Title: R/Package Version Check
Description: Check latest release version of R and R package (both in 'CRAN', 'Bioconductor' or 'Github').
Author: Guangchuang Yu [aut, cre]
Maintainer: Guangchuang Yu <guangchuangyu@gmail.com>
Diff between rvcheck versions 0.0.9 dated 2017-07-10 and 0.1.0 dated 2018-05-22
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- NAMESPACE | 2 ++ R/utilities.R | 24 ++++++++++++++++++++++-- man/get_aes_var.Rd |only 5 files changed, 31 insertions(+), 8 deletions(-)
Title: Solvers for Large-Scale Eigenvalue and SVD Problems
Description: R interface to the 'Spectra' library
<https://spectralib.org/> for large-scale eigenvalue and SVD
problems. It is typically used to compute a few
eigenvalues/vectors of an n by n matrix, e.g., the k largest eigenvalues,
which is usually more efficient than eigen() if k << n. This package
provides the 'eigs()' function that does the similar job as in 'Matlab',
'Octave', 'Python SciPy' and 'Julia'. It also provides the 'svds()' function
to calculate the largest k singular values and corresponding
singular vectors of a real matrix. The matrix to be computed on can be
dense, sparse, or in the form of an operator defined by the user.
Author: Yixuan Qiu [aut, cre],
Jiali Mei [aut] (Function interface of matrix operation),
Gael Guennebaud [ctb] (Eigenvalue solvers from the 'Eigen' library),
Jitse Niesen [ctb] (Eigenvalue solvers from the 'Eigen' library)
Maintainer: Yixuan Qiu <yixuan.qiu@cos.name>
Diff between RSpectra versions 0.12-0 dated 2016-06-13 and 0.13-1 dated 2018-05-22
RSpectra-0.12-0/RSpectra/R/zzz.R |only RSpectra-0.12-0/RSpectra/inst/include/Spectra/CompInfo.h |only RSpectra-0.12-0/RSpectra/inst/include/Spectra/SelectionRule.h |only RSpectra-0.12-0/RSpectra/inst/include/Spectra/SimpleRandom.h |only RSpectra-0.12-0/RSpectra/vignettes/style.css |only RSpectra-0.13-1/RSpectra/DESCRIPTION | 24 RSpectra-0.13-1/RSpectra/MD5 | 120 +- RSpectra-0.13-1/RSpectra/NAMESPACE | 2 RSpectra-0.13-1/RSpectra/R/00_eigs.R | 28 RSpectra-0.13-1/RSpectra/R/10_eigs_real_gen.R | 14 RSpectra-0.13-1/RSpectra/R/20_eigs_real_sym.R | 14 RSpectra-0.13-1/RSpectra/R/30_svds.R | 10 RSpectra-0.13-1/RSpectra/build/vignette.rds |binary RSpectra-0.13-1/RSpectra/inst/NEWS.Rd | 34 RSpectra-0.13-1/RSpectra/inst/doc/introduction.Rmd | 15 RSpectra-0.13-1/RSpectra/inst/doc/introduction.html | 209 +-- RSpectra-0.13-1/RSpectra/inst/include/GenEigs.h | 2 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/ComplexShift.h | 2 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/ComplexShift_matrix.h | 9 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/ComplexShift_sparseMatrix.h | 5 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd.h | 4 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd_function.h | 4 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd_matrix.h | 4 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd_sparseMatrix.h | 9 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd_sym_matrix.h | 4 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/MatProd_sym_sparseMatrix.h | 7 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/RealShift.h | 2 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/RealShift_matrix.h | 13 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/RealShift_sparseMatrix.h | 5 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/RealShift_sym_matrix.h | 5 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/RealShift_sym_sparseMatrix.h | 5 RSpectra-0.13-1/RSpectra/inst/include/RMatOp/SVDOp.h | 8 RSpectra-0.13-1/RSpectra/inst/include/Spectra/GenEigsComplexShiftSolver.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/GenEigsRealShiftSolver.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/GenEigsSolver.h | 543 ++++------ RSpectra-0.13-1/RSpectra/inst/include/Spectra/LinAlg/DoubleShiftQR.h | 215 ++- RSpectra-0.13-1/RSpectra/inst/include/Spectra/LinAlg/TridiagEigen.h | 119 +- RSpectra-0.13-1/RSpectra/inst/include/Spectra/LinAlg/UpperHessenbergEigen.h | 115 +- RSpectra-0.13-1/RSpectra/inst/include/Spectra/LinAlg/UpperHessenbergQR.h | 419 ++++--- RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseCholesky.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseGenComplexShiftSolve.h | 27 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseGenMatProd.h | 23 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseGenRealShiftSolve.h | 23 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseSymMatProd.h | 23 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/DenseSymShiftSolve.h | 29 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseCholesky.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseGenMatProd.h | 27 RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseGenRealShiftSolve.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseRegularInverse.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseSymMatProd.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/SparseSymShiftSolve.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/MatOp/internal |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/SymEigsShiftSolver.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/SymEigsSolver.h | 493 +++------ RSpectra-0.13-1/RSpectra/inst/include/Spectra/SymGEigsSolver.h |only RSpectra-0.13-1/RSpectra/inst/include/Spectra/Util |only RSpectra-0.13-1/RSpectra/inst/include/SpectraC.h | 2 RSpectra-0.13-1/RSpectra/inst/include/SymEigs.h | 1 RSpectra-0.13-1/RSpectra/man/eigs.Rd | 48 RSpectra-0.13-1/RSpectra/man/svds.Rd | 28 RSpectra-0.13-1/RSpectra/src/Makevars | 4 RSpectra-0.13-1/RSpectra/src/Makevars.win | 4 RSpectra-0.13-1/RSpectra/src/eigs_gen.cpp | 6 RSpectra-0.13-1/RSpectra/src/eigs_sym.cpp | 5 RSpectra-0.13-1/RSpectra/src/matops_c.h | 8 RSpectra-0.13-1/RSpectra/src/register_routines.c | 54 RSpectra-0.13-1/RSpectra/vignettes/introduction.Rmd | 15 67 files changed, 1324 insertions(+), 1465 deletions(-)
Title: A System for Working with Templates
Description: Provides tools to work with template code and text in R. It aims to
provide a simple substitution mechanism for R-expressions inside these
templates. Templates can be written in other languages like 'SQL', can
simply be represented by characters in R, or can themselves be R-expressions
or functions.
Author: Sebastian Warnholz [aut, cre]
Maintainer: Sebastian Warnholz <wahani@gmail.com>
Diff between templates versions 0.2.0 dated 2017-06-22 and 0.3.0 dated 2018-05-22
templates-0.2.0/templates/R/helper.R |only templates-0.2.0/templates/R/utils.R |only templates-0.2.0/templates/R/warnings.R |only templates-0.3.0/templates/DESCRIPTION | 10 +-- templates-0.3.0/templates/LICENSE | 2 templates-0.3.0/templates/MD5 | 31 +++++---- templates-0.3.0/templates/NAMESPACE | 2 templates-0.3.0/templates/NEWS | 7 ++ templates-0.3.0/templates/R/NAMESPACE.R | 2 templates-0.3.0/templates/R/addAttr.R |only templates-0.3.0/templates/R/asCharacter.R |only templates-0.3.0/templates/R/templatePattern.R |only templates-0.3.0/templates/R/templateUtilities.R |only templates-0.3.0/templates/build/vignette.rds |binary templates-0.3.0/templates/inst/doc/Template_Programming_in_R.R | 2 templates-0.3.0/templates/inst/doc/Template_Programming_in_R.Rmd | 2 templates-0.3.0/templates/inst/doc/Template_Programming_in_R.html | 30 ++++----- templates-0.3.0/templates/man/utils.Rd | 4 - templates-0.3.0/templates/tests/testthat/test-utils.R | 32 +++++++++- templates-0.3.0/templates/vignettes/Template_Programming_in_R.Rmd | 2 20 files changed, 78 insertions(+), 48 deletions(-)
Title: R Interface for H2O Sparkling Water
Description: An extension package for 'sparklyr' that provides an R interface to
H2O Sparkling Water machine learning library (see <https://github.com/h2oai/sparkling-water> for more information).
Author: Navdeep Gill [aut, cre],
Erin LeDell [aut],
Michal Malohlava [aut],
Jakub Hava [aut],
JJ Allaire [aut],
H2O.ai [cph],
RStudio [cph]
Maintainer: Navdeep Gill <navdeep@h2o.ai>
Diff between rsparkling versions 0.2.3 dated 2018-03-08 and 0.2.4 dated 2018-05-22
DESCRIPTION | 7 MD5 | 38 NAMESPACE | 1 NEWS.md | 7 R/install_h2o.R | 80 R/package.R | 205 R/sysdata.rda |only tests/run-tests-local.sh | 2 tests/testthat.R | 35 tests/testthat/h2ologs/local-1527016315221 |only tests/testthat/h2ologs/local-1527016402141 |only tests/testthat/h2ologs/local-1527016428433 |only tests/testthat/h2ologs/local-1527016457798 |only tests/testthat/log4j.spark.log |18659 +++++++++++++++-------------- tests/testthat/log4j.spark.log.2017-09-18 |only 15 files changed, 10412 insertions(+), 8622 deletions(-)
Title: R-Friendly Threading in C++
Description: Provides a C++11-style thread class and thread pool that can safely
be interrupted from R.
Author: Thomas Nagler [aut, cre]
Maintainer: Thomas Nagler <mail@tnagler.com>
Diff between RcppThread versions 0.2.0 dated 2018-04-23 and 0.3.0 dated 2018-05-22
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 8 ++++++++ R/RcppExports.R | 4 ++++ inst/doc/RcppThread.Rmd | 9 ++++++--- inst/doc/RcppThread.html | 10 +++++++--- inst/include/RcppThread/ThreadPool.hpp | 16 ++++++++++++---- src/RcppExports.cpp | 10 ++++++++++ src/test.cpp | 28 ++++++++++++++++++++++++++-- tests/testthat/tests.R | 1 + vignettes/RcppThread.Rmd | 9 ++++++--- 11 files changed, 93 insertions(+), 28 deletions(-)
Title: Common Utilities for Other MOSAIC-Family Packages
Description: Common utilities used in other MOSAIC-family packages are
collected here.
Author: Randall Pruim <rpruim@calvin.edu>, Daniel T. Kaplan
<kaplan@macalester.edu>, Nicholas J. Horton <nhorton@amherst.edu>
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between mosaicCore versions 0.4.2 dated 2017-11-28 and 0.5.0 dated 2018-05-22
DESCRIPTION | 10 +- MD5 | 52 +++++++++++--- NAMESPACE | 59 ++++++++++++++++ NEWS.md | 22 ++++++ R/aggregate.R |only R/df_stats.R | 98 ++++++++++++++++++---------- R/dfapply.R |only R/ediff.R |only R/evalFormula.R |only R/fitdistr.R | 1 R/formula-utils.R | 41 +++++++++++ R/inspect.R |only R/interval-statistics.R |only R/logit.R |only R/makeFun.R | 3 R/msummary.R |only R/nmissing.R |only R/props-counts.R | 36 +++++++++- R/tally.R |only man/columns.Rd |only man/df_stats.Rd | 51 ++++++++++---- man/dfapply.Rd |only man/ediff.Rd |only man/evalFormula.Rd |only man/evalSubFormula.Rd |only man/inspect.Rd |only man/interval_statistics.Rd |only man/joinFrames.Rd |only man/logical2factor.Rd |only man/logit.Rd |only man/makeFun.Rd | 2 man/msummary.Rd |only man/n_missing.Rd |only man/prop.Rd |only man/props.Rd | 3 man/reop_formula.Rd |only man/tally.Rd |only tests/testthat/test-df-stats.R | 6 + tests/testthat/test-evalFormula.R |only tests/testthat/test-interval-calculations.R |only tests/testthat/test-tally.R |only 41 files changed, 314 insertions(+), 70 deletions(-)
Title: Estimating and Testing the Number of Interesting Components in
Linear Dimension Reduction
Description: For different linear dimension reduction methods like principal components analysis (PCA), independent components analysis (ICA) and supervised linear dimension reduction tests and estimates for the number of interesting components (ICs) are provided.
Author: Klaus Nordhausen, Hannu Oja, David E. Tyler, Joni Virta
Maintainer: Klaus Nordhausen <klaus.nordhausen@tuwien.ac.at>
Diff between ICtest versions 0.3 dated 2017-06-27 and 0.3-1 dated 2018-05-22
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/InternalLadleFunctions.R | 3 ++- R/ggplot.ictest.R | 12 +++++++++++- R/plot.ictest.R | 5 ++++- build/vignette.rds |binary inst/ChangeLog | 3 +++ man/ggplot.ictest.Rd | 13 +++++++++---- man/plot.ictest.Rd | 11 +++++++---- man/plot.ladle.Rd | 4 ++-- 10 files changed, 51 insertions(+), 26 deletions(-)
Title: Formula Interface to the Grammar of Graphics
Description: Provides a formula interface to 'ggplot2' graphics.
Author: Daniel Kaplan [aut],
Randall Pruim [aut, cre]
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between ggformula versions 0.6.2 dated 2018-02-06 and 0.7.0 dated 2018-05-22
ggformula-0.6.2/ggformula/man/ashplot.Rd |only ggformula-0.7.0/ggformula/DESCRIPTION | 11 ggformula-0.7.0/ggformula/MD5 | 113 ++-- ggformula-0.7.0/ggformula/NAMESPACE | 4 ggformula-0.7.0/ggformula/NEWS.md | 12 ggformula-0.7.0/ggformula/R/gf_dist.R | 97 ++- ggformula-0.7.0/ggformula/R/gf_function_helpers.R | 373 ++++++++------ ggformula-0.7.0/ggformula/R/gf_functions.R | 437 +++++++++++------ ggformula-0.7.0/ggformula/R/newplots.R | 9 ggformula-0.7.0/ggformula/build/vignette.rds |binary ggformula-0.7.0/ggformula/inst/doc/ggformula-blog.html | 10 ggformula-0.7.0/ggformula/inst/doc/ggformula.R | 42 + ggformula-0.7.0/ggformula/inst/doc/ggformula.Rmd | 71 ++ ggformula-0.7.0/ggformula/inst/doc/ggformula.html | 148 ++++- ggformula-0.7.0/ggformula/man/gf_area.Rd | 84 +-- ggformula-0.7.0/ggformula/man/gf_ash.Rd |only ggformula-0.7.0/ggformula/man/gf_bar.Rd | 89 ++- ggformula-0.7.0/ggformula/man/gf_blank.Rd | 51 - ggformula-0.7.0/ggformula/man/gf_boxplot.Rd | 103 +++- ggformula-0.7.0/ggformula/man/gf_col.Rd | 48 + ggformula-0.7.0/ggformula/man/gf_contour.Rd | 40 - ggformula-0.7.0/ggformula/man/gf_count.Rd | 48 + ggformula-0.7.0/ggformula/man/gf_crossbar.Rd | 49 + ggformula-0.7.0/ggformula/man/gf_curve.Rd | 62 +- ggformula-0.7.0/ggformula/man/gf_density.Rd | 69 +- ggformula-0.7.0/ggformula/man/gf_density_2d.Rd | 74 +- ggformula-0.7.0/ggformula/man/gf_dist.Rd | 12 ggformula-0.7.0/ggformula/man/gf_dotplot.Rd | 77 ++ ggformula-0.7.0/ggformula/man/gf_errorbar.Rd | 81 +-- ggformula-0.7.0/ggformula/man/gf_errorbarh.Rd | 47 + ggformula-0.7.0/ggformula/man/gf_fitdistr.Rd | 64 +- ggformula-0.7.0/ggformula/man/gf_freqpoly.Rd | 72 ++ ggformula-0.7.0/ggformula/man/gf_function.Rd | 4 ggformula-0.7.0/ggformula/man/gf_hex.Rd | 52 +- ggformula-0.7.0/ggformula/man/gf_histogram.Rd | 67 +- ggformula-0.7.0/ggformula/man/gf_jitter.Rd | 52 +- ggformula-0.7.0/ggformula/man/gf_line.Rd | 63 +- ggformula-0.7.0/ggformula/man/gf_linerange.Rd | 90 +-- ggformula-0.7.0/ggformula/man/gf_lines.Rd | 105 ++-- ggformula-0.7.0/ggformula/man/gf_point.Rd | 43 + ggformula-0.7.0/ggformula/man/gf_polygon.Rd |only ggformula-0.7.0/ggformula/man/gf_qq.Rd | 73 +- ggformula-0.7.0/ggformula/man/gf_quantile.Rd | 83 ++- ggformula-0.7.0/ggformula/man/gf_raster.Rd | 57 +- ggformula-0.7.0/ggformula/man/gf_rect.Rd | 48 + ggformula-0.7.0/ggformula/man/gf_ribbon.Rd | 81 +-- ggformula-0.7.0/ggformula/man/gf_rug.Rd | 118 +++- ggformula-0.7.0/ggformula/man/gf_segment.Rd | 51 + ggformula-0.7.0/ggformula/man/gf_smooth.Rd | 81 ++- ggformula-0.7.0/ggformula/man/gf_spline.Rd | 58 +- ggformula-0.7.0/ggformula/man/gf_spoke.Rd | 52 +- ggformula-0.7.0/ggformula/man/gf_step.Rd | 52 +- ggformula-0.7.0/ggformula/man/gf_text.Rd | 92 ++- ggformula-0.7.0/ggformula/man/gf_tile.Rd | 47 + ggformula-0.7.0/ggformula/man/gf_violin.Rd | 73 ++ ggformula-0.7.0/ggformula/man/ggformula-ggproto.Rd | 1 ggformula-0.7.0/ggformula/man/ggformula.Rd | 2 ggformula-0.7.0/ggformula/man/reexports.Rd | 2 ggformula-0.7.0/ggformula/vignettes/ggformula.Rmd | 71 ++ 59 files changed, 2657 insertions(+), 1258 deletions(-)
Title: Descriptive mAchine Learning EXplanations
Description: Machine Learning (ML) models are widely used and have various applications in classification
or regression. Models created with boosting, bagging, stacking or similar techniques are often
used due to their high performance, but such black-box models usually lack of interpretability.
'DALEX' package contains various explainers that help to understand the link between input variables and model output.
The single_variable() explainer extracts conditional response of a model as a function of a single selected variable.
It is a wrapper over packages 'pdp' and 'ALEPlot'.
The single_prediction() explainer attributes arts of model prediction to articular variables used in the model.
It is a wrapper over 'breakDown' package.
The variable_dropout() explainer assess variable importance based on consecutive permutations.
All these explainers can be plotted with generic plot() function and compared across different models.
Author: Przemyslaw Biecek [aut, cre]
Maintainer: Przemyslaw Biecek <przemyslaw.biecek@gmail.com>
Diff between DALEX versions 0.2.0 dated 2018-04-05 and 0.2.2 dated 2018-05-22
DESCRIPTION | 8 ++--- MD5 | 40 +++++++++++++++++------------ NAMESPACE | 1 NEWS.md | 17 +++++++++--- R/explain.R | 16 +++++++++-- R/plot_model_performance.R | 8 +++-- R/plot_single_prediction.R | 2 - R/plot_single_variable.R | 2 - R/single_prediction.R | 2 - R/single_variable.R | 12 ++++++-- R/variable_dropout.R | 1 man/explain.Rd | 10 +++++-- man/figures |only man/plot.model_performance_explainer.Rd | 5 ++- man/plot.prediction_breakdown_explainer.Rd | 2 - man/plot.variable_response_explainer.Rd | 2 - man/prediction_breakdown.Rd | 2 - man/variable_response.Rd | 2 - tests |only 19 files changed, 88 insertions(+), 44 deletions(-)
Title: Accessing and Processing a 'Mega2' Genetic Database
Description: Uses as input genetic data that have been reformatted
and stored in a 'SQLite' database; this database is initially
created by the standalone 'mega2' C++ program (available freely
from <https://watson.hgen.pitt.edu/register/>). Loads and
manipulates data frames containing genotype, phenotype, and family
information from the input 'SQLite' database, and decompresses
needed subsets of the genotype data, on the fly, in a memory
efficient manner. We have also created several more functions that
illustrate how to use the data frames as well as perform useful
tasks: these permit one to run the 'pedgene' package to carry out
gene-based association tests on family data using selected marker
subsets, to run the 'SKAT' package to carry out gene-based
association tests using selected marker subsets, to output the
'Mega2R' data as a VCF file and related files (for phenotype and
family data), and to convert the data frames into 'GenABEL'
gwaa.data-class objects.
Author: Robert V. Baron [aut],
Daniel E. Weeks [aut, cre],
University of Pittsburgh [cph]
Maintainer: Daniel E. Weeks <weeks@pitt.edu>
Diff between Mega2R versions 1.0.2 dated 2018-04-03 and 1.0.3 dated 2018-05-22
DESCRIPTION | 11 - MD5 | 33 ++- NAMESPACE | 21 +- R/mega2gdsfmt.R |only R/mega2genabel.R | 25 +- R/mega2genabelexternal.R | 44 +++- R/mega2genabeltst.R | 5 R/mega2rcreate.R | 14 + build/vignette.rds |binary inst/doc/mega2rtutorial.R | 14 + inst/doc/mega2rtutorial.Rmd | 42 +++- inst/doc/mega2rtutorial.html | 400 ++++++++++++++++--------------------------- man/Mega2ENVGenABEL.Rd | 1 man/Mega2GenABEL.Rd | 1 man/Mega2GenABELtst.Rd | 1 man/Mega2gdsfmt.Rd |only man/getAlleles.Rd |only man/mkAlleles.Rd |only man/uniqueFamMember.Rd |only vignettes/mega2rtutorial.Rmd | 42 +++- 20 files changed, 338 insertions(+), 316 deletions(-)
Title: C5.0 Decision Trees and Rule-Based Models
Description: C5.0 decision trees and rule-based models for pattern recognition that extend the work of Quinlan (1993, ISBN:1-55860-238-0).
Author: Max Kuhn [aut, cre],
Steve Weston [ctb],
Mark Culp [ctb],
Nathan Coulter [ctb],
Ross Quinlan [aut] (Author of imported C code),
RuleQuest Research [cph] (Copyright holder of imported C code),
Rulequest Research Pty Ltd. [cph] (Copyright holder of imported C code)
Maintainer: Max Kuhn <mxkuhn@gmail.com>
Diff between C50 versions 0.1.1 dated 2017-12-01 and 0.1.2 dated 2018-05-22
DESCRIPTION | 21 - MD5 | 17 - NAMESPACE | 3 R/as.party.C5.0.R | 117 ++++++++-- build/vignette.rds |binary inst/doc/C5.0.html | 390 +++++++++++++++++++++++++++------- inst/doc/Class_Probability_Calcs.R |only inst/doc/Class_Probability_Calcs.Rmd |only inst/doc/Class_Probability_Calcs.html |only man/as.party.C5.0.Rd |only src/implicitatt.c | 2 vignettes/Class_Probability_Calcs.Rmd |only 12 files changed, 437 insertions(+), 113 deletions(-)
Title: Kaplan-Meier Multiple Imputation for the Analysis of Cumulative
Incidence Functions in the Competing Risks Setting
Description: Performs a Kaplan-Meier multiple imputation to recover the missing potential censoring information from competing risks events, so that standard right-censored methods could be applied to the imputed data sets to perform analyses of the cumulative incidence functions (Allignol and Beyersmann, 2010 <doi:10.1093/biostatistics/kxq018>).
Author: Arthur Allignol <arthur.allignol@gmail.com>
Maintainer: Arthur Allignol <arthur.allignol@gmail.com>
Diff between kmi versions 0.5.3 dated 2017-09-26 and 0.5.4 dated 2018-05-22
ChangeLog | 6 + DESCRIPTION | 6 - MD5 | 12 +- R/kmi.R | 47 ++++++---- R/kmi.tdc.R | 27 ++--- tests/test.kmi.R | 33 ++++++- tests/test.kmi.Rout.save | 220 ++++++++++++++++++++++++++++++----------------- 7 files changed, 234 insertions(+), 117 deletions(-)
Title: The Conditional Probability Function of a Competing Event
Description: Permits to estimate the conditional probability function of a competing event, and to fit, using the temporal process regression or the pseudo-value approach, a proportional-odds model to the conditional probability function (or other models by specifying another link function). See <doi:10.1111/j.1467-9876.2010.00729.x>.
Author: Arthur Allignol
Maintainer: Arthur Allignol <arthur.allignol@gmail.com>
Diff between Cprob versions 1.4 dated 2017-09-25 and 1.4.1 dated 2018-05-22
Cprob-1.4.1/Cprob/DESCRIPTION | 6 - Cprob-1.4.1/Cprob/MD5 | 5 - Cprob-1.4.1/Cprob/tests/tests.Cprob.Rout.save | 92 +++++++++++++------------- Cprob-1.4/Cprob/man/Cprob-package.Rd |only 4 files changed, 51 insertions(+), 52 deletions(-)
Title: Automatic Codebooks from Survey Metadata Encoded in Attributes
Description: Easily automate the following tasks to describe data frames:
computing reliabilities (internal consistencies, retest, multilevel) for psychological scales,
summarise the distributions of scales and items graphically and using descriptive statistics,
combine this information with metadata (such as item labels and labelled values) that is derived from R attributes.
To do so, the package relies on 'rmarkdown' partials, so you can generate HTML, PDF, and Word documents. Codebooks
are also available as tables (CSV, Excel, etc.).
Author: Ruben Arslan [aut, cre]
Maintainer: Ruben Arslan <ruben.arslan@gmail.com>
Diff between codebook versions 0.5.8 dated 2018-03-21 and 0.5.9 dated 2018-05-22
DESCRIPTION | 13 MD5 | 37 NAMESPACE | 1 NEWS.md | 24 R/codebook.R | 57 R/correct_attributes.R | 49 R/plot_helpers.R | 135 - R/reliability.R | 22 R/rmarkdown_helpers.R | 49 README.md | 183 + inst/_codebook_item.Rmd | 82 inst/_codebook_items.Rmd | 2 inst/_codebook_scale.Rmd | 27 inst/_knit_print_psych.Rmd | 3 inst/doc/codebook.R | 172 + inst/doc/codebook.html | 4197 +++++++++++++++++++++++++++++++++++- inst/www/index.html | 2 man/aggregate_and_document_scale.Rd |only man/codebook.Rd | 7 man/plot_labelled.Rd | 3 20 files changed, 4738 insertions(+), 327 deletions(-)
Title: Functions and Data Sets for 'Applied Predictive Modeling'
Description: A few functions and several data set for the Springer book 'Applied Predictive Modeling'.
Author: Max Kuhn, Kjell Johnson
Maintainer: Max Kuhn <mxkuhn@gmail.com>
Diff between AppliedPredictiveModeling versions 1.1-6 dated 2014-07-25 and 1.1-7 dated 2018-05-22
DESCRIPTION | 17 +++-- MD5 | 23 ++++---- NAMESPACE | 5 + R/bookTheme.R | 145 ++++++++++++++++++++++++++------------------------- R/easyBoundaryFunc.R | 31 ++++++---- R/getPackages.R | 18 +++--- R/panels.R | 66 +++++++++++++---------- R/permuteRelief.R | 23 +++----- R/quadBoundaryFunc.R | 29 +++++----- R/scriptLocation.R | 5 + R/transparentTheme.R | 70 ++++++++++++------------ README.md |only inst/NEWS.Rd | 2 13 files changed, 230 insertions(+), 204 deletions(-)
More information about AppliedPredictiveModeling at CRAN
Permanent link
Title: Measures of the Sturdiness of Regression Coefficients
Description: Implements the s-values proposed by Ed. Leamer.
It provides a context-minimal approach for sensitivity analysis using extreme
bounds to assess the sturdiness of regression coefficients.
Author: Carlos Cinelli
Maintainer: Carlos Cinelli <carloscinelli@hotmail.com>
Diff between sValues versions 0.1.4 dated 2015-12-22 and 0.1.5 dated 2018-05-22
DESCRIPTION | 10 +++++----- MD5 | 27 ++++++++++++++------------- R/sValues.R | 21 +++++++++++---------- build/vignette.rds |binary inst/doc/sValues.pdf |binary man/coef.sValues.Rd | 9 ++++++--- man/economic_growth.Rd | 3 ++- man/plot.sValues.Rd | 5 ++--- man/print.sValues.Rd | 15 +++++---------- man/sValues-package.Rd | 1 - man/sValues.Rd | 10 ++++++---- man/str.sValues.Rd | 1 - man/summary.sValues.Rd | 1 - tools |only vignettes/references.bib | 44 ++++++++++++++++++++++++++++++-------------- 15 files changed, 81 insertions(+), 66 deletions(-)
Title: Network-Based Regularization for Generalized Linear Models
Description: Network-based regularization has achieved success in variable selection for
high-dimensional biological data due to its ability to incorporate correlations
among genomic features. This package provides procedures of network-based variable
selection for generalized linear models. Two recent additions are the robust network
regularization for the survival response and the network regularization for continuous
response. Functions for other regularization methods will be included in the forthcoming
upgraded versions.
Author: Jie Ren, Luann C. Jung, Yinhao Du, Cen Wu, Yu Jiang, Junhao Liu
Maintainer: Jie Ren <jieren@ksu.edu>
Diff between regnet versions 0.2.0 dated 2017-10-14 and 0.3.0 dated 2018-05-22
regnet-0.2.0/regnet/R/ElasticLogistic.R |only regnet-0.2.0/regnet/R/McpLogistic.R |only regnet-0.2.0/regnet/R/NetworkLogistic.R |only regnet-0.2.0/regnet/data/regnet.rda |only regnet-0.2.0/regnet/man/CV.ElasLogistic.Rd |only regnet-0.2.0/regnet/man/CV.McpLogistic.Rd |only regnet-0.2.0/regnet/man/CV.NetLogistic.Rd |only regnet-0.2.0/regnet/man/ElasLogistic.Rd |only regnet-0.2.0/regnet/man/McpLogistic.Rd |only regnet-0.2.0/regnet/man/NetLogistic.Rd |only regnet-0.2.0/regnet/src/regnet_init.c |only regnet-0.3.0/regnet/DESCRIPTION | 16 - regnet-0.3.0/regnet/MD5 | 64 ++++-- regnet-0.3.0/regnet/NAMESPACE | 9 regnet-0.3.0/regnet/R/ContCD.R |only regnet-0.3.0/regnet/R/ContCV.R |only regnet-0.3.0/regnet/R/LogitCD.R |only regnet-0.3.0/regnet/R/LogitCV.R |only regnet-0.3.0/regnet/R/RcppExports.R | 52 ++++- regnet-0.3.0/regnet/R/SurvCD.R |only regnet-0.3.0/regnet/R/SurvCV.R |only regnet-0.3.0/regnet/R/Utilities.R | 43 ++-- regnet-0.3.0/regnet/R/cv.regnet.R |only regnet-0.3.0/regnet/R/example.R |only regnet-0.3.0/regnet/R/print.regnet.R |only regnet-0.3.0/regnet/R/regnet.R | 103 ++++++++++ regnet-0.3.0/regnet/README.md | 72 +++++-- regnet-0.3.0/regnet/data/LogisticExample.rda |only regnet-0.3.0/regnet/data/SurvExample.rda |only regnet-0.3.0/regnet/data/datalist |only regnet-0.3.0/regnet/man/cv.regnet.Rd |only regnet-0.3.0/regnet/man/print.cv.regnet.Rd |only regnet-0.3.0/regnet/man/regnet.Rd | 88 ++++++++- regnet-0.3.0/regnet/man/rgn.Rd |only regnet-0.3.0/regnet/src/ContCD.cpp |only regnet-0.3.0/regnet/src/ContCD.h |only regnet-0.3.0/regnet/src/ContGrid.cpp |only regnet-0.3.0/regnet/src/LogitCD.cpp | 7 regnet-0.3.0/regnet/src/LogitGrid.cpp |only regnet-0.3.0/regnet/src/NonRobust.cpp |only regnet-0.3.0/regnet/src/NonRobust.h |only regnet-0.3.0/regnet/src/QR.cpp |only regnet-0.3.0/regnet/src/QR.h |only regnet-0.3.0/regnet/src/RcppExports.cpp | 263 +++++++++++++++++++++++++-- regnet-0.3.0/regnet/src/Robust.cpp |only regnet-0.3.0/regnet/src/Robust.h |only regnet-0.3.0/regnet/src/RunCont.cpp |only regnet-0.3.0/regnet/src/RunCont.h |only regnet-0.3.0/regnet/src/RunLogistic.cpp | 39 +++- regnet-0.3.0/regnet/src/RunLogistic.h |only regnet-0.3.0/regnet/src/SurvCD.cpp |only regnet-0.3.0/regnet/src/SurvCD.h |only regnet-0.3.0/regnet/src/SurvGrid.cpp |only regnet-0.3.0/regnet/src/Utilities.cpp |only regnet-0.3.0/regnet/src/Utilities.h |only 55 files changed, 648 insertions(+), 108 deletions(-)
Title: EMF Graphics Output Device
Description: Output graphics to EMF+/EMF.
Author: Philip Johnson
Maintainer: Philip Johnson <plfj@umd.edu>
Diff between devEMF versions 3.6 dated 2017-07-24 and 3.6-1 dated 2018-05-22
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS | 4 ++++ cleanup | 2 +- man/emf.Rd | 3 ++- src/fontmetrics.h | 14 +++++++++----- 6 files changed, 25 insertions(+), 16 deletions(-)
Title: Amdahl's Profiler, Directed Optimization Made Easy
Description: Assists the evaluation of whether and
where to focus code optimization, using Amdahl's law and visual aids
based on line profiling. Amdahl's profiler organizes profiling output
files (including memory profiling) in a visually appealing way.
It is meant to help to balance development
vs. execution time by helping to identify the most promising sections
of code to optimize and projecting potential gains. The package is
an addition to R's standard profiling tools and is not a wrapper for them.
Author: Marco D. Visser
Maintainer: Marco D. Visser <marco.d.visser@gmail.com>
Diff between aprof versions 0.3.9 dated 2017-12-04 and 0.4.1 dated 2018-05-22
DESCRIPTION | 10 +++++----- MD5 | 2 +- 2 files changed, 6 insertions(+), 6 deletions(-)
Title: Similarity and Distance Quantification Between Probability
Functions
Description: Computes 46 optimized distance and similarity measures for comparing probability functions. These comparisons between probability functions have their foundations in a broad range of scientific disciplines from mathematics to ecology. The aim of this package is to provide a core framework for clustering, classification, statistical inference, goodness-of-fit, non-parametric statistics, information theory, and machine learning tasks that are based on comparing univariate or multivariate probability functions.
Author: Hajk-Georg Drost [aut, cre] (<https://orcid.org/0000-0002-1567-306X>>)
Maintainer: Hajk-Georg Drost <hgd23@cam.ac.uk>
Diff between philentropy versions 0.1.0 dated 2018-04-10 and 0.2.0 dated 2018-05-22
DESCRIPTION | 10 MD5 | 52 +- NEWS.md | 10 R/JSD.R | 4 R/distance.R | 7 R/est.prob.R | 1 R/gJSD.R | 4 README.md | 66 ++- build/vignette.rds |binary inst/doc/Information_Theory.Rmd | 35 - inst/doc/Information_Theory.html | 34 - inst/doc/Introduction.Rmd | 17 inst/doc/Introduction.html | 15 man/JSD.Rd | 4 man/gJSD.Rd | 2 src/distances.h | 429 ++++++++++++++++--- tests/testthat/test-InformationTheory.R | 2 tests/testthat/test-dist-canberra.R |only tests/testthat/test-dist-chebyshev.R |only tests/testthat/test-dist-czekanowski.R |only tests/testthat/test-dist-euclidean.R |only tests/testthat/test-dist-gower.R |only tests/testthat/test-dist-intersection.R |only tests/testthat/test-dist-kulczynski_d.R |only tests/testthat/test-dist-lorentzian.R |only tests/testthat/test-dist-manhattan.R |only tests/testthat/test-dist-minkowski.R |only tests/testthat/test-dist-non_intersecting.R |only tests/testthat/test-dist-soergel.R |only tests/testthat/test-dist-sorensen.R |only tests/testthat/test-dist-wavehedges.R |only tests/testthat/test-distances.R | 607 +++++----------------------- vignettes/Information_Theory.Rmd | 35 - vignettes/Introduction.Rmd | 17 34 files changed, 663 insertions(+), 688 deletions(-)
Title: Marginal Effects for Model Objects
Description: An R port of Stata's 'margins' command, which can be used to
calculate marginal (or partial) effects from model objects.
Author: Thomas J. Leeper [aut, cre] (<https://orcid.org/0000-0003-4097-6326>>),
Jeffrey Arnold [ctb],
Vincent Arel-Bundock [ctb]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>
Diff between margins versions 0.3.20 dated 2018-04-24 and 0.3.23 dated 2018-05-22
DESCRIPTION | 20 ++++++------ MD5 | 52 ++++++++++++++++--------------- NAMESPACE | 3 + NEWS.md | 12 +++++++ R/find_terms_in_model.R | 36 ++++++++++++++++++--- R/get_effect_variances.R | 13 ++++++- R/gradient_factory.R | 29 ----------------- R/marginal_effects.R | 8 ++-- R/marginal_effects_default.R | 1 R/marginal_effects_merMod.R | 36 ++++++++------------- R/margins.R | 20 +++++------- R/margins_loess.R | 1 R/margins_merMod.R | 61 +++++++++++++++++++++++++++++-------- R/print.R | 2 - R/reset_coefs.R |only R/summary.R | 4 +- inst/doc/Introduction.html | 18 +++++----- inst/doc/Stata.html | 4 +- inst/doc/TechnicalDetails.pdf |binary man/marginal_effects.Rd | 15 ++++++--- man/margins.Rd | 36 +++++++++++++-------- tests/testthat/tests-core.R | 27 +++++++++++----- tests/testthat/tests-edge-cases.R | 9 ++++- tests/testthat/tests-golder.R | 2 - tests/testthat/tests-methods.R | 52 +++++++++++++++++++++++++++++++ tests/testthat/tests-plotting.R | 1 tests/testthat/tests-reset_coefs.R |only tests/testthat/tests-subset.R | 10 ++++-- 28 files changed, 306 insertions(+), 166 deletions(-)
Title: Conditional Akaike Information Criterion for 'lme4'
Description: Provides functions for the estimation of the conditional Akaike
information in generalized mixed-effect models fitted with (g)lmer()
from 'lme4'.
Author: Benjamin Saefken and David Ruegamer, with contributions from Sonja
Greven and Thomas Kneib
Maintainer: David Ruegamer <david.ruegamer@gmail.com>
Diff between cAIC4 versions 0.3 dated 2018-03-21 and 0.4 dated 2018-05-22
DESCRIPTION | 8 ++-- MD5 | 11 +++-- NAMESPACE | 1 R/stepcAIC.R | 2 - build |only inst/CITATION | 2 - man/cAIC4-package.Rd | 94 +++++++++++++++++++++++---------------------------- 7 files changed, 56 insertions(+), 62 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-01-06 1.0-1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-06-14 1.1.0
2017-05-27 1.0.1
2017-05-09 1.0.0
Title: Data to Accompany Smithson & Merkle, 2013
Description: Contains data files to accompany Smithson & Merkle (2013), Generalized Linear Models for Categorical and Continuous Limited Dependent Variables.
Author: Ed Merkle and Michael Smithson
Maintainer: Ed Merkle <merklee@missouri.edu>
Diff between smdata versions 1.1 dated 2013-09-10 and 1.2 dated 2018-05-22
smdata-1.1/smdata/man/smdata-package.Rd |only smdata-1.2/smdata/DESCRIPTION | 10 +++++----- smdata-1.2/smdata/MD5 | 5 ++--- smdata-1.2/smdata/NEWS | 3 +++ 4 files changed, 10 insertions(+), 8 deletions(-)
Title: Quantile Universal Threshold
Description: Thresholding based tests for null hypothesis of the form A beta =c, and the Quantile Universal Threshold (QUT) for GLM-lasso and Square-root lasso to obtain a sparse model
with a good compromise between high true positive rate and low false discovery rate.
Author: Jairo Diaz-Rodriguez, Sylvain Sardy, Caroline Giacobino, Nick Hengartner.
Maintainer: Jairo Diaz-Rodriguez<jairo.diaz@unige.ch>
Diff between qut versions 2.0 dated 2018-01-29 and 2.1 dated 2018-05-22
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- NAMESPACE | 2 +- R/affinelassotest.R | 27 +++++++++++++++++++++------ R/lambdaqut.R | 2 +- R/processX.R | 7 +++++++ R/ztf.R | 21 ++++++++++++++++----- man/affinelassotest.Rd | 10 +++++++--- 8 files changed, 65 insertions(+), 28 deletions(-)
Title: 'ggplot2' Based Plots with Statistical Details
Description: Extension of 'ggplot2', 'ggstatsplot' creates graphics with details from statistical tests
(parametric, non-parametric, or robust) included in the plots themselves. It is targeted primarily at
behavioral sciences community to provide a one-line code to generate information-rich plots for
statistical analysis of continuous (violin plots, scatterplots, histograms) or categorical (pie charts) data.
