Title: Tidy Tools for Forecasting
Description: Tidies up the forecasting modeling and prediction work flow,
extends the 'broom' package
with 'sw_tidy', 'sw_glance', 'sw_augment', and 'sw_tidy_decomp' functions
for various forecasting models,
and enables converting 'forecast' objects to
"tidy" data frames with 'sw_sweep'.
Author: Matt Dancho [aut, cre],
Davis Vaughan [aut]
Maintainer: Matt Dancho <mdancho@business-science.io>
Diff between sweep versions 0.1.0 dated 2017-07-03 and 0.2.0 dated 2017-07-25
DESCRIPTION | 14 +-- MD5 | 102 +++++++++++----------- NAMESPACE | 15 ++- NEWS.md | 5 + R/sw_sweep.R | 36 +++---- R/sw_tidy_decomp.R | 8 - R/sweep-package.R | 2 R/tidiers_HoltWinters.R | 44 ++++----- R/tidiers_StructTS.R | 24 ++--- R/tidiers_arima.R | 38 +++++--- R/tidiers_bats.R | 44 ++++----- R/tidiers_decomposed_ts.R | 24 ++--- R/tidiers_ets.R | 57 +++++++----- R/tidiers_nnetar.R | 24 ++--- R/tidiers_robets.R |only R/tidiers_stl.R | 28 +++--- R/utils-broom.R | 17 ++- README.md | 3 inst/doc/SW00_Introduction_to_sweep.R | 12 +- inst/doc/SW00_Introduction_to_sweep.Rmd | 18 +-- inst/doc/SW00_Introduction_to_sweep.html | 30 +++--- inst/doc/SW01_Forecasting_Time_Series_Groups.R | 10 +- inst/doc/SW01_Forecasting_Time_Series_Groups.Rmd | 14 +-- inst/doc/SW01_Forecasting_Time_Series_Groups.html | 22 ++-- inst/doc/SW02_Forecasting_Multiple_Models.R | 6 - inst/doc/SW02_Forecasting_Multiple_Models.Rmd | 8 - inst/doc/SW02_Forecasting_Multiple_Models.html | 68 +++++++------- man/reexports.Rd |only man/sw_augment_columns.Rd | 4 man/sw_sweep.Rd | 12 +- man/sw_tidy_decomp.Rd | 4 man/tidiers_HoltWinters.Rd | 8 - man/tidiers_StructTS.Rd | 6 - man/tidiers_arima.Rd | 6 - man/tidiers_bats.Rd | 10 +- man/tidiers_decomposed_ts.Rd | 6 - man/tidiers_ets.Rd | 8 - man/tidiers_nnetar.Rd | 6 - man/tidiers_robets.Rd |only man/tidiers_stl.Rd | 10 +- tests/testthat/test_sw_sweep.R | 14 +-- tests/testthat/test_tidiers_StructTS.R | 10 +- tests/testthat/test_tidiers_arima.R | 20 ++-- tests/testthat/test_tidiers_bats_tbats.R | 28 +++--- tests/testthat/test_tidiers_decomposed_ts.R | 8 - tests/testthat/test_tidiers_ets.R | 12 +- tests/testthat/test_tidiers_hw.R | 18 +-- tests/testthat/test_tidiers_lm.R | 2 tests/testthat/test_tidiers_nnetar.R | 12 +- tests/testthat/test_tidiers_robets.R |only tests/testthat/test_tidiers_stl.R | 8 - vignettes/SW00_Introduction_to_sweep.Rmd | 18 +-- vignettes/SW01_Forecasting_Time_Series_Groups.Rmd | 14 +-- vignettes/SW02_Forecasting_Multiple_Models.Rmd | 8 - 54 files changed, 480 insertions(+), 445 deletions(-)
Title: R Interface to Python
Description: R interface to Python modules, classes, and functions. When calling
into Python R data types are automatically converted to their equivalent Python
types. When values are returned from Python to R they are converted back to R
types. Compatible with all versions of Python >= 2.7.
Author: JJ Allaire [aut, cre],
Kevin Ushey [ctb],
RStudio [cph, fnd],
Yuan Tang [aut, cph],
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between reticulate versions 0.9 dated 2017-06-23 and 1.0 dated 2017-07-25
reticulate-0.9/reticulate/src/interrupt.cpp |only reticulate-0.9/reticulate/src/interrupt.h |only reticulate-0.9/reticulate/tests/testthat/expected_class_wrapper.txt |only reticulate-0.9/reticulate/tests/testthat/expected_function_wrapper.txt |only reticulate-0.9/reticulate/tests/testthat/test-python-wrapper.R |only reticulate-1.0/reticulate/DESCRIPTION | 8 reticulate-1.0/reticulate/MD5 | 65 ++-- reticulate-1.0/reticulate/NAMESPACE | 2 reticulate-1.0/reticulate/NEWS.md | 26 + reticulate-1.0/reticulate/R/config.R | 42 ++- reticulate-1.0/reticulate/R/generator.R |only reticulate-1.0/reticulate/R/package.R | 4 reticulate-1.0/reticulate/R/python.R | 25 - reticulate-1.0/reticulate/R/use_python.R | 37 +- reticulate-1.0/reticulate/inst/config/config.py | 19 - reticulate-1.0/reticulate/inst/doc/introduction.R | 31 ++ reticulate-1.0/reticulate/inst/doc/introduction.Rmd | 45 +++ reticulate-1.0/reticulate/inst/doc/introduction.html | 36 ++ reticulate-1.0/reticulate/inst/doc/versions.Rmd | 3 reticulate-1.0/reticulate/inst/doc/versions.html | 3 reticulate-1.0/reticulate/inst/python/rpytools/__pycache__ |only reticulate-1.0/reticulate/inst/python/rpytools/call.py | 21 + reticulate-1.0/reticulate/inst/python/rpytools/call.pyc |binary reticulate-1.0/reticulate/inst/python/rpytools/generator.py |only reticulate-1.0/reticulate/inst/python/rpytools/generator.pyc |only reticulate-1.0/reticulate/inst/python/rpytools/test.py | 51 +-- reticulate-1.0/reticulate/inst/python/rpytools/test.pyc |binary reticulate-1.0/reticulate/man/iterate.Rd | 4 reticulate-1.0/reticulate/man/py_iterator.Rd |only reticulate-1.0/reticulate/src/event_loop.cpp |only reticulate-1.0/reticulate/src/event_loop.h |only reticulate-1.0/reticulate/src/libpython.cpp | 2 reticulate-1.0/reticulate/src/libpython.h | 3 reticulate-1.0/reticulate/src/python.cpp | 136 ++++++++-- reticulate-1.0/reticulate/tests/testthat/test-python-iterators.R | 38 ++ reticulate-1.0/reticulate/vignettes/introduction.Rmd | 45 +++ reticulate-1.0/reticulate/vignettes/versions.Rmd | 3 37 files changed, 492 insertions(+), 157 deletions(-)
Title: Vector Generalized Linear and Additive Models
Description: An implementation of about 6 major classes of
statistical regression models. At the heart of it are the
vector generalized linear and additive model (VGLM/VGAM)
classes, and the book "Vector Generalized Linear and
Additive Models: With an Implementation in R" (Yee, 2015)
<DOI:10.1007/978-1-4939-2818-7>
gives details of the statistical framework and VGAM package.
Currently only fixed-effects models are implemented,
i.e., no random-effects models. Many (150+) models and
distributions are estimated by maximum likelihood estimation
(MLE) or penalized MLE, using Fisher scoring. VGLMs can be
loosely thought of as multivariate GLMs. VGAMs are data-driven
VGLMs (i.e., with smoothing). The other classes are RR-VGLMs
(reduced-rank VGLMs), quadratic RR-VGLMs, reduced-rank VGAMs,
RCIMs (row-column interaction models)---these classes perform
constrained and unconstrained quadratic ordination (CQO/UQO)
models in ecology, as well as constrained additive ordination
(CAO). Note that these functions are subject to change;
see the NEWS and ChangeLog files for latest changes.
Author: Thomas W. Yee <t.yee@auckland.ac.nz>
Maintainer: Thomas Yee <t.yee@auckland.ac.nz>
Diff between VGAM versions 1.0-3 dated 2017-01-11 and 1.0-4 dated 2017-07-25
VGAM-1.0-3/VGAM/R/calibrate.q |only VGAM-1.0-3/VGAM/build |only VGAM-1.0-3/VGAM/inst/doc |only VGAM-1.0-3/VGAM/vignettes |only VGAM-1.0-4/VGAM/DESCRIPTION | 12 VGAM-1.0-4/VGAM/MD5 | 262 ++--- VGAM-1.0-4/VGAM/NAMESPACE | 29 VGAM-1.0-4/VGAM/NEWS | 37 VGAM-1.0-4/VGAM/R/Links.R | 30 VGAM-1.0-4/VGAM/R/aamethods.q | 1 VGAM-1.0-4/VGAM/R/calibrate.R |only VGAM-1.0-4/VGAM/R/cao.R | 28 VGAM-1.0-4/VGAM/R/cao.fit.q | 13 VGAM-1.0-4/VGAM/R/cqo.R | 28 VGAM-1.0-4/VGAM/R/family.actuary.R | 1 VGAM-1.0-4/VGAM/R/family.aunivariate.R | 25 VGAM-1.0-4/VGAM/R/family.basics.R | 33 VGAM-1.0-4/VGAM/R/family.binomial.R | 103 +- VGAM-1.0-4/VGAM/R/family.categorical.R | 320 +++++-- VGAM-1.0-4/VGAM/R/family.censored.R | 2 VGAM-1.0-4/VGAM/R/family.extremes.R | 2 VGAM-1.0-4/VGAM/R/family.functions.R | 2 VGAM-1.0-4/VGAM/R/family.glmgam.R | 55 + VGAM-1.0-4/VGAM/R/family.math.R | 62 + VGAM-1.0-4/VGAM/R/family.nbd.R | 499 +++++++++-- VGAM-1.0-4/VGAM/R/family.nonlinear.R | 4 VGAM-1.0-4/VGAM/R/family.normal.R | 82 + VGAM-1.0-4/VGAM/R/family.positive.R | 4 VGAM-1.0-4/VGAM/R/family.qreg.R | 560 +++++++----- VGAM-1.0-4/VGAM/R/family.rrr.R | 6 VGAM-1.0-4/VGAM/R/family.ts.R | 4 VGAM-1.0-4/VGAM/R/family.univariate.R | 1039 ++++++++++------------- VGAM-1.0-4/VGAM/R/family.zeroinf.R | 439 +++++++-- VGAM-1.0-4/VGAM/R/formula.vlm.q | 2 VGAM-1.0-4/VGAM/R/hdeff.R |only VGAM-1.0-4/VGAM/R/links.q | 981 +++++++++++++-------- VGAM-1.0-4/VGAM/R/logLik.vlm.q | 15 VGAM-1.0-4/VGAM/R/lrp.R |only VGAM-1.0-4/VGAM/R/model.matrix.vglm.q | 4 VGAM-1.0-4/VGAM/R/mux.q | 84 - VGAM-1.0-4/VGAM/R/predict.vlm.q | 61 - VGAM-1.0-4/VGAM/R/print.vglm.q | 20 VGAM-1.0-4/VGAM/R/rrvglm.R | 28 VGAM-1.0-4/VGAM/R/rrvglm.fit.q | 2 VGAM-1.0-4/VGAM/R/s.q | 2 VGAM-1.0-4/VGAM/R/summary.vglm.q | 47 - VGAM-1.0-4/VGAM/R/vcov.pvgam.R | 6 VGAM-1.0-4/VGAM/R/vgam.R | 34 VGAM-1.0-4/VGAM/R/vgam.control.q | 2 VGAM-1.0-4/VGAM/R/vglm.R | 34 VGAM-1.0-4/VGAM/R/vlm.R | 27 VGAM-1.0-4/VGAM/data/Huggins89.t1.rda |binary VGAM-1.0-4/VGAM/data/Huggins89table1.rda |binary VGAM-1.0-4/VGAM/data/alclevels.rda |binary VGAM-1.0-4/VGAM/data/alcoff.rda |binary VGAM-1.0-4/VGAM/data/auuc.rda |binary VGAM-1.0-4/VGAM/data/backPain.rda |binary VGAM-1.0-4/VGAM/data/beggs.rda |binary VGAM-1.0-4/VGAM/data/car.all.rda |binary VGAM-1.0-4/VGAM/data/cfibrosis.rda |binary VGAM-1.0-4/VGAM/data/corbet.rda |binary VGAM-1.0-4/VGAM/data/crashbc.rda |binary VGAM-1.0-4/VGAM/data/crashf.rda |binary VGAM-1.0-4/VGAM/data/crashi.rda |binary VGAM-1.0-4/VGAM/data/crashmc.rda |binary VGAM-1.0-4/VGAM/data/crashp.rda |binary VGAM-1.0-4/VGAM/data/crashtr.rda |binary VGAM-1.0-4/VGAM/data/deermice.rda |binary VGAM-1.0-4/VGAM/data/ducklings.rda |binary VGAM-1.0-4/VGAM/data/finney44.rda |binary VGAM-1.0-4/VGAM/data/flourbeetle.rda |binary VGAM-1.0-4/VGAM/data/hspider.rda |binary VGAM-1.0-4/VGAM/data/lakeO.rda |binary VGAM-1.0-4/VGAM/data/leukemia.rda |binary VGAM-1.0-4/VGAM/data/marital.nz.rda |binary VGAM-1.0-4/VGAM/data/melbmaxtemp.rda |binary VGAM-1.0-4/VGAM/data/pneumo.rda |binary VGAM-1.0-4/VGAM/data/prinia.rda |binary VGAM-1.0-4/VGAM/data/ruge.rda |binary VGAM-1.0-4/VGAM/data/toxop.rda |binary VGAM-1.0-4/VGAM/data/venice.rda |binary VGAM-1.0-4/VGAM/data/venice90.rda |binary VGAM-1.0-4/VGAM/data/wine.rda |binary VGAM-1.0-4/VGAM/man/ABO.Rd | 5 VGAM-1.0-4/VGAM/man/AR1EIM.Rd | 13 VGAM-1.0-4/VGAM/man/Links.Rd | 15 VGAM-1.0-4/VGAM/man/backPain.Rd | 5 VGAM-1.0-4/VGAM/man/binomialff.Rd | 22 VGAM-1.0-4/VGAM/man/calibrate-methods.Rd | 4 VGAM-1.0-4/VGAM/man/calibrate.Rd | 6 VGAM-1.0-4/VGAM/man/calibrate.qrrvglm.Rd | 10 VGAM-1.0-4/VGAM/man/calibrate.qrrvglm.control.Rd | 5 VGAM-1.0-4/VGAM/man/calibrate.rrvglm.Rd |only VGAM-1.0-4/VGAM/man/calibrate.rrvglm.control.Rd |only VGAM-1.0-4/VGAM/man/cao.Rd | 3 VGAM-1.0-4/VGAM/man/cens.gumbel.Rd | 4 VGAM-1.0-4/VGAM/man/confintvglm.Rd | 4 VGAM-1.0-4/VGAM/man/constraints.Rd | 9 VGAM-1.0-4/VGAM/man/cqo.Rd | 3 VGAM-1.0-4/VGAM/man/cumulative.Rd | 1 VGAM-1.0-4/VGAM/man/gengamma.Rd | 48 - VGAM-1.0-4/VGAM/man/gengammaUC.Rd | 26 VGAM-1.0-4/VGAM/man/gevUC.Rd | 10 VGAM-1.0-4/VGAM/man/hdeff.Rd |only VGAM-1.0-4/VGAM/man/lms.yjn.Rd | 14 VGAM-1.0-4/VGAM/man/lrpvglm.Rd |only VGAM-1.0-4/VGAM/man/lrtest.Rd | 3 VGAM-1.0-4/VGAM/man/multilogit.Rd | 18 VGAM-1.0-4/VGAM/man/nakagami.Rd | 10 VGAM-1.0-4/VGAM/man/nbcanlink.Rd | 84 + VGAM-1.0-4/VGAM/man/nbolf.Rd | 4 VGAM-1.0-4/VGAM/man/negbinomial.Rd | 37 VGAM-1.0-4/VGAM/man/negbinomial.size.Rd | 37 VGAM-1.0-4/VGAM/man/notdocumentedyet.Rd | 30 VGAM-1.0-4/VGAM/man/poissonff.Rd | 7 VGAM-1.0-4/VGAM/man/prentice74.Rd | 25 VGAM-1.0-4/VGAM/man/profilevglm.Rd |only VGAM-1.0-4/VGAM/man/rrvglm.Rd | 4 VGAM-1.0-4/VGAM/man/skewnormUC.Rd | 5 VGAM-1.0-4/VGAM/man/slash.Rd | 6 VGAM-1.0-4/VGAM/man/sm.os.Rd | 15 VGAM-1.0-4/VGAM/man/summaryvglm.Rd | 45 VGAM-1.0-4/VGAM/man/undocumented-methods.Rd | 4 VGAM-1.0-4/VGAM/man/uninormal.Rd | 3 VGAM-1.0-4/VGAM/man/vcovvlm.Rd | 21 VGAM-1.0-4/VGAM/man/vgam.Rd | 3 VGAM-1.0-4/VGAM/man/vgam.control.Rd | 5 VGAM-1.0-4/VGAM/man/vglm.Rd | 17 VGAM-1.0-4/VGAM/man/vglmff-class.Rd | 7 VGAM-1.0-4/VGAM/man/vplot.profile.Rd |only VGAM-1.0-4/VGAM/man/zipoisson.Rd | 3 VGAM-1.0-4/VGAM/src/VGAM_init.c |only VGAM-1.0-4/VGAM/src/gautr.c | 2 VGAM-1.0-4/VGAM/src/muxr3.c | 129 +- VGAM-1.0-4/VGAM/src/veigen.f | 2 135 files changed, 3696 insertions(+), 2068 deletions(-)
Title: Functions to Compute Chemical Reaction Similarity
Description: Methods to compute chemical similarity between two or more reactions and molecules. Allows masking of chemical substructures for weighted similarity computations. Uses packages 'rCDK' and 'fingerprint' for cheminformatics functionality.
Author: Varun Giri [aut, cre]
Maintainer: Varun Giri <varungiri@gmail.com>
Diff between RxnSim versions 1.0.2 dated 2017-06-20 and 1.0.3 dated 2017-07-25
RxnSim-1.0.2/RxnSim/inst/DB/RheaData_v60.txt |only RxnSim-1.0.3/RxnSim/CHANGELOG | 14 RxnSim-1.0.3/RxnSim/DESCRIPTION | 10 RxnSim-1.0.3/RxnSim/MD5 | 14 RxnSim-1.0.3/RxnSim/R/RxnSim.R | 836 ++++++++++---------- RxnSim-1.0.3/RxnSim/R/RxnSimHelper.R | 1128 +++++++++++++-------------- RxnSim-1.0.3/RxnSim/inst/DB/Metadata.txt | 300 +++---- RxnSim-1.0.3/RxnSim/inst/DB/RheaData_v83.txt |only RxnSim-1.0.3/RxnSim/man/rs.makeDB.Rd | 131 +-- 9 files changed, 1220 insertions(+), 1213 deletions(-)
Title: Interface to 'typeform' Results
Description: An R interface to the 'typeform' <https://typeform.com> application program interface.
Also provides functions for downloading your results.
