Title: Implement Tour Methods in R Code
Diff between tourr versions 0.5.3 dated 2014-04-23 and 0.5.4 dated 2014-12-05
Description: Implements geodesic interpolation and basis
generation functions that allow you to create new tour
methods from R.
Author: Dianne Cook
Maintainer: Hadley Wickham
DