld.Rd                           |    8 
 RNifti-0.4.0/RNifti/man/writeNifti.Rd                             |    2 
 RNifti-0.4.0/RNifti/src/Makevars                                  |    2 
 RNifti-0.4.0/RNifti/src/main.cpp                                  |   57 +
 14 files changed, 325 insertions(+), 198 deletions(-)

More information about RNifti at CRAN
Permanent link

New package phylocanvas with initial version 0.1.0
Package: phylocanvas
Title: Interactive Phylogenetic Trees Using the 'Phylocanvas' JavaScript Library
Version: 0.1.0
Authors@R: person("zachary", "charlop-powers", email = "zach.charlop.powers@gmail.com", role = c("aut", "cre"))
Description: Create and customize interactive phylogenetic trees using the 'phylocanvas' JavaScript library and the 'htmlwidgets' package. These trees can be used directly from the R console, from 'RStudio', in Shiny apps, and in R Markdown documents. See <http://phylocanvas.org/> for more information on the 'phylocanvas' library.
URL: https://github.com/zachcp/phylocanvas, http://phylocanvas.org/
BugReports: https://github.com/zachcp/phylocanvas/issues
Depends: R (>= 3.3.1)
Imports: ape (>= 4.0), phylobase, htmlwidgets, magrittr, methods (>= 3.3.0)
Suggests: knitr, rmarkdown
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
RoxygenNote: 5.0.1
VignetteBuilder: knitr
Collate: 'load.tree.R' 'as.tree.R' 'get.descendants.R' 'nodes.branches.R' 'phylocanvas.R'
NeedsCompilation: no
Packaged: 2017-02-03 04:04:55 UTC; zachpowers
Author: zachary charlop-powers [aut, cre]
Maintainer: zachary charlop-powers <zach.charlop.powers@gmail.com>
Repository: CRAN
Date/Publication: 2017-02-03 14:33:14

More information about phylocanvas at CRAN
Permanent link

New package OOR with initial version 0.1.1
Package: OOR
Type: Package
Title: Optimistic Optimization in R
Version: 0.1.1
Date: 2017-02-01
Authors@R: c( person("M.", "Binois", role = c("cre", "aut", "trl"), comment = "R port", email = "mickael.binois@chicagobooth.edu"), person("A.", "Carpentier", role = "aut", comment = "Matlab original"), person("J.-B.", "Grill", role = "aut", comment = "Python original"), person("R.", "Munos", role = "aut", comment = "Python and Matlab original"), person("M.", "Valko", role = c("aut", "ctb"), comment = "Python and Matlab original"))
Description: Implementation of optimistic optimization methods for global optimization of deterministic or stochastic functions. The algorithms feature guarantees of the convergence to a global optimum. They require minimal assumptions on the (only local) smoothness, where the smoothness parameter does not need to be known. They are expected to be useful for the most difficult functions when we have no information on smoothness and the gradients are unknown or do not exist. Due to the weak assumptions, however, they can be mostly effective only in small dimensions, for example, for hyperparameter tuning.
License: LGPL
Depends: methods
RoxygenNote: 6.0.0
NeedsCompilation: no
Packaged: 2017-02-02 15:48:45 UTC; mickael
Author: M. Binois [cre, aut, trl] (R port), A. Carpentier [aut] (Matlab original), J.-B. Grill [aut] (Python original), R. Munos [aut] (Python and Matlab original), M. Valko [aut, ctb] (Python and Matlab original)
Maintainer: M. Binois <mickael.binois@chicagobooth.edu>
Repository: CRAN
Date/Publication: 2017-02-03 14:32:55

More information about OOR at CRAN
Permanent link

Package h2o updated to version 3.10.3.3 with previous version 3.10.2.2 dated 2017-01-17

Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source math engine for big data that computes parallel distributed machine learning algorithms such as generalized linear models, gradient boosting machines, random forests, and neural networks (deep learning) within various cluster environments.
Author: The H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>

Diff between h2o versions 3.10.2.2 dated 2017-01-17 and 3.10.3.3 dated 2017-02-03

 DESCRIPTION                  |    8 +-
 MD5                          |   60 ++++++++-------
 NAMESPACE                    |   10 ++
 R/classes.R                  |   10 ++
 R/communication.R            |   65 ++++++++++++----
 R/connection.R               |   55 +++++++++++++
 R/constants.R                |    7 -
 R/deepwater.R                |    8 +-
 R/export.R                   |   36 ++++++++-
 R/frame.R                    |  124 ++++++++++++++++++++++++++-----
 R/import.R                   |   27 +++---
 R/kvstore.R                  |   84 ++++++++++-----------
 R/parse.R                    |   25 ++----
 R/stackedensemble.R          |only
 R/w2vutils.R                 |only
 R/word2vec.R                 |  171 ++++++++++++++++---------------------------
 inst/branch.txt              |    2 
 inst/buildnum.txt            |    2 
 man/H2OConnection-class.Rd   |    2 
 man/H2OModel-class.Rd        |    1 
 man/H2OModelMetrics-class.Rd |    1 
 man/h2o-package.Rd           |    6 -
 man/h2o.connect.Rd           |only
 man/h2o.deepwater.Rd         |   10 +-
 man/h2o.findSynonyms.Rd      |only
 man/h2o.grep.Rd              |only
 man/h2o.importFile.Rd        |    8 ++
 man/h2o.init.Rd              |    5 +
 man/h2o.parseRaw.Rd          |    7 +
 man/h2o.parseSetup.Rd        |    7 +
 man/h2o.saveModel.Rd         |    6 -
 man/h2o.saveMojo.Rd          |only
 man/h2o.stackedEnsemble.Rd   |only
 man/h2o.tokenize.Rd          |only
 man/h2o.transform.Rd         |only
 man/h2o.word2vec.Rd          |only
 36 files changed, 471 insertions(+), 276 deletions(-)

More information about h2o at CRAN
Permanent link

New package GrowingSOM with initial version 0.1
Package: GrowingSOM
Type: Package
Title: Growing Self-Organizing Maps
Version: 0.1
Date: 2017-02-02
Authors@R: person("Hunziker", "Alex", role = c("aut", "cre"), email = "alexhunziker@sunrise.ch")
Author: Hunziker Alex [aut, cre]
Maintainer: Hunziker Alex <alexhunziker@sunrise.ch>
Description: A growing self-organizing map (GrowingSOM, GSOM) is a growing variant of the popular self-organizing map (SOM). A growing self-organizing map is a type of artificial neural network (ANN) that is trained using unsupervised learning to produce a low-dimensional representation of the input space of the training samples, called a map.
Imports: plotrix
License: GPL-3
NeedsCompilation: yes
Packaged: 2017-02-02 10:21:13 UTC; hunzikal
Repository: CRAN
Date/Publication: 2017-02-03 14:32:54

More information about GrowingSOM at CRAN
Permanent link

Package GroupSeq updated to version 1.3.4 with previous version 1.3.3 dated 2015-07-08

Title: A GUI-Based Program to Compute Probabilities Regarding Group Sequential Designs
Description: A graphical user interface to compute group sequential designs based on normally distributed test statistics, particularly critical boundaries, power, drift, and confidence intervals of such designs. All computations are based on the alpha spending approach by Lan-DeMets with various alpha spending functions being available to choose among.
Author: Roman Pahl
Maintainer: Roman Pahl <roman.pahl@gmail.com>

Diff between GroupSeq versions 1.3.3 dated 2015-07-08 and 1.3.4 dated 2017-02-03

 DESCRIPTION                    |    6 
 MD5                            |   58 -
 NEWS                           |   50 
 R/alphaByUseFunction.R         |  124 +-
 R/alpha_spending_functions.R   |   48 
 R/calculateEqualBounds.R       |  316 +++---
 R/calculateTask1.R             |  242 ++--
 R/calculateTask2.R             |  242 ++--
 R/calculateTask3.R             |  212 ++--
 R/calculateTask4.R             |  196 +--
 R/computeAlphaLevel.R          |  270 ++---
 R/computeBounds.R              |  612 +++++------
 R/computeConfidenceIntervall.R |   60 -
 R/computeCurrentProbability.R  |  100 -
 R/computeDrift.R               |  454 ++++----
 R/consoleMode.R                | 2110 ++++++++++++++++++++---------------------
 R/console_output.R             |  392 +++----
 R/findDrift.R                  |   30 
 R/guiMode.R                    |  114 +-
 R/guiOutputTask1.R             |  504 ++++-----
 R/guiOutputTask2.R             |  758 +++++++-------
 R/guiOutputTask3.R             |    2 
 R/guiOutputTask4.R             |  612 +++++------
 R/integrateByTrapez.R          |   40 
 R/jointDensity.R               |  108 +-
 R/searchForBound.R             |  526 +++++-----
 R/stdDeviations.R              |   70 -
 R/tailProbability.R            |   44 
 R/useSpendingFunction.R        | 1070 ++++++++++----------
 man/groupseq.Rd                |  120 +-
 30 files changed, 4745 insertions(+), 4745 deletions(-)

More information about GroupSeq at CRAN
Permanent link

Package ggfortify updated to version 0.4.0 with previous version 0.3.0.0 dated 2016-12-02

Title: Data Visualization Tools for Statistical Analysis Results
Description: Unified plotting tools for statistics commonly used, such as GLM, time series, PCA families, clustering and survival analysis. The package offers a single plotting interface for these analysis results and plots in a unified style using 'ggplot2'.
Author: Masaaki Horikoshi [aut, cre], Yuan Tang [aut, cph]
Maintainer: Masaaki Horikoshi <sinhrks@gmail.com>

Diff between ggfortify versions 0.3.0.0 dated 2016-12-02 and 0.4.0 dated 2017-02-03

 DESCRIPTION                        |   16 -
 MD5                                |  254 ++++++++++---------
 NAMESPACE                          |    4 
 NEWS                               |only
 R/base_fortify_list.R              |    8 
 R/base_fortify_ts.R                |    2 
 R/fortify_MSwM.R                   |    2 
 R/fortify_basis.R                  |    2 
 R/fortify_forecast.R               |    2 
 R/fortify_glmnet.R                 |   27 --
 R/fortify_performance.R            |only
 R/fortify_spatial.R                |    9 
 R/fortify_stats.R                  |   31 +-
 R/fortify_stats_lm.R               |   73 +++--
 R/fortify_surv.R                   |    3 
 R/fortify_vars.R                   |    2 
 R/geom.R                           |    2 
 R/ggfortify.R                      |    2 
 R/plotlib.R                        |    2 
 R/tslib.R                          |   14 -
 R/util.R                           |   15 +
 build/vignette.rds                 |binary
 inst/doc/intro_Chinese.html        |    2 
 inst/doc/plot_dist.html            |    2 
 inst/doc/plot_lm.html              |    2 
 man/apply_facets.Rd                |    1 
 man/as_tibble.basis.Rd             |    1 
 man/autoplot.MSM.lm.Rd             |    1 
 man/autoplot.RasterCommon.Rd       |    1 
 man/autoplot.SpatialCommon.Rd      |    1 
 man/autoplot.aareg.Rd              |    1 
 man/autoplot.acf.Rd                |    1 
 man/autoplot.basis.Rd              |    1 
 man/autoplot.breakpoints.Rd        |    1 
 man/autoplot.cpt.Rd                |    1 
 man/autoplot.cv.glmnet.Rd          |    1 
 man/autoplot.density.Rd            |    1 
 man/autoplot.forecast.Rd           |    1 
 man/autoplot.ggmultiplot.Rd        |    1 
 man/autoplot.ggplot.Rd             |    1 
 man/autoplot.glmnet.Rd             |    1 
 man/autoplot.kmeans.Rd             |    1 
 man/autoplot.list.Rd               |    1 
 man/autoplot.lm.Rd                 |    1 
 man/autoplot.map.Rd                |    1 
 man/autoplot.matrix.Rd             |    1 
 man/autoplot.pca_common.Rd         |   10 
 man/autoplot.performance.Rd        |only
 man/autoplot.spec.Rd               |    1 
 man/autoplot.stepfun.Rd            |    1 
 man/autoplot.survfit.Rd            |    1 
 man/autoplot.ts.Rd                 |    9 
 man/autoplot.tsmodel.Rd            |    7 
 man/autoplot.varprd.Rd             |    1 
 man/cbind_wraps.Rd                 |    1 
 man/check_names.Rd                 |    1 
 man/confint.acf.Rd                 |    1 
 man/deprecate.warning.Rd           |    1 
 man/fitted.ar.Rd                   |    1 
 man/flatten.Rd                     |only
 man/fortify.MSM.lm.Rd              |    1 
 man/fortify.RasterCommon.Rd        |    1 
 man/fortify.SpatialCommon.Rd       |    1 
 man/fortify.aareg.Rd               |    1 
 man/fortify.acf.Rd                 |    1 
 man/fortify.basis.Rd               |    1 
 man/fortify.cpt.Rd                 |    5 
 man/fortify.cv.glmnet.Rd           |    1 
 man/fortify.density.Rd             |    1 
 man/fortify.dist.Rd                |    1 
 man/fortify.ets.Rd                 |    1 
 man/fortify.factanal.Rd            |    1 
 man/fortify.forecast.Rd            |    1 
 man/fortify.glmnet.Rd              |    1 
 man/fortify.kmeans.Rd              |    1 
 man/fortify.lfda.Rd                |    1 
 man/fortify.list.Rd                |    1 
 man/fortify.matrix.Rd              |    1 
 man/fortify.performance.Rd         |only
 man/fortify.prcomp.Rd              |    1 
 man/fortify.spec.Rd                |    1 
 man/fortify.stepfun.Rd             |    1 
 man/fortify.survfit.Rd             |    1 
 man/fortify.table.Rd               |    1 
 man/fortify.ts.Rd                  |    1 
 man/fortify.tsmodel.Rd             |    9 
 man/fortify.varprd.Rd              |    1 
 man/fortify_base.Rd                |    1 
 man/fortify_map.Rd                 |    1 
 man/geom_confint.Rd                |    1 
 man/geom_factory.Rd                |    1 
 man/get.dtindex.Rd                 |    1 
 man/get.dtindex.continuous.Rd      |    1 
 man/get.layout.Rd                  |    1 
 man/get_geom_function.Rd           |    1 
 man/ggbiplot.Rd                    |    1 
 man/ggcpgram.Rd                    |    1 
 man/ggdistribution.Rd              |    1 
 man/ggfortify.Rd                   |    1 
 man/ggfreqplot.Rd                  |    1 
 man/gglagplot.Rd                   |    1 
 man/ggmultiplot-class.Rd           |    6 
 man/ggtsdiag.Rd                    |    1 
 man/grid.draw.ggmultiplot.Rd       |    1 
 man/infer.Rd                       |    1 
 man/is.univariate.Rd               |    1 
 man/is_derived_from.Rd             |    1 
 man/plot_confint.Rd                |    1 
 man/plot_label.Rd                  |    1 
 man/plus-ggmultiplot-ANY-method.Rd |    1 
 man/post_autoplot.Rd               |    1 
 man/post_fortify.Rd                |    1 
 man/print-ggmultiplot-method.Rd    |    1 
 man/rbind_ts.Rd                    |    1 
 man/residuals.ar.Rd                |    1 
 man/show-ggmultiplot-method.Rd     |    1 
 man/support_autoplot.Rd            |    1 
 man/unscale.Rd                     |    1 
 tests/testthat/Rplots.pdf          |binary
 tests/testthat/test-base-infer.R   |    2 
 tests/testthat/test-changepoint.R  |    9 
 tests/testthat/test-cluster.R      |    4 
 tests/testthat/test-forecast.R     |    3 
 tests/testthat/test-glmnet.R       |    3 
 tests/testthat/test-performance.R  |only
 tests/testthat/test-spatial.R      |   54 ++--
 tests/testthat/test-stats-lm.R     |  481 +++++++++++++++++++++++++++++++++++++
 tests/testthat/test-stats.R        |   74 +++++
 tests/testthat/test-surv.R         |   32 +-
 tests/testthat/test-util.R         |    1 
 tests/testthat/test_lint.R         |    3 
 131 files changed, 895 insertions(+), 377 deletions(-)

More information about ggfortify at CRAN
Permanent link

Package getCRUCLdata updated to version 0.1.4 with previous version 0.1.3 dated 2017-02-01

Title: Download and Use CRU CL2.0 Climatology Data in R
Description: Provides functions that automate downloading and importing University of East Anglia Climate Research Unit (CRU) CL2.0 climatology data into R, facilitates the calculation of minimum temperature and maximum temperature and formats the data into a tidy data frame or a list of raster stack objects for use in an R session. CRU CL2.0 data are a gridded climatology of 1961-1990 monthly means released in 2002 and cover all land areas (excluding Antarctica) at 10-minute resolution. For more information see the description of the data provided by the University of East Anglia Climate Research Unit, <https://crudata.uea.ac.uk/cru/data/hrg/tmc/readme.txt>.
Author: Adam Sparks [aut, cre]
Maintainer: Adam Sparks <adamhsparks@gmail.com>

Diff between getCRUCLdata versions 0.1.3 dated 2017-02-01 and 0.1.4 dated 2017-02-03

 DESCRIPTION                            |    6 
 MD5                                    |   16 
 NEWS.md                                |    6 
 R/create_CRU_df.R                      |    2 
 R/get_CRU.R                            |    2 
 R/tidy_df.R                            |   37 +
 tests/testthat/test-create_CRU_df.R    |  581 ++++++++++++++++++++++++++++
 tests/testthat/test-create_CRU_stack.R |  676 ++++++++++++++++++++++++++++-----
 tests/testthat/test-get_CRU.R          |  299 +++-----------
 9 files changed, 1280 insertions(+), 345 deletions(-)

More information about getCRUCLdata at CRAN
Permanent link

New package fileplyr with initial version 0.1.0
Package: fileplyr
Version: 0.1.0
Title: Chunk Processing or Split-Apply-Combine on Delimited Files(CSV Etc)
Description: Perform chunk processing or split-apply-combine on data in a delimited file(example: CSV) across multiple cores of a single machine with low memory footprint. These functions are a convenient wrapper over the versatile package 'datadr'.
Authors@R: person("KS", "Srikanth", email = "sri.teach@gmail.com", role = c("aut", "cre"))
Imports: datadr (>= 0.8.6), assertthat (>= 0.1), parallel
Depends: R (>= 3.3.2), tibble (>= 1.2), utils
License: GPL-3
RoxygenNote: 5.0.1
NeedsCompilation: no
Packaged: 2017-02-03 13:41:15 UTC; adminn
Author: KS Srikanth [aut, cre]
Maintainer: KS Srikanth <sri.teach@gmail.com>
Repository: CRAN
Date/Publication: 2017-02-03 14:57:11

More information about fileplyr at CRAN
Permanent link

Package ctmm updated to version 0.3.5 with previous version 0.3.4 dated 2016-11-29

Title: Continuous-Time Movement Modeling
Description: Functions for identifying, fitting, and applying continuous-space, continuous-time stochastic movement models to animal tracking data.
Author: Christen H. Fleming [aut, cre], Justin M. Calabrese [aut], Kevin Winner [ctb], Guillaume Péron [ctb], Bart Kranstauber [ctb], Eliezer Gurarie [ctb], Kamran Safi [ctb], Paul C. Cross [dtc], Thomas Mueller [dtc]
Maintainer: Christen H. Fleming <flemingc@si.edu>

Diff between ctmm versions 0.3.4 dated 2016-11-29 and 0.3.5 dated 2017-02-03

 DESCRIPTION             |   33 ++++-
 MD5                     |   47 +++----
 NEWS                    |   18 ++
 R/ctmm.R                |   13 +-
 R/generic.R             |   22 +++
 R/kde.R                 |   21 ++-
 R/krige.R               |    3 
 R/likelihood.R          |  292 ++++++++++++++++++++++++++++++++----------------
 R/select.R              |   45 +++++--
 R/telemetry.R           |   33 +++--
 R/variogram.R           |   42 +++++-
 TODO                    |   41 ++----
 inst/doc/akde.html      |    4 
 inst/doc/variogram.Rmd  |    4 
 inst/doc/variogram.html |   15 +-
 man/akde.Rd             |    2 
 man/bandwidth.Rd        |    5 
 man/buffalo.Rd          |   12 +
 man/ctmm-FAQ.Rd         |only
 man/ctmm-package.Rd     |   22 ++-
 man/ctmm.fit.Rd         |    8 -
 man/summary.UD.Rd       |    3 
 man/summary.ctmm.Rd     |    5 
 man/uere.Rd             |    3 
 vignettes/variogram.Rmd |    4 
 25 files changed, 475 insertions(+), 222 deletions(-)

More information about ctmm at CRAN
Permanent link

New package Biolinv with initial version 0.1-1
Package: Biolinv
Type: Package
Title: Modelling and Forecasting Biological Invasions
Version: 0.1-1
Author: Luca Butikofer [aut, cre], Beatrix Jones [aut]
Maintainer: Luca Butikofer <lucabutikofer@gmail.com>
Description: Analysing and forecasting biological invasions time series with a stochastic, non mechanistic approach that gives proper weight to the anthropic component, accounts for habitat suitability and provides measures of precision for its estimates.
License: GPL-3
LazyData: TRUE
Depends: R (>= 3.2.4)
Imports: raster (>= 2.5-2), fields (>= 8.3-6), spatstat (>= 1.48-0), sp (>= 1.2-4), grDevices (>= 3.3.2), stats (>= 3.3.2), classInt (>= 0.1-23)
RoxygenNote: 5.0.1
Date: 2017-02-02
NeedsCompilation: no
Packaged: 2017-02-02 17:07:13 UTC; lucabutikofer
Repository: CRAN
Date/Publication: 2017-02-03 14:32:51

More information about Biolinv at CRAN
Permanent link

Package bigsplines updated to version 1.1-0 with previous version 1.0-9 dated 2016-08-13

Title: Smoothing Splines for Large Samples
Description: Fits smoothing spline regression models using scalable algorithms designed for large samples. Seven marginal spline types are supported: linear, cubic, different cubic, cubic periodic, cubic thin-plate, ordinal, and nominal. Random effects and parametric effects are also supported. Response can be Gaussian or non-Gaussian: Binomial, Poisson, Gamma, Inverse Gaussian, or Negative Binomial.
Author: Nathaniel E. Helwig <helwig@umn.edu>
Maintainer: Nathaniel E. Helwig <helwig@umn.edu>

Diff between bigsplines versions 1.0-9 dated 2016-08-13 and 1.1-0 dated 2017-02-03

 ChangeLog                  |   28 +++++++++++++++++
 DESCRIPTION                |   11 +++---
 MD5                        |   72 +++++++++++++++++++++++++--------------------
 NAMESPACE                  |    4 ++
 R/MPinv.R                  |only
 R/gcvoss.R                 |only
 R/makerkm.R                |    7 ++++
 R/makessa.R                |   10 +++---
 R/makessg.R                |   10 +++---
 R/makessp.R                |   10 +++---
 R/ordspline.R              |only
 R/plotci.R                 |    9 +++--
 R/predict.bigssa.R         |    6 +--
 R/predict.bigssg.R         |    6 +--
 R/predict.bigssp.R         |    6 +--
 R/predict.ordspline.R      |only
 R/print.ordspline.R        |only
 R/ssBasis.R                |only
 R/ssawork.R                |    2 -
 R/ssgwork.R                |    2 -
 R/sspwork.R                |    2 -
 man/bigspline.Rd           |    4 --
 man/bigsplines-internal.Rd |    2 +
 man/bigsplines-package.Rd  |    8 +----
 man/bigssa.Rd              |    4 +-
 man/bigssg.Rd              |    4 +-
 man/bigssp.Rd              |    4 +-
 man/bigtps.Rd              |    4 --
 man/binsamp.Rd             |    3 -
 man/makessa.Rd             |    4 +-
 man/makessg.Rd             |    4 +-
 man/makessp.Rd             |    4 +-
 man/ordspline.Rd           |only
 man/predict.bigspline.Rd   |    4 --
 man/predict.bigssa.Rd      |    4 +-
 man/predict.bigssg.Rd      |    4 +-
 man/predict.bigssp.Rd      |    4 +-
 man/predict.bigtps.Rd      |    4 --
 man/predict.ordspline.Rd   |only
 man/print.Rd               |   10 ++++--
 man/ssBasis.Rd             |only
 src/ordkermon.f            |only
 42 files changed, 152 insertions(+), 108 deletions(-)

More information about bigsplines at CRAN
Permanent link

Package goftest updated to version 1.0-4 with previous version 1.0-3 dated 2015-07-03

Title: Classical Goodness-of-Fit Tests for Univariate Distributions
Description: Cramer-Von Mises and Anderson-Darling tests of goodness-of-fit for continuous univariate distributions, using efficient algorithms.
Author: Julian Faraway [aut], George Marsaglia [aut], John Marsaglia [aut], Adrian Baddeley [aut, cre]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>

Diff between goftest versions 1.0-3 dated 2015-07-03 and 1.0-4 dated 2017-02-03

 DESCRIPTION |   12 ++++++------
 MD5         |    2 +-
 2 files changed, 7 insertions(+), 7 deletions(-)

More information about goftest at CRAN
Permanent link

Package wallace updated to version 0.6.3 with previous version 0.6.2 dated 2017-02-01

Title: A Modular Platform for Reproducible Modeling of Species Niches and Distributions
Description: The 'shiny' application Wallace is a modular platform for reproducible modeling of species niches and distributions. Wallace guides users through a complete analysis, from the acquisition of species occurrence and environmental data to visualizing model predictions on an interactive map, thus bundling complex workflows into a single, streamlined interface.
Author: Jamie M. Kass [aut, cre], Bruno Vilela [aut], Matthew E. Aiello-Lammens [aut], Robert Muscarella [aut], Robert P. Anderson [aut]
Maintainer: Jamie M. Kass <jkass@gradcenter.cuny.edu>

Diff between wallace versions 0.6.2 dated 2017-02-01 and 0.6.3 dated 2017-02-03

 DESCRIPTION                     |   12 ++++++------
 MD5                             |   24 ++++++++++++------------
 NEWS.md                         |    7 ++++++-
 R/wallace-package.R             |    6 +++---
 README.md                       |    2 +-
 inst/Rmd/text_intro.Rmd         |    2 +-
 inst/Rmd/text_intro_tab.Rmd     |    2 +-
 inst/Rmd/userReport.Rmd         |    8 ++------
 inst/shiny/modules/mods_comp2.R |    1 -
 inst/shiny/modules/mods_comp5.R |   10 ++++++++++
 inst/shiny/modules/mods_comp6.R |   16 +++++++++++++++-
 inst/shiny/server.R             |    2 --
 man/wallace-package.Rd          |    6 +++---
 13 files changed, 60 insertions(+), 38 deletions(-)

More information about wallace at CRAN
Permanent link

Package stpm updated to version 1.6.0 with previous version 1.5.0 dated 2016-12-12

Title: Stochastic Process Model for Analysis of Longitudinal and Time-to-Event Outcomes
Description: Utilities to estimate parameters of the models with survival functions induced by stochastic covariates. Miscellaneous functions for data preparation and simulation are also provided. For more information, see: (i)"Stochastic model for analysis of longitudinal data on aging and mortality" by Yashin A. et al. (2007), Mathematical Biosciences, 208(2), 538-551, <DOI:10.1016/j.mbs.2006.11.006>; (ii) "Health decline, aging and mortality: how are they related?" by Yashin A. et al. (2007), Biogerontology 8(3), 291(302), <DOI:10.1007/s10522-006-9073-3>.
Author: I. Y. Zhbannikov, Liang He, K. G. Arbeev, E. Stallard, I. Akushevich, A. I. Yashin.
Maintainer: Ilya Y. Zhbannikov <ilya.zhbannikov@duke.edu>

Diff between stpm versions 1.5.0 dated 2016-12-12 and 1.6.0 dated 2017-02-03

 DESCRIPTION                 |   14 
 MD5                         |   33 -
 NAMESPACE                   |    2 
 NEWS                        |    6 
 R/hes_spm.r                 |only
 R/hes_spm_g.r               |only
 R/lik_con_1d.r              |only
 R/lik_con_1d_g.r            |only
 R/spm_con_1d.r              |only
 R/spm_con_1d_g.r            |only
 R/spm_time-dependent.R      |    2 
 inst/doc/stpm-vignette.R    |   16 
 inst/doc/stpm-vignette.Rmd  |   16 
 inst/doc/stpm-vignette.html | 1093 +++++++++++++++++---------------------------
 man/spm_con_1d.Rd           |only
 man/spm_con_1d_g.Rd         |only
 man/spm_time_dep.Rd         |    2 
 src/devlik.cpp              |only
 src/devlik_g.cpp            |only
 src/devlik_g_2.cpp          |only
 src/hes_spm_g.cpp           |only
 src/loglik.cpp              |only
 src/loglik_g.cpp            |only
 src/loglik_g_2.cpp          |only
 vignettes/stpm-vignette.Rmd |   16 
 25 files changed, 503 insertions(+), 697 deletions(-)

More information about stpm at CRAN
Permanent link

Package ShinyItemAnalysis updated to version 1.1.0 with previous version 1.0.0 dated 2016-11-25

Title: Test and Item Analysis via Shiny
Description: Interactive shiny application for analysis of educational tests and their items.
Author: Patricia Martinkova [aut, cre], Adela Drabinova [aut, cre], Ondrej Leder [aut], Jakub Houdek [aut], Cestmir Stuka [ctb] and Martin Vejrazka [ctb]
Maintainer: Patricia Martinkova <martinkova@cs.cas.cz>

Diff between ShinyItemAnalysis versions 1.0.0 dated 2016-11-25 and 1.1.0 dated 2017-02-03

 DESCRIPTION                                                     |   15 
 MD5                                                             |   60 
 NAMESPACE                                                       |  112 
 NEWS                                                            |   60 
 R/DDplot.R                                                      |   36 
 R/DistractorAnalysis.R                                          |   21 
 R/dataMedical.R                                                 |only
 R/dataMedicalkey.R                                              |only
 R/dataMedicaltest.R                                             |only
 R/imports.R                                                     |only
 R/plotDIFLogistic.R                                             |    4 
 R/plotDIFirt.R                                                  |  227 
 R/plotDistractorAnalysis.R                                      |   40 
 R/startShinyItemAnalysis.R                                      |   33 
 data                                                            |only
 inst/shiny-examples/ShinyItemAnalysis/DDplot.R                  |    9 
 inst/shiny-examples/ShinyItemAnalysis/DistractorAnalysis.R      |   21 
 inst/shiny-examples/ShinyItemAnalysis/Rcode_ShinyItemAnalysis.R |only
 inst/shiny-examples/ShinyItemAnalysis/itemClassic.R             |only
 inst/shiny-examples/ShinyItemAnalysis/personHist.R              |only
 inst/shiny-examples/ShinyItemAnalysis/plotDIFLogistic.R         |    4 
 inst/shiny-examples/ShinyItemAnalysis/plotDIFirt.R              |  227 
 inst/shiny-examples/ShinyItemAnalysis/plotDistractorAnalysis.R  |   40 
 inst/shiny-examples/ShinyItemAnalysis/report.Rmd                |only
 inst/shiny-examples/ShinyItemAnalysis/reporthtml.Rmd            |only
 inst/shiny-examples/ShinyItemAnalysis/reportpdf.Rmd             |only
 inst/shiny-examples/ShinyItemAnalysis/server.R                  | 2356 ++++-
 inst/shiny-examples/ShinyItemAnalysis/ui.R                      | 4443 +++++-----
 inst/shiny-examples/ShinyItemAnalysis/wrightMap.R               |only
 inst/shiny-examples/ShinyItemAnalysis/www/bootstrap.css         |only
 man/DDplot.Rd                                                   |    9 
 man/DistractorAnalysis.Rd                                       |   21 
 man/dataMedical.Rd                                              |only
 man/dataMedicalkey.Rd                                           |only
 man/dataMedicaltest.Rd                                          |only
 man/plotDIFirt.Rd                                               |   61 
 man/plotDistractorAnalysis.Rd                                   |   35 
 man/startShinyItemAnalysis.Rd                                   |   37 
 38 files changed, 5411 insertions(+), 2460 deletions(-)

More information about ShinyItemAnalysis at CRAN
Permanent link

Package RPushbullet updated to version 0.3.0 with previous version 0.2.0 dated 2015-02-09

Title: R Interface to the Pushbullet Messaging Service
Description: An R interface to the Pushbullet messaging service which provides fast and efficient notifications (and file transfer) between computers, phones and tablets. An account has to be registered at the site http://www.pushbullet.com site to obtain a (free) API key.
Author: Dirk Eddelbuettel with contributions by Bill Evans, Mike Birdgeneau, Henrik Bengtsson, and Seth Wenchel
Maintainer: Dirk Eddelbuettel <edd@debian.org>

Diff between RPushbullet versions 0.2.0 dated 2015-02-09 and 0.3.0 dated 2017-02-03

 ChangeLog                  |   93 +++++++++++++++++++++++++
 DESCRIPTION                |   27 +++----
 MD5                        |   26 +++----
 NAMESPACE                  |    6 +
 R/devices.R                |    9 +-
 R/init.R                   |   82 +++++++++++++++-------
 R/pushes.R                 |  164 ++++++++++++++++++++++++---------------------
 R/setup.R                  |only
 README.md                  |   69 +++++++++++++-----
 inst/NEWS.Rd               |   28 +++++++
 man/pbGetDevices.Rd        |    3 
 man/pbPost.Rd              |   19 +----
 man/pbSetup.Rd             |only
 man/rpushbullet-package.Rd |    9 +-
 tests/simpleTests.R        |   52 +++++++++-----
 15 files changed, 400 insertions(+), 187 deletions(-)

More information about RPushbullet at CRAN
Permanent link

Package qrcm updated to version 2.0 with previous version 1.0 dated 2015-12-15

Title: Quantile Regression Coefficients Modeling
Description: Parametric modeling of quantile regression coefficient functions. Can be used with censored and truncated data.
Author: Paolo Frumento <paolo.frumento@ki.se>
Maintainer: Paolo Frumento <paolo.frumento@ki.se>

Diff between qrcm versions 1.0 dated 2015-12-15 and 2.0 dated 2017-02-03

 DESCRIPTION          |   13 
 MD5                  |   19 
 NAMESPACE            |   13 
 NEWS.md              |only
 R/qrcm.R             | 1420 +++++++++++++++++++++++++++++----------------------
 man/iqr.Rd           |   61 +-
 man/plot.iqr.Rd      |   15 
 man/qrcm-internal.Rd |   39 -
 man/qrcm-package.Rd  |   20 
 man/summary.iqr.Rd   |   19 
 man/test.fit.Rd      |   45 +
 11 files changed, 986 insertions(+), 678 deletions(-)

More information about qrcm at CRAN
Permanent link

Package ncar updated to version 0.3.1 with previous version 0.3 dated 2017-01-25

Title: Noncompartmental Analysis of Pharmacokinetic Data for CDISC Standardized Parameters
Description: Conduct a noncompartmental analysis as closely as possible to the most widely used commercial software for pharmacokinetic analysis, i.e. 'Phoenix(R) WinNonlin(R)' <https://www.certara.com/software/pkpd-modeling-and-simulation/phoenix-winnonlin/>. Some features include: 1) Use CDISC SDTM PP domain terms and generate PP domains from DM, EX, and PC domains. 2) Automatic slope selection with the same criterion of WinNonlin(R) 3) Support both 'linear-up linear-down' and 'linear-up log-down' method 4) Calculate partial(interval) AUC with 'linear' or 'log' interpolation method 5) Perform a noncompartmental analysis of CDISC standardized pharmacokinetic dataset (.XPT) For more details on noncompartmental analysis, see the reference: Gabrielsson J, Weiner D. Pharmacokinetic and Pharmacodynamic Data Analysis - Concepts and Applications. 5th ed. 2016. (ISBN:9198299107) *) Acknowledgement: Author thanks for the careful review and valuable input of Dr. Jee Eun Lee.
Author: Kyun-Seop Bae [aut, cre], Sungpil Han [aut]
Maintainer: Sungpil Han <shan@acp.kr>

Diff between ncar versions 0.3 dated 2017-01-25 and 0.3.1 dated 2017-02-03

 ncar-0.3.1/ncar/DESCRIPTION                   |   12 ++++++------
 ncar-0.3.1/ncar/MD5                           |   12 ++++++------
 ncar-0.3.1/ncar/NAMESPACE                     |    1 +
 ncar-0.3.1/ncar/R/runCDISC.R                  |   23 +++++++++++++++++++++--
 ncar-0.3.1/ncar/R/sysdata.rda                 |binary
 ncar-0.3.1/ncar/inst/doc/ncar-manual.pdf      |binary
 ncar-0.3.1/ncar/man/ncar_0.3.1-package.Rd     |only
 ncar-0.3/ncar/man/NonCompart_0.2.6-package.Rd |only
 8 files changed, 34 insertions(+), 14 deletions(-)

More information about ncar at CRAN
Permanent link

Package frailtypack updated to version 2.10.5 with previous version 2.10.4 dated 2017-01-04

Title: General Frailty Models: Shared, Joint and Nested Frailty Models with Prediction
Description: The following several classes of frailty models using a penalized likelihood estimation on the hazard function but also a parametric estimation can be fit using this R package: 1) A shared frailty model (with gamma or log-normal frailty distribution) and Cox proportional hazard model. Clustered and recurrent survival times can be studied. 2) Additive frailty models for proportional hazard models with two correlated random effects (intercept random effect with random slope). 3) Nested frailty models for hierarchically clustered data (with 2 levels of clustering) by including two iid gamma random effects. 4) Joint frailty models in the context of the joint modelling for recurrent events with terminal event for clustered data or not. A joint frailty model for two semi-competing risks and clustered data is also proposed. 5) Joint general frailty models in the context of the joint modelling for recurrent events with terminal event data with two independent frailty terms. 6) Joint Nested frailty models in the context of the joint modelling for recurrent events with terminal event, for hierarchically clustered data (with two levels of clustering) by including two iid gamma random effects. 7) Multivariate joint frailty models for two types of recurrent events and a terminal event. 8) Joint models for longitudinal data and a terminal event. 9) Trivariate joint models for longitudinal data, recurrent events and a terminal event. Prediction values are available (for a terminal event or for a new recurrent event). Left-truncated (not for Joint model), right-censored data, interval-censored data (only for Cox proportional hazard and shared frailty model) and strata are allowed. In each model, the random effects have the gamma or normal distribution. Now, you can also consider time-varying covariates effects in Cox, shared and joint frailty models (1-5). The package includes concordance measures for Cox proportional hazards models and for shared frailty models.
Author: Virginie Rondeau, Juan R. Gonzalez, Yassin Mazroui, Audrey Mauguen, Agnieszka Krol, Amadou Diakite, Alexandre Laurent and Myriam Lopez
Maintainer: Virginie Rondeau <Virginie.Rondeau@isped.u-bordeaux2.fr>

Diff between frailtypack versions 2.10.4 dated 2017-01-04 and 2.10.5 dated 2017-02-03

 DESCRIPTION                |    8 -
 MD5                        |   33 ++---
 NEWS                       |    6 
 R/additivePenal.R          |    2 
 R/frailtyPenal.R           |   18 +-
 R/plot.epoce.R             |   16 +-
 R/prediction.R             |  297 ++++++++++++++++++++++++++++++++++++++-------
 R/waldtest.R               |   34 ++---
 man/SurvIC.Rd              |    2 
 man/epoce.Rd               |  294 ++++++++++++++++++++++----------------------
 man/prediction.Rd          |    4 
 man/timedep.Rd             |    4 
 src/Makevars               |    1 
 src/atestWald.f90          |only
 src/funcpajsplines_fam.f90 |    6 
 src/funcpajweib_fam.f90    |   14 +-
 src/prediction.f90         |    2 
 src/prediction_tri.f90     |    6 
 18 files changed, 494 insertions(+), 253 deletions(-)

More information about frailtypack at CRAN
Permanent link

Package BAMMtools updated to version 2.1.6 with previous version 2.1.5 dated 2016-10-03

Title: Analysis and Visualization of Macroevolutionary Dynamics on Phylogenetic Trees
Description: Provides functions for analyzing and visualizing complex macroevolutionary dynamics on phylogenetic trees. It is a companion package to the command line program BAMM (Bayesian Analysis of Macroevolutionary Mixtures) and is entirely oriented towards the analysis, interpretation, and visualization of evolutionary rates. Functionality includes visualization of rate shifts on phylogenies, estimating evolutionary rates through time, comparing posterior distributions of evolutionary rates across clades, comparing diversification models using Bayes factors, and more.
Author: Dan Rabosky, Mike Grundler, Pascal Title, Carlos Anderson, Jeff Shi, Joseph Brown, Huateng Huang, Jon Mitchell
Maintainer: Pascal Title <ptitle@umich.edu>

Diff between BAMMtools versions 2.1.5 dated 2016-10-03 and 2.1.6 dated 2017-02-03

 DESCRIPTION      |    8 ++++----
 MD5              |    4 ++--
 R/getEventData.R |   20 +++++++++++++-------
 3 files changed, 19 insertions(+), 13 deletions(-)

More information about BAMMtools at CRAN
Permanent link

Package PST updated to version 0.94 with previous version 0.92 dated 2016-11-10

Title: Probabilistic Suffix Trees and Variable Length Markov Chains
Description: Provides a framework for analysing state sequences with probabilistic suffix trees (PST), the construction that stores variable length Markov chains (VLMC). Besides functions for learning and optimizing VLMC models, the PST library includes many additional tools to analyse sequence data with these models: visualization tools, functions for sequence prediction and artificial sequences generation, as well as for context and pattern mining. The package is specifically adapted to the field of social sciences by allowing to learn VLMC models from sets of individual sequences possibly containing missing values, and by accounting for case weights. The library also allows to compute probabilistic divergence between two models, and to fit segmented VLMC, where sub-models fitted to distinct strata of the learning sample are stored in a single PST. This software results from research work executed within the framework of the Swiss National Centre of Competence in Research LIVES, which is financed by the Swiss National Science Foundation. The authors are grateful to the Swiss National Science Foundation for its financial support.
Author: Alexis Gabadinho [aut, cre, cph]
Maintainer: Alexis Gabadinho <alexis.gabadinho@wanadoo.fr>

Diff between PST versions 0.92 dated 2016-11-10 and 0.94 dated 2017-02-03

 DESCRIPTION        |   12 ++++++------
 MD5                |    6 +++---
 NEWS               |    6 ++++++
 R/PSTf-functions.R |    2 +-
 4 files changed, 16 insertions(+), 10 deletions(-)

More information about PST at CRAN
Permanent link


Built and running on Debian GNU/Linux using R, littler and blosxom. Styled with Bootstrap.