Title: A More Scalable Alternative to Venn and Euler Diagrams for
Visualizing Intersecting Sets
Description: Creates visualizations of intersecting sets using a novel matrix
design, along with visualizations of several common set, element and attribute
related tasks.
Author: Jake Conway [cre],
Nils Gehlenborg [aut]
Maintainer: Jake Conway <jake_conway@hms.harvard.edu>
Diff between UpSetR versions 1.3.2 dated 2017-01-04 and 1.3.3 dated 2017-03-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- NEWS | 8 ++++++++ R/Element.queries.R | 8 +++++--- R/MainBar.R | 4 ++-- R/Metadata.plots.R | 32 ++++++++++++++++---------------- 6 files changed, 39 insertions(+), 29 deletions(-)
Title: Character String Processing Facilities
Description: Allows for fast, correct, consistent, portable,
as well as convenient character string/text processing in every locale
and any native encoding. Owing to the use of the ICU library,
the package provides R users with platform-independent functions
known to Java, Perl, Python, PHP, and Ruby programmers. Among available
features there are: pattern searching (e.g., with ICU Java-like regular
expressions or the Unicode Collation Algorithm), random string generation,
case mapping, string transliteration, concatenation,
Unicode normalization, date-time formatting and parsing, etc.
Author: Marek Gagolewski [aut, cre] and Bartek Tartanus [ctb] (stringi source code);
IBM and other contributors (ICU4C 55.1 source code);
Unicode, Inc. (Unicode Character Database)
Maintainer: Marek Gagolewski <gagolews@rexamine.com>
Diff between stringi versions 1.1.2 dated 2016-10-01 and 1.1.3 dated 2017-03-21
stringi-1.1.2/stringi/man/stri_install.Rd |only stringi-1.1.3/stringi/DESCRIPTION | 8 stringi-1.1.3/stringi/INSTALL | 30 stringi-1.1.3/stringi/LICENSE | 6 stringi-1.1.3/stringi/MD5 | 367 +++--- stringi-1.1.3/stringi/NAMESPACE | 2 stringi-1.1.3/stringi/NEWS | 25 stringi-1.1.3/stringi/R/ICU_settings.R | 2 stringi-1.1.3/stringi/R/compare.R | 2 stringi-1.1.3/stringi/R/draft_encdetect.R | 2 stringi-1.1.3/stringi/R/draft_files.R | 2 stringi-1.1.3/stringi/R/encoding.R | 2 stringi-1.1.3/stringi/R/encoding_conversion.R | 2 stringi-1.1.3/stringi/R/encoding_detection.R | 2 stringi-1.1.3/stringi/R/encoding_management.R | 4 stringi-1.1.3/stringi/R/escape.R | 2 stringi-1.1.3/stringi/R/install.R | 229 ++-- stringi-1.1.3/stringi/R/internal_prepare_arg.R | 2 stringi-1.1.3/stringi/R/internal_test.R | 2 stringi-1.1.3/stringi/R/join.R | 2 stringi-1.1.3/stringi/R/length.R | 2 stringi-1.1.3/stringi/R/locale.R | 2 stringi-1.1.3/stringi/R/locale_management.R | 2 stringi-1.1.3/stringi/R/opts.R | 2 stringi-1.1.3/stringi/R/pad.R | 2 stringi-1.1.3/stringi/R/random.R | 2 stringi-1.1.3/stringi/R/reverse.R | 2 stringi-1.1.3/stringi/R/search.R | 2 stringi-1.1.3/stringi/R/search_count_4.R | 2 stringi-1.1.3/stringi/R/search_count_bound.R | 2 stringi-1.1.3/stringi/R/search_detect_4.R | 2 stringi-1.1.3/stringi/R/search_extract_4.R | 2 stringi-1.1.3/stringi/R/search_extract_bound.R | 2 stringi-1.1.3/stringi/R/search_locate_4.R | 2 stringi-1.1.3/stringi/R/search_locate_bound.R | 2 stringi-1.1.3/stringi/R/search_match_4.R | 2 stringi-1.1.3/stringi/R/search_replace_4.R | 2 stringi-1.1.3/stringi/R/search_replace_na.R | 2 stringi-1.1.3/stringi/R/search_split_4.R | 2 stringi-1.1.3/stringi/R/search_split_bound.R | 2 stringi-1.1.3/stringi/R/search_startsendswith_4.R | 2 stringi-1.1.3/stringi/R/search_subset_4.R | 2 stringi-1.1.3/stringi/R/sort.R | 2 stringi-1.1.3/stringi/R/stats.R | 2 stringi-1.1.3/stringi/R/stringi-package.R | 4 stringi-1.1.3/stringi/R/sub.R | 4 stringi-1.1.3/stringi/R/time_calendar.R | 2 stringi-1.1.3/stringi/R/time_format.R | 2 stringi-1.1.3/stringi/R/time_symbols.R | 2 stringi-1.1.3/stringi/R/time_zone.R | 2 stringi-1.1.3/stringi/R/todo_charclass.R | 2 stringi-1.1.3/stringi/R/todo_justify.R | 2 stringi-1.1.3/stringi/R/todo_rbnf.R | 2 stringi-1.1.3/stringi/R/todo_search_in.R | 2 stringi-1.1.3/stringi/R/todo_split.R | 2 stringi-1.1.3/stringi/R/trans_casemap.R | 2 stringi-1.1.3/stringi/R/trans_normalization.R | 2 stringi-1.1.3/stringi/R/trans_other.R | 2 stringi-1.1.3/stringi/R/trans_transliterate.R | 2 stringi-1.1.3/stringi/R/trim.R | 2 stringi-1.1.3/stringi/R/utils.R | 2 stringi-1.1.3/stringi/R/wrap.R | 2 stringi-1.1.3/stringi/configure | 162 ++ stringi-1.1.3/stringi/inst/CITATION | 6 stringi-1.1.3/stringi/man/stri_enc_set.Rd | 2 stringi-1.1.3/stringi/man/stri_sub.Rd | 2 stringi-1.1.3/stringi/man/stringi-package.Rd | 2 stringi-1.1.3/stringi/src/Makevars.in | 3 stringi-1.1.3/stringi/src/Makevars.win | 2 stringi-1.1.3/stringi/src/install.libs.R.in | 4 stringi-1.1.3/stringi/src/stri_ICU_settings.cpp | 2 stringi-1.1.3/stringi/src/stri_TODO_justify.cpp | 2 stringi-1.1.3/stringi/src/stri_TODO_splitpos.cpp | 2 stringi-1.1.3/stringi/src/stri_TODO_uchar.cpp | 2 stringi-1.1.3/stringi/src/stri_brkiter.cpp | 2 stringi-1.1.3/stringi/src/stri_brkiter.h | 17 stringi-1.1.3/stringi/src/stri_bytesearch_matcher.h | 2 stringi-1.1.3/stringi/src/stri_collator.cpp | 2 stringi-1.1.3/stringi/src/stri_common.cpp | 2 stringi-1.1.3/stringi/src/stri_compare.cpp | 2 stringi-1.1.3/stringi/src/stri_container_base.cpp | 2 stringi-1.1.3/stringi/src/stri_container_base.h | 2 stringi-1.1.3/stringi/src/stri_container_bytesearch.cpp | 2 stringi-1.1.3/stringi/src/stri_container_bytesearch.h | 2 stringi-1.1.3/stringi/src/stri_container_charclass.h | 2 stringi-1.1.3/stringi/src/stri_container_double.h | 2 stringi-1.1.3/stringi/src/stri_container_integer.h | 2 stringi-1.1.3/stringi/src/stri_container_listint.cpp | 2 stringi-1.1.3/stringi/src/stri_container_listint.h | 2 stringi-1.1.3/stringi/src/stri_container_listraw.cpp | 2 stringi-1.1.3/stringi/src/stri_container_listraw.h | 2 stringi-1.1.3/stringi/src/stri_container_listutf8.cpp | 2 stringi-1.1.3/stringi/src/stri_container_listutf8.h | 2 stringi-1.1.3/stringi/src/stri_container_logical.h | 2 stringi-1.1.3/stringi/src/stri_container_regex.cpp | 2 stringi-1.1.3/stringi/src/stri_container_regex.h | 2 stringi-1.1.3/stringi/src/stri_container_usearch.cpp | 2 stringi-1.1.3/stringi/src/stri_container_usearch.h | 2 stringi-1.1.3/stringi/src/stri_container_utf16.cpp | 2 stringi-1.1.3/stringi/src/stri_container_utf16.h | 2 stringi-1.1.3/stringi/src/stri_container_utf8.cpp | 2 stringi-1.1.3/stringi/src/stri_container_utf8.h | 2 stringi-1.1.3/stringi/src/stri_container_utf8_indexable.cpp | 12 stringi-1.1.3/stringi/src/stri_container_utf8_indexable.h | 2 stringi-1.1.3/stringi/src/stri_encoding_conversion.cpp | 2 stringi-1.1.3/stringi/src/stri_encoding_detection.cpp | 2 stringi-1.1.3/stringi/src/stri_encoding_management.cpp | 10 stringi-1.1.3/stringi/src/stri_escape.cpp | 2 stringi-1.1.3/stringi/src/stri_exception.cpp | 548 ++++------ stringi-1.1.3/stringi/src/stri_exception.h | 12 stringi-1.1.3/stringi/src/stri_exports.h | 2 stringi-1.1.3/stringi/src/stri_external.h | 8 stringi-1.1.3/stringi/src/stri_interval.h | 2 stringi-1.1.3/stringi/src/stri_intvec.h | 2 stringi-1.1.3/stringi/src/stri_join.cpp | 2 stringi-1.1.3/stringi/src/stri_length.cpp | 2 stringi-1.1.3/stringi/src/stri_macros.h | 40 stringi-1.1.3/stringi/src/stri_messages.h | 2 stringi-1.1.3/stringi/src/stri_pad.cpp | 2 stringi-1.1.3/stringi/src/stri_prepare_arg.cpp | 2 stringi-1.1.3/stringi/src/stri_random.cpp | 2 stringi-1.1.3/stringi/src/stri_reverse.cpp | 2 stringi-1.1.3/stringi/src/stri_search_boundaries_count.cpp | 2 stringi-1.1.3/stringi/src/stri_search_boundaries_extract.cpp | 2 stringi-1.1.3/stringi/src/stri_search_boundaries_locate.cpp | 2 stringi-1.1.3/stringi/src/stri_search_boundaries_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_count.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_detect.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_extract.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_locate.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_replace.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_startsendswith.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_subset.cpp | 2 stringi-1.1.3/stringi/src/stri_search_class_trim.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_count.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_detect.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_extract.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_locate.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_replace.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_startsendswith.cpp | 2 stringi-1.1.3/stringi/src/stri_search_coll_subset.cpp | 2 stringi-1.1.3/stringi/src/stri_search_common.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_count.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_detect.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_extract.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_locate.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_replace.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_startsendswith.cpp | 2 stringi-1.1.3/stringi/src/stri_search_fixed_subset.cpp | 2 stringi-1.1.3/stringi/src/stri_search_in.cpp | 2 stringi-1.1.3/stringi/src/stri_search_other_replace.cpp | 2 stringi-1.1.3/stringi/src/stri_search_other_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_count.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_detect.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_extract.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_locate.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_match.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_replace.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_split.cpp | 2 stringi-1.1.3/stringi/src/stri_search_regex_subset.cpp | 2 stringi-1.1.3/stringi/src/stri_sort.cpp | 2 stringi-1.1.3/stringi/src/stri_stats.cpp | 2 stringi-1.1.3/stringi/src/stri_string8.h | 2 stringi-1.1.3/stringi/src/stri_string8buf.h | 2 stringi-1.1.3/stringi/src/stri_stringi.cpp | 5 stringi-1.1.3/stringi/src/stri_stringi.h | 2 stringi-1.1.3/stringi/src/stri_sub.cpp | 138 +- stringi-1.1.3/stringi/src/stri_test.cpp | 2 stringi-1.1.3/stringi/src/stri_time_calendar.cpp | 2 stringi-1.1.3/stringi/src/stri_time_format.cpp | 2 stringi-1.1.3/stringi/src/stri_time_symbols.cpp | 2 stringi-1.1.3/stringi/src/stri_time_zone.cpp | 2 stringi-1.1.3/stringi/src/stri_trans_casemap.cpp | 2 stringi-1.1.3/stringi/src/stri_trans_normalization.cpp | 2 stringi-1.1.3/stringi/src/stri_trans_other.cpp | 2 stringi-1.1.3/stringi/src/stri_trans_transliterate.cpp | 2 stringi-1.1.3/stringi/src/stri_ucnv.cpp | 2 stringi-1.1.3/stringi/src/stri_ucnv.h | 2 stringi-1.1.3/stringi/src/stri_uloc.cpp | 2 stringi-1.1.3/stringi/src/stri_utils.cpp | 2 stringi-1.1.3/stringi/src/stri_wrap.cpp | 2 stringi-1.1.3/stringi/src/uconfig_local.h.in | 2 185 files changed, 1086 insertions(+), 880 deletions(-)
Title: Reliability Coefficients
Description: Derives point estimates with confidence intervals for Bennett et als S, Cohen's kappa, Conger's kappa, Fleiss' kappa, Gwet's AC, intraclass correlation coefficients, Krippendorff's alpha, Scott's pi, the standard error of measurement, and weighted kappa.
Author: Riccardo Lo Martire
Maintainer: Riccardo Lo Martire <Riccardo.Lo.Martire@ki.se>
Diff between rel versions 1.2.0 dated 2016-12-27 and 1.3.0 dated 2017-03-21
rel-1.2.0/rel/R/bS.R |only rel-1.2.0/rel/R/cKap.R |only rel-1.2.0/rel/R/gAC.R |only rel-1.2.0/rel/R/krA.R |only rel-1.2.0/rel/R/sPi.R |only rel-1.2.0/rel/man/bS.Rd |only rel-1.2.0/rel/man/cKap.Rd |only rel-1.2.0/rel/man/gAC.Rd |only rel-1.2.0/rel/man/krA.Rd |only rel-1.2.0/rel/man/sPi.Rd |only rel-1.3.0/rel/DESCRIPTION | 12 +++---- rel-1.3.0/rel/MD5 | 38 +++++++++++++--------- rel-1.3.0/rel/NAMESPACE | 20 ++++++++---- rel-1.3.0/rel/NEWS | 23 +++++++++---- rel-1.3.0/rel/R/bags.R |only rel-1.3.0/rel/R/ckap.R |only rel-1.3.0/rel/R/gac.R |only rel-1.3.0/rel/R/icc.R |only rel-1.3.0/rel/R/kra.R |only rel-1.3.0/rel/R/plot.rel.R |only rel-1.3.0/rel/R/print.rel.R | 44 ++++++++++++++++++-------- rel-1.3.0/rel/R/sem.R |only rel-1.3.0/rel/R/spi.R |only rel-1.3.0/rel/R/summary.rel.R | 65 ++++++++++++++++++++++++++++++--------- rel-1.3.0/rel/man/bags.Rd |only rel-1.3.0/rel/man/ckap.Rd |only rel-1.3.0/rel/man/gac.Rd |only rel-1.3.0/rel/man/icc.Rd |only rel-1.3.0/rel/man/kra.Rd |only rel-1.3.0/rel/man/plot.rel.Rd |only rel-1.3.0/rel/man/rel-package.Rd | 2 - rel-1.3.0/rel/man/sem.Rd |only rel-1.3.0/rel/man/spi.Rd |only 33 files changed, 139 insertions(+), 65 deletions(-)
Title: Quantile Regression for Nonlinear Mixed-Effects Models
Description: Quantile regression (QR) for Nonlinear
Mixed-Effects Models via the asymmetric Laplace distribution (ALD).
It uses the Stochastic Approximation of the EM (SAEM) algorithm for
deriving exact maximum likelihood estimates and full inference results
for the fixed-effects and variance components.
It also provides graphical summaries for assessing the algorithm
convergence and fitting results.
Author: Christian E. Galarza <cgalarza88@gmail.com> and Victor H. Lachos <hlachos@ime.unicamp.br>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between qrNLMM versions 1.3 dated 2016-06-06 and 1.4 dated 2017-03-21
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/QRNLMM.R | 19 +++++++++++++++---- R/QSAEM_NLMM.R | 2 +- man/QRNLMM.Rd | 16 +++++++++++----- 5 files changed, 35 insertions(+), 18 deletions(-)
Title: Analysis of Subjective Perspectives Using Q Methodology
Description: Analysis of Q methodology, used to identify distinct perspectives existing within a group.
This methodology is used across social, health and environmental sciences to understand diversity of attitudes, discourses, or decision-making styles (for more information, see <http://qmethod.org>).
A single function runs the full analysis. Each step can be run separately using the corresponding functions: for automatic flagging of Q-sorts (manual flagging is optional), for statement scores, for distinguishing and consensus statements, and for general characteristics of the factors.
Additional functions are available to import and export data, to print and plot, to import raw data from individual *.CSV files, and to make printable cards.
The package also offers functions to print Q cards and to generate Q distributions for study administration.
The package uses principal components and it allows manual or automatic flagging, a number of mathematical methods for rotation, and a number of correlation coefficients for the initial correlation matrix.
See further details in the package documentation, and in the web pages below, which include a cookbook, guidelines for more advanced analysis (how to perform manual flagging or change the sign of factors), data management, and a beta graphical user interface for online and offline use.
Author: Aiora Zabala [aut, cre] (Main author),
Maximilian Held [aut] (Author of additional data management functions)
Maintainer: Aiora Zabala <aiora.zabala@gmail.com>
Diff between qmethod versions 1.5 dated 2017-01-24 and 1.5.2 dated 2017-03-21
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/plot.QmethodRes.R | 35 ++++++++++++++++++++++++----------- R/qdc.R | 10 +++++++--- R/qmb.plot.R | 2 +- R/qmethod.R | 3 ++- man/plot.QmethodRes.Rd | 4 +++- 7 files changed, 48 insertions(+), 28 deletions(-)
Title: Censored Regression (Tobit) Models
Description: Maximum Likelihood estimation of censored regression (Tobit) models
with cross-sectional and panel data.
Author: Arne Henningsen <arne.henningsen@gmail.com>
Maintainer: Arne Henningsen <arne.henningsen@gmail.com>
Diff between censReg versions 0.5-22 dated 2016-08-20 and 0.5-26 dated 2017-03-21
DESCRIPTION | 12 MD5 | 26 NAMESPACE | 1 R/censReg.R | 17 R/margEff.censReg.R | 2 R/zzz.R |only build/vignette.rds |binary inst/NEWS.Rd | 7 inst/doc/censReg.pdf |binary tests/censRegFail.Rout.save | 12 tests/censRegPanelLargerTest.Rout.save | 12 tests/censRegPanelTest.R | 281 ++-- tests/censRegPanelTest.RData.save |only tests/censRegPanelTest.Rout.save | 2110 ++++++++++----------------------- tests/censRegTest.Rout.save | 12 15 files changed, 900 insertions(+), 1592 deletions(-)
Title: Quantile Regression for Linear Mixed-Effects Models
Description: Quantile regression (QR) for Linear
Mixed-Effects Models via the asymmetric Laplace distribution (ALD).
It uses the Stochastic Approximation of the EM (SAEM) algorithm for
deriving exact maximum likelihood estimates and full inference results
for the fixed-effects and variance components.
It also provides graphical summaries for assessing the algorithm
convergence and fitting results.
Author: Christian E. Galarza <cgalarza88@gmail.com> and Victor H. Lachos <hlachos@ime.unicamp.br>
Maintainer: Christian E. Galarza <cgalarza88@gmail.com>
Diff between qrLMM versions 1.1 dated 2015-01-27 and 1.3 dated 2017-03-21
qrLMM-1.1/qrLMM/man/ALD.Rd |only qrLMM-1.3/qrLMM/DESCRIPTION | 11 +-- qrLMM-1.3/qrLMM/MD5 | 20 ++--- qrLMM-1.3/qrLMM/NAMESPACE | 16 ++-- qrLMM-1.3/qrLMM/R/HelpfulFunctions.R | 120 ++++++++++++++++++----------------- qrLMM-1.3/qrLMM/R/QRLMM.R | 20 ++++- qrLMM-1.3/qrLMM/R/SAEM.R | 5 - qrLMM-1.3/qrLMM/man/Cholesterol.Rd | 4 - qrLMM-1.3/qrLMM/man/Orthodont.Rd | 3 qrLMM-1.3/qrLMM/man/QRLMM.Rd | 50 +++++++++++--- qrLMM-1.3/qrLMM/man/group.plots.Rd |only qrLMM-1.3/qrLMM/man/qrLMM-package.Rd | 5 - 12 files changed, 152 insertions(+), 102 deletions(-)
Title: Drawing Survival Curves using 'ggplot2'
Description: Contains the function 'ggsurvplot()' for drawing easily beautiful
and 'ready-to-publish' survival curves with the 'number at risk' table
and 'censoring count plot'. Other functions are also available to plot
adjusted curves for `Cox` model and to visually examine 'Cox' model assumptions.
Author: Alboukadel Kassambara [aut, cre],
Marcin Kosinski [aut],
Przemyslaw Biecek [ctb]
Maintainer: Alboukadel Kassambara <alboukadel.kassambara@gmail.com>
Diff between survminer versions 0.3.0 dated 2017-03-16 and 0.3.1 dated 2017-03-21
DESCRIPTION | 26 +++++++++++----------- MD5 | 34 +++++++++++++++++------------ NEWS.md | 14 +++++++++++ R/BMT.R |only R/BRCAOV.survInfo.R |only R/ggcoxadjustedcurves.R | 6 ----- R/ggcoxdiagnostics.R | 21 ----------------- R/ggrisktable.R | 16 +++++++++++++ R/ggsurvplot.R | 21 +---------------- R/ggsurvtheme.R | 2 - data/BMT.rda |only data/BRCAOV.survInfo.rda |only inst/doc/Informative_Survival_Plots.R | 24 +++++++++++++------- inst/doc/Informative_Survival_Plots.Rmd | 17 +++++++++++--- inst/doc/Informative_Survival_Plots.html | 10 ++++---- inst/doc/Playing_with_fonts_and_texts.html | 4 +-- man/BMT.Rd |only man/BRCAOV.survInfo.Rd |only man/ggcoxadjustedcurves.Rd | 4 --- man/ggcoxdiagnostics.Rd | 21 ----------------- vignettes/Informative_Survival_Plots.Rmd | 17 +++++++++++--- 21 files changed, 116 insertions(+), 121 deletions(-)
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 2.11.0 dated 2017-03-12 and 2.11.1 dated 2017-03-21
frailtypack-2.11.0/frailtypack/src/atestWald.f90 |only frailtypack-2.11.1/frailtypack/DESCRIPTION | 8 ++++---- frailtypack-2.11.1/frailtypack/MD5 | 13 ++++++------- frailtypack-2.11.1/frailtypack/NEWS | 3 +++ frailtypack-2.11.1/frailtypack/man/prediction.Rd | 4 ++-- frailtypack-2.11.1/frailtypack/src/frailtypack.h | 13 ++++++------- frailtypack-2.11.1/frailtypack/src/init.c | 2 +- frailtypack-2.11.1/frailtypack/src/predictionfam.f90 | 12 ++++++------ 8 files changed, 28 insertions(+), 27 deletions(-)
Title: Open Source OCR Engine
Description: An OCR engine with unicode (UTF-8) support that can recognize
over 100 languages out of the box.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between tesseract versions 1.3 dated 2016-12-07 and 1.4 dated 2017-03-21
tesseract-1.3/tesseract/README.md |only tesseract-1.4/tesseract/DESCRIPTION | 12 +++++------ tesseract-1.4/tesseract/MD5 | 21 ++++++++++--------- tesseract-1.4/tesseract/NEWS | 5 ++++ tesseract-1.4/tesseract/R/tesseract.R | 2 - tesseract-1.4/tesseract/cleanup |only tesseract-1.4/tesseract/configure | 28 +------------------------- tesseract-1.4/tesseract/man/tessdata.Rd | 1 tesseract-1.4/tesseract/man/tesseract.Rd | 3 -- tesseract-1.4/tesseract/src/Makevars.in | 6 ----- tesseract-1.4/tesseract/src/register.c |only tesseract-1.4/tesseract/src/tesseract.cpp | 5 +++- tesseract-1.4/tesseract/src/tesseract_types.h | 7 +++++- 13 files changed, 37 insertions(+), 53 deletions(-)
Title: Render SVG Images into PDF, PNG, PostScript, or Bitmap Arrays
Description: Renders vector-based svg images into high-quality custom-size bitmap
arrays using 'librsvg2'. The resulting bitmap can be written to e.g. png, jpeg
or webp format. In addition, the package can convert images directly to various
formats such as pdf or postscript.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between rsvg versions 1.0 dated 2016-08-03 and 1.1 dated 2017-03-21
rsvg-1.0/rsvg/README.md |only rsvg-1.1/rsvg/DESCRIPTION | 14 +++++++------- rsvg-1.1/rsvg/MD5 | 12 ++++++------ rsvg-1.1/rsvg/NEWS | 3 +++ rsvg-1.1/rsvg/cleanup |only rsvg-1.1/rsvg/configure | 30 ++---------------------------- rsvg-1.1/rsvg/man/rsvg.Rd | 9 ++++----- rsvg-1.1/rsvg/src/init.c | 3 +++ 8 files changed, 25 insertions(+), 46 deletions(-)
Title: Calculates Critical Test Statistics to Control False Discovery
and Familywise Error Rates in Marginal Effects Plots
Description: Implements the procedures suggested in Esarey and Sumner (2017) <URL:https://goo.gl/riqX7Q> for controlling the false discovery rate or familywise error rate when constructing marginal effects plots for models with interaction terms.
Author: Justin Esarey and Jane Lawrence Sumner
Maintainer: Justin Esarey <justin@justinesarey.com>
Diff between interactionTest versions 1.0 dated 2015-09-01 and 1.0.1 dated 2017-03-21
DESCRIPTION | 16 +++++++++------- MD5 | 18 +++++++++--------- NAMESPACE | 2 +- R/bootFun.R | 32 +++++++++++++++++++++++++++----- R/fdrInteraction.R | 2 +- R/findMultiLims.R | 26 ++++++++++++++++++-------- man/bootFun.Rd | 49 +++++++++++++++++++++++++++++++++++-------------- man/fdrInteraction.Rd | 13 ++++++------- man/findMultiLims.Rd | 47 ++++++++++++++++++++++++++++------------------- man/legfig.Rd | 5 ++--- 10 files changed, 136 insertions(+), 74 deletions(-)
More information about interactionTest at CRAN
Permanent link
Title: GNU Privacy Guard for R
Description: Bindings to GnuPG for working with OpenGPG (RFC4880) cryptographic methods.