Author: Colin Gillespie [aut, cre]
Maintainer: Colin Gillespie <csgillespie@gmail.com>
Diff between rtypeform versions 0.3.0 dated 2017-05-03 and 0.3.1 dated 2017-07-25
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NAMESPACE | 1 + NEWS.md | 4 ++++ R/check_api_response.R | 23 +++++++++++++++-------- R/get_all_typeforms.R | 4 ++-- R/get_results.R | 2 +- R/print.R | 15 +++++++++++---- README.md | 14 +++++--------- tests/testthat/test_get_results.R | 4 ++-- 10 files changed, 54 insertions(+), 39 deletions(-)
Title: Generalized Additive Mixed Models using 'mgcv' and 'lme4'
Description: Estimate generalized additive mixed models via a version of
function gamm() from 'mgcv', using 'lme4' for estimation.
Author: Simon Wood, Fabian Scheipl
Maintainer: Simon Wood <simon.wood@r-project.org>
Diff between gamm4 versions 0.2-4 dated 2016-09-17 and 0.2-5 dated 2017-07-25
ChangeLog | 8 ++++++++ DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/gamm4.r | 52 +++++++++++++++++++++++++++++----------------------- man/gamm4.Rd | 19 +++++++++++++++---- 5 files changed, 59 insertions(+), 34 deletions(-)
More information about bayeslongitudinal at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-28 0.3.1
2017-05-16 0.3.0
2017-04-30 0.2.0
2017-04-19 0.1.0
Title: Pedigree Inference from SNPs
Description: Fast multi-generational pedigree inference from incomplete data on
hundreds of SNPs, including parentage assignment and sibship clustering.
See citation('sequoia') for more information.
Author: Jisca Huisman [aut, cre]
Maintainer: Jisca Huisman <jisca.huisman@gmail.com>
Diff between sequoia versions 0.9.2 dated 2017-07-17 and 0.9.3 dated 2017-07-25
DESCRIPTION | 8 MD5 | 20 +- R/Sequoia_F90wrappers.R | 33 ++- R/Sequoia_Main.R | 12 - R/Utils_hermaphrodites.R | 21 ++ inst/Fortran/sequoia.f90 | 442 +++++++++++++++++++++++++++++------------------ inst/doc/sequoia.R | 9 inst/doc/sequoia.Rnw | 31 ++- inst/doc/sequoia.pdf |binary src/sequoia.f90 | 18 + vignettes/sequoia.Rnw | 31 ++- 11 files changed, 407 insertions(+), 218 deletions(-)
Title: Tools for Mapping of Quantitative Traits of Genetically Related
Individuals and Calculating Identity Coefficients from
Pedigrees
Description: This software provides tools for quantitative trait mapping in populations such as advanced intercross lines where relatedness among individuals should not be ignored. It can estimate background genetic variance components, impute missing genotypes, simulate genotypes, perform a genome scan for putative quantitative trait loci (QTL), and plot mapping results. It also has functions to calculate identity coefficients from pedigrees, especially suitable for pedigrees that consist of a large number of generations, or estimate identity coefficients from genotypic data in certain circumstances.
Author: Riyan Cheng [aut, cre]
Maintainer: Riyan Cheng <riyancheng@hotmail.com>
Diff between QTLRel versions 0.2-16 dated 2017-07-20 and 0.2-17 dated 2017-07-25
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NAMESPACE | 5 ++--- R/idcoef.R | 2 +- R/qqPlot.R | 4 ++-- inst/doc/QTLRel_Tutorial.pdf |binary src/idcoef.c | 2 +- src/init.c | 14 +++++++------- src/qqplot.c | 4 ++-- 9 files changed, 27 insertions(+), 28 deletions(-)
Title: Tools for Mapping Multiple Complex Traits
Description: Provides tools for joint analysis of multiple traits in a backcross (BC) or recombinant inbred lines (RIL) population. It can be used to select an optimal subset of traits for multiple-trait mapping, analyze multiple traits via the SURE model, which can associate different QTL with different traits, and perform multiple-trait composite multiple-interval mapping.
Author: Riyan Cheng [aut, cre]
Maintainer: Riyan Cheng <riyancheng@hotmail.com>
Diff between qtlmt versions 0.1-5 dated 2017-07-20 and 0.1-6 dated 2017-07-25
qtlmt-0.1-5/qtlmt/src/init.cc |only qtlmt-0.1-6/qtlmt/DESCRIPTION | 8 qtlmt-0.1-6/qtlmt/MD5 | 15 qtlmt-0.1-6/qtlmt/NAMESPACE | 4 qtlmt-0.1-6/qtlmt/R/mtcmim.R | 6 qtlmt-0.1-6/qtlmt/R/sure.R | 6 qtlmt-0.1-6/qtlmt/R/zzz.R | 2 qtlmt-0.1-6/qtlmt/src/qtlmt.cc | 3841 ++++++++++++++++++++--------------------- qtlmt-0.1-6/qtlmt/src/qtlmt.h | 2 9 files changed, 1954 insertions(+), 1930 deletions(-)
Title: Fit the Gambin Model to Species Abundance Distributions
Description: Fits unimodal and multimodal gambin distributions to species-abundance distributions
from ecological data. 'gambin' is short for 'gamma-binomial'. The main function
is fit_abundances(), which estimates the 'alpha' parameter(s) of the gambin distribution
using maximum likelihood. Functions are also provided to generate the gambin distribution
and for calculating likelihood statistics.
Author: Thomas Matthews [aut, cre],
Michael Krabbe Borregaard [aut],
Karl Ugland [aut],
Colin Gillespie [aut]
Maintainer: Thomas Matthews <txm676@gmail.com>
Diff between gambin versions 1.4 dated 2016-06-22 and 2.1.1 dated 2017-07-25
gambin-1.4/gambin/R/AIC.gambin.R |only gambin-1.4/gambin/R/AICc.gambin.R |only gambin-1.4/gambin/R/BIC.gambin.R |only gambin-1.4/gambin/R/confint.gambin.R |only gambin-1.4/gambin/R/fitGambin.R |only gambin-1.4/gambin/R/gambin-internal.R |only gambin-1.4/gambin/R/logLik.gambin.R |only gambin-1.4/gambin/R/nobs.gambin.R |only gambin-1.4/gambin/R/plot.gambin.R |only gambin-1.4/gambin/R/predict.gambin.R |only gambin-1.4/gambin/R/print.gambin.R |only gambin-1.4/gambin/R/print.summary.gambin.R |only gambin-1.4/gambin/R/summary.gambin.R |only gambin-1.4/gambin/man/fitGambin.Rd |only gambin-2.1.1/gambin/DESCRIPTION | 39 ++++--- gambin-2.1.1/gambin/MD5 | 61 ++++++----- gambin-2.1.1/gambin/NAMESPACE | 59 ++++++++-- gambin-2.1.1/gambin/NEWS.md |only gambin-2.1.1/gambin/R/AICc.R | 29 ++++- gambin-2.1.1/gambin/R/BIC.R |only gambin-2.1.1/gambin/R/confint.R |only gambin-2.1.1/gambin/R/create_octaves.R | 48 ++++++-- gambin-2.1.1/gambin/R/data_docs.R |only gambin-2.1.1/gambin/R/dgambin.R | 145 +++++++++++++++++++++++---- gambin-2.1.1/gambin/R/fit_gambin.R |only gambin-2.1.1/gambin/R/gambin-package.R |only gambin-2.1.1/gambin/R/gambin_exp.R | 13 +- gambin-2.1.1/gambin/R/logLik_gambin.R |only gambin-2.1.1/gambin/R/nobs_gambin.R |only gambin-2.1.1/gambin/R/plot_gambin.R |only gambin-2.1.1/gambin/R/predict_gambin.R |only gambin-2.1.1/gambin/R/print_gambin.R |only gambin-2.1.1/gambin/R/print_summary_gambin.R |only gambin-2.1.1/gambin/R/summary_gambin.R |only gambin-2.1.1/gambin/README.md |only gambin-2.1.1/gambin/build |only gambin-2.1.1/gambin/inst/CITATION | 18 +-- gambin-2.1.1/gambin/inst/doc |only gambin-2.1.1/gambin/man/create_octaves.Rd | 66 +++++------- gambin-2.1.1/gambin/man/dgambin.Rd | 112 +++++++++++++------- gambin-2.1.1/gambin/man/fit_abundances.Rd |only gambin-2.1.1/gambin/man/gambin-package.Rd | 83 ++++++++------- gambin-2.1.1/gambin/man/logLik.gambin.Rd | 85 +++++++-------- gambin-2.1.1/gambin/man/moths.Rd | 40 ++----- gambin-2.1.1/gambin/tests |only gambin-2.1.1/gambin/vignettes |only 46 files changed, 518 insertions(+), 280 deletions(-)
Title: Interactive Networks with R
Description: Create interactive networked coincidences. It joins the data analysis power of R to study coincidences and the visualization libraries of JavaScript in one package.
Author: Modesto Escobar <modesto@usal.es>,
Carlos Prieto <cprietos@usal.es>,
David Barrios <metal@usal.es>,
Luis Martinez-Uribe <lmartinez@usal.es>.
Maintainer: Modesto Escobar <modesto@usal.es>
Diff between netCoin versions 0.2.5 dated 2017-03-31 and 0.2.6 dated 2017-07-25
netCoin-0.2.5/netCoin/vignettes/dice |only netCoin-0.2.5/netCoin/vignettes/italian |only netCoin-0.2.5/netCoin/vignettes/sanderson |only netCoin-0.2.6/netCoin/DESCRIPTION | 8 +- netCoin-0.2.6/netCoin/MD5 | 84 +++++--------------------- netCoin-0.2.6/netCoin/NAMESPACE | 3 netCoin-0.2.6/netCoin/R/barplot.R | 14 ++-- netCoin-0.2.6/netCoin/R/dichotomize.R | 74 +++++++++++++++++++++- netCoin-0.2.6/netCoin/R/multigraph.R | 25 ++++--- netCoin-0.2.6/netCoin/R/netcoin.R | 32 +++++---- netCoin-0.2.6/netCoin/R/timeline.R | 49 ++++++++------- netCoin-0.2.6/netCoin/build/vignette.rds |binary netCoin-0.2.6/netCoin/inst/doc/netCoin.html | 10 +-- netCoin-0.2.6/netCoin/inst/www/multigraph.js | 26 ++++++++ netCoin-0.2.6/netCoin/man/allNet.Rd | 25 ++++--- netCoin-0.2.6/netCoin/man/barCoin.Rd | 3 netCoin-0.2.6/netCoin/man/cbarCoin.Rd | 3 netCoin-0.2.6/netCoin/man/multigraphCreate.Rd | 11 +-- netCoin-0.2.6/netCoin/man/netCoin.Rd | 3 netCoin-0.2.6/netCoin/man/netCorr.Rd | 3 netCoin-0.2.6/netCoin/man/surCoin.Rd |only netCoin-0.2.6/netCoin/man/timeCoin.Rd | 6 + 22 files changed, 226 insertions(+), 153 deletions(-)
Title: Generalized Linear Mixed Models via Monte Carlo Likelihood
Approximation
Description: Approximates the likelihood of a generalized linear mixed model using Monte Carlo likelihood approximation. Then maximizes the likelihood approximation to return maximum likelihood estimates, observed Fisher information, and other model information.
Author: Christina Knudson
Maintainer: Christina Knudson <christina@umn.edu>
Diff between glmm versions 1.1.1 dated 2016-08-17 and 1.2 dated 2017-07-25
DESCRIPTION | 8 ++++---- MD5 | 17 +++++++++-------- NAMESPACE | 2 +- R/distRand.R | 12 ++++++------ build/vignette.rds |binary inst/doc/intro.Rnw | 4 ++-- inst/doc/intro.pdf |binary src/glmm_init.c |only tests/salamFiniteDiffs.Rout.save | 10 +++++----- vignettes/intro.Rnw | 4 ++-- 10 files changed, 29 insertions(+), 28 deletions(-)
Title: Power Normal Distribution
Description: Miscellaneous functions for a descriptive analysis and initial Bayesian and classical
inference for the power parameter of the the Power Normal (PN) distribution. This
miscellaneous will be extend for more distributions into the power family and the
three-parameter model.
Author: Gualberto Segundo Agamez Montalvo, Marcia D'Elia Branco
Maintainer: Gualberto Segundo Agamez Montalvo <gsagamez@gmail.com>
Diff between PowerNormal versions 1.1.0 dated 2017-06-25 and 1.2.0 dated 2017-07-25
DESCRIPTION | 15 +++++++-------- MD5 | 10 +++++++--- NAMESPACE | 6 ++++-- R/ICredpn.R |only R/bayespn.R |only man/pn.CredI.Rd |only man/pn.bayes.Rd |only man/pn.mle.Rd | 2 +- 8 files changed, 19 insertions(+), 14 deletions(-)
Title: Inferring Dominance Hierarchies and Estimating Uncertainty
Description: Provides: (1) Tools to infer dominance hierarchies based on calculating Elo scores, but with custom functions to improve estimates in animals with relatively stable dominance ranks. (2) Tools to plot the shape of the dominance hierarchy and estimate the uncertainty of a given data set.
Author: Damien R. Farine and Alfredo Sanchez-Tojar
Maintainer: Damien R. Farine <dfarine@orn.mpg.de>
Diff between aniDom versions 0.1.1 dated 2017-04-28 and 0.1.2 dated 2017-07-25
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/plot_hierarchy_shape.R | 2 ++ man/aniDom-package.Rd | 4 ++-- 4 files changed, 11 insertions(+), 9 deletions(-)
Title: Sequential Invariant Causal Prediction
Description: Contains an implementation of invariant causal prediction for sequential data. The main function in the package is 'seqICP', which performs linear sequential invariant causal prediction and has guaranteed type I error control. For non-linear dependencies the package also contains a non-linear method 'seqICPnl', which allows to input any regression procedure and performs tests based on a permutation approach that is only approximately correct. In order to test whether an individual set S is invariant the package contains the subroutines 'seqICP.s' and 'seqICPnl.s' corresponding to the respective main methods.
Author: Niklas Pfister and Jonas Peters
Maintainer: Niklas Pfister <pfister@stat.math.ethz.ch>
Diff between seqICP versions 1.0 dated 2017-06-27 and 1.1 dated 2017-07-25
DESCRIPTION | 6 +++--- MD5 | 6 +++--- R/seqICP.s.R | 3 --- build/partial.rdb |binary 4 files changed, 6 insertions(+), 9 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. WhatIf
implements the methods for evaluating counterfactuals discussed in
Gary King and Langche Zeng, 2006, "The Dangers of Extreme
Counterfactuals," Political Analysis 14 (2) <DOI:10.1093/pan/mpj004>;
and Gary King and Langche Zeng, 2007, "When Can History Be Our Guide? The
Pitfalls of Counterfactual Inference," International Studies
Quarterly 51 (March) <DOI:10.1111/j.1468-2478.2007.00445.x>.
Author: Christopher Gandrud [aut, cre],
Gary King [aut],
Ben Sabath [ctb],
Heather Stoll [aut],
Langche Zeng [aut]
Maintainer: Christopher Gandrud <zelig.zee@gmail.com>
Diff between WhatIf versions 1.5-8 dated 2017-03-21 and 1.5-9 dated 2017-07-25
.Rinstignore |only DESCRIPTION | 20 + MD5 | 41 +- NAMESPACE | 40 +- NEWS.md | 18 + R/load.first.R | 34 +- R/plot.whatif.R | 27 + R/print.summary.whatif.R | 69 +++- R/print.whatif.R | 95 ++++-- R/summary.whatif.R | 49 ++- R/whatif.R | 365 +++++++------------------- README.md | 16 - data/peacecf.RData |binary data/peacef.RData |binary inst |only man/plot.whatif.Rd | 154 +++++------ man/print.summary.whatif.Rd | 96 +++--- man/print.whatif.Rd | 104 +++---- man/summary.whatif.Rd | 120 ++++---- man/whatif.Rd | 444 ++++++++++++++++---------------- tests/testthat/test-plot.R |only tests/testthat/test-whatif.R |only tests/testthat/test-whatif_convexhull.R |only tests/testthat/test-zelig.R | 11 24 files changed, 857 insertions(+), 846 deletions(-)
Title: A 'ggplot2' Extension for Drawing Publication-Ready Sequence
Logos
Description: The extensive range of functions provided by this package makes it possible to draw highly versatile sequence logos. Features include, but not limited to, modifying colour schemes and fonts used to draw the logo, generating multiple logo plots, and aiding the visualisation with annotations. Sequence logos can easily be combined with other plots 'ggplot2' plots.
Author: Omar Wagih
Maintainer: Omar Wagih <wagih@ebi.ac.uk>
Diff between ggseqlogo versions 0.0.1 dated 2017-06-13 and 0.1 dated 2017-07-25
DESCRIPTION | 11 +++++++---- MD5 | 23 ++++++++++++----------- R/ggseqlogo.r | 3 ++- R/heights.r | 12 +++++++++--- data/ggseqlogo_sample.rda |binary inst/extdata/helvetica_bold.font |binary inst/extdata/helvetica_light.font |binary inst/extdata/helvetica_regular.font |binary inst/extdata/roboto_bold.font |binary inst/extdata/roboto_medium.font |binary inst/extdata/roboto_medium_orig.font |only inst/extdata/roboto_regular.font |binary man/geom_logo.Rd | 2 +- 13 files changed, 31 insertions(+), 20 deletions(-)
Title: Functions to Support Extension Education Program Evaluation
Description: Functions and datasets to support "Summary and Analysis of
Extension Education Program Evaluation in R" and "An R
Companion for the Handbook of Biological Statistics".
Vignettes are available at <http://rcompanion.org>.
Author: Salvatore Mangiafico [aut, cre]
Maintainer: Salvatore Mangiafico <mangiafico@njaes.rutgers.edu>
Diff between rcompanion versions 1.5.7 dated 2017-06-23 and 1.9.1 dated 2017-07-25
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++++++++------ NAMESPACE | 12 ++++++++++++ R/accuracy.r |only R/compareGLM.r | 2 +- R/compareLM.r | 2 +- R/cramerV.r |only R/groupwisePercentile.r |only R/pairwisePercentileTest.r |only R/percentileTest.r |only R/scheirerRayHare.r |only man/accuracy.Rd |only man/compareGLM.Rd | 2 +- man/compareLM.Rd | 2 +- man/cramerV.Rd |only man/groupwisePercentile.Rd |only man/pairwisePercentileTest.Rd |only man/percentileTest.Rd |only man/scheirerRayHare.Rd |only 19 files changed, 38 insertions(+), 14 deletions(-)
Title: Convert Tibbles or Data Frames to Xts Easily
Description: Facilitate the movement between data frames to 'xts'. Particularly
useful when moving from 'tidyverse' to the widely used 'xts' package, which is
the input format of choice to various other packages. It also allows the user
to use a 'spread_by' argument for a character column 'xts' conversion.
Author: Nico Katzke
Maintainer: Nico Katzke <nfkatzke@gmail.com>
Diff between tbl2xts versions 0.1.0 dated 2017-06-23 and 0.1.1 dated 2017-07-25
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- R/tbl_xts.R | 2 +- inst/doc/tbl2xts_vignette.html | 8 ++++---- 4 files changed, 13 insertions(+), 13 deletions(-)
Title: Directional Statistics
Description: A collection of functions for directional data analysis. Hypothesis testing, discriminant and regression analysis, MLE of distributions and more are included. The standard textbook for such data is the "Directional Statistics" by Mardia, K. V. and Jupp, P. E. (2000).
Author: Michail Tsagris, Giorgos Athineou, Anamul Sajib
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>
Diff between Directional versions 2.7 dated 2017-05-17 and 2.8 dated 2017-07-25
DESCRIPTION | 10 +-- MD5 | 85 +++++++++++++++------------- NAMESPACE | 5 + R/ESAGdensity.R |only R/ESAGmle.R |only R/ESAGsim.R |only R/acg.R | 5 - R/circ.summary.R | 10 ++- R/circlin.cor.R | 1 R/dirknn.R | 2 R/dirknn.tune.R | 23 ++----- R/f.rbing.R | 2 R/group.vm.R | 2 R/iag.mle.R | 2 R/kent.mle.R | 15 ++--- R/knn.reg.R | 38 +++--------- R/knnreg.tune.R | 135 ++++++++++++++++++++++++++++++++------------- R/kuiper.R | 2 R/lr.aov.R | 2 R/mediandir.R | 21 ------- R/mediandir_2.R | 1 R/mix.vmf.R | 16 +++-- R/mixvmf.contour.R | 1 R/quat2rot.R | 1 R/rot.matrix.R | 1 R/spher.cor.R | 1 R/spher.reg.R | 2 R/spherconc.test.R | 2 R/spml.mle.R |only R/spml.reg.R | 94 +++---------------------------- R/vmf.da.R | 20 +----- R/vmfda.pred.R | 21 +------ R/vmfkde.tune.R | 43 +++++--------- R/watson.R | 2 R/wrapcauchy.R |only man/Directional-package.Rd | 12 ++-- man/ESAGdensity.Rd |only man/ESAGmle.Rd |only man/ESAGsim.Rd |only man/acg.Rd | 13 ++-- man/circ.summary.Rd | 5 + man/iag.mle.Rd | 2 man/knn.reg.Rd | 9 ++- man/knnreg.tune.Rd | 3 - man/mediandir.Rd | 7 +- man/spml.mle.Rd |only man/spml.reg.Rd | 7 +- man/wood.mle.Rd | 4 - 48 files changed, 281 insertions(+), 346 deletions(-)
Title: Evaluate Treatment Selection Biomarkers
Description: A suite of descriptive and inferential methods designed to evaluate one or more biomarkers for their ability to guide patient treatment recommendations. Package includes functions to assess the calibration of risk models; and plot, evaluate, and compare markers.
Author: Marshall Brown and Holly Janes
Maintainer: Marshall Brown <mdbrown@fhcrc.org>
Diff between TreatmentSelection versions 2.0.3 dated 2017-02-09 and 2.1.0 dated 2017-07-25
TreatmentSelection-2.0.3/TreatmentSelection/inst/example/tutorial.html |only TreatmentSelection-2.1.0/TreatmentSelection/DESCRIPTION | 8 TreatmentSelection-2.1.0/TreatmentSelection/MD5 | 61 ++-- TreatmentSelection-2.1.0/TreatmentSelection/NEWS | 15 + TreatmentSelection-2.1.0/TreatmentSelection/R/CDFdeltaPLOT.R | 4 TreatmentSelection-2.1.0/TreatmentSelection/R/SelectionImpactPLOT_gg.R | 2 TreatmentSelection-2.1.0/TreatmentSelection/R/boot.sample.R | 10 TreatmentSelection-2.1.0/TreatmentSelection/R/calibrate.trtsel.R | 140 +++++----- TreatmentSelection-2.1.0/TreatmentSelection/R/compare.trtsel.R | 12 TreatmentSelection-2.1.0/TreatmentSelection/R/estimate_measures.R | 43 +-- TreatmentSelection-2.1.0/TreatmentSelection/R/evaluate.trtsel.R | 46 +-- TreatmentSelection-2.1.0/TreatmentSelection/R/get.coef.R | 8 TreatmentSelection-2.1.0/TreatmentSelection/R/get.plot.ci.R | 4 TreatmentSelection-2.1.0/TreatmentSelection/R/get.summary.measures.R | 36 +- TreatmentSelection-2.1.0/TreatmentSelection/R/myplotcompare.trtsel.R | 8 TreatmentSelection-2.1.0/TreatmentSelection/R/one.boot.compare.R | 41 +- TreatmentSelection-2.1.0/TreatmentSelection/R/one.boot.eval.R | 16 - TreatmentSelection-2.1.0/TreatmentSelection/R/one.boot.plot.R | 34 +- TreatmentSelection-2.1.0/TreatmentSelection/R/plot.trtsel.R | 3 TreatmentSelection-2.1.0/TreatmentSelection/R/predcurvePLOT.R | 6 TreatmentSelection-2.1.0/TreatmentSelection/R/print.trtsel.R | 6 TreatmentSelection-2.1.0/TreatmentSelection/R/subroutines.R | 4 TreatmentSelection-2.1.0/TreatmentSelection/R/trteffectPLOT.R | 12 TreatmentSelection-2.1.0/TreatmentSelection/R/trtsel.R | 79 +++-- TreatmentSelection-2.1.0/TreatmentSelection/R/trtsel.boot.R | 16 - TreatmentSelection-2.1.0/TreatmentSelection/inst/example/tutorial.Rmd | 66 +++- TreatmentSelection-2.1.0/TreatmentSelection/man/calibrate.Rd |only TreatmentSelection-2.1.0/TreatmentSelection/man/calibrate.trtsel.Rd | 8 TreatmentSelection-2.1.0/TreatmentSelection/man/compare.trtsel.Rd | 1 TreatmentSelection-2.1.0/TreatmentSelection/man/evaluate.Rd |only TreatmentSelection-2.1.0/TreatmentSelection/man/evaluate.trtsel.Rd | 3 TreatmentSelection-2.1.0/TreatmentSelection/man/plot.trtsel.Rd | 1 TreatmentSelection-2.1.0/TreatmentSelection/man/trtsel.Rd | 16 - 33 files changed, 393 insertions(+), 316 deletions(-)
More information about TreatmentSelection at CRAN
Permanent link
Title: An Interface to IBGE's SIDRA API
Description: Allows the user to connect with IBGE's (Instituto Brasileiro de
Geografia e Estatistica, see <http://www.ibge.gov.br/> for more information)
SIDRA API in a flexible way. SIDRA is the acronym to "Sistema IBGE de
Recuperacao Automatica" and is the system where IBGE turns available
aggregate data from their researches.
Author: Renato Prado Siqueira [aut, cre]
Maintainer: Renato Prado Siqueira <rpradosiqueira@gmail.com>
Diff between sidrar versions 0.2.1 dated 2017-06-29 and 0.2.4 dated 2017-07-25
DESCRIPTION | 6 +-- MD5 | 17 ++++---- NEWS.md | 6 +++ R/get_sidra.R | 7 +++ R/search_sidra.R | 2 - inst/doc/Introduction_to_sidrar.R | 8 ++++ inst/doc/Introduction_to_sidrar.Rmd | 22 +++++++++++ inst/doc/Introduction_to_sidrar.html | 70 ++++++++++++++++++++++++++++------- vignettes/Introduction_to_sidrar.Rmd | 22 +++++++++++ vignettes/fig2.png |only 10 files changed, 133 insertions(+), 27 deletions(-)
Title: An Interface to DATASUS System
Description: It allows the user to retrieve the data from the systems of
DATASUS (SUS IT department related to the Brazilian Ministry of Health,
see <http://datasus.saude.gov.br/informacoes-de-saude/tabnet/> for more
information) much in the same way that is done in the online portal.
For now the package allows access to the SINASC and SIM's (ICD-10)
systems, that is, the 'Estatísticas Vitais'.
Author: Renato Prado Siqueira [aut, cre]
Maintainer: Renato Prado Siqueira <rpradosiqueira@gmail.com>
Diff between datasus versions 0.1.0 dated 2017-06-12 and 0.4.0 dated 2017-07-25
DESCRIPTION | 6 +-- MD5 | 48 ++++++++++++++++++++--------- NAMESPACE | 9 +++++ NEWS.md | 5 +++ R/sim_evita10_bruf.R |only R/sim_evita10_mun.R |only R/sim_evita10_uf.R |only R/sim_evitb10_bruf.R |only R/sim_evitb10_mun.R |only R/sim_evitb10_uf.R |only R/sim_inf10_bruf.R |only R/sim_inf10_mun.R |only R/sim_inf10_uf.R |only R/sim_obt10_bruf.R | 33 +++++++++----------- R/sim_obt10_mun.R | 55 ++++++++++++++++----------------- R/sim_obt10_uf.R | 43 ++++++++++++-------------- R/sinasc_nv_bruf.R | 34 ++++++++++---------- R/sinasc_nv_mun.R | 56 +++++++++++++++++----------------- R/sinasc_nv_uf.R | 42 ++++++++++++------------- README.md | 12 ++++++- inst/doc/Introduction_to_datasus.R | 2 - inst/doc/Introduction_to_datasus.Rmd | 10 ++++-- inst/doc/Introduction_to_datasus.html | 17 +++++++--- man/sim_evita10_bruf.Rd |only man/sim_evita10_mun.Rd |only man/sim_evita10_uf.Rd |only man/sim_evitb10_bruf.Rd |only man/sim_evitb10_mun.Rd |only man/sim_evitb10_uf.Rd |only man/sim_inf10_bruf.Rd |only man/sim_inf10_mun.Rd |only man/sim_inf10_uf.Rd |only man/sim_obt10_uf.Rd | 2 - vignettes/Introduction_to_datasus.Rmd | 10 ++++-- 34 files changed, 221 insertions(+), 163 deletions(-)
Title: Outlier Detection Using the Iterated RMCD Method of Cerioli
(2010)
Description: Implements the iterated RMCD method of Cerioli (2010)
for multivariate outlier detection via robust Mahalanobis distances. Also
provides the finite-sample RMCD method discussed in the paper, as well as
the methods provided in Hardin and Rocke (2005) <doi:10.1198/106186005X77685>
and Green and Martin (2017).
Author: Christopher G. Green [aut, cre],
R. Doug Martin [ths]
Maintainer: Christopher G. Green <christopher.g.green@gmail.com>
Diff between CerioliOutlierDetection versions 1.1.5 dated 2016-07-08 and 1.1.9 dated 2017-07-25
DESCRIPTION | 11 MD5 | 35 +- NAMESPACE | 20 - R/cerioli10.fsrmcd.test.r | 318 ++++++++++++------------ R/cerioli10.irmcd.test.r | 94 +++---- R/ch99AsymptoticDF.r | 176 ++++++------- R/hr05AdjustedDF.r | 116 ++++---- R/hr05CriticalValue.r | 68 ++--- R/hr05CutoffMvnormal.r | 72 ++--- R/zzz.r | 18 - README | 8 build |only man/CerioliOutlierDetection.Rd | 99 +++---- man/cerioli2010.fsrmcd.test.Rd | 380 ++++++++++++++-------------- man/cerioli2010.irmcd.test.Rd | 538 ++++++++++++++++++++--------------------- man/ch99AsymptoticDF.Rd | 134 +++++----- man/hr05AdjustedDF.Rd | 212 ++++++++-------- man/hr05CriticalValue.Rd | 114 ++++---- man/hr05CutoffMvnormal.Rd | 158 ++++++------ 19 files changed, 1290 insertions(+), 1281 deletions(-)
More information about CerioliOutlierDetection at CRAN
Permanent link
Title: Lightweight Biology Software Installer
Description: Can be used to install and download massive bioinformatics analysis softwares and databases, such as NGS reads mapping tools with its required databases.
Author: Jianfeng Li [aut, cre]
Maintainer: Jianfeng Li <lee_jianfeng@sjtu.edu.cn>
Diff between BioInstaller versions 0.1.2 dated 2017-06-23 and 0.2.0 dated 2017-07-25
ChangeLog | 25 DESCRIPTION | 6 MD5 | 60 +- NAMESPACE | 3 R/BioInstaller.R | 4 R/crawl.R |only R/docker.R |only R/install.R | 90 ++- R/install_utils.R | 6 R/utils_function.R | 8 README.md | 28 - inst/doc/BioInstaller.R | 30 - inst/doc/BioInstaller.Rmd | 65 +- inst/doc/BioInstaller.html | 761 ++++++++++++++++++---------- inst/doc/write_configuration_file.R | 4 inst/doc/write_configuration_file.Rmd | 52 + inst/doc/write_configuration_file.html | 675 +++++++++++++++--------- inst/extdata/docker.toml |only inst/extdata/github.toml | 18 inst/extdata/github_meta.toml |only inst/extdata/nongithub.toml | 61 +- inst/extdata/nongithub_databases.toml |only inst/extdata/nongithub_databases_blast.toml | 87 ++- inst/extdata/nongithub_databases_meta.toml | 4 inst/extdata/nongithub_meta.toml |only inst/extdata/parse_version.R | 34 + man/BioInstaller.Rd | 4 man/craw.all.versions.Rd |only man/docker.pull.Rd |only man/docker.search.Rd |only man/install.bioinfo.Rd | 11 man/install.github.Rd | 12 man/install.nongithub.Rd | 24 tests/testthat/test_docker.R |only vignettes/BioInstaller.Rmd | 65 +- vignettes/write_configuration_file.Rmd | 52 + 36 files changed, 1480 insertions(+), 709 deletions(-)