Author: Indrajeet Patil [aut, cre] (<https://orcid.org/0000-0003-1995-6531>>)
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between ggstatsplot versions 0.0.2 dated 2018-04-28 and 0.0.3 dated 2018-05-22
ggstatsplot-0.0.2/ggstatsplot/R/helpers.R |only ggstatsplot-0.0.2/ggstatsplot/man/figures/README-combine_plots_purrr1-1.png |only ggstatsplot-0.0.2/ggstatsplot/man/figures/README-combine_plots_purrr2-1.png |only ggstatsplot-0.0.2/ggstatsplot/man/figures/README-gghistostats-1.png |only ggstatsplot-0.0.2/ggstatsplot/man/figures/README-theme_mprl-1.png |only ggstatsplot-0.0.2/ggstatsplot/man/figures/README-theme_mprl-2.png |only ggstatsplot-0.0.2/ggstatsplot/man/ggstatsplot.Rd |only ggstatsplot-0.0.3/ggstatsplot/DESCRIPTION | 22 ggstatsplot-0.0.3/ggstatsplot/MD5 | 124 +- ggstatsplot-0.0.3/ggstatsplot/NAMESPACE | 42 ggstatsplot-0.0.3/ggstatsplot/NEWS.md | 48 + ggstatsplot-0.0.3/ggstatsplot/R/combine_plots.R | 25 ggstatsplot-0.0.3/ggstatsplot/R/ggbetweenstats.R | 399 +++++---- ggstatsplot-0.0.3/ggstatsplot/R/ggcorrmat.R | 426 ++++++---- ggstatsplot-0.0.3/ggstatsplot/R/gghistostats.R | 415 +++++---- ggstatsplot-0.0.3/ggstatsplot/R/ggpiestats.R | 102 -- ggstatsplot-0.0.3/ggstatsplot/R/ggscatterstats.R | 152 +-- ggstatsplot-0.0.3/ggstatsplot/R/ggstatsplot.R | 7 ggstatsplot-0.0.3/ggstatsplot/R/global_vars.R |only ggstatsplot-0.0.3/ggstatsplot/R/grouped_ggbetweenstats.R |only ggstatsplot-0.0.3/ggstatsplot/R/grouped_ggcorrmat.R |only ggstatsplot-0.0.3/ggstatsplot/R/grouped_gghistostats.R | 176 ++-- ggstatsplot-0.0.3/ggstatsplot/R/grouped_ggpiestats.R |only ggstatsplot-0.0.3/ggstatsplot/R/grouped_ggscatterstats.R |only ggstatsplot-0.0.3/ggstatsplot/R/helpers_graphics.R |only ggstatsplot-0.0.3/ggstatsplot/R/helpers_stats.R |only ggstatsplot-0.0.3/ggstatsplot/R/theme_mprl.R | 4 ggstatsplot-0.0.3/ggstatsplot/README.md | 402 +++------ ggstatsplot-0.0.3/ggstatsplot/build/vignette.rds |binary ggstatsplot-0.0.3/ggstatsplot/inst/doc/combine_plots.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/combine_plots.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/combine_plots.html |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggbetweenstats.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggbetweenstats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggbetweenstats.html |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggcorrmat.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggcorrmat.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggcorrmat.html |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/gghistostats.R | 91 ++ ggstatsplot-0.0.3/ggstatsplot/inst/doc/gghistostats.Rmd | 157 +++ ggstatsplot-0.0.3/ggstatsplot/inst/doc/gghistostats.html | 279 ++++-- ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggpiestats.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggpiestats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggpiestats.html |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggscatterstats.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggscatterstats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/ggscatterstats.html |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/theme_mprl.R |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/theme_mprl.Rmd |only ggstatsplot-0.0.3/ggstatsplot/inst/doc/theme_mprl.html |only ggstatsplot-0.0.3/ggstatsplot/man/check_outlier.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/combine_plots.Rd | 16 ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggbetweenstats1-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggbetweenstats2-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggbetweenstats3-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggcorrmat1-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-gghistostats1-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-gghistostats2-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-gghistostats3-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggpiestats2-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggscatterstats1-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/figures/README-ggscatterstats2-1.png |binary ggstatsplot-0.0.3/ggstatsplot/man/ggbetweenstats.Rd | 60 + ggstatsplot-0.0.3/ggstatsplot/man/ggcorrmat.Rd | 79 + ggstatsplot-0.0.3/ggstatsplot/man/gghistostats.Rd | 76 + ggstatsplot-0.0.3/ggstatsplot/man/ggpiestats.Rd | 9 ggstatsplot-0.0.3/ggstatsplot/man/ggscatterstats.Rd | 52 - ggstatsplot-0.0.3/ggstatsplot/man/ggstatsplot-package.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/grouped_ggbetweenstats.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/grouped_ggcorrmat.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/grouped_gghistostats.Rd | 84 + ggstatsplot-0.0.3/ggstatsplot/man/grouped_ggpiestats.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/grouped_ggscatterstats.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/grouped_proptest.Rd | 5 ggstatsplot-0.0.3/ggstatsplot/man/legend_title_margin.Rd | 5 ggstatsplot-0.0.3/ggstatsplot/man/signif_column.Rd | 2 ggstatsplot-0.0.3/ggstatsplot/man/theme_corrmat.Rd |only ggstatsplot-0.0.3/ggstatsplot/man/theme_mprl.Rd | 2 ggstatsplot-0.0.3/ggstatsplot/man/theme_pie.Rd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/combine_plots.Rmd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/ggbetweenstats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/ggcorrmat.Rmd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/gghistostats.Rmd | 157 +++ ggstatsplot-0.0.3/ggstatsplot/vignettes/ggpiestats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/ggscatterstats.Rmd |only ggstatsplot-0.0.3/ggstatsplot/vignettes/theme_mprl.Rmd |only 86 files changed, 2100 insertions(+), 1318 deletions(-)
Title: FastPCS Robust Fit of Multivariate Location and Scatter
Description: The FastPCS algorithm of Vakili and Schmitt (2014) <doi:10.1016/j.csda.2013.07.021> for robust estimation of multivariate location and scatter and multivariate outliers detection.
Author: Kaveh Vakili [aut, cre]
Maintainer: Kaveh Vakili <vakili.kaveh.email@gmail.com>
Diff between FastPCS versions 0.1.2 dated 2015-01-07 and 0.1.3 dated 2018-05-22
DESCRIPTION | 10 +++++----- MD5 | 7 ++++--- NAMESPACE | 6 +++++- man/plot.FastPCS.Rd | 2 +- src/init.c |only 5 files changed, 15 insertions(+), 10 deletions(-)
Title: FastHCS Robust Algorithm for Principal Component Analysis
Description: The FastHCS algorithm of Schmitt and Vakili (2014) <doi:10.1007/s11222-015-9602-5> for high-dimensional, robust PCA modelling and associated outlier detection and diagnostic tools.
Author: Kaveh Vakili [aut, cre]
Maintainer: Kaveh Vakili <vakili.kaveh.email@gmail.com>
Diff between FastHCS versions 0.0.5 dated 2015-05-19 and 0.0.6 dated 2018-05-22
DESCRIPTION | 13 + MD5 | 13 + NAMESPACE | 3 R/FastHCS.R | 369 ++++++++++++++++++++++++++------------------------------ man/FHCSpsdo.Rd | 4 man/FastHCS.Rd | 4 src/FastHCS.cpp | 9 + src/init.c |only 8 files changed, 204 insertions(+), 211 deletions(-)
Title: 'DBHYDRO' Hydrologic and Water Quality Data
Description: Client for programmatic access to the South Florida Water
Management District's 'DBHYDRO' database at
<https://www.sfwmd.gov/science-data/dbhydro>, with functions
for accessing hydrologic and water quality data.
Author: Joseph Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>>)
Maintainer: Joseph Stachelek <stachel2@msu.edu>
Diff between dbhydroR versions 0.2-4 dated 2017-10-30 and 0.2-5 dated 2018-05-22
dbhydroR-0.2-4/dbhydroR/inst/doc/dbhydroR.Rnw |only dbhydroR-0.2-4/dbhydroR/inst/doc/dbhydroR.pdf |only dbhydroR-0.2-4/dbhydroR/inst/doc/dbhydroR.synctex.gz |only dbhydroR-0.2-4/dbhydroR/vignettes/Rplot.png |only dbhydroR-0.2-4/dbhydroR/vignettes/Sweavel.sty |only dbhydroR-0.2-4/dbhydroR/vignettes/dbhydroR.Rnw |only dbhydroR-0.2-5/dbhydroR/DESCRIPTION | 15 - dbhydroR-0.2-5/dbhydroR/MD5 | 25 -- dbhydroR-0.2-5/dbhydroR/NEWS.md | 59 ++-- dbhydroR-0.2-5/dbhydroR/R/dbhydro_get.R | 9 dbhydroR-0.2-5/dbhydroR/README.md | 10 dbhydroR-0.2-5/dbhydroR/build/vignette.rds |binary dbhydroR-0.2-5/dbhydroR/inst/CITATION | 2 dbhydroR-0.2-5/dbhydroR/inst/doc/dbhydroR.R | 211 +++++------------ dbhydroR-0.2-5/dbhydroR/inst/doc/dbhydroR.Rmd |only dbhydroR-0.2-5/dbhydroR/inst/doc/dbhydroR.html |only dbhydroR-0.2-5/dbhydroR/tests/testthat/test-getdbkey.R | 10 dbhydroR-0.2-5/dbhydroR/vignettes/dbhydroR.Rmd |only 18 files changed, 142 insertions(+), 199 deletions(-)
Title: Create Cartograms with R
Description: Construct continuous and non-contiguous area cartograms.
Author: Sebastian Jeworutzki [aut, cre]
(<https://orcid.org/0000-0002-2671-5253>>),
Timothee Giraud [ctb],
Nicolas Lambert [ctb],
Roger Bivand [cph],
Edzer Pebesma [cph],
Jakub Nowosad [ctb] (<https://orcid.org/0000-0002-1057-3721>>)
Maintainer: Sebastian Jeworutzki <sebastian.jeworutzki@ruhr-uni-bochum.de>
Diff between cartogram versions 0.0.2 dated 2016-09-28 and 0.0.3 dated 2018-05-22
DESCRIPTION | 22 +++--- MD5 | 16 ++-- NAMESPACE | 15 ++++ R/cartogram.R | 153 +++++++++++++++++++++++++++++++++++++++++++++-- R/nc_cartogram.R | 41 ++++++++++-- README.md | 36 +++++++++-- man/cartogram.Rd | 40 ++++++++++-- man/checkPolygonsGEOS.Rd | 1 man/nc_cartogram.Rd | 34 ++++++++-- 9 files changed, 312 insertions(+), 46 deletions(-)
Title: Connecting R and 'Raven' Sound Analysis Software
Description: A tool to exchange data between R and 'Raven' sound analysis software <http://www.birds.cornell.edu/brp/raven/RavenOverview.html> (Cornell Lab of Ornithology). Functions work on data formats compatible with the R package 'warbleR'.
Author: Marcelo Araya-Salas
Maintainer: Marcelo Araya-Salas <araya-salas@cornell.edu>
Diff between Rraven versions 1.0.2 dated 2018-03-11 and 1.0.3 dated 2018-05-22
DESCRIPTION | 11 ++-- MD5 | 42 +++++++++--------- NAMESPACE | 3 - NEWS.md | 10 +++- R/Rraven-package.R | 12 +++-- R/exp_raven.R | 44 +++++++++++++----- R/extract_ts.R | 23 ++++++--- R/imp_raven.R | 82 ++++++----------------------------- R/imp_syrinx.R | 19 +++++--- R/match_wav_case.R | 6 -- R/raven_batch_detec.R | 2 R/relabel_colms.R | 2 R/to_sound_selection.R |only build/vignette.rds |binary data/selection_files.rda |binary inst/doc/Rraven.html | 107 +++++++++++++++++++++++++++------------------- man/Rraven.Rd | 10 +++- man/exp_raven.Rd | 9 +++ man/extract_ts.Rd | 7 ++- man/imp_raven.Rd | 6 +- man/imp_syrinx.Rd | 7 ++- man/match_wav_case.Rd | 6 -- man/to_sound_selection.Rd |only 23 files changed, 220 insertions(+), 188 deletions(-)
Title: Modelling Microbial Populations
Description: Modelling interacting microbial populations - example applications
include human gut microbiota, rumen microbiota and phytoplankton. Solves a
system of ordinary differential equations to simulate microbial growth and
resource uptake over time.
Author: Helen Kettle [aut, cre]
Maintainer: Helen Kettle <Helen.Kettle@bioss.ac.uk>
Diff between microPop versions 1.3 dated 2017-08-04 and 1.4 dated 2018-05-22
DESCRIPTION | 10 +- MD5 | 146 ++++++++++++++++++------------------- R/getStrainPHcorners.R | 18 +++- R/makeParamMatrixS.R | 4 - R/microPopModel.R | 4 - R/quickPlot.R | 14 +-- build/vignette.rds |binary inst/DemoFiles/phyto.R | 8 +- man/Acetogens.Rd | 1 man/Bacteroides.Rd | 1 man/ButyrateProducers1.Rd | 1 man/ButyrateProducers2.Rd | 1 man/ButyrateProducers3.Rd | 1 man/LactateProducers.Rd | 1 man/MFG.Rd | 1 man/Methanogens.Rd | 1 man/NoButyFibreDeg.Rd | 1 man/NoButyStarchDeg.Rd | 1 man/PropionateProducers.Rd | 1 man/Xaa.Rd | 1 man/Xh2.Rd | 1 man/Xsu.Rd | 1 man/applyTraitTradeOffs.Rd | 1 man/assignNAsToMFGs.Rd | 1 man/assignStrainTraits.Rd | 1 man/checkResInfo.Rd | 1 man/checkSolution.Rd | 1 man/checkStoichiom.Rd | 1 man/combineGrowthLimFuncDefault.Rd | 3 man/combinePathsFuncDefault.Rd | 3 man/createDF.Rd | 1 man/derivsDefault.Rd | 1 man/entryRateFuncDefault.Rd | 3 man/extraGrowthLimFuncDefault.Rd | 3 man/getAllResources.Rd | 1 man/getGroupName.Rd | 1 man/getKeyRes.Rd | 1 man/getNonBoostFrac.Rd | 1 man/getNumPaths.Rd | 1 man/getPHcorners.Rd | 1 man/getStrainPHcorners.Rd | 1 man/getStrainParamsFromFile.Rd | 1 man/getValues.Rd | 1 man/growthLimFuncDefault.Rd | 3 man/makeInflowFromSoln.Rd | 1 man/makeParamMatrixG.Rd | 1 man/makeParamMatrixS.Rd | 1 man/massBalanceFuncDefault.Rd | 3 man/microPop-package.Rd | 9 +- man/microPopModel.Rd | 1 man/microbeSysInfo.Rd | 1 man/microbeSysInfoHuman.Rd | 1 man/microbeSysInfoRumen.Rd | 1 man/pHFuncDefault.Rd | 3 man/pHLimFuncDefault.Rd | 3 man/pHcentreOfMass.Rd | 1 man/plotTraitChange.Rd | 1 man/productionFuncDefault.Rd | 3 man/quickPlot.Rd | 5 - man/rateFuncsDefault.Rd | 3 man/removalRateFuncDefault.Rd | 3 man/replaceListItems.Rd | 1 man/resourceSysInfo.Rd | 1 man/resourceSysInfoHuman.Rd | 1 man/resourceSysInfoRumen.Rd | 1 man/runMicroPopExample.Rd | 1 man/strainParams.Rd | 1 man/subsetFunc.Rd | 1 man/systemInfoMicrobesPhyto.Rd | 1 man/systemInfoMicrobesVirus.Rd | 1 man/systemInfoResourcesPhyto.Rd | 1 man/systemInfoResourcesVirus.Rd | 1 man/uptakeFuncDefault.Rd | 3 man/waterUptakeRatio.Rd | 1 74 files changed, 128 insertions(+), 178 deletions(-)
Title: Latent Variable Analysis
Description: Fit a variety of latent variable models, including confirmatory
factor analysis, structural equation modeling and latent growth curve models.
Author: Yves Rosseel [aut, cre],
Daniel Oberski [ctb],
Jarrett Byrnes [ctb],
Leonard Vanbrabant [ctb],
Victoria Savalei [ctb],
Ed Merkle [ctb],
Michael Hallquist [ctb],
Mijke Rhemtulla [ctb],
Myrsini Katsikatsou [ctb],
Mariska Barendse [ctb],
Michael Chow [ctb],
Terrence D. Jorgensen [ctb]
Maintainer: Yves Rosseel <Yves.Rosseel@UGent.be>
Diff between lavaan versions 0.5-23.1097 dated 2017-02-24 and 0.6-1 dated 2018-05-22
lavaan-0.5-23.1097/lavaan/R/lav_fsr_croon.R |only lavaan-0.5-23.1097/lavaan/man/fsr.Rd |only lavaan-0.6-1/lavaan/DESCRIPTION | 13 lavaan-0.6-1/lavaan/MD5 | 224 +-- lavaan-0.6-1/lavaan/NAMESPACE | 40 lavaan-0.6-1/lavaan/R/00class.R | 12 lavaan-0.6-1/lavaan/R/01RefClass_01lavOptim.R | 18 lavaan-0.6-1/lavaan/R/01RefClass_02lavML.R | 6 lavaan-0.6-1/lavaan/R/ctr_estfun.R | 5 lavaan-0.6-1/lavaan/R/ctr_pml_plrt.R | 61 - lavaan-0.6-1/lavaan/R/ctr_pml_plrt2.R | 12 lavaan-0.6-1/lavaan/R/ctr_pml_plrt_nested.R | 44 lavaan-0.6-1/lavaan/R/lav_bootstrap.R | 10 lavaan-0.6-1/lavaan/R/lav_cor.R | 68 - lavaan-0.6-1/lavaan/R/lav_data.R | 435 +++++-- lavaan-0.6-1/lavaan/R/lav_dataframe.R | 6 lavaan-0.6-1/lavaan/R/lav_fit_measures.R | 342 +++-- lavaan-0.6-1/lavaan/R/lav_fsr.R |only lavaan-0.6-1/lavaan/R/lav_h1_implied.R |only lavaan-0.6-1/lavaan/R/lav_h1_logl.R |only lavaan-0.6-1/lavaan/R/lav_lavaanList_methods.R | 39 lavaan-0.6-1/lavaan/R/lav_lavaanList_simulate.R | 72 - lavaan-0.6-1/lavaan/R/lav_matrix.R | 181 ++- lavaan-0.6-1/lavaan/R/lav_model.R | 63 - lavaan-0.6-1/lavaan/R/lav_model_compute.R | 53 lavaan-0.6-1/lavaan/R/lav_model_estimate.R | 56 lavaan-0.6-1/lavaan/R/lav_model_gradient.R | 162 ++ lavaan-0.6-1/lavaan/R/lav_model_gradient_pml.R | 180 ++- lavaan-0.6-1/lavaan/R/lav_model_h1_information.R |only lavaan-0.6-1/lavaan/R/lav_model_hessian.R | 2 lavaan-0.6-1/lavaan/R/lav_model_implied.R | 18 lavaan-0.6-1/lavaan/R/lav_model_information.R | 344 +++-- lavaan-0.6-1/lavaan/R/lav_model_loglik.R |only lavaan-0.6-1/lavaan/R/lav_model_objective.R | 74 - lavaan-0.6-1/lavaan/R/lav_model_vcov.R | 201 ++- lavaan-0.6-1/lavaan/R/lav_model_wls.R | 232 --- lavaan-0.6-1/lavaan/R/lav_modification.R | 54 lavaan-0.6-1/lavaan/R/lav_mvnorm.R | 420 ++++++- lavaan-0.6-1/lavaan/R/lav_mvnorm_cluster.R |only lavaan-0.6-1/lavaan/R/lav_mvnorm_h1.R | 277 +++- lavaan-0.6-1/lavaan/R/lav_mvnorm_missing.R | 202 ++- lavaan-0.6-1/lavaan/R/lav_mvnorm_missing_h1.R | 12 lavaan-0.6-1/lavaan/R/lav_mvreg.R | 560 ++++++--- lavaan-0.6-1/lavaan/R/lav_object_generate.R | 122 +- lavaan-0.6-1/lavaan/R/lav_object_inspect.R | 1140 +++++++++++++------ lavaan-0.6-1/lavaan/R/lav_object_methods.R | 387 +++--- lavaan-0.6-1/lavaan/R/lav_object_post_check.R | 1 lavaan-0.6-1/lavaan/R/lav_object_print.R |only lavaan-0.6-1/lavaan/R/lav_objective.R | 299 +++- lavaan-0.6-1/lavaan/R/lav_ols.R | 36 lavaan-0.6-1/lavaan/R/lav_options.R | 285 +++- lavaan-0.6-1/lavaan/R/lav_partable.R | 51 lavaan-0.6-1/lavaan/R/lav_partable_attributes.R | 12 lavaan-0.6-1/lavaan/R/lav_partable_check.R | 8 lavaan-0.6-1/lavaan/R/lav_partable_constraints.R | 31 lavaan-0.6-1/lavaan/R/lav_partable_flat.R | 62 - lavaan-0.6-1/lavaan/R/lav_partable_from_lm.R | 3 lavaan-0.6-1/lavaan/R/lav_partable_full.R | 303 ++--- lavaan-0.6-1/lavaan/R/lav_partable_independence.R | 300 ----- lavaan-0.6-1/lavaan/R/lav_partable_labels.R | 11 lavaan-0.6-1/lavaan/R/lav_partable_merge.R | 2 lavaan-0.6-1/lavaan/R/lav_partable_subset.R | 203 ++- lavaan-0.6-1/lavaan/R/lav_partable_unrestricted.R | 657 ++++++++-- lavaan-0.6-1/lavaan/R/lav_partable_utils.R | 231 +++ lavaan-0.6-1/lavaan/R/lav_partable_vnames.R | 48 lavaan-0.6-1/lavaan/R/lav_pearson.R | 59 lavaan-0.6-1/lavaan/R/lav_polyserial.R | 117 + lavaan-0.6-1/lavaan/R/lav_predict.R | 449 ++++++- lavaan-0.6-1/lavaan/R/lav_print.R | 171 ++ lavaan-0.6-1/lavaan/R/lav_probit.R | 44 lavaan-0.6-1/lavaan/R/lav_representation_lisrel.R | 125 +- lavaan-0.6-1/lavaan/R/lav_residuals.R | 19 lavaan-0.6-1/lavaan/R/lav_samplestats.R | 420 +++++-- lavaan-0.6-1/lavaan/R/lav_samplestats_gamma.R | 207 ++- lavaan-0.6-1/lavaan/R/lav_samplestats_igamma.R | 9 lavaan-0.6-1/lavaan/R/lav_samplestats_wls_obs.R | 15 lavaan-0.6-1/lavaan/R/lav_simulate.R | 679 ++++------- lavaan-0.6-1/lavaan/R/lav_simulate_old.R |only lavaan-0.6-1/lavaan/R/lav_standardize.R | 71 - lavaan-0.6-1/lavaan/R/lav_start.R | 188 ++- lavaan-0.6-1/lavaan/R/lav_syntax.R | 30 lavaan-0.6-1/lavaan/R/lav_tables.R | 4 lavaan-0.6-1/lavaan/R/lav_test.R | 563 +-------- lavaan-0.6-1/lavaan/R/lav_test_LRT.R | 24 lavaan-0.6-1/lavaan/R/lav_test_Wald.R | 8 lavaan-0.6-1/lavaan/R/lav_test_diff.R | 127 +- lavaan-0.6-1/lavaan/R/lav_test_satorra_bentler.R | 111 + lavaan-0.6-1/lavaan/R/lav_test_score.R | 41 lavaan-0.6-1/lavaan/R/lav_test_yuan_bentler.R |only lavaan-0.6-1/lavaan/R/lav_utils.R | 5 lavaan-0.6-1/lavaan/R/xxx_fsr.R | 210 ++- lavaan-0.6-1/lavaan/R/xxx_lavaan.R | 569 +++++++-- lavaan-0.6-1/lavaan/R/xxx_lavaanList.R | 109 + lavaan-0.6-1/lavaan/R/xxx_twostep.R |only lavaan-0.6-1/lavaan/data/Demo.twolevel.RData |only lavaan-0.6-1/lavaan/man/Demo.twolevel.Rd |only lavaan-0.6-1/lavaan/man/cfa.Rd | 22 lavaan-0.6-1/lavaan/man/growth.Rd | 26 lavaan-0.6-1/lavaan/man/lavInspect.Rd | 9 lavaan-0.6-1/lavaan/man/lavOptions.Rd | 41 lavaan-0.6-1/lavaan/man/lavPredict.Rd | 47 lavaan-0.6-1/lavaan/man/lavTablesFit.Rd | 2 lavaan-0.6-1/lavaan/man/lavTestLRT.Rd | 18 lavaan-0.6-1/lavaan/man/lavTestScore.Rd | 33 lavaan-0.6-1/lavaan/man/lav_matrix.Rd | 9 lavaan-0.6-1/lavaan/man/lav_model.Rd | 2 lavaan-0.6-1/lavaan/man/lav_partable.Rd | 47 lavaan-0.6-1/lavaan/man/lavaan-class.Rd | 19 lavaan-0.6-1/lavaan/man/lavaan.Rd | 24 lavaan-0.6-1/lavaan/man/lavaanList-class.Rd | 3 lavaan-0.6-1/lavaan/man/lavaanList.Rd | 19 lavaan-0.6-1/lavaan/man/model.syntax.Rd | 7 lavaan-0.6-1/lavaan/man/modificationIndices.Rd | 9 lavaan-0.6-1/lavaan/man/mplus2lavaan.Rd | 2 lavaan-0.6-1/lavaan/man/mplus2lavaan.modelSyntax.Rd | 2 lavaan-0.6-1/lavaan/man/parameterEstimates.Rd | 24 lavaan-0.6-1/lavaan/man/sem.Rd | 22 lavaan-0.6-1/lavaan/man/simulateData.Rd | 2 lavaan-0.6-1/lavaan/man/standardizedSolution.Rd | 27 lavaan-0.6-1/lavaan/tests/testthat/test-lav_mvnorm.R | 6 120 files changed, 8892 insertions(+), 4594 deletions(-)
Title: Generalized Joint Attribute Modeling
Description: Analyzes joint attribute data (e.g., species abundance) that are combinations of continuous and discrete data with Gibbs sampling. Full model and computation details are described in Clark et al. (2018) <doi.org/10.1002/ecm.1241>.
Author: James S. Clark, Daniel Taylor-Rodriquez
Maintainer: James S. Clark <jimclark@duke.edu>
Diff between gjam versions 2.2.1 dated 2018-03-29 and 2.2.2 dated 2018-05-22
DESCRIPTION | 8 - MD5 | 20 +-- R/RcppExports.R | 4 R/gjamHfunctions.R | 299 ++++++++++++++++++++++++++++++++++----------- inst/doc/gjamVignette.R | 3 inst/doc/gjamVignette.Rmd | 29 ++++ inst/doc/gjamVignette.html | 58 +++++--- man/gjam-package.Rd | 5 src/RcppExports.cpp | 15 ++ src/cppFns.cpp | 34 ++++- vignettes/gjamVignette.Rmd | 29 ++++ 11 files changed, 389 insertions(+), 115 deletions(-)
Title: Tools for the Analysis of Air Pollution Data
Description: Tools to analyse, interpret and understand air
pollution data. Data are typically hourly time series
and both monitoring data and dispersion model output
can be analysed. Many functions can also be applied to
other data, including meteorological and traffic data.
Author: David Carslaw [aut, cre],
Karl Ropkins [aut]
Maintainer: David Carslaw <david.carslaw@york.ac.uk>
Diff between openair versions 2.4-0 dated 2018-05-09 and 2.4-2 dated 2018-05-22
DESCRIPTION | 8 +-- MD5 | 10 ++-- R/aqStats.R | 62 ++++++++++++++-------------- R/openColours.R | 117 +++++++++++++++++++++++++++++++++-------------------- man/aqStats.Rd | 52 ++++++++++++----------- man/openColours.Rd | 81 ++++++++++++++++++------------------ 6 files changed, 184 insertions(+), 146 deletions(-)
Title: Network of Differential Equations
Description: Simulates a network of ordinary differential equations of order
two. The package provides an easy interface to construct networks. In addition
you are able to define different external triggers to manipulate the trajectory.
The method is described by Surmann, Ligges, and Weihs (2014) <doi:10.1109/ENERGYCON.2014.6850482>.
Author: Dirk Surmann [aut, cre] (<https://orcid.org/0000-0003-0873-137X>>)
Maintainer: Dirk Surmann <surmann@statistik.tu-dortmund.de>
Diff between ODEnetwork versions 1.3.0 dated 2018-05-14 and 1.3.1 dated 2018-05-22
DESCRIPTION | 10 +++++----- MD5 | 6 +++--- inst/doc/ODEnetwork.html | 4 ++-- tests/testthat/Rplots.pdf |binary 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Bayesian Spatial Survival Analysis with Parametric Proportional
Hazards Models
Description: Bayesian inference for parametric proportional hazards spatial
survival models; flexible spatial survival models.
Author: Benjamin M. Taylor and Barry S. Rowlingson
Additional contributions
Ziyu Zheng
Maintainer: Benjamin M. Taylor <b.taylor1@lancaster.ac.uk>
Diff between spatsurv versions 1.1 dated 2017-03-23 and 1.2 dated 2018-05-22
DESCRIPTION | 10 MD5 | 345 ++++++++++++++--------------- R/plottingfunctions.R | 45 ++- R/spatsurv.R | 9 build |only data/fs.rda |binary data/fstimes.rda |binary man/B.Rd | 1 man/Bspline.construct.Rd | 1 man/BsplineHaz.Rd | 1 man/CSplot.Rd | 1 man/Et_PP.Rd | 1 man/EvalCov.Rd | 1 man/ExponentialCovFct.Rd | 1 man/FFTgrid.Rd | 1 man/GammaFromY_SPDE.Rd | 1 man/GammafromY.Rd | 1 man/Independent.Rd | 1 man/MCE.Rd | 1 man/NonSpatialLogLikelihood_or_gradient.Rd | 1 man/PsplineHaz.Rd | 1 man/QuadApprox.Rd | 1 man/SPDE.Rd | 1 man/SPDEprec.Rd | 1 man/SpikedExponentialCovFct.Rd | 1 man/Summarise.Rd | 1 man/YFromGamma_SPDE.Rd | 1 man/YfromGamma.Rd | 1 man/allocate.Rd | 1 man/alpha.Rd | 1 man/baseHazST.Rd | 1 man/basehazard.Rd | 1 man/basehazard.basehazardspec.Rd | 1 man/baselinehazard.Rd | 1 man/betapriorGauss.Rd | 1 man/blockDiag.Rd | 1 man/boxplotRisk.Rd | 1 man/checkSurvivalData.Rd | 1 man/circulant.Rd | 1 man/circulant.matrix.Rd | 1 man/circulant.numeric.Rd | 1 man/circulantij.Rd | 1 man/covmodel.Rd | 1 man/cumbasehazard.Rd | 1 man/cumbasehazard.basehazardspec.Rd | 1 man/cumulativeBspline.construct.Rd | 1 man/density_PP.Rd | 1 man/densityquantile.Rd | 1 man/densityquantile.basehazardspec.Rd | 1 man/densityquantile_PP.Rd | 1 man/derivindepGaussianprior.Rd | 1 man/derivindepGaussianpriorST.Rd | 1 man/derivpsplineprior.Rd | 1 man/distinfo.Rd | 1 man/distinfo.basehazardspec.Rd | 1 man/estimateY.Rd | 1 man/etapriorGauss.Rd | 1 man/exponentialHaz.Rd | 1 man/fixParHaz.Rd | 1 man/fixedpars.Rd | 1 man/fixmatrix.Rd | 1 man/frailtylag1.Rd | 1 man/gamma2risk.Rd | 1 man/gencens.Rd | 1 man/getBackground.Rd | 1 man/getBbasis.Rd | 1 man/getGrid.Rd | 1 man/getOptCellwidth.Rd | 1 man/getbb.Rd | 1 man/getcov.Rd | 1 man/getgrd.Rd | 1 man/getleneta.Rd | 1 man/getparranges.Rd | 1 man/getsurvdata.Rd | 1 man/gompertzHaz.Rd | 1 man/gradbasehazard.Rd | 1 man/gradbasehazard.basehazardspec.Rd | 1 man/gradcumbasehazard.Rd | 1 man/gradcumbasehazard.basehazardspec.Rd | 1 man/grid2spdf.Rd | 1 man/grid2spix.Rd | 1 man/grid2spts.Rd | 1 man/gridY.Rd | 1 man/gridY_polygonal.Rd | 1 man/guess_t.Rd | 1 man/hasNext.Rd | 1 man/hasNext.iter.Rd | 1 man/hazard_PP.Rd | 1 man/hazardexceedance.Rd | 1 man/hazardpars.Rd | 1 man/hessbasehazard.Rd | 1 man/hessbasehazard.basehazardspec.Rd | 1 man/hesscumbasehazard.Rd | 1 man/hesscumbasehazard.basehazardspec.Rd | 1 man/imputationModel.Rd | 1 man/indepGaussianprior.Rd | 1 man/indepGaussianpriorST.Rd | 1 man/inference.control.Rd | 1 man/insert.Rd | 1 man/invtransformweibull.Rd | 1 man/is.burnin.Rd | 1 man/is.retain.Rd | 1 man/iteration.Rd | 1 man/logPosterior.Rd | 1 man/logPosterior_SPDE.Rd | 1 man/logPosterior_gridded.Rd | 1 man/logPosterior_polygonal.Rd | 1 man/loop.mcmc.Rd | 1 man/makehamHaz.Rd | 1 man/maxlikparamPHsurv.Rd | 1 man/mcmcLoop.Rd | 1 man/mcmcPriors.Rd | 1 man/mcmcProgressNone.Rd | 1 man/mcmcProgressPrint.Rd | 1 man/mcmcProgressTextBar.Rd | 1 man/mcmcpars.Rd | 1 man/midpts.Rd | 1 man/multiWayHaz.Rd | 1 man/neighLocs.Rd | 1 man/neighOrder.Rd | 1 man/nextStep.Rd | 1 man/omegapriorGauss.Rd | 1 man/omegapriorGaussST.Rd | 1 man/optifix.Rd | 1 man/plot.FFTgrid.Rd | 1 man/plotsurv.Rd | 1 man/polyadd.Rd | 1 man/polymult.Rd | 1 man/posteriorcov.Rd | 1 man/predict.mcmcspatsurv.Rd | 1 man/print.mcmc.Rd | 1 man/print.mcmcspatsurv.Rd | 1 man/print.mlspatsurv.Rd | 1 man/print.textSummary.Rd | 1 man/priorposterior.Rd | 1 man/proposalVariance.Rd | 1 man/proposalVariance_SPDE.Rd | 1 man/proposalVariance_gridded.Rd | 1 man/proposalVariance_polygonal.Rd | 1 man/psplineRWprior.Rd | 1 man/psplineprior.Rd | 1 man/quantile.mcmcspatsurv.Rd | 1 man/quantile.mlspatsurv.Rd | 1 man/randompars.Rd | 1 man/reconstruct.bs.Rd | 1 man/reconstruct.bs.coxph.Rd | 1 man/reconstruct.bs.mcmcspatsurv.Rd | 1 man/resetLoop.Rd | 1 man/residuals.mcmcspatsurv.Rd | 1 man/setTxtProgressBar2.Rd | 1 man/setupHazard.Rd | 1 man/setupPrecMatStruct.Rd | 1 man/showGrid.Rd | 1 man/simsurv.Rd | 1 man/spatialpars.Rd | 1 man/spatsurv-package.Rd | 13 - man/spatsurvVignette.Rd | 1 man/spplot1.Rd | 5 man/spplot_compare.Rd | 3 man/summary.mcmc.Rd | 1 man/summary.mcmcspatsurv.Rd | 1 man/surv3d.Rd | 1 man/survival_PP.Rd | 1 man/survspat.Rd | 1 man/survspatNS.Rd | 1 man/textSummary.Rd | 1 man/timevaryingPL.Rd | 1 man/tpowHaz.Rd | 1 man/transformweibull.Rd | 1 man/txtProgressBar2.Rd | 1 man/urlTemplate.Rd | 1 man/vcov.mcmcspatsurv.Rd | 1 man/vcov.mlspatsurv.Rd | 1 man/weibullHaz.Rd | 1 174 files changed, 212 insertions(+), 382 deletions(-)
More information about MaskJointDensity at CRAN
Permanent link
Title: Log-Gaussian Cox Process
Description: Spatial and spatio-temporal modelling of point patterns using the
log-Gaussian Cox process. Bayesian inference for spatial, spatiotemporal,
multivariate and aggregated point processes using Markov chain Monte Carlo.
Author: Benjamin M. Taylor, Tilman M. Davies, Barry S. Rowlingson, Peter J.
Diggle. Additional code contributions from Edzer Pebesma, Dominic Schumacher.
Maintainer: Benjamin M. Taylor <b.taylor1@lancaster.ac.uk>
Diff between lgcp versions 1.4 dated 2017-04-12 and 1.5 dated 2018-05-22
DESCRIPTION | 11 MD5 | 27 +- NAMESPACE | 2 R/SpatialOnlyPlusParameters.R | 452 +++++++++++++++++++------------------- R/lgcp.R | 8 R/lgcpStructures.R | 40 +++ build/partial.rdb |only build/vignette.rds |binary data/wpopdata.rda |binary data/wtowncoords.rda |binary data/wtowns.rda |binary inst/doc/lgcp.pdf |binary man/lgcp-package.Rd | 8 man/lgcpPredictSpatialPlusPars.Rd | 36 +-- man/maternCovFct15.Rd |only man/maternCovFct25.Rd |only 16 files changed, 310 insertions(+), 274 deletions(-)
Title: Integrated Regression Goodness of Fit
Description: Performs Goodness of Fit for regression models
using Integrated Regression method. Works for several
different fitting techniques.
Author: Jorge Luis Ojeda Cabrera <jojeda@unizar.es>
Maintainer: Jorge Luis Ojeda Cabrera <jojeda@unizar.es>
Diff between intRegGOF versions 0.85-1 dated 2011-11-17 and 0.85-5 dated 2018-05-22
intRegGOF-0.85-1/intRegGOF/README |only intRegGOF-0.85-5/intRegGOF/DESCRIPTION | 19 ++++--- intRegGOF-0.85-5/intRegGOF/MD5 | 10 ++-- intRegGOF-0.85-5/intRegGOF/NAMESPACE |only intRegGOF-0.85-5/intRegGOF/R/intRegGOF.R | 61 +++++++++++++++++++++---- intRegGOF-0.85-5/intRegGOF/man/anovarIntReg.Rd | 4 - intRegGOF-0.85-5/intRegGOF/man/intRegGOF.Rd | 2 7 files changed, 71 insertions(+), 25 deletions(-)
Title: Finite Mixture Modeling, Clustering & Classification
Description: R functions for random univariate and multivariate finite mixture model generation, estimation, clustering and classification. Variables can be continuous, discrete, independent or dependent and may follow normal, lognormal, Weibull, gamma, binomial, Poisson, Dirac or circular von Mises parametric families.
Author: Marko Nagode [aut, cre]
Maintainer: Marko Nagode <marko.nagode@fs.uni-lj.si>
Diff between rebmix versions 2.10.1 dated 2018-04-07 and 2.10.2 dated 2018-05-22
DESCRIPTION | 6 MD5 | 56 +-- R/RCLRMIX.R | 2 R/RCLSMIX.R | 4 R/REBMIX.R | 2 R/RNGMIX.R | 2 R/split.R | 118 +++++-- build/vignette.rds |binary data/adult.rda |binary data/galaxy.rda |binary data/iris.rda |binary data/truck.rda |binary data/weibull.rda |binary data/weibullnormal.rda |binary data/wine.rda |binary inst/NEWS.Rd | 6 inst/doc/rebmix.Rnw | 4 inst/doc/rebmix.pdf | 804 ++++++++++++++++++++++++++----------------------- man/REBMIX-class.Rd | 2 man/REBMIX.Rd | 2 man/split.Rd | 34 ++ src/base.cpp | 4 src/base.h | 4 src/rebmix.cpp | 9 src/rebmixf.cpp | 32 + src/rebmixf.h | 5 src/rngmixf.cpp | 21 - src/rngmixf.h | 4 vignettes/rebmix.Rnw | 4 29 files changed, 669 insertions(+), 456 deletions(-)
Title: Calibration and Analysis of Radiocarbon Dates
Description: Enables the calibration and analysis of radiocarbon dates, often but not exclusively for the purposes of archaeological research. It includes functions not only for basic calibration, uncalibration, and plotting of one or more dates, but also a statistical framework for building demographic and related longitudinal inferences from aggregate radiocarbon date lists, including: Monte-Carlo simulation test (Timpson et al 2014 <doi:10.1016/j.jas.2014.08.011>), random mark permutation test (Crema et al 2016 <doi:10.1371/journal.pone.0154809>) and spatial permutation tests (Crema, Bevan, and Shennan 2017 <doi:10.1016/j.jas.2017.09.007>).
Author: Andrew Bevan [aut],
Enrico Crema [aut, cre],
Fabio Silva [ctb]
Maintainer: Enrico Crema <enrico.crema@gmail.com>
Diff between rcarbon versions 1.1.1 dated 2018-04-28 and 1.1.2 dated 2018-05-22
DESCRIPTION | 15 ++++++++++----- MD5 | 20 ++++++++++---------- NEWS.md | 8 +++++++- R/calibration.R | 8 ++++---- R/data.R | 2 +- R/tests.R | 50 +++++++++++++++++++++++++++++++++++++++++--------- R/utilities.R | 4 ++-- inst/doc/rcarbon.html | 12 ++++++------ man/emedyd.Rd | 2 +- man/modelTest.Rd | 16 +++++++++------- man/spd2gg.Rd | 4 ++-- 11 files changed, 93 insertions(+), 48 deletions(-)
Title: Tidy, Type-Safe 'prediction()' Methods
Description: A one-function package containing 'prediction()', a type-safe alternative to 'predict()' that always returns a data frame. The package currently supports common model types (e.g., "lm", "glm") from the 'stats' package, as well as numerous other model classes from other add-on packages. See the README or main package documentation page for a complete listing.
Author: Thomas J. Leeper [aut, cre] (<https://orcid.org/0000-0003-4097-6326>>),
Carl Ganz [ctb]
Maintainer: Thomas J. Leeper <thosjleeper@gmail.com>
Diff between prediction versions 0.3.2 dated 2018-04-12 and 0.3.6 dated 2018-05-22
DESCRIPTION | 18 ++++++++--------- MD5 | 42 +++++++++++++++++++++-------------------- NAMESPACE | 2 - NEWS.md | 17 ++++++++++++++++ R/build_datalist.R | 2 - R/prediction.R | 2 - R/prediction_betareg.R | 1 R/prediction_bigglm.R | 5 +--- R/prediction_biglm.R | 1 R/prediction_gausspr.R | 10 +++++---- R/prediction_glimML.R | 10 +++++---- R/prediction_glimQL.R | 10 +++++---- R/prediction_glm.R | 1 R/prediction_glmnet.R |only R/prediction_kqr.R | 6 +++-- R/prediction_lm.R | 1 R/prediction_merMod.R | 7 +++--- R/prediction_speedglm.R | 1 R/prediction_tree.R |only R/print.R | 2 - README.md | 2 - man/prediction.Rd | 26 ++++++++++++++----------- tests/testthat/tests-methods.R | 41 +++++++++++++++++++++++++--------------- 23 files changed, 122 insertions(+), 85 deletions(-)
Title: An R Interface to the Onigmo Regular Expression Library
Description: Provides an alternative to R's built-in functionality for handling
regular expressions, based on the Onigmo library. Offers first-class
compiled regex objects, partial matching and function-based substitutions,
amongst other features.
Author: Jon Clayden, based on Onigmo by K. Kosako and K. Takata
Maintainer: Jon Clayden <code@clayden.org>
Diff between ore versions 1.6.0 dated 2017-04-13 and 1.6.1 dated 2018-05-22
DESCRIPTION | 8 LICENCE | 2 MD5 | 51 - NEWS | 7 configure | 18 configure.ac | 2 src/Makevars | 2 src/match.c | 2 src/onig/enc/shift_jis.c | 525 ------------ src/onig/enc/shift_jis.h |only src/onig/enc/unicode/name2ctype.h | 1581 ++++++++++++++++++-------------------- src/onig/enc/utf_32be.c | 18 src/onig/enc/utf_32le.c | 18 src/onig/enc/windows_31j.c | 4 src/onig/onigmo.h | 4 src/onig/onigmoposix.h | 1 src/onig/regcomp.c | 4 src/onig/regenc.h | 3 src/onig/regexec.c | 44 - src/onig/regparse.c | 72 - src/onig/st.c | 4 src/print.h | 2 tests/testthat/test-05-ore.R | 16 tests/testthat/test-10-match.R | 60 - tests/testthat/test-15-rex.R | 46 - tests/testthat/test-20-dict.R | 8 tests/testthat/test-25-es.R | 10 27 files changed, 1015 insertions(+), 1497 deletions(-)
Title: Tcl/Tk Quick and Simple Function GUI
Description: Quick and simple Tcl/Tk Graphical User Interface
to call functions. Also comprises a very simple experimental
GUI framework.
Author: Jorge Luis Ojeda Cabrera <jojeda@unizar.es>
Maintainer: Jorge Luis Ojeda Cabrera <jojeda@unizar.es>
Diff between miniGUI versions 0.8.0 dated 2012-09-04 and 0.8-1 dated 2018-05-22
miniGUI-0.8-1/miniGUI/DESCRIPTION | 21 ++-- miniGUI-0.8-1/miniGUI/MD5 | 17 +-- miniGUI-0.8-1/miniGUI/NAMESPACE | 36 ++++++- miniGUI-0.8-1/miniGUI/R/miniGUI.R | 117 ++++++++++++++---------- miniGUI-0.8-1/miniGUI/man/makeWidgetCmd.Rd | 8 + miniGUI-0.8-1/miniGUI/man/mapFuncToWidget.Rd | 5 - miniGUI-0.8-1/miniGUI/man/miniGUI.Rd | 22 ++-- miniGUI-0.8-1/miniGUI/man/miniGUIhelpers.Rd | 40 +++----- miniGUI-0.8-1/miniGUI/man/miniGUIinputWidget.Rd | 20 ++-- miniGUI-0.8.0/miniGUI/README |only 10 files changed, 171 insertions(+), 115 deletions(-)
Title: Data Visualisation on Maps
Description: Create simple maps; add sub-plots like pie plots to a map or any other plot; format, plot and export gridded data. The package was developed for displaying fisheries data but most functions can be used for more generic data visualisation.
Author: Hans Gerritsen
Maintainer: Hans Gerritsen <hans.gerritsen@marine.ie>
Diff between mapplots versions 1.5 dated 2014-10-30 and 1.5.1 dated 2018-05-22
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- NAMESPACE | 8 +++++++- 3 files changed, 13 insertions(+), 7 deletions(-)
Title: Wavelet Lifting Estimators of the Hurst Exponent for Regularly
and Irregularly Sampled Time Series
Description: Implementations of Hurst exponent estimators based on the relationship between wavelet lifting scales and wavelet energy.
Author: Marina Knight [aut],
Guy Nason [ctb],
Matt Nunes [aut, cre]
Maintainer: Matt Nunes <m.nunes@lancaster.ac.uk>
Diff between liftLRD versions 1.0-6 dated 2017-09-11 and 1.0-7 dated 2018-05-22
DESCRIPTION | 12 +++++++----- MD5 | 4 ++-- man/liftLRD-package.Rd | 4 ++-- 3 files changed, 11 insertions(+), 9 deletions(-)
Title: Interface to Climatic Research Unit Time-Series Version 3.21
Data
Description: Functions for reading in and manipulating CRU TS3.21: Climatic
Research Unit (CRU) Time-Series (TS) Version 3.21 data.
Author: Benjamin M. Taylor
Additional contributions
Bikash Parida
Maintainer: Benjamin M. Taylor <b.taylor1@lancaster.ac.uk>
Diff between cruts versions 0.3 dated 2016-05-12 and 0.4 dated 2018-05-22
DESCRIPTION | 8 ++++---- MD5 | 15 ++++++++------- R/cruts.R | 42 ++++++++++++++++++------------------------ build |only man/cruts-package.Rd | 11 +++-------- man/cruts2poly.Rd | 1 - man/cruts2raster.Rd | 1 - man/extractNetCDF.Rd | 1 - man/getAnomaly.Rd | 1 - 9 files changed, 33 insertions(+), 47 deletions(-)
Title: Package Directives and Collaboration Networks in CRAN
Description: Provides core visualisations and summaries for the CRAN package database. The package provides comprehensive methods for cleaning up and organising the information in the CRAN package database, for building package directives networks (depends, imports, suggests, enhances, linking to) and collaboration networks, producing package dependence trees, and for computing useful summaries and producing interactive visualisations from the resulting networks. The package also provides functions to coerce the networks to 'igraph' <https://CRAN.R-project.org/package=igraph> objects for further analyses and modelling.
Author: Ioannis Kosmidis [aut, cre] (<https://orcid.org/0000-0003-1556-0302>>)
Maintainer: Ioannis Kosmidis <ioannis.kosmidis@warwick.ac.uk>
Diff between cranly versions 0.1 dated 2018-03-28 and 0.2 dated 2018-05-22
cranly-0.1/cranly/R/data.R |only cranly-0.1/cranly/data |only cranly-0.1/cranly/inst/todo.org |only cranly-0.1/cranly/man/cran20032018.Rd |only cranly-0.1/cranly/tests |only cranly-0.2/cranly/DESCRIPTION | 10 cranly-0.2/cranly/MD5 | 77 +- cranly-0.2/cranly/NAMESPACE | 18 cranly-0.2/cranly/NEWS.md | 20 cranly-0.2/cranly/R/build_network.R | 50 - cranly-0.2/cranly/R/clean_CRAN_db.R | 48 + cranly-0.2/cranly/R/coerce.R | 11 cranly-0.2/cranly/R/cranly-package.R | 79 ++ cranly-0.2/cranly/R/dependence_tree.R |only cranly-0.2/cranly/R/extractors.R | 279 +++++++++- cranly-0.2/cranly/R/plot_network.R | 79 +- cranly-0.2/cranly/R/plot_summary.R | 6 cranly-0.2/cranly/R/plot_tree.R |only cranly-0.2/cranly/R/subset.R | 40 + cranly-0.2/cranly/R/summary.R | 16 cranly-0.2/cranly/build/vignette.rds |binary cranly-0.2/cranly/inst/doc/cranly.R | 7 cranly-0.2/cranly/inst/doc/cranly.Rmd | 12 cranly-0.2/cranly/inst/doc/cranly.html | 63 +- cranly-0.2/cranly/inst/doc/dependence_trees.R |only cranly-0.2/cranly/inst/doc/dependence_trees.Rmd |only cranly-0.2/cranly/inst/doc/dependence_trees.html |only cranly-0.2/cranly/inst/doc/glms.R | 4 cranly-0.2/cranly/inst/doc/glms.Rmd | 2 cranly-0.2/cranly/inst/doc/glms.html | 38 - cranly-0.2/cranly/man/as.igraph.cranly_network.Rd | 6 cranly-0.2/cranly/man/build_dependence_tree.Rd |only cranly-0.2/cranly/man/build_dependence_tree.cranly_network.Rd |only cranly-0.2/cranly/man/build_network.cranly_db.Rd | 10 cranly-0.2/cranly/man/clean_CRAN_db.Rd | 6 cranly-0.2/cranly/man/compute_dependence_tree.Rd |only cranly-0.2/cranly/man/cranly.Rd | 17 cranly-0.2/cranly/man/package_by.Rd | 52 + cranly-0.2/cranly/man/plot.cranly_dependence_tree.Rd |only cranly-0.2/cranly/man/plot.cranly_network.Rd | 41 - cranly-0.2/cranly/man/plot.summary_cranly_network.Rd | 6 cranly-0.2/cranly/man/subset.cranly_network.Rd | 14 cranly-0.2/cranly/man/summary.cranly_dependence_tree.Rd |only cranly-0.2/cranly/man/summary.cranly_network.Rd | 2 cranly-0.2/cranly/vignettes/cranly.Rmd | 12 cranly-0.2/cranly/vignettes/dependence_trees.Rmd |only cranly-0.2/cranly/vignettes/glms.Rmd | 2 47 files changed, 747 insertions(+), 280 deletions(-)
Title: Zero-Inflated Poisson Hidden (Semi-)Markov Models
Description: Fit zero-inflated Poisson hidden (semi-)Markov models with or without covariates by directly minimizing the negative log likelihood function using the gradient descent algorithm. Multiple starting values should be used to avoid local minima.
Author: Zekun (Jack) Xu, Ye Liu
Maintainer: Zekun (Jack) Xu <zekunxu@gmail.com>
Diff between ziphsmm versions 2.0.5 dated 2018-04-29 and 2.0.6 dated 2018-05-22
DESCRIPTION | 8 - MD5 | 18 ++-- R/dist_learn.R | 28 +++--- R/dist_learn2.R | 27 +++--- R/dist_learn3.R | 206 ++++++++++++++++++++++++++++++++++++++++++++++-- R/fasthmmfit.cont3.R | 2 R/package.R | 4 man/dist_learn3.Rd | 4 man/fasthmmfit.cont3.Rd | 2 man/package-ziphsmm.Rd | 4 10 files changed, 254 insertions(+), 49 deletions(-)
Title: 'dplyr'-Like Syntax for Summary Statistics of Survey Data
Description: Use piping, verbs like 'group_by' and 'summarize', and other
'dplyr' inspired syntactic style when calculating summary statistics on survey
data using functions from the 'survey' package.
Author: Greg Freedman Ellis [aut, cre],
Thomas Lumley [ctb]
Maintainer: Greg Freedman Ellis <greg.freedman@gmail.com>
Diff between srvyr versions 0.3.2 dated 2018-05-06 and 0.3.3 dated 2018-05-22
DESCRIPTION | 12 ++++++------ MD5 | 14 +++++++------- NEWS.md | 7 +++++++ R/survey_statistics.r | 7 ++++++- inst/doc/extending-srvyr.html | 4 ++-- inst/doc/srvyr-database.html | 4 ++-- inst/doc/srvyr-vs-survey.html | 8 ++++---- tests/testthat/test_database.R | 4 ++-- 8 files changed, 36 insertions(+), 24 deletions(-)
Title: Construct Process Maps Using Event Data
Description: Visualize of process maps based on
event logs, in the form of directed graphs. Part of the 'bupaR' framework.
Author: Gert Janssenswillen [aut, cre],
Benoît Depaire [ctb],
Felix Mannhardt [ctb],
Thijs Beuving [ctb]
Maintainer: Gert Janssenswillen <gert.janssenswillen@uhasselt.be>
Diff between processmapR versions 0.3.0 dated 2018-03-28 and 0.3.1 dated 2018-05-22
DESCRIPTION | 8 +- MD5 | 24 ++++---- NAMESPACE | 1 R/custom.R |only R/frequency.R | 5 + R/performance.R | 4 + R/process_map.R | 125 +++++++++++++++++++++++++++++++++++++--------- README.md | 4 + build/vignette.rds |binary inst/doc/processmapr.html | 4 - man/custom.Rd |only man/frequency.Rd | 5 + man/performance.Rd | 4 + man/process_map.Rd | 7 ++ 14 files changed, 145 insertions(+), 46 deletions(-)
Title: Conservation Planning Data Sets
Description: Conservation planning data sets for learning how to use the 'prioritizr' package <https://CRAN.R-project.org/package=prioritizr>.
Author: Jeffrey O Hanson [aut],
Richard Schuster [aut, cre],
Nina Morrell [aut],
Matthew Strimas-Mackey [aut],
Matthew E Watts [aut],
Peter Arcese [aut],
Joeseph Bennett [aut],
Hugh P Possingham [aut]
Maintainer: Richard Schuster <mail@richard-schuster.com>
Diff between prioritizrdata versions 0.2.1 dated 2017-11-12 and 0.2.2 dated 2018-05-22
prioritizrdata-0.2.1/prioritizrdata/R/internal.R |only prioritizrdata-0.2.1/prioritizrdata/build |only prioritizrdata-0.2.1/prioritizrdata/inst |only prioritizrdata-0.2.1/prioritizrdata/vignettes |only prioritizrdata-0.2.2/prioritizrdata/DESCRIPTION | 19 ++-- prioritizrdata-0.2.2/prioritizrdata/MD5 | 24 ++---- prioritizrdata-0.2.2/prioritizrdata/R/package.R | 55 +++++++------- prioritizrdata-0.2.2/prioritizrdata/R/salt_data.R | 20 ++--- prioritizrdata-0.2.2/prioritizrdata/R/tas_data.R | 31 ++++--- prioritizrdata-0.2.2/prioritizrdata/README.md | 26 ++++-- prioritizrdata-0.2.2/prioritizrdata/man/prioritizrdata.Rd | 50 ++++++------ prioritizrdata-0.2.2/prioritizrdata/man/salt_data.Rd | 17 ++-- prioritizrdata-0.2.2/prioritizrdata/man/tas_data.Rd | 25 +++--- 13 files changed, 134 insertions(+), 133 deletions(-)
More information about prioritizrdata at CRAN
Permanent link
Title: Fine-Scale Population Analysis
Description: Statistical tool set for population genetics. The package provides following functions: 1) empirical Bayes estimator of Fst and other measures of genetic differentiation, 2) regression analysis of environmental effects on genetic differentiation using bootstrap method, 3) interfaces to read and manipulate 'GENEPOP' format data files and allele/haplotype frequency format files.
Author: Reiichiro Nakamichi, Hirohisa Kishino, Shuichi Kitada
Maintainer: Reiichiro Nakamichi <nakamichi@affrc.go.jp>
Diff between FinePop versions 1.4.1 dated 2017-11-19 and 1.5.0 dated 2018-05-22
DESCRIPTION | 8 ++--- MD5 | 28 +++++++++---------- R/EBDJ.R | 2 - R/EBFST.R | 2 - R/EBGstH.R | 2 - R/FstBoot.R | 51 ++++++++++++++++++++++++++-------- R/FstEnv.R | 8 +++++ R/calc.PopSt.EB.R | 76 ++++++++++++++++++++++++++++++++++++---------------- build/partial.rdb |binary data/herring.rda |binary data/jsmackerel.rda |binary man/EBDJ.Rd | 3 +- man/EBFST.Rd | 10 ++++-- man/EBGstH.Rd | 3 +- man/FstBoot.Rd | 11 ++++--- 15 files changed, 140 insertions(+), 64 deletions(-)
Title: Bayesian Estimation for Finite Mixture of Distributions
Description: Provides statistical tools for Bayesian estimation for finite mixture of distributions, mainly mixture of Gamma, Normal and t-distributions. The package is implemented the recent improvements in Bayesian literature for the finite mixture of distributions, including Mohammadi and et al. (2013) <https://doi:10.1007/s00180-012-0323-3> and Mohammadi and Salehi-Rad (2012) <https://doi:10.1080/03610918.2011.588358>.
Author: Reza Mohammadi <https://orcid.org/0000-0001-9538-0648>
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between bmixture versions 0.8 dated 2018-04-27 and 1.1 dated 2018-05-22
DESCRIPTION | 9 ++-- MD5 | 60 +++++++++++++-------------- NAMESPACE | 102 +++++++++++++++++++++++------------------------ R/bmixgamma.R | 23 +++++++++- R/bmixnorm.R | 14 +++++- R/bmixnorm_bdmcmc.R | 15 ++++++ R/bmixt.R | 25 +++++++++-- R/mixgamma.R | 14 +++++- R/mixnorm.R | 14 +++++- R/mixt.R | 14 +++++- R/rdirichlet.R | 14 +++++- man/bmixgamma.Rd | 4 - man/bmixnorm.Rd | 4 - man/bmixt.Rd | 4 - man/bmixture-package.Rd | 6 -- man/galaxy.Rd | 2 man/plot.bmixgamma.Rd | 6 -- man/plot.bmixnorm.Rd | 6 -- man/plot.bmixt.Rd | 6 -- man/print.bmixgamma.Rd | 6 -- man/print.bmixnorm.Rd | 6 -- man/print.bmixt.Rd | 6 -- man/summary.bmixgamma.Rd | 6 -- man/summary.bmixnorm.Rd | 6 -- man/summary.bmixt.Rd | 6 -- src/bmix_gamma.cpp | 12 +++++ src/bmix_norm.cpp | 12 +++++ src/bmix_t.cpp | 12 +++++ src/dmix_hat_x_seq.cpp | 12 +++++ src/funs_in_mcmc.cpp | 12 +++++ src/funs_in_mcmc.h | 12 +++++ 31 files changed, 280 insertions(+), 170 deletions(-)
Title: Programmatic Access to Bank for International Settlements Data
Description: Provides an interface to data provided by the Bank for International
Settlements <https://www.bis.org>, allowing for programmatic retrieval of a
large quantity of (central) banking data.
Author: Eric Persson [aut, cre]
Maintainer: Eric Persson <expersso5@gmail.com>
Diff between BIS versions 0.2.0 dated 2018-04-09 and 0.2.1 dated 2018-05-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- inst/doc/BIS.R | 2 +- inst/doc/BIS.Rmd | 2 +- inst/doc/BIS.html | 39 ++++++++++++++++++++------------------- vignettes/BIS.Rmd | 2 +- 6 files changed, 31 insertions(+), 30 deletions(-)
Title: Tools for Survey Statistics in Educational Assessment
Description: Contains tools for survey statistics (especially in educational
assessment) for datasets with replication designs (jackknife,
bootstrap, replicate weights; see Kolenikov, 2010).
Descriptive statistics, linear and logistic regression,
path models for manifest variables with measurement error
correction and two-level hierarchical regressions for weighted
samples are included. Statistical inference can be conducted for
multiply imputed datasets and nested multiply imputed datasets.
This package is developed by BIFIE (Federal Institute for
Educational Research, Innovation and Development of the Austrian
School System; Salzburg, Austria).
Author: BIFIE
Maintainer: Alexander Robitzsch <robitzsch@ipn.uni-kiel.de>
Diff between BIFIEsurvey versions 2.4-9 dated 2018-04-09 and 2.5-44 dated 2018-05-22
BIFIEsurvey-2.4-9/BIFIEsurvey/R/bifietable.R |only BIFIEsurvey-2.4-9/BIFIEsurvey/src/jack_dataprep.cpp |only BIFIEsurvey-2.4-9/BIFIEsurvey/src/univar.cpp |only BIFIEsurvey-2.4-9/BIFIEsurvey/src/univar_helpers.h |only BIFIEsurvey-2.5-44/BIFIEsurvey/DESCRIPTION | 8 BIFIEsurvey-2.5-44/BIFIEsurvey/MD5 | 186 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/NAMESPACE | 4 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.BIFIEcdata2BIFIEdata.R |only BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.BIFIEdata2datalist.R | 40 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.bifiedata2bifiecdata.R | 56 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.by.R | 250 ++-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.cdata.select.R | 100 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.correl.R | 450 +++---- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.crosstab.R | 568 ++++----- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.data.R | 198 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.data.boot.R | 145 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.data.jack.R | 316 ++--- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.data.select.R | 69 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.data.transform.R | 245 +--- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.derivedParameters.R | 233 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.ecdf.R | 188 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.freq.R | 305 ++--- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.hist.R | 224 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.linreg.R | 284 ++-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.logistreg.R | 268 ++-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.mva.R | 324 ++--- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.pathmodel.R | 586 ++++----- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.progressbar.R | 12 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.summary.R | 78 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.twolevelreg.R | 610 +++++----- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.univar.R | 473 +++---- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.univar.test.R | 372 +++--- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE.waldtest.R | 168 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_NMI_inference_parameters.R | 79 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_by_helper_pureR.R | 134 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_create_pseudogroup.R | 122 -- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_data_nested_MI.R | 44 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_multiple_groupings_helper.R | 123 -- BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_object_size.R | 19 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIE_table_multiple_groupings.R | 32 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIEdata.select.R | 26 BIFIEsurvey-2.5-44/BIFIEsurvey/R/BIFIEdata2svrepdesign.R | 63 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/RcppExports.R | 64 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/bifie_data_pv_vars_create_datlist.R | 56 BIFIEsurvey-2.5-44/BIFIEsurvey/R/bifie_data_select_pv_vars.R | 34 BIFIEsurvey-2.5-44/BIFIEsurvey/R/bifie_ecdf_postproc_output.R | 78 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/bifie_table.R | 51 BIFIEsurvey-2.5-44/BIFIEsurvey/R/cdata.wgtrep.R | 22 BIFIEsurvey-2.5-44/BIFIEsurvey/R/clean_summary_table.R | 46 BIFIEsurvey-2.5-44/BIFIEsurvey/R/coef.BIFIEsurvey.R | 106 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/create_summary_table.R | 67 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/extract.replicated.pars.R | 160 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/load.BIFIE.data.R | 43 BIFIEsurvey-2.5-44/BIFIEsurvey/R/load.BIFIEdata.files.R | 200 +-- BIFIEsurvey-2.5-44/BIFIEsurvey/R/load_BIFIEdata_files_cat_print_file_name.R |only BIFIEsurvey-2.5-44/BIFIEsurvey/R/load_BIFIEdata_files_select_variables.R |only BIFIEsurvey-2.5-44/BIFIEsurvey/R/print.object.summary.R | 14 BIFIEsurvey-2.5-44/BIFIEsurvey/R/rubin_calc_df.R | 26 BIFIEsurvey-2.5-44/BIFIEsurvey/R/rubin_calc_df2.R |only BIFIEsurvey-2.5-44/BIFIEsurvey/R/save.BIFIE.data.R | 86 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/summary.BIFIE.data.R | 142 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/vcov.BIFIE.survey.R | 179 +- BIFIEsurvey-2.5-44/BIFIEsurvey/R/write.BIFIE.data.R | 98 - BIFIEsurvey-2.5-44/BIFIEsurvey/R/zzz.R | 33 BIFIEsurvey-2.5-44/BIFIEsurvey/README.md | 5 BIFIEsurvey-2.5-44/BIFIEsurvey/inst/NEWS | 18 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.BIFIEdata2BIFIEcdata.Rd | 36 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.by.Rd | 60 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.correl.Rd | 22 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.crosstab.Rd | 18 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.data.Rd | 64 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.data.boot.Rd | 14 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.data.jack.Rd | 50 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.data.select.Rd | 26 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.data.transform.Rd | 180 +- BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.derivedParameters.Rd | 36 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.ecdf.Rd | 30 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.freq.Rd | 16 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.hist.Rd | 22 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.linreg.Rd | 84 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.logistreg.Rd | 26 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.mva.Rd | 18 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.pathmodel.Rd | 50 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.twolevelreg.Rd | 128 +- BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.univar.Rd | 14 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.univar.test.Rd | 26 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIE.waldtest.Rd | 74 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIEdata2svrepdesign.Rd | 28 BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIEsurvey-package.Rd | 94 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/BIFIEsurvey-utilities.Rd | 18 BIFIEsurvey-2.5-44/BIFIEsurvey/man/bifietable.Rd | 8 BIFIEsurvey-2.5-44/BIFIEsurvey/man/data.bifie.Rd | 4 BIFIEsurvey-2.5-44/BIFIEsurvey/man/data.pisaNLD.Rd | 62 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/data.timss1.Rd | 80 - BIFIEsurvey-2.5-44/BIFIEsurvey/man/save.BIFIEdata.Rd | 170 +- BIFIEsurvey-2.5-44/BIFIEsurvey/src/RcppExports.cpp | 74 - BIFIEsurvey-2.5-44/BIFIEsurvey/src/bifiesurvey_rcpp_helper.cpp |only BIFIEsurvey-2.5-44/BIFIEsurvey/src/bifiesurvey_rcpp_helper.h |only BIFIEsurvey-2.5-44/BIFIEsurvey/src/bifiesurvey_rcpp_jack_data_prep.cpp |only BIFIEsurvey-2.5-44/BIFIEsurvey/src/bifiesurvey_rcpp_main.cpp |only 100 files changed, 5196 insertions(+), 5266 deletions(-)
Title: Atlas of Living Australia (ALA) Data and Resources in R
Description: The Atlas of Living Australia (ALA) provides tools to enable users
of biodiversity information to find, access, combine and visualise data on
Australian plants and animals; these have been made available from
<http://ala.org.au/>. ALA4R provides a subset of the tools to be
directly used within R. It enables the R community to directly access data
and resources hosted by the ALA.
Author: Peggy Newman [aut, cre],
Ben Raymond [aut],
Jeremy VanDerWal [aut],
Lee Belbin [aut],
Michael Sumner [ctb],
Tom August [ctb],
John Baumgartner [ctb]
Maintainer: Peggy Newman <peggy.newman@csiro.au>
Diff between ALA4R versions 1.5.6 dated 2017-02-18 and 1.6.0 dated 2018-05-22
ALA4R-1.5.6/ALA4R/vignettes/ALA4R.html.asis |only ALA4R-1.5.6/ALA4R/vignettes/images |only ALA4R-1.5.6/ALA4R/vignettes/old.html |only ALA4R-1.5.6/ALA4R/vignettes/old.pdf |only ALA4R-1.5.6/ALA4R/vignettes/vignette_fabaceae.RData |only ALA4R-1.5.6/ALA4R/vignettes/vignette_morialta_shape.RData |only ALA4R-1.6.0/ALA4R/DESCRIPTION | 34 ALA4R-1.6.0/ALA4R/MD5 | 83 -- ALA4R-1.6.0/ALA4R/NEWS.md | 13 ALA4R-1.6.0/ALA4R/R/ala_fields.R | 112 +- ALA4R-1.6.0/ALA4R/R/cached_get.R | 182 ++-- ALA4R-1.6.0/ALA4R/R/cached_post.R | 210 ++--- ALA4R-1.6.0/ALA4R/R/fieldguide.R | 1 ALA4R-1.6.0/ALA4R/R/occurrences.R | 68 + ALA4R-1.6.0/ALA4R/R/onload.R | 1 ALA4R-1.6.0/ALA4R/R/search_fulltext.R | 4 ALA4R-1.6.0/ALA4R/R/search_names.R | 8 ALA4R-1.6.0/ALA4R/R/sites_by_species.R | 246 +++--- ALA4R-1.6.0/ALA4R/R/specieslist.R | 34 ALA4R-1.6.0/ALA4R/R/taxinfo_download.R | 6 ALA4R-1.6.0/ALA4R/R/zzz.R |only ALA4R-1.6.0/ALA4R/README.md | 485 ------------ ALA4R-1.6.0/ALA4R/inst/doc/ALA4R.R | 337 +++++--- ALA4R-1.6.0/ALA4R/inst/doc/ALA4R.Rmd | 334 ++++---- ALA4R-1.6.0/ALA4R/inst/doc/ALA4R.html | 511 ++++++------- ALA4R-1.6.0/ALA4R/man/ala_fields.Rd | 4 ALA4R-1.6.0/ALA4R/man/occurrences.Rd | 34 ALA4R-1.6.0/ALA4R/man/search_fulltext.Rd | 2 ALA4R-1.6.0/ALA4R/man/search_names.Rd | 8 ALA4R-1.6.0/ALA4R/man/sites_by_species.Rd | 2 ALA4R-1.6.0/ALA4R/man/specieslist.Rd | 21 ALA4R-1.6.0/ALA4R/man/taxinfo_download.Rd | 4 ALA4R-1.6.0/ALA4R/tests/testthat/test-fieldguide.R | 3 ALA4R-1.6.0/ALA4R/tests/testthat/test-lists.R | 2 ALA4R-1.6.0/ALA4R/tests/testthat/test-occurrence-details.R | 35 ALA4R-1.6.0/ALA4R/tests/testthat/test-occurrences.R | 1 ALA4R-1.6.0/ALA4R/tests/testthat/test-portability.R | 31 ALA4R-1.6.0/ALA4R/tests/testthat/test-search-guids.R | 16 ALA4R-1.6.0/ALA4R/tests/testthat/test-species.R | 2 ALA4R-1.6.0/ALA4R/tests/testthat/test-specieslist.R | 5 ALA4R-1.6.0/ALA4R/tests/testthat/test-taxinfo.R | 2 ALA4R-1.6.0/ALA4R/vignettes/ALA4R.Rmd | 334 ++++---- ALA4R-1.6.0/ALA4R/vignettes/vignette_fabaceae.rds |only ALA4R-1.6.0/ALA4R/vignettes/vignette_morialta_shape.rds |only 44 files changed, 1508 insertions(+), 1667 deletions(-)
Title: Quadratic Programming with Absolute Value Constraints
Description: Extends the quadprog package to solve quadratic programs with
absolute value constraints and absolute values in the objective function.
Author: Bob Harlow [aut, cre]
Maintainer: Bob Harlow <rharlow86@gmail.com>
Diff between quadprogXT versions 0.0.2 dated 2018-02-04 and 0.0.3 dated 2018-05-22
DESCRIPTION | 6 +++--- MD5 | 7 ++++--- R/solveQPXT.R | 21 ++++++++++++--------- tests/testthat/ex.R |only tests/testthat/test-solveQPXT.R | 17 +++++++++++++++++ 5 files changed, 36 insertions(+), 15 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,
<https://orcid.org/0000-0001-8534-3325>>),
Maximilian Held [aut] (Author of additional data management functions)
Maintainer: Aiora Zabala <aiora.zabala@gmail.com>
Diff between qmethod versions 1.5.2 dated 2017-03-21 and 1.5.4 dated 2018-05-22
DESCRIPTION | 13 +++++++------ MD5 | 10 +++++----- R/import.q.feedback.R | 18 +++++++++++------- R/qmb.plot.R | 4 ++-- man/qmb.plot.Rd | 2 +- man/qmboots.Rd | 4 ++-- 6 files changed, 28 insertions(+), 23 deletions(-)
Title: SNP Genotype Marker Design and Analysis
Description: We implement a common genotyping workflow with a standardized software interface. 'genotypeR' designs genotyping markers from vcf files, outputs markers for multiplexing suitability on various platforms (Sequenom and Illumina GoldenGate), and provides various QA/QC and analysis functions. We developed this package to analyze data in Stevison LS, SA Sefick, CA Rushton, and RM Graze. 2017. Invited Review: Recombination rate plasticity: revealing mechanisms by design. Philosophical Transactions Royal Society London B Biol Sci 372:1-14. <DOI:10.1098/rstb.2016.0459>, and have published it here Sefick, S.A., M.A. Castronova, and L.S. Stevison. 2017. GENOTYPER: An integrated R packages for single nuleotide polymorphism genotype marker design and data analysis. Methods in Ecology and Evolution 9: 1318-1323. <DOI: 10.1111/2041-210X.12965>.
Author: Stephen Alfred Sefick [aut, cre],
Magdelena A Castronova [aut],
Laurie S Stevison [aut]
Maintainer: Stephen Alfred Sefick <ssefick@gmail.com>
Diff between genotypeR versions 0.0.1.7 dated 2018-05-13 and 0.0.1.8 dated 2018-05-22
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- inst/doc/genotypeR.R | 31 +++++++++++++++++-------------- inst/doc/genotypeR.Rmd | 31 +++++++++++++++++-------------- inst/doc/genotypeR.html | 36 +++++++++++++++++++----------------- vignettes/genotypeR.Rmd | 31 +++++++++++++++++-------------- 6 files changed, 78 insertions(+), 67 deletions(-)