Includes utilities for public key encryption, creating and verifying digital signatures,
and managing your local keyring. Note that some functionality depends on the version of
GnuPG that is installed on the system. On Windows this package can be used together with
'GPG4Win' which provides a GUI for managing keys and entering passphrases.
Author: Jeroen Ooms [aut, cre]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between gpg versions 0.4 dated 2016-10-30 and 0.5 dated 2017-03-21
DESCRIPTION | 14 +- LICENSE | 2 MD5 | 34 +++--- NEWS | 3 R/encrypt.R | 2 R/keys.R | 7 - build/vignette.rds |binary cleanup |only configure | 26 ---- inst/doc/intro.Rmd | 12 +- inst/doc/intro.html | 287 +++++++++++++++++++++++++++------------------------- man/gpg_encrypt.Rd | 1 man/gpg_info.Rd | 1 man/gpg_keygen.Rd | 1 man/gpg_keys.Rd | 1 man/gpg_sign.Rd | 1 man/pinentry.Rd | 1 src/register.c |only vignettes/intro.Rmd | 12 +- 19 files changed, 204 insertions(+), 201 deletions(-)
Title: Evaluate Counterfactuals
Description: Inferences about counterfactuals are essential for prediction,
answering what if questions, and estimating causal effects.
However, when the counterfactuals posed are too far from the data at
hand, conclusions drawn from well-specified statistical analyses
become based largely on speculation hidden in convenient modeling
assumptions that few would be willing to defend. Unfortunately,
standard statistical approaches assume the veracity of the model
rather than revealing the degree of model-dependence, which makes this
problem hard to detect. WhatIf offers easy-to-apply methods to
evaluate counterfactuals that do not require sensitivity testing over
specified classes of models. If an analysis fails the tests offered
here, then we know that substantive inferences will be sensitive to at
least some modeling choices that are not based on empirical evidence,
no matter what method of inference one chooses to use.
Author: Christopher Gandrud [aut, cre],
Gary King [aut],
Heather Stoll [aut],
Langche Zeng [aut]
Maintainer: Christopher Gandrud <zelig.zee@gmail.com>
Diff between WhatIf versions 1.5-6 dated 2014-01-08 and 1.5-8 dated 2017-03-21
WhatIf-1.5-6/WhatIf/.Rinstignore |only WhatIf-1.5-6/WhatIf/README |only WhatIf-1.5-6/WhatIf/inst |only WhatIf-1.5-6/WhatIf/vignettes |only WhatIf-1.5-8/WhatIf/DESCRIPTION | 48 - WhatIf-1.5-8/WhatIf/MD5 | 25 WhatIf-1.5-8/WhatIf/NAMESPACE | 8 WhatIf-1.5-8/WhatIf/NEWS.md |only WhatIf-1.5-8/WhatIf/R/summary.whatif.R | 3 WhatIf-1.5-8/WhatIf/R/whatif.R | 968 ++++++++++++++++++++------------- WhatIf-1.5-8/WhatIf/README.md |only WhatIf-1.5-8/WhatIf/data/peacecf.RData |binary WhatIf-1.5-8/WhatIf/data/peacef.RData |binary WhatIf-1.5-8/WhatIf/man/whatif.Rd | 472 +++++++--------- WhatIf-1.5-8/WhatIf/tests |only 15 files changed, 872 insertions(+), 652 deletions(-)
Title: Variance Estimation for Sample Surveys by the Ultimate Cluster
Method
Description: Generation of domain variables, linearisation of several nonlinear population statistics (the ratio of two totals, weighted income percentile, relative median income ratio, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, the aggregate replacement ratio, the relative median income ratio, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow,Theory, vol. I: Methods and Applications; vol. II: Theory. 1953, New York: John Wiley and Sons), variance estimation for longitudinal, cross-sectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y. G., 2015, <doi:10.1111/rssa.12116>). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre],
Martins Liberts [aut],
Santa Ivanova [aut]
Maintainer: Juris Breidaks <Juris.Breidaks@csb.gov.lv>
Diff between vardpoor versions 0.8.6 dated 2017-02-28 and 0.9.0 dated 2017-03-21
vardpoor-0.8.6/vardpoor/R/vardchangannual.R |only vardpoor-0.8.6/vardpoor/R/vardcrosannual.R |only vardpoor-0.8.6/vardpoor/R/vardgpgchangannual.R |only vardpoor-0.8.6/vardpoor/R/vardgpgcrosannual.R |only vardpoor-0.8.6/vardpoor/man/vardchangannual.Rd |only vardpoor-0.8.6/vardpoor/man/vardcrosannual.Rd |only vardpoor-0.8.6/vardpoor/man/vardgpgchangannual.Rd |only vardpoor-0.8.6/vardpoor/man/vardgpgcrosannual.Rd |only vardpoor-0.9.0/vardpoor/DESCRIPTION | 10 - vardpoor-0.9.0/vardpoor/MD5 | 98 +++++------ vardpoor-0.9.0/vardpoor/NAMESPACE | 9 - vardpoor-0.9.0/vardpoor/R/domain.R | 86 ++++++---- vardpoor-0.9.0/vardpoor/R/incPercentile.R | 8 vardpoor-0.9.0/vardpoor/R/lin.ratio.R | 4 vardpoor-0.9.0/vardpoor/R/linarpr.R | 26 +-- vardpoor-0.9.0/vardpoor/R/linarpt.R | 24 +- vardpoor-0.9.0/vardpoor/R/linarr.R | 10 - vardpoor-0.9.0/vardpoor/R/linpoormed.R | 16 - vardpoor-0.9.0/vardpoor/R/linqsr.R | 6 vardpoor-0.9.0/vardpoor/R/linrmir.R | 10 - vardpoor-0.9.0/vardpoor/R/linrmpg.R | 25 +- vardpoor-0.9.0/vardpoor/R/vardannual.R |only vardpoor-0.9.0/vardpoor/R/vardchanges.R | 189 ++++++++++++---------- vardpoor-0.9.0/vardpoor/R/vardchangespoor.R | 42 +--- vardpoor-0.9.0/vardpoor/R/vardcros.R | 54 +++--- vardpoor-0.9.0/vardpoor/R/vardcrospoor.R | 51 ++--- vardpoor-0.9.0/vardpoor/R/vardgpgannual.R |only vardpoor-0.9.0/vardpoor/R/vardom.R | 36 ++-- vardpoor-0.9.0/vardpoor/R/vardom_othstr.R | 31 ++- vardpoor-0.9.0/vardpoor/R/vardomh.R | 76 ++++---- vardpoor-0.9.0/vardpoor/R/variance_est.R | 6 vardpoor-0.9.0/vardpoor/R/varpoord.R | 36 +--- vardpoor-0.9.0/vardpoor/inst/NEWS | 4 vardpoor-0.9.0/vardpoor/man/domain.Rd | 5 vardpoor-0.9.0/vardpoor/man/incPercentile.Rd | 2 vardpoor-0.9.0/vardpoor/man/lin.ratio.Rd | 2 vardpoor-0.9.0/vardpoor/man/linarpr.Rd | 10 - vardpoor-0.9.0/vardpoor/man/linarpt.Rd | 10 - vardpoor-0.9.0/vardpoor/man/linarr.Rd | 10 - vardpoor-0.9.0/vardpoor/man/lingini.Rd | 5 vardpoor-0.9.0/vardpoor/man/lingini2.Rd | 4 vardpoor-0.9.0/vardpoor/man/lingpg.Rd | 5 vardpoor-0.9.0/vardpoor/man/linpoormed.Rd | 10 - vardpoor-0.9.0/vardpoor/man/linqsr.Rd | 4 vardpoor-0.9.0/vardpoor/man/linrmir.Rd | 10 - vardpoor-0.9.0/vardpoor/man/linrmpg.Rd | 10 - vardpoor-0.9.0/vardpoor/man/vardannual.Rd |only vardpoor-0.9.0/vardpoor/man/vardchanges.Rd | 6 vardpoor-0.9.0/vardpoor/man/vardchangespoor.Rd | 4 vardpoor-0.9.0/vardpoor/man/vardcrospoor.Rd | 8 vardpoor-0.9.0/vardpoor/man/vardgpgannual.Rd |only vardpoor-0.9.0/vardpoor/man/vardom.Rd | 4 vardpoor-0.9.0/vardpoor/man/vardom_othstr.Rd | 5 vardpoor-0.9.0/vardpoor/man/vardomh.Rd | 4 vardpoor-0.9.0/vardpoor/man/vardpoor-package.Rd | 6 vardpoor-0.9.0/vardpoor/man/varpoord.Rd | 46 ++--- 56 files changed, 520 insertions(+), 507 deletions(-)
Title: Structural Equation Modelling in R with 'OpenMx'
Description: Quickly create, run, and report structural equation and twin models
'?umx' to learn more.
Author: Timothy C Bates [aut, cre]
Maintainer: Timothy C Bates <timothy.c.bates@gmail.com>
Diff between umx versions 1.5.1 dated 2017-03-07 and 1.5.5 dated 2017-03-21
DESCRIPTION | 12 +++--- MD5 | 32 ++++++++-------- NAMESPACE | 2 + NEWS | 10 ++++- R/build_run_modify.r | 68 +++++++++++++++++++++------------- R/fit_and_reporting.r | 21 +++++----- R/misc_and_utility.r | 82 +++++++++++++++++++++++++++++++++++++----- README.md | 4 +- man/extractAIC.MxModel.Rd | 11 ++--- man/umxCP.Rd | 1 man/umxModify.Rd | 13 +++++- man/umxPath.Rd | 11 +++-- man/umxSummary.MxModel.Rd | 5 +- man/umx_check_names.Rd | 8 ++-- man/umx_make.Rd | 3 + man/umx_r_test.Rd |only man/umx_set_cores.Rd | 2 - man/umx_write_to_clipboard.Rd |only 18 files changed, 195 insertions(+), 90 deletions(-)
Title: Time-Frequency Analysis of 1-D Signals
Description: A set of R functions which provide an
environment for the Time-Frequency analysis of 1-D signals (and
especially for the wavelet and Gabor transforms of noisy
signals). It was originally written for Splus by Rene Carmona,
Bruno Torresani, and Wen L. Hwang, first at the University of
California at Irvine and then at Princeton University. Credit
should also be given to Andrea Wang whose functions on the
dyadic wavelet transform are included. Rwave is based on the
book: "Practical Time-Frequency Analysis: Gabor and Wavelet
Transforms with an Implementation in S", by Rene Carmona, Wen
L. Hwang and Bruno Torresani, Academic Press, 1998.
Author: S original by Rene Carmona <rcarmona@princeton.edu> and Bruno
Torresani <bruno.torresani@cmi.univ-mrs.fr>; R port by Brandon
Whitcher <bjw34032@users.sourceforge.net>; upgrade by Jonathan M. Lees<jonathan.lees@unc.edu>
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>
Diff between Rwave versions 2.4 dated 2015-04-26 and 2.4-5 dated 2017-03-21
Rwave-2.4-5/Rwave/DESCRIPTION | 8 ++++---- Rwave-2.4-5/Rwave/MD5 | 28 ++++++++++++++-------------- Rwave-2.4-5/Rwave/NAMESPACE | 5 ++++- Rwave-2.4-5/Rwave/R/extrema.R |only Rwave-2.4-5/Rwave/R/pca_rec.R |only Rwave-2.4-5/Rwave/R/plot.R |only Rwave-2.4-5/Rwave/R/radar.R |only Rwave-2.4-5/Rwave/R/recon2d.R |only Rwave-2.4-5/Rwave/R/robust.R |only Rwave-2.4-5/Rwave/R/simul.R |only Rwave-2.4-5/Rwave/R/skernel.R |only Rwave-2.4-5/Rwave/man/gabor.rd | 5 +++-- Rwave-2.4-5/Rwave/src/dyadic.h | 3 +-- Rwave-2.4-5/Rwave/src/gabor.c | 2 +- Rwave-2.4-5/Rwave/src/init.c |only Rwave-2.4/Rwave/R/Pca_Climbers1.R |only Rwave-2.4/Rwave/R/extrema.r |only Rwave-2.4/Rwave/R/pca_rec.r |only Rwave-2.4/Rwave/R/plot.r |only Rwave-2.4/Rwave/R/radar.r |only Rwave-2.4/Rwave/R/recon2d.r |only Rwave-2.4/Rwave/R/robust.r |only Rwave-2.4/Rwave/R/simul.r |only Rwave-2.4/Rwave/R/skernel.r |only 24 files changed, 27 insertions(+), 24 deletions(-)
Title: HTML Output Formats and Templates for 'rmarkdown' Documents
Description: HTML formats and templates for 'rmarkdown' documents, with some extra
features such as automatic table of contents, lightboxed figures, dynamic
crosstab helper.
Author: Julien Barnier [aut, cre]
Maintainer: Julien Barnier <julien.barnier@ens-lyon.fr>
Diff between rmdformats versions 0.3.1 dated 2017-02-21 and 0.3.2 dated 2017-03-21
DESCRIPTION | 8 MD5 | 31 +- NEWS | 8 R/pilltabs.R | 4 README.md | 8 build/vignette.rds |binary inst/doc/introduction.html | 365 +++++++++--------------------- inst/templates/html_clean/clean.css | 12 inst/templates/html_clean/clean.js | 9 inst/templates/html_docco/docco.css | 12 inst/templates/html_docco/docco.js | 9 inst/templates/material/material.css | 16 + inst/templates/material/material.js | 9 inst/templates/readthedown/readthedown.js | 8 tools |only 15 files changed, 182 insertions(+), 317 deletions(-)
Title: Functions to Make Surveys Processing Easier
Description: Set of functions to make the processing and analysis of
surveys easier : interactive shiny apps and addins for data recoding,
contingency tables, dataset metadata handling, and several convenience
functions.
Author: Julien Barnier [aut, cre],
François Briatte [aut],
Joseph Larmarange [aut]
Maintainer: Julien Barnier <julien.barnier@ens-lyon.fr>
Diff between questionr versions 0.5 dated 2016-03-15 and 0.6.0 dated 2017-03-21
DESCRIPTION | 12 - MD5 | 140 ++++++------ NAMESPACE | 13 + NEWS | 14 + R/datasets.R | 70 ++++++ R/describe.R | 322 ++++++++++++++++++++++++----- R/iorder.R | 14 - R/irec.R | 13 - R/lookfor.R | 108 +++++++-- R/odds.ratio.R | 86 ++++--- R/table.multi.R | 33 +- R/tables.R | 110 +++++++-- R/tools.R | 2 data/datalist |only data/fecondite.RData |binary data/fertility.RData |only data/happy.RData |binary data/hdv2003.RData |binary data/rp2012.RData |only data/rp99.RData |binary inst/po/en@quot/LC_MESSAGES/R-questionr.mo |binary inst/po/fr/LC_MESSAGES/R-questionr.mo |binary inst/rstudio/addins.dcf | 6 man/addNAstr.Rd | 1 man/children.Rd |only man/chisq.residuals.Rd | 1 man/clipcopy.Rd | 7 man/cprop.Rd | 1 man/cramer.v.Rd | 1 man/cross.multi.table.Rd | 7 man/describe.Rd | 83 +++++-- man/duplicated2.Rd | 1 man/enfants.Rd | 1 man/escape_regex.Rd | 1 man/fecondite.Rd | 6 man/femmes.Rd | 1 man/fertility.Rd |only man/first_non_null.Rd | 3 man/format.proptab.Rd | 1 man/freq.Rd | 21 + man/freq.na.Rd | 7 man/hdv2003.Rd | 1 man/households.Rd |only man/icut.Rd | 1 man/ifunc_get_css.Rd | 1 man/ifunc_run_as_addin.Rd | 1 man/ifunc_show_alert.Rd | 1 man/iorder.Rd | 1 man/irec.Rd | 1 man/lookfor.Rd | 46 ++-- man/ltabs.Rd |only man/menages.Rd | 1 man/multi.split.Rd | 1 man/multi.table.Rd | 1 man/na.rm.Rd | 7 man/odds.ratio.Rd | 42 ++- man/print.proptab.Rd | 1 man/prop.Rd | 1 man/qload.Rd | 7 man/qscan.Rd | 7 man/quant.cut.Rd | 1 man/questionr.Rd | 1 man/recode.na.Rd | 7 man/rename.variable.Rd | 1 man/rm.unused.levels.Rd | 1 man/rp2012.Rd |only man/rp99.Rd | 1 man/rprop.Rd | 3 man/women.Rd |only man/wtd.mean.Rd | 7 man/wtd.table.Rd | 1 po/R-fr.mo |binary po/R-fr.po | 29 ++ po/R-questionr.pot | 16 - tests/testthat/test_multi.R | 81 +++++++ tests/testthat/test_tables.R |only 76 files changed, 981 insertions(+), 375 deletions(-)
Title: Private Configuration for 'R' Packages
Description: Set configuration options on a per-package basis.
Options set by a given package only apply to that package,
other packages are unaffected.
Author: Gábor Csárdi
Maintainer: Gábor Csárdi <csardi.gabor@gmail.com>
Diff between pkgconfig versions 2.0.0 dated 2015-07-18 and 2.0.1 dated 2017-03-21
pkgconfig-2.0.0/pkgconfig/inst/NEWS.md |only pkgconfig-2.0.0/pkgconfig/inst/README.md |only pkgconfig-2.0.1/pkgconfig/DESCRIPTION | 13 +++++---- pkgconfig-2.0.1/pkgconfig/LICENSE | 4 +- pkgconfig-2.0.1/pkgconfig/MD5 | 19 +++++++------- pkgconfig-2.0.1/pkgconfig/R/utils.R | 4 -- pkgconfig-2.0.1/pkgconfig/inst/NEWS.markdown |only pkgconfig-2.0.1/pkgconfig/inst/README.Rmd | 5 ++- pkgconfig-2.0.1/pkgconfig/inst/README.markdown |only pkgconfig-2.0.1/pkgconfig/tests/testthat.R | 7 +++-- pkgconfig-2.0.1/pkgconfig/tests/testthat/test-errors.R |only pkgconfig-2.0.1/pkgconfig/tests/testthat/test-globalenv.R | 19 ++------------ pkgconfig-2.0.1/pkgconfig/tests/testthat/tests.R | 9 ++---- 13 files changed, 34 insertions(+), 46 deletions(-)
Title: Plant Photobiology Related Functions and Data
Description: Provides functions for quantifying visible (VIS) and ultraviolet
(UV) radiation in relation to the photoreceptors Phytochromes,
Cryptochromes, and UVR8 which are present in plants. It also
includes data sets on the optical properties of plants.
Author: Pedro J. Aphalo [aut, cre]
Maintainer: Pedro J. Aphalo <pedro.aphalo@helsinki.fi>
Diff between photobiologyPlants versions 0.4.0 dated 2016-08-03 and 0.4.1 dated 2017-03-21
photobiologyPlants-0.4.0/photobiologyPlants/R/McCree-photosynthesis-mspct.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Pfr-P-ratio-mono.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Pfr-P-ratio.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Pfr-Ptot.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/PfrPtot-RFR.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Phy-Sigma-FR.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Phy-Sigma-R.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/Phy-Sigma.R |only photobiologyPlants-0.4.0/photobiologyPlants/R/phy-reaction-rates.R |only photobiologyPlants-0.4.1/photobiologyPlants/DESCRIPTION | 27 +- photobiologyPlants-0.4.1/photobiologyPlants/MD5 | 95 +++++----- photobiologyPlants-0.4.1/photobiologyPlants/NEWS | 6 photobiologyPlants-0.4.1/photobiologyPlants/R/McCree-photosynthesis-mspct.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Pfr-P-ratio-mono.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Pfr-P-ratio.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Pfr-Ptot.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/PfrPtot-RFR.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Phy-Sigma-FR.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Phy-Sigma-R.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/Phy-Sigma.r |only photobiologyPlants-0.4.1/photobiologyPlants/R/phy-reaction-rates.r |only photobiologyPlants-0.4.1/photobiologyPlants/README.md | 4 photobiologyPlants-0.4.1/photobiologyPlants/build/vignette.rds |binary photobiologyPlants-0.4.1/photobiologyPlants/data/McCree.rda |binary photobiologyPlants-0.4.1/photobiologyPlants/data/UVR8.spct.rda |binary photobiologyPlants-0.4.1/photobiologyPlants/data/cry.spct.rda |binary photobiologyPlants-0.4.1/photobiologyPlants/data/leaves.spct.rda |binary photobiologyPlants-0.4.1/photobiologyPlants/data/phytochrome.spct.rda |binary photobiologyPlants-0.4.1/photobiologyPlants/inst/doc/dataplotsPlants.R | 8 photobiologyPlants-0.4.1/photobiologyPlants/inst/doc/dataplotsPlants.Rnw | 8 photobiologyPlants-0.4.1/photobiologyPlants/inst/doc/dataplotsPlants.pdf |binary photobiologyPlants-0.4.1/photobiologyPlants/inst/doc/userguideplants.pdf |binary photobiologyPlants-0.4.1/photobiologyPlants/inst/staticdocs/README.md |only photobiologyPlants-0.4.1/photobiologyPlants/man/B_G.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/Betula_ermanii.mspct.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/CRY2.mspct.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/McCree_photosynthesis.mspct.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Pfr_P_ratio.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Pfr_P_ratio_mono.Rd | 4 photobiologyPlants-0.4.1/photobiologyPlants/man/Pfr_Ptot.Rd | 4 photobiologyPlants-0.4.1/photobiologyPlants/man/Pfr_Ptot_R_FR.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Phy_Sigma.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Phy_Sigma_FR.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Phy_Sigma_R.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/Phy_reaction_rates.Rd | 3 photobiologyPlants-0.4.1/photobiologyPlants/man/R_FR.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/Solidago_altissima.mspct.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UVA_PAR.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UVA_UV.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UVB_PAR.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UVB_UV.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UVR8_Glasgow.spct.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/UV_PAR.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/man/photobiologyPlants-package.Rd | 12 - photobiologyPlants-0.4.1/photobiologyPlants/man/phytochrome.spct.Rd | 1 photobiologyPlants-0.4.1/photobiologyPlants/vignettes/dataplotsPlants-concordance.tex | 2 photobiologyPlants-0.4.1/photobiologyPlants/vignettes/dataplotsPlants.Rnw | 8 photobiologyPlants-0.4.1/photobiologyPlants/vignettes/userguideplants-concordance.tex | 2 58 files changed, 104 insertions(+), 109 deletions(-)
More information about photobiologyPlants at CRAN
Permanent link
Title: High-Dimensional Repeated Measures
Description: Methods for testing main and interaction effects in possibly
high-dimensional repeated measures in factorial designs. The observations
of the subjects are assumed to be multivariate normal.
It is possible to use up to 2 whole- and 3 subplot factors.
Author: Martin Happ [aut, cre], Harrar W. Solomon [aut], Arne C. Bathke [aut]
Maintainer: Martin Happ <martin.happ@aon.at>
Diff between HRM versions 0.5.0 dated 2017-02-28 and 0.5.1 dated 2017-03-21
DESCRIPTION | 8 +++---- MD5 | 11 +++++----- NAMESPACE | 2 - R/Repeated.R | 50 ++++++++++++++++++++++++++++++++++++++++------ inst |only man/HRM.Rd | 6 +++-- man/hrm.test.dataframe.Rd | 6 +++-- 7 files changed, 63 insertions(+), 20 deletions(-)
Title: Estimation of Extreme Conditional Quantiles and Probabilities
Description: Extreme value theory, nonparametric kernel estimation, tail
conditional probabilities, extreme conditional quantile, adaptive estimation,
quantile regression, survival probabilities.
Author: Gilles Durrieu, Ion Grama, Kevin Jaunatre, Quang-Khoai Pham, Jean-Marie
Tricot
Maintainer: Kevin Jaunatre <kevin.jaunatre@univ-ubs.fr>
Diff between extremefit versions 0.2.0 dated 2016-12-02 and 0.2.2 dated 2017-03-21
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/PackageOxygen.R | 24 ++++++++++++------------ man/LoadCurve.Rd | 8 ++++---- man/Pareto-Distribution.Rd | 6 +++--- man/pparetoCP.Rd | 8 ++++---- 6 files changed, 31 insertions(+), 31 deletions(-)
Title: Camera Trap Data Management and Preparation of Occupancy and
Spatial Capture-Recapture Analyses
Description: Management of and data extraction from camera trap photographs in wildlife studies. The package provides a workflow for storing and sorting camera trap photographs, computes record databases and detection/non-detection matrices for occupancy and spatial capture-recapture analyses with great flexibility. In addition, it provides simple mapping functions (number of species, number of independent species detections by station) and can visualise activity data.
Author: Juergen Niedballa [aut, cre],
Alexandre Courtiol [aut],
Rahel Sollmann [aut],
John Mathai [ctb],
Seth Timothy Wong [ctb],
An The Truong Nguyen [ctb],
Azlan bin Mohamed [ctb],
Andrew Tilker [ctb],
Andreas Wilting [ctb, ths]
Maintainer: Juergen Niedballa <niedballa@izw-berlin.de>
Diff between camtrapR versions 0.99.7 dated 2017-01-31 and 0.99.8 dated 2017-03-21
DESCRIPTION | 8 - MD5 | 48 ++++----- NEWS | 22 +++- R/activityDensity.R | 1 R/activityHistogram.R | 1 R/activityOverlap.R | 1 R/activityRadial.R | 1 R/cameraOperation.R | 1 R/detectionHistory.R | 1 R/detectionMaps.R | 3 R/getSpeciesImages.R | 2 R/imageRename.R | 2 R/recordTable.R | 3 R/recordTableIndividual.R | 3 R/spatialDetectionHistory.R | 3 R/surveyReport.R | 3 build/vignette.rds |binary inst/doc/DataExploration.html | 14 +- inst/doc/DataExtraction.html | 130 +++++++++++++------------- inst/doc/ImageOrganisation.html | 56 +++++------ inst/doc/SpeciesIndividualIdentification.html | 92 +++++++++--------- man/activityOverlap.Rd | 2 man/checkSpeciesIdentification.Rd | 3 man/recordTable.Rd | 3 man/surveyReport.Rd | 14 +- 25 files changed, 225 insertions(+), 192 deletions(-)
Title: Bayesian Methods for Image Segmentation using a Potts Model
Description: Various algorithms for segmentation of 2D and 3D images, such
as computed tomography and satellite remote sensing. This package implements
Bayesian image analysis using the hidden Potts model with external field
prior. Latent labels are sampled using chequerboard updating or Swendsen-Wang.
Algorithms for the smoothing parameter include pseudolikelihood, path sampling,
the exchange algorithm, and approximate Bayesian computation (ABC).
Author: Matt Moores [aut, cre],
Kerrie Mengersen [aut],
Dai Feng [ctb]
Maintainer: Matt Moores <M.T.Moores@warwick.ac.uk>
Diff between bayesImageS versions 0.3-3 dated 2016-11-03 and 0.4-0 dated 2017-03-21
bayesImageS-0.3-3/bayesImageS/vignettes/introduction-concordance.tex |only bayesImageS-0.3-3/bayesImageS/vignettes/introduction.tex |only bayesImageS-0.4-0/bayesImageS/DESCRIPTION | 16 +- bayesImageS-0.4-0/bayesImageS/MD5 | 40 ++++--- bayesImageS-0.4-0/bayesImageS/NAMESPACE | 7 - bayesImageS-0.4-0/bayesImageS/NEWS.md |only bayesImageS-0.4-0/bayesImageS/R/bayesImageS.R | 5 bayesImageS-0.4-0/bayesImageS/R/getBlocks.R |only bayesImageS-0.4-0/bayesImageS/R/getEdges.R |only bayesImageS-0.4-0/bayesImageS/R/getNeighbors.R |only bayesImageS-0.4-0/bayesImageS/R/mcmcPotts.R | 10 + bayesImageS-0.4-0/bayesImageS/README.md | 57 +++++++++- bayesImageS-0.4-0/bayesImageS/build/vignette.rds |binary bayesImageS-0.4-0/bayesImageS/inst/doc/introduction.Rnw | 2 bayesImageS-0.4-0/bayesImageS/inst/doc/introduction.pdf |binary bayesImageS-0.4-0/bayesImageS/man/bayesImageS.Rd | 5 bayesImageS-0.4-0/bayesImageS/man/getBlocks.Rd |only bayesImageS-0.4-0/bayesImageS/man/getEdges.Rd |only bayesImageS-0.4-0/bayesImageS/man/getNeighbors.Rd |only bayesImageS-0.4-0/bayesImageS/man/mcmcPottsNoData.Rd | 4 bayesImageS-0.4-0/bayesImageS/man/swNoData.Rd | 4 bayesImageS-0.4-0/bayesImageS/src/bayesImageS_init.cpp |only bayesImageS-0.4-0/bayesImageS/src/mcmcPotts.cpp | 40 +++++-- bayesImageS-0.4-0/bayesImageS/src/mcmcPotts.h | 4 bayesImageS-0.4-0/bayesImageS/src/smcPotts.cpp | 16 +- bayesImageS-0.4-0/bayesImageS/vignettes/introduction.Rnw | 2 26 files changed, 160 insertions(+), 52 deletions(-)
Title: Anything to 'POSIXct' or 'Date' Converter
Description: Convert input in any one of character, integer, numeric, factor,
or ordered type into 'POSIXct' (or 'Date') objects, using one of a number of
predefined formats, and relying on Boost facilities for date and time parsing.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between anytime versions 0.2.1 dated 2017-02-09 and 0.2.2 dated 2017-03-21
ChangeLog | 46 ++++++++++++++++++++++++++++++++++ DESCRIPTION | 10 +++---- MD5 | 27 +++++++++++--------- R/RcppExports.R | 12 +++++++++ R/anytime.R | 2 - R/formats.R | 1 R/init.R | 2 - build/partial.rdb |binary inst/NEWS.Rd | 23 ++++++++++++++--- man/anytime.Rd | 2 - src/RcppExports.cpp | 30 ++++++++++++++++++++++ src/anytime.cpp | 64 +++++++++++++++++++++++++++++++++--------------- src/init.c |only tests/gh_issue_56.R |only tests/gh_issues_36_51.R |only tests/simpleTests.R | 7 +++++ 16 files changed, 182 insertions(+), 44 deletions(-)
Title: Machine Learning with Higher-Order Factorization Machines
Description: Implementation of three machine learning approaches: Support Vector Machines (SVM) with a linear kernel, second-order Factorization Machines (FM), and higher-order Factorization Machines (HoFM).
Author: Julian Knoll
Maintainer: Julian Knoll <julian.knoll@th-nuernberg.de>
Diff between FactoRizationMachines versions 0.1 dated 2016-12-02 and 0.11 dated 2017-03-21
DESCRIPTION | 8 ++++---- MD5 | 13 +++++++------ NAMESPACE | 2 +- R/RcppExports.R | 8 ++++---- build/partial.rdb |binary src/FactoRizationMachines.cpp | 4 ++-- src/RcppExports.cpp | 16 ++++++++-------- src/init.c |only 8 files changed, 26 insertions(+), 25 deletions(-)
More information about FactoRizationMachines at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2016-01-29 0.4.3.1
2015-08-27 0.4.3
2015-08-21 0.4.2
2014-01-07 0.3.8.1
2013-01-26 0.3.8
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-12-06 1.6
2015-11-28 1.5
2015-09-22 1.4
2014-05-05 1.3
2014-04-30 1.2
2014-01-03 1.1
2013-12-17 1.0
Title: Utility Functions for 'spatstat'
Description: Contains utility functions for the 'spatstat' package
which may also be useful for other purposes.
Author: Adrian Baddeley [aut, cre],
Rolf Turner [aut],
Ege Rubak [aut]
Maintainer: Adrian Baddeley <Adrian.Baddeley@curtin.edu.au>
Diff between spatstat.utils versions 1.3-2 dated 2017-02-22 and 1.4-1 dated 2017-03-21
DESCRIPTION | 13 +++++++------ MD5 | 13 +++++++------ R/primefactors.R | 3 ++- R/tapplysum.R | 6 ++++-- R/utilseq.R | 9 ++++++--- R/xypolygon.R | 6 ++++-- R/xysegment.R | 6 ++++-- inst |only 8 files changed, 34 insertions(+), 22 deletions(-)
More information about spatstat.utils at CRAN
Permanent link
Title: Simple Features for R
Description: Support for simple features, a standardized way to encode spatial vector data. Binds
to GDAL for reading and writing data, to GEOS for geometrical operations, and to Proj.4 for projection
conversions and datum transformations.
Author: Edzer Pebesma [aut, cre],
Roger Bivand [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Michael Sumner [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb],
Etienne Racine [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 0.3-4 dated 2017-02-06 and 0.4-0 dated 2017-03-21
sf-0.3-4/sf/man/st_makegrid.Rd |only sf-0.3-4/sf/tests/Rplots.pdf |only sf-0.4-0/sf/DESCRIPTION | 22 +-- sf-0.4-0/sf/MD5 | 187 ++++++++++++++++-------------- sf-0.4-0/sf/NAMESPACE | 31 +++- sf-0.4-0/sf/NEWS.md |only sf-0.4-0/sf/R/RcppExports.R | 28 +++- sf-0.4-0/sf/R/aggregate.R | 2 sf-0.4-0/sf/R/agr.R | 7 - sf-0.4-0/sf/R/bbox.R | 14 +- sf-0.4-0/sf/R/cast_sfc.R | 12 - sf-0.4-0/sf/R/crs.R | 10 - sf-0.4-0/sf/R/db.R | 55 ++++++-- sf-0.4-0/sf/R/geom.R | 131 +++++++++++++++------ sf-0.4-0/sf/R/graticule.R | 25 ++-- sf-0.4-0/sf/R/grid.R | 12 + sf-0.4-0/sf/R/init.R | 14 +- sf-0.4-0/sf/R/join.R | 8 - sf-0.4-0/sf/R/lwgeom.R |only sf-0.4-0/sf/R/maps.R | 4 sf-0.4-0/sf/R/plot.R | 71 ++++++++--- sf-0.4-0/sf/R/read.R | 133 ++++++++++++--------- sf-0.4-0/sf/R/sample.R |only sf-0.4-0/sf/R/sf.R | 161 +++++++++++++++++++------ sf-0.4-0/sf/R/sfc.R | 117 ++++++++++++++---- sf-0.4-0/sf/R/sfg.R | 42 +++--- sf-0.4-0/sf/R/sp.R | 10 + sf-0.4-0/sf/R/tidy.R | 41 ++++-- sf-0.4-0/sf/R/transform.R | 84 ++++++++++++- sf-0.4-0/sf/R/wkb.R | 20 +-- sf-0.4-0/sf/R/wkt.R | 4 sf-0.4-0/sf/build/vignette.rds |binary sf-0.4-0/sf/cleanup | 1 sf-0.4-0/sf/configure | 91 ++++++++++++++ sf-0.4-0/sf/configure.ac | 30 ++++ sf-0.4-0/sf/data/bgmap.rda |binary sf-0.4-0/sf/demo/00Index | 2 sf-0.4-0/sf/demo/ggplot.R |only sf-0.4-0/sf/demo/twitter.R |only sf-0.4-0/sf/inst/doc/sf1.R | 2 sf-0.4-0/sf/inst/doc/sf1.Rmd | 4 sf-0.4-0/sf/inst/doc/sf1.html | 63 ++++------ sf-0.4-0/sf/inst/doc/sf2.R | 8 - sf-0.4-0/sf/inst/doc/sf2.Rmd | 12 + sf-0.4-0/sf/inst/doc/sf2.html | 28 ++-- sf-0.4-0/sf/inst/doc/sf3.R | 4 sf-0.4-0/sf/inst/doc/sf3.Rmd | 4 sf-0.4-0/sf/inst/doc/sf3.html | 16 +- sf-0.4-0/sf/inst/docker |only sf-0.4-0/sf/man/bind.Rd | 6 sf-0.4-0/sf/man/dplyr.Rd | 20 +++ sf-0.4-0/sf/man/geos.Rd | 34 +++-- sf-0.4-0/sf/man/is_driver_can.Rd | 2 sf-0.4-0/sf/man/plot.Rd | 13 +- sf-0.4-0/sf/man/reexports.Rd |only sf-0.4-0/sf/man/sf.Rd | 7 - sf-0.4-0/sf/man/st.Rd | 14 -- sf-0.4-0/sf/man/st_coordinates.Rd |only sf-0.4-0/sf/man/st_drivers.Rd | 4 sf-0.4-0/sf/man/st_geometry.Rd | 11 + sf-0.4-0/sf/man/st_interpolate_aw.Rd | 2 sf-0.4-0/sf/man/st_join.Rd | 2 sf-0.4-0/sf/man/st_layers.Rd | 7 - sf-0.4-0/sf/man/st_make_grid.Rd |only sf-0.4-0/sf/man/st_make_valid.Rd |only sf-0.4-0/sf/man/st_read.Rd | 44 ++++--- sf-0.4-0/sf/man/st_sample.Rd |only sf-0.4-0/sf/man/st_transform.Rd | 19 ++- sf-0.4-0/sf/man/st_write.Rd | 21 ++- sf-0.4-0/sf/man/st_zm.Rd | 2 sf-0.4-0/sf/src/Makevars.win | 1 sf-0.4-0/sf/src/RcppExports.cpp | 70 ++++++++++- sf-0.4-0/sf/src/bbox.cpp | 35 +++-- sf-0.4-0/sf/src/gdal.cpp | 58 +++++++-- sf-0.4-0/sf/src/gdal_geom.cpp | 19 ++- sf-0.4-0/sf/src/gdal_write.cpp | 19 ++- sf-0.4-0/sf/src/geos.cpp | 128 ++++++++++++++++---- sf-0.4-0/sf/src/init.c |only sf-0.4-0/sf/src/lwgeom.cpp |only sf-0.4-0/sf/src/proj.cpp | 143 ++++++++++++++++++++++ sf-0.4-0/sf/src/wkb.cpp | 31 +++- sf-0.4-0/sf/src/wkb.h | 2 sf-0.4-0/sf/tests/crs.Rout.save | 5 sf-0.4-0/sf/tests/dplyr.Rout.save | 16 +- sf-0.4-0/sf/tests/geos.R | 13 +- sf-0.4-0/sf/tests/geos.Rout.save | 16 +- sf-0.4-0/sf/tests/plot.R | 6 sf-0.4-0/sf/tests/plot.Rout.save | 16 ++ sf-0.4-0/sf/tests/read.R | 6 sf-0.4-0/sf/tests/read.Rout.save | 33 +++-- sf-0.4-0/sf/tests/sfc.R | 35 ++++- sf-0.4-0/sf/tests/sfc.Rout.save | 144 ++++++++++++++++++----- sf-0.4-0/sf/tests/testthat/test_crs.R | 7 + sf-0.4-0/sf/tests/testthat/test_geos.R | 14 +- sf-0.4-0/sf/tests/testthat/test_lwgeom.R |only sf-0.4-0/sf/tests/testthat/test_plot.R | 8 + sf-0.4-0/sf/tests/testthat/test_postgis.R | 31 +++- sf-0.4-0/sf/tests/testthat/test_sf.R | 29 ++++ sf-0.4-0/sf/tests/testthat/test_sfc.R | 10 + sf-0.4-0/sf/vignettes/sf1.Rmd | 4 sf-0.4-0/sf/vignettes/sf2.Rmd | 12 + sf-0.4-0/sf/vignettes/sf3.Rmd | 4 102 files changed, 1937 insertions(+), 696 deletions(-)
Title: Use Image in 'ggplot2'
Description: Supports aesthetic mapping of image files to be visualized in 'ggplot2' graphic system.
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between ggimage versions 0.0.2 dated 2017-03-12 and 0.0.3 dated 2017-03-21
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++++----- NAMESPACE | 12 ++++++++++++ NEWS | 5 +++++ R/geom_subview.R |only R/theme.R |only build/vignette.rds |binary inst/doc/ggimage.html | 4 ++-- man/geom_subview.Rd |only man/theme_transparent.Rd |only 10 files changed, 32 insertions(+), 11 deletions(-)
Title: Fit, Simulate and Diagnose Exponential-Family Models for
Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGMs). 'ergm' is a part of the Statnet suite of packages for network analysis.
Author: Mark S. Handcock [aut],
David R. Hunter [aut],
Carter T. Butts [aut],
Steven M. Goodreau [aut],
Pavel N. Krivitsky [aut, cre],
Martina Morris [aut],
Li Wang [ctb],
Kirk Li [ctb],
Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky <pavel@uow.edu.au>
Diff between ergm versions 3.7.0 dated 2017-03-20 and 3.7.1 dated 2017-03-21
DESCRIPTION | 8 ++-- MD5 | 10 +++--- build/partial.rdb |binary inst/NEWS.Rd | 78 ++++++++++++++++++++++++++++++++--------------- inst/doc/ergm.pdf |binary src/changestats.dgw_sp.c | 31 ++++++++++++------ 6 files changed, 84 insertions(+), 43 deletions(-)
Title: Efficient Computation and Testing of the Bergsma-Dassios Sign
Covariance
Description: Computes the t* statistic corresponding to the tau* population
coefficient introduced by Bergsma and Dassios (2014) <DOI:10.3150/13-BEJ514>
and does so in O(n^2) time following the algorithm of Heller and
Heller (2016) <https://arxiv.org/abs/1605.08732> building off of the work of Weihs,
Drton, and Leung (2016) <DOI:10.1007/s00180-015-0639-x>. Also allows for
independence testing using the asymptotic distribution of t* as described by
Nandy, Weihs, and Drton (2016) <http://arxiv.org/abs/1602.04387>.
Author: Luca Weihs [aut, cre],
Emin Martinian [ctb] (Created the red-black tree library included in
package.)
Maintainer: Luca Weihs <lucaw@uw.edu>
Diff between TauStar versions 1.1.0 dated 2016-02-16 and 1.1.3 dated 2017-03-21
DESCRIPTION | 15 MD5 | 72 ++-- NAMESPACE | 1 NEWS.md |only R/Functions.R | 109 ++++--- R/RcppExports.R | 26 + README.md | 9 inst |only man/TauStar-package.Rd | 8 man/binaryQuantileSearch.Rd | 1 man/eigenForDiscreteProbs.Rd | 1 man/isDiscrete.Rd | 1 man/isProb.Rd | 1 man/isProbVector.Rd | 1 man/isValidDataVector.Rd | 1 man/pDisHoeffInd.Rd | 5 man/pHoeffInd.Rd | 5 man/pMixHoeffInd.Rd | 5 man/print.tstest.Rd | 7 man/tStar.Rd | 31 + man/tauStarTest.Rd | 1 src/AsymCdfIntegrandEvaluator.cpp | 51 +-- src/AsymDiscreteCdfIntegrandEvaluator.cpp | 5 src/AsymDiscretePdfIntegrandEvaluator.cpp | 5 src/AsymMixedCdfIntegrandEvaluator.cpp | 17 - src/AsymMixedPdfIntegrandEvaluator.cpp | 9 src/AsymPdfIntegrandEvaluator.cpp | 2 src/RcppExports.cpp | 466 +++++++++++++++++++++++++----- src/init.c |only src/misc.cpp | 3 src/misc.h | 3 src/rcpp_numerical_cdf.cpp | 31 + src/rcpp_t_star.cpp | 280 ++++++++++++++++-- src/red_black_tree.cpp | 1 src/red_black_tree.h | 1 tests/testthat/test_CdfsPdfs.R | 5 tests/testthat/test_tStar.R | 97 +++--- tests/testthat/test_tauStarTest.R | 6 38 files changed, 951 insertions(+), 331 deletions(-)
Title: A Framework for Data-Driven Stochastic Disease Spread
Simulations
Description: Livestock movements are important for the spread of many
infectious diseases between herds. The package provides an
efficient and flexible framework for stochastic disease spread
modelling that integrates within-herd disease dynamics as
continuous-time Markov chains and livestock movements between
herds as scheduled events. The core simulation solver is
implemented in C and uses 'OpenMP' (if available) to divide work
over multiple processors. The package contains template models and
can be extended with user defined models.
Author: Stefan Widgren (National Veterinary Institute, Sweden),
Pavol Bauer (Uppsala University, Sweden),
Stefan Engblom (Uppsala University, Sweden)
Maintainer: Stefan Widgren <stefan.widgren@gmail.com>
Diff between SimInf versions 3.0.0 dated 2017-01-29 and 4.0.0 dated 2017-03-21
SimInf-3.0.0/SimInf/R/dependencies.R |only SimInf-3.0.0/SimInf/R/dependencies.R.in |only SimInf-3.0.0/SimInf/R/siminf_model.R |only SimInf-3.0.0/SimInf/man/show-siminf_model-method.Rd |only SimInf-3.0.0/SimInf/man/siminf_model-class.Rd |only SimInf-3.0.0/SimInf/man/siminf_model.Rd |only SimInf-3.0.0/SimInf/man/summary-siminf_model-method.Rd |only SimInf-3.0.0/SimInf/src/siminf.c |only SimInf-3.0.0/SimInf/src/siminf.h |only SimInf-4.0.0/SimInf/DESCRIPTION | 14 SimInf-4.0.0/SimInf/MD5 | 181 ++-- SimInf-4.0.0/SimInf/NAMESPACE | 16 SimInf-4.0.0/SimInf/NEWS | 56 + SimInf-4.0.0/SimInf/R/AllGenerics.R | 200 ++++ SimInf-4.0.0/SimInf/R/SEIR.R | 37 SimInf-4.0.0/SimInf/R/SIR.R | 37 SimInf-4.0.0/SimInf/R/SISe.R | 58 + SimInf-4.0.0/SimInf/R/SISe3.R | 37 SimInf-4.0.0/SimInf/R/SISe3_sp.R | 37 SimInf-4.0.0/SimInf/R/SISe_sp.R | 37 SimInf-4.0.0/SimInf/R/SimInf.R | 14 SimInf-4.0.0/SimInf/R/SimInf_model.R |only SimInf-4.0.0/SimInf/R/model_builder.R |only SimInf-4.0.0/SimInf/R/run_outer.R | 11 SimInf-4.0.0/SimInf/R/scheduled_events.R | 80 + SimInf-4.0.0/SimInf/configure | 26 SimInf-4.0.0/SimInf/configure.ac | 14 SimInf-4.0.0/SimInf/inst/include |only SimInf-4.0.0/SimInf/man/SEIR-class.Rd | 3 SimInf-4.0.0/SimInf/man/SEIR.Rd | 12 SimInf-4.0.0/SimInf/man/SIR-class.Rd | 3 SimInf-4.0.0/SimInf/man/SIR.Rd | 12 SimInf-4.0.0/SimInf/man/SISe-class.Rd | 3 SimInf-4.0.0/SimInf/man/SISe.Rd | 45 - SimInf-4.0.0/SimInf/man/SISe3-class.Rd | 3 SimInf-4.0.0/SimInf/man/SISe3.Rd | 23 SimInf-4.0.0/SimInf/man/SISe3_sp-class.Rd | 3 SimInf-4.0.0/SimInf/man/SISe3_sp.Rd | 23 SimInf-4.0.0/SimInf/man/SISe_sp-class.Rd | 3 SimInf-4.0.0/SimInf/man/SISe_sp.Rd | 23 SimInf-4.0.0/SimInf/man/SimInf.Rd | 1 SimInf-4.0.0/SimInf/man/SimInf_model-class.Rd |only SimInf-4.0.0/SimInf/man/SimInf_model.Rd |only SimInf-4.0.0/SimInf/man/SimInf_mparse-class.Rd |only SimInf-4.0.0/SimInf/man/U-methods.Rd |only SimInf-4.0.0/SimInf/man/U_set-methods.Rd |only SimInf-4.0.0/SimInf/man/V-methods.Rd |only SimInf-4.0.0/SimInf/man/V_set-methods.Rd |only SimInf-4.0.0/SimInf/man/check_end_t_arg.Rd | 1 SimInf-4.0.0/SimInf/man/check_gdata_arg.Rd | 1 SimInf-4.0.0/SimInf/man/check_infectious_pressure_arg.Rd | 1 SimInf-4.0.0/SimInf/man/check_integer_arg.Rd | 1 SimInf-4.0.0/SimInf/man/demo_model.Rd | 1 SimInf-4.0.0/SimInf/man/distance_matrix.Rd | 1 SimInf-4.0.0/SimInf/man/events_SEIR.Rd | 1 SimInf-4.0.0/SimInf/man/events_SIR.Rd | 1 SimInf-4.0.0/SimInf/man/events_SISe3.Rd | 1 SimInf-4.0.0/SimInf/man/have_openmp.Rd | 7 SimInf-4.0.0/SimInf/man/infected-methods.Rd | 4 SimInf-4.0.0/SimInf/man/init-methods.Rd |only SimInf-4.0.0/SimInf/man/is_wholenumber.Rd | 1 SimInf-4.0.0/SimInf/man/mparse.Rd |only SimInf-4.0.0/SimInf/man/plot-methods.Rd | 66 + SimInf-4.0.0/SimInf/man/plot_scheduled_events.Rd | 1 SimInf-4.0.0/SimInf/man/prevalence-methods.Rd | 4 SimInf-4.0.0/SimInf/man/recovered-methods.Rd | 1 SimInf-4.0.0/SimInf/man/run-methods.Rd | 13 SimInf-4.0.0/SimInf/man/run_outer-methods.Rd | 9 SimInf-4.0.0/SimInf/man/scheduled_events-class.Rd | 2 SimInf-4.0.0/SimInf/man/scheduled_events.Rd | 26 SimInf-4.0.0/SimInf/man/show-SimInf_model-method.Rd |only SimInf-4.0.0/SimInf/man/show-scheduled_events-method.Rd | 1 SimInf-4.0.0/SimInf/man/summary-SimInf_model-method.Rd |only SimInf-4.0.0/SimInf/man/summary-scheduled_events-method.Rd | 1 SimInf-4.0.0/SimInf/man/susceptible-methods.Rd | 6 SimInf-4.0.0/SimInf/man/u0_SEIR.Rd | 1 SimInf-4.0.0/SimInf/man/u0_SIR.Rd | 1 SimInf-4.0.0/SimInf/man/u0_SISe3.Rd | 1 SimInf-4.0.0/SimInf/src/Makevars.in | 2 SimInf-4.0.0/SimInf/src/Makevars.win | 2 SimInf-4.0.0/SimInf/src/SimInf.c |only SimInf-4.0.0/SimInf/src/SimInf.h |only SimInf-4.0.0/SimInf/src/core/siminf_solver.c | 242 ++++-- SimInf-4.0.0/SimInf/src/core/siminf_solver.h | 12 SimInf-4.0.0/SimInf/src/init.c |only SimInf-4.0.0/SimInf/src/misc/siminf_arg.c | 8 SimInf-4.0.0/SimInf/src/misc/siminf_ldata.c | 6 SimInf-4.0.0/SimInf/src/models/SEIR.c | 9 SimInf-4.0.0/SimInf/src/models/SIR.c | 9 SimInf-4.0.0/SimInf/src/models/SISe.c | 11 SimInf-4.0.0/SimInf/src/models/SISe3.c | 11 SimInf-4.0.0/SimInf/src/models/SISe3_sp.c | 11 SimInf-4.0.0/SimInf/src/models/SISe_sp.c | 11 SimInf-4.0.0/SimInf/tests/SEIR.R | 20 SimInf-4.0.0/SimInf/tests/SIR.R | 33 SimInf-4.0.0/SimInf/tests/SISe.R | 20 SimInf-4.0.0/SimInf/tests/SISe3.R | 22 SimInf-4.0.0/SimInf/tests/SISe3_sp.R | 22 SimInf-4.0.0/SimInf/tests/SISe_sp.R | 20 SimInf-4.0.0/SimInf/tests/phi.R | 34 SimInf-4.0.0/SimInf/tests/sample_select.R | 83 +- SimInf-4.0.0/SimInf/tests/scheduled_events.R | 153 +++ SimInf-4.0.0/SimInf/tests/siminf.R | 521 +++++++------ SimInf-4.0.0/SimInf/tests/siminf_model.R | 161 +++- SimInf-4.0.0/SimInf/tests/sparse.R |only 105 files changed, 1746 insertions(+), 843 deletions(-)
Title: Database Interface and 'MySQL' Driver for R
Description: A 'DBI' interface to 'MySQL' / 'MariaDB'. The CRAN version of this package
contains an old branch based on legacy code from S-PLUS, which being phased out. A
modern rewrite based on 'Rcpp' can be obtained from the 'Github' repository.
Author: Jeroen Ooms [aut, cre],
David James [aut],
Saikat DebRoy [aut],
Hadley Wickham [aut],
Jeffrey Horner [aut],
RStudio [cph]
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between RMySQL versions 0.10.9 dated 2016-05-08 and 0.10.10 dated 2017-03-21
RMySQL-0.10.10/RMySQL/DESCRIPTION | 17 ++++++------ RMySQL-0.10.10/RMySQL/MD5 | 20 +++++++-------- RMySQL-0.10.10/RMySQL/NEWS.md | 6 ++++ RMySQL-0.10.10/RMySQL/README.md | 15 +++++++---- RMySQL-0.10.10/RMySQL/configure | 12 ++------- RMySQL-0.10.10/RMySQL/src/Makevars.win | 5 ++- RMySQL-0.10.10/RMySQL/src/RMySQL-init.c | 2 + RMySQL-0.10.10/RMySQL/tests/testthat/dat-n.bin |only RMySQL-0.10.10/RMySQL/tests/testthat/test-dbWriteTable.R | 2 - RMySQL-0.10.10/RMySQL/tests/testthat/test-tables.R | 8 +++--- RMySQL-0.10.10/RMySQL/tools/winlibs.R | 4 +-- RMySQL-0.10.9/RMySQL/tests/testthat/dat-n.txt |only 12 files changed, 50 insertions(+), 41 deletions(-)
Title: Data Exchange Between R and LabKey Server
Description: The LabKey client library for R makes it easy for R users to
load live data from a LabKey Server, <http://www.labkey.com/>,
into the R environment for analysis, provided users have permissions
to read the data. It also enables R users to insert, update, and
delete records stored on a LabKey Server, provided they have appropriate
permissions to do so.
Author: Peter Hussey
Maintainer: Cory Nathe <cnathe@labkey.com>
Diff between Rlabkey versions 2.1.133 dated 2017-01-20 and 2.1.134 dated 2017-03-21
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NAMESPACE | 4 +--- NEWS | 4 ++++ R/makeDF.R | 2 +- R/schemaObjects.R | 2 +- build/vignette.rds |binary man/Rlabkey-package.Rd | 4 ++-- man/labkey.selectRows.Rd | 10 +++++----- src/R_init.c | 5 +++++ 10 files changed, 33 insertions(+), 26 deletions(-)
Title: Recommender System using Matrix Factorization
Description: R wrapper of the 'libmf' library
(http://www.csie.ntu.edu.tw/~cjlin/libmf/) for recommender
system using matrix factorization. It is typically used to
approximate an incomplete matrix using the product of two
matrices in a latent space. Other common names for this task
include "collaborative filtering", "matrix completion",
"matrix recovery", etc. High performance multi-core parallel
computing is supported in this package.
Author: Yixuan Qiu, Chih-Jen Lin, Yu-Chin Juan, Wei-Sheng Chin,
Yong Zhuang, Bo-Wen Yuan, Meng-Yuan Yang, and other
contributors. See file AUTHORS for details.
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between recosystem versions 0.4 dated 2016-07-13 and 0.4.1 dated 2017-03-21
DESCRIPTION | 10 ++-- LICENSE | 2 MD5 | 24 +++++---- R/RecoSys.R | 18 +++---- README.md | 12 ++-- build/vignette.rds |binary inst/NEWS.Rd | 26 +++++++--- inst/doc/introduction.Rmd | 8 +-- inst/doc/introduction.html | 110 +++++++++++++++++++-------------------------- man/tune.Rd | 8 +-- src/mf.cpp | 2 src/register_routines.c |only src/register_routines.h |only vignettes/introduction.Rmd | 8 +-- 14 files changed, 112 insertions(+), 116 deletions(-)
Title: Utilities for the Simulation and Analysis of Random Fields
Description: Various utilities are provided that might be used in spatial statistics and elsewhere. It delivers a method for solving linear equations that checks the sparsity of the matrix before any algorithm is used. Furthermore, it includes the Struve functions.
Author: Martin Schlather [aut, cre], Reinhard Furrer [ctb], Martin Kroll [ctb]
Maintainer: Martin Schlather <schlather@math.uni-mannheim.de>
Diff between RandomFieldsUtils versions 0.3.15 dated 2016-12-25 and 0.3.20 dated 2017-03-21
RandomFieldsUtils-0.3.15/RandomFieldsUtils/src/init_RandomFieldsUtils.cc |only RandomFieldsUtils-0.3.20/RandomFieldsUtils/DESCRIPTION | 6 RandomFieldsUtils-0.3.20/RandomFieldsUtils/MD5 | 65 ++++---- RandomFieldsUtils-0.3.20/RandomFieldsUtils/R/utils.R | 15 + RandomFieldsUtils-0.3.20/RandomFieldsUtils/R/zzz.R | 2 RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/Basic_utils.h | 55 ++++++- RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/General_utils.h | 33 ++-- RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/Options_utils.h | 4 RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/errors_messages.h | 78 +++++----- RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/init_RandomFieldsUtils.h | 16 +- RandomFieldsUtils-0.3.20/RandomFieldsUtils/inst/include/kleinkram.h | 7 RandomFieldsUtils-0.3.20/RandomFieldsUtils/man/fileexists.Rd | 13 + RandomFieldsUtils-0.3.20/RandomFieldsUtils/man/hostname.Rd | 7 RandomFieldsUtils-0.3.20/RandomFieldsUtils/man/sleep.Rd | 6 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/Basic_utils.h | 55 ++++++- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/General_utils.h | 33 ++-- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/Makevars | 2 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/Options_utils.h | 4 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/RFoptions.cc | 23 +- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/RandomFieldsUtils.h | 20 ++ RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/brdomain.cc |only RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/diffusion.cc |only RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/errors_messages.h | 78 +++++----- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/init_RandomFieldsUtils.c |only RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/init_RandomFieldsUtils.h | 16 +- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/kleinkram.cc | 35 ++-- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/kleinkram.h | 7 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/maths.cc | 70 ++++---- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/options.cc | 10 + RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/own.cc | 31 +++ RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/own.h | 3 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/scalar.cc |only RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/solve.cc | 70 ++++---- RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/sort.cc | 4 RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/utils.cc | 8 - RandomFieldsUtils-0.3.20/RandomFieldsUtils/src/win_linux_aux.cc | 2 36 files changed, 485 insertions(+), 293 deletions(-)
More information about RandomFieldsUtils at CRAN
Permanent link
Title: Analysis of Queueing Networks and Models
Description: It provides versatile tools for analysis of birth and death based Markovian Queueing Models
and Single and Multiclass Product-Form Queueing Networks.
It implements M/M/1, M/M/c, M/M/Infinite, M/M/1/K, M/M/c/K, M/M/c/c, M/M/1/K/K, M/M/c/K/K, M/M/c/K/m, M/M/Infinite/K/K,
Multiple Channel Open Jackson Networks, Multiple Channel Closed Jackson Networks,
Single Channel Multiple Class Open Networks, Single Channel Multiple Class Closed Networks
and Single Channel Multiple Class Mixed Networks.
Also it provides a B-Erlang, C-Erlang and Engset calculators.
This work is dedicated to the memory of D. Sixto Rios Insua.
Author: Pedro Canadilla
Maintainer: Pedro Canadilla <pedro.canadilla@gmail.com>
Diff between queueing versions 0.2.8 dated 2016-11-05 and 0.2.9 dated 2017-03-21
ChangeLog | 7 DESCRIPTION | 8 MD5 | 71 ++++- NAMESPACE | 74 +++++ R/queueing.R | 520 +++++++++++++++++++++++++++++++++++++---- man/QueueingModel.Rd | 2 man/Report.Rd |only man/Report.o_CJN.Rd |only man/Report.o_MCCN.Rd |only man/Report.o_MCMN.Rd |only man/Report.o_MCON.Rd |only man/Report.o_MM1.Rd |only man/Report.o_MM1K.Rd |only man/Report.o_MM1KK.Rd |only man/Report.o_MMC.Rd |only man/Report.o_MMCC.Rd |only man/Report.o_MMCK.Rd |only man/Report.o_MMCKK.Rd |only man/Report.o_MMCKM.Rd |only man/Report.o_MMInf.Rd |only man/Report.o_MMInfKK.Rd |only man/Report.o_OJN.Rd |only man/print.summary.o_CJN.Rd |only man/print.summary.o_MCCN.Rd |only man/print.summary.o_MCMN.Rd |only man/print.summary.o_MCON.Rd |only man/print.summary.o_MM1.Rd |only man/print.summary.o_MM1K.Rd |only man/print.summary.o_MM1KK.Rd |only man/print.summary.o_MMC.Rd |only man/print.summary.o_MMCC.Rd |only man/print.summary.o_MMCK.Rd |only man/print.summary.o_MMCKK.Rd |only man/print.summary.o_MMCKM.Rd |only man/print.summary.o_MMInf.Rd |only man/print.summary.o_MMInfKK.Rd |only man/print.summary.o_OJN.Rd |only man/summary.o_CJN.Rd | 6 man/summary.o_MCCN.Rd | 6 man/summary.o_MCMN.Rd | 6 man/summary.o_MCON.Rd | 6 man/summary.o_MM1.Rd | 6 man/summary.o_MM1K.Rd | 6 man/summary.o_MM1KK.Rd | 6 man/summary.o_MMC.Rd | 6 man/summary.o_MMCC.Rd | 6 man/summary.o_MMCK.Rd | 6 man/summary.o_MMCKK.Rd | 6 man/summary.o_MMCKM.Rd | 6 man/summary.o_MMInf.Rd | 6 man/summary.o_MMInfKK.Rd | 6 man/summary.o_OJN.Rd | 6 52 files changed, 651 insertions(+), 121 deletions(-)
Title: Testing for Partial Copulas and the Simplifying Assumption in
Vine Copulas
Description: Routines for two different test types, the Equal Correlation (ECORR) test and the Vectorial Independence (VI) test are provided. The tests can be applied to check whether a conditional copula coincides with its partial copula. Functions to test whether a regular vine copula satisfies the so-called simplifying assumption or to test a single copula within a regular vine copula to be a (j-1)-th order partial copula are available. The ECORR test comes with a decision tree approach to allow testing in high-dimensional settings.
Author: Malte S. Kurz [aut, cre]
Maintainer: Malte S. Kurz <malte.kurz@stat.uni-muenchen.de>
Diff between pacotest versions 0.2.1 dated 2017-03-12 and 0.2.2 dated 2017-03-21
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- R/pacotest.R | 2 +- src/EqualCop.cpp | 2 +- src/EqualCorr.cpp | 6 ------ src/EqualCov.cpp | 6 ------ src/Grouping.cpp | 26 ++++++++++++++------------ src/pacotestFunctions.cpp | 6 ++---- 8 files changed, 29 insertions(+), 41 deletions(-)
Title: Log-Multiplicative Models, Including Association Models
Description: Functions to fit log-multiplicative models using gnm, with
support for convenient printing, plots, and jackknife/bootstrap
standard errors. For complex survey data, models can be fitted from
design objects from the 'survey' package. Currently supported models
include UNIDIFF (Erikson & Goldthorpe), a.k.a. log-multiplicative
layer effect model (Xie), and several association models: Goodman's
row-column association models of the RC(M) and RC(M)-L families
with one or several dimensions; two skew-symmetric association
models proposed by Yamaguchi and by van der Heijden & Mooijaart.
Author: Milan Bouchet-Valat [aut, cre],
Heather Turner [ctb],
Michael Friendly [ctb]
Maintainer: Milan Bouchet-Valat <nalimilan@club.fr>
Diff between logmult versions 0.6.3 dated 2016-01-15 and 0.6.4 dated 2017-03-21
logmult-0.6.3/logmult/tests/Rplots.pdf |only logmult-0.6.4/logmult/DESCRIPTION | 16 +- logmult-0.6.4/logmult/MD5 | 39 ++--- logmult-0.6.4/logmult/NEWS | 12 + logmult-0.6.4/logmult/R/anoas.R | 4 logmult-0.6.4/logmult/R/plot.assoc.R | 186 +++++++++++++------------ logmult-0.6.4/logmult/R/prepareTable.R | 5 logmult-0.6.4/logmult/R/rcL.R | 13 + logmult-0.6.4/logmult/R/unidiff.R | 17 +- logmult-0.6.4/logmult/build |only logmult-0.6.4/logmult/inst |only logmult-0.6.4/logmult/man/hmskew.Rd | 2 logmult-0.6.4/logmult/man/plot.assoc.Rd | 66 ++++---- logmult-0.6.4/logmult/man/rc.Rd | 2 logmult-0.6.4/logmult/man/rcL.Rd | 10 - logmult-0.6.4/logmult/man/unidiff.Rd | 15 +- logmult-0.6.4/logmult/tests/Becker-Clogg1989.R | 11 - logmult-0.6.4/logmult/tests/Wong2010-2.7.R | 8 - logmult-0.6.4/logmult/tests/Wong2010-4.7.R | 6 logmult-0.6.4/logmult/tests/hmskewL.R | 7 logmult-0.6.4/logmult/tests/maor.R | 18 +- logmult-0.6.4/logmult/vignettes |only 22 files changed, 248 insertions(+), 189 deletions(-)
Title: Supervised and Unsupervised Self-Organising Maps
Description: Functions to train self-organising maps (SOMs). Also interrogation of the maps and prediction using trained maps are supported. The name of the package refers to Teuvo Kohonen, the inventor of the SOM.
Author: Ron Wehrens and Johannes Kruisselbrink
Maintainer: Ron Wehrens <ron.wehrens@gmail.com>
Diff between kohonen versions 3.0.0 dated 2017-03-15 and 3.0.2 dated 2017-03-21
kohonen-3.0.0/kohonen/R/Obsolete |only kohonen-3.0.0/kohonen/build |only kohonen-3.0.0/kohonen/inst/doc/custom-distance-function.R |only kohonen-3.0.0/kohonen/inst/doc/custom-distance-function.Rmd |only kohonen-3.0.0/kohonen/inst/doc/custom-distance-function.html |only kohonen-3.0.0/kohonen/inst/doc/som-rgb-example.R |only kohonen-3.0.0/kohonen/inst/doc/som-rgb-example.Rmd |only kohonen-3.0.0/kohonen/inst/doc/som-rgb-example.html |only kohonen-3.0.0/kohonen/vignettes |only kohonen-3.0.2/kohonen/DESCRIPTION | 8 - kohonen-3.0.2/kohonen/MD5 | 32 +--- kohonen-3.0.2/kohonen/NEWS | 7 - kohonen-3.0.2/kohonen/R/RcppExports.R | 16 +- kohonen-3.0.2/kohonen/data/wines.rda |binary kohonen-3.0.2/kohonen/src/RcppExports.cpp | 72 +++++------ kohonen-3.0.2/kohonen/src/batch-supersom.cpp | 20 +-- kohonen-3.0.2/kohonen/src/kohonen.h |only kohonen-3.0.2/kohonen/src/map.cpp | 14 +- kohonen-3.0.2/kohonen/src/pbatch-supersom.cpp | 53 +++++--- kohonen-3.0.2/kohonen/src/supersom.cpp | 8 - 20 files changed, 119 insertions(+), 111 deletions(-)
Title: Download Data from the International Monetary Fund's Data API
Description: Explore and download data from the International Monetary Fund's
data API <http://data.imf.org/>.
Author: Christopher Gandrud [aut, cre]
Maintainer: Christopher Gandrud <christopher.gandrud@gmail.com>
Diff between imfr versions 0.1.3 dated 2017-01-17 and 0.1.4 dated 2017-03-21
DESCRIPTION | 10 +++++----- MD5 | 24 ++++++++++++------------ NEWS | 6 ++++++ R/metadata_functions.R | 13 ++++++------- README.md | 2 ++ man/all_iso2c.Rd | 1 - man/current_year.Rd | 1 - man/imf_codelist.Rd | 1 - man/imf_codes.Rd | 1 - man/imf_data.Rd | 1 - man/imf_ids.Rd | 1 - man/imf_metadata.Rd | 6 ++++++ man/imf_metastructure.Rd | 1 - 13 files changed, 37 insertions(+), 31 deletions(-)
Title: Syntax Highlighter
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: ORPHANED
Diff between highlight versions 0.4.7 dated 2015-04-20 and 0.4.7.1 dated 2017-03-21
DESCRIPTION | 11 +++++++---- MD5 | 7 ++++--- NAMESPACE | 9 +++++---- src/Pattern.cpp | 3 +++ src/init.c |only 5 files changed, 19 insertions(+), 11 deletions(-)
Title: Interactive Cluster Heat Maps Using 'plotly'
Description: Create interactive cluster 'heatmaps' that can be saved as a stand-alone HTML
file, embedded in 'R Markdown' documents or in a 'Shiny' apps, and available in the 'RStudio' viewer pane, .
Hover the mouse pointer over a cell to show details or drag a rectangle to
zoom. A 'heatmap' is a popular graphical method for visualizing high-dimensional
data, in which a table of numbers are encoded as a grid of colored cells. The
rows and columns of the matrix are ordered to highlight patterns and are often
accompanied by 'dendrograms'. 'Heatmaps' are used in many fields for visualizing
observations, correlations, missing values patterns, and more. Interactive
'heatmaps' allow the inspection of specific value by hovering the mouse over a
cell, as well as zooming into a region of the 'heatmap' by dragging a rectangle
around the relevant area. This work is based on the 'ggplot2' and 'plotly.js'
engine. It produces similar 'heatmaps' as 'heatmap.2' or 'd3heatmap', with the advantage of speed
('plotly.js' is able to handle larger size matrix), the ability to zoom from the 'dendrogram' panes,
and the placing of factor variables in the sides of the 'heatmap'.
Author: Tal Galili [aut, cre, cph] (https://www.r-statistics.com),
Jonathan Sidi [ctb] (https://github.com/yonicd),
Alan Ocallaghan [ctb] (https://github.com/Alanocallaghan),
Yoav Benjamini [ths]
Maintainer: Tal Galili <tal.galili@gmail.com>
Diff between heatmaply versions 0.7.0 dated 2017-01-22 and 0.8.2 dated 2017-03-21
ChangeLog | 322 ++++++++++++++++++++++++++++++++++++++++++--- DESCRIPTION | 29 ++-- MD5 | 30 ++-- NAMESPACE | 30 ++++ NEWS | 32 ++++ NEWS.md | 49 ++++++ R/RColorBrewer.R |only R/heatmaply.R | 198 ++++++++++++++++++++------- R/heatmapr.R | 74 ++++++++-- R/zzz.R | 7 inst/doc/heatmaply.R | 39 ++++- inst/doc/heatmaply.Rmd | 50 ++++++ inst/doc/heatmaply.html | 179 +++++++++++++++---------- man/RColorBrewer_colors.Rd |only man/heatmaply.Rd | 104 +++++++++++++- man/heatmapr.Rd | 26 +++ vignettes/heatmaply.Rmd | 50 ++++++ 17 files changed, 1011 insertions(+), 208 deletions(-)
Title: Generalized Boosted Regression Models
Description: An implementation of extensions to Freund and
Schapire's AdaBoost algorithm and Friedman's gradient boosting
machine. Includes regression methods for least squares,
absolute loss, t-distribution loss, quantile regression,
logistic, multinomial logistic, Poisson, Cox proportional
hazards partial likelihood, AdaBoost exponential loss,
Huberized hinge loss, and Learning to Rank measures
(LambdaMart).
Author: Greg Ridgeway <gregridgeway@gmail.com> with contributions from
others
Maintainer: ORPHANED
Diff between gbm versions 2.1.1 dated 2015-03-11 and 2.1.3 dated 2017-03-21
DESCRIPTION | 14 +++++++++----- MD5 | 13 +++++++------ NAMESPACE | 10 ++++++++++ man/gbmCrossVal.Rd | 2 +- man/relative.influence.Rd | 2 +- man/summary.gbm.Rd | 2 +- src/init.c |only src/locationm.cpp | 5 +++-- 8 files changed, 32 insertions(+), 16 deletions(-)
Title: Error Grid Analysis
Description: Functions for assigning Clarke or Parkes (Consensus) error grid
zones to blood glucose values, and for plotting both types of error grids
in both mg/mL and mmol/L units.
Author: Daniel Schmolze [aut, cre],
Sergei Mihhailov [ctb]
Maintainer: Daniel Schmolze <ega@schmolze.com>
Diff between ega versions 1.0.1 dated 2015-02-19 and 2.0.0 dated 2017-03-21
DESCRIPTION | 19 + LICENSE | 4 MD5 | 34 +- NAMESPACE | 3 NEWS | 26 +- R/ega.R | 458 ++++++++++++++------------------------- R/plots.R | 579 +++++++++++++++++++++++++------------------------- build/vignette.rds |binary inst/doc/ega.R | 8 inst/doc/ega.Rmd | 18 + inst/doc/ega.html | 130 ++++++----- man/ega-package.Rd | 2 man/getClarkeZones.Rd | 21 + man/getParkesZones.Rd | 13 - man/glucose_data.Rd | 2 man/plotClarkeGrid.Rd | 12 - man/plotParkesGrid.Rd | 14 - vignettes/ega.Rmd | 18 + 18 files changed, 674 insertions(+), 687 deletions(-)
Title: Efficient Effect Size Computation
Description: A collection of functions to compute the standardized
effect sizes for experiments (Cohen d, Hedges g, Cliff delta, Vargha-Delaney A).
The computation algorithms have been optimized to allow efficient computation even
with very large data sets.
Author: Marco Torchiano [aut, cre]
Maintainer: Marco Torchiano <marco.torchiano@polito.it>
Diff between effsize versions 0.7.0 dated 2016-11-14 and 0.7.1 dated 2017-03-21
DESCRIPTION | 8 +- MD5 | 14 +-- R/CliffDelta.R | 159 ++++++++++++++++++++++++-------------------- R/CohenD.R | 57 ++++++++++----- man/VD.A.Rd | 1 man/effsize-package.Rd | 1 tests/testthat/testCliff.R | 14 +++ tests/testthat/testCohenD.R | 19 +++++ 8 files changed, 172 insertions(+), 101 deletions(-)
Title: Multivariate Adaptive Regression Splines
Description: Build regression models using the techniques in Friedman's
papers "Fast MARS" and "Multivariate Adaptive Regression
Splines". (The term "MARS" is trademarked and thus not used in
the name of the package.)
Author: Stephen Milborrow. Derived from mda:mars by Trevor Hastie and
Rob Tibshirani. Uses Alan Miller's Fortran utilities
with Thomas Lumley's leaps wrapper.
Maintainer: Stephen Milborrow <milbo@sonic.net>
Diff between earth versions 4.4.9 dated 2017-02-20 and 4.4.9.1 dated 2017-03-21
DESCRIPTION | 6 +++--- MD5 | 6 +++--- build/partial.rdb |binary src/rentries.c | 30 +++++++++++++++--------------- 4 files changed, 21 insertions(+), 21 deletions(-)
Title: Distance Between Phylogenetic Histories
Description: Geodesic distance between phylogenetic trees and
associated functions.
Author: John Chakerian and Susan Holmes
Maintainer: ORPHANED
Diff between distory versions 1.4.2 dated 2013-11-12 and 1.4.3 dated 2017-03-21
DESCRIPTION | 11 +++++++---- MD5 | 4 ++-- src/phydist_r.cpp | 3 ++- 3 files changed, 11 insertions(+), 7 deletions(-)
Title: Baumgartner Weiss Schindler Test of Equal Distributions
Description: Performs the 'Baumgartner-Weiss-Schindler' two-sample test of equal
probability distributions.
Author: Steven E. Pav [aut, cre]
Maintainer: Steven E. Pav <shabbychef@gmail.com>
Diff between BWStest versions 0.2.0 dated 2016-04-30 and 0.2.1 dated 2017-03-21
ChangeLog |only DESCRIPTION | 8 ++++---- MD5 | 26 ++++++++++++++++++++------ R/BWStest.r | 13 ++++++++++--- R/RcppExports.R | 2 +- README.md | 22 +++++++++++----------- inst |only man/NEWS.Rd | 15 ++++++++++++--- src/RcppExports.cpp | 34 +++++++++++++++++----------------- src/bws_init.cpp |only tools |only 11 files changed, 75 insertions(+), 45 deletions(-)
Title: Calculation of Average Population Attributable Fractions and
Confidence Intervals
Description: Average population attributable fractions are calculated for a set
of risk factors (either binary or ordinal valued) for both prospective and case-
control designs. Confidence intervals are found by Monte Carlo simulation. The
method can be applied to either prospective or case control designs, provided an
estimate of disease prevalence is provided. In addition to an exact calculation
of AF, an approximate calculation, based on randomly sampling permutations has
been implemented to ensure the calculation is computationally tractable when the
number of risk factors is large.
Author: John Ferguson [aut, cre]
Maintainer: John Ferguson <john.ferguson@nuigalway.ie>
Diff between averisk versions 1.0.2 dated 2016-06-20 and 1.0.3 dated 2017-03-21
DESCRIPTION | 6 +-- MD5 | 8 ++-- R/internal.R | 29 ++++++++------- R/main.R | 108 +++++++++++++++++++++++++++++++---------------------------- man/getAF.Rd | 92 ++++++++++++++++++++++++++------------------------ 5 files changed, 128 insertions(+), 115 deletions(-)
Title: Fit Additive Hazards Models for Survival Analysis
Description: Contains tools to fit the additive hazards model to data from a cohort,
random sampling, two-phase Bernoulli sampling and two-phase finite population sampling,
as well as calibration tool to incorporate phase I auxiliary information into the
two-phase data model fitting. This package provides regression parameter estimates and
their model-based and robust standard errors. It also offers tools to make prediction of
individual specific hazards.
Author: Jie (Kate) Hu [aut, cre],
Norman Breslow [aut],
Gary Chan [aut]
Maintainer: Jie (Kate) Hu <hujie0704@gmail.com>
Diff between addhazard versions 1.0.0 dated 2015-08-17 and 1.1.0 dated 2017-03-21
DESCRIPTION | 22 +- MD5 | 35 ++- NAMESPACE | 7 R/ah.R | 302 +++++++++++++------------------ R/ah.fit.R |only R/ah2phase.R | 327 +++++++++++++++++---------------- R/nwts2ph.R |only R/nwts2ph.generator.R |only R/nwtsco.R | 17 - R/pred.2ph.R | 353 ++++++++++++++++++------------------ R/pred.ah.R | 218 ++++++++++------------ R/summary.R | 87 ++++---- R/tools.R | 466 ++++++++++++++++++++++-------------------------- README.md |only data/nwts2ph.rda |only man/ah.2ph.Rd | 110 +++++++---- man/ah.Rd | 47 ++-- man/nwts2ph.Rd |only man/nwts2ph.generate.Rd |only man/nwtsco.Rd | 9 man/predict.ah.2ph.Rd | 42 ++-- man/predict.ah.Rd | 9 22 files changed, 1017 insertions(+), 1034 deletions(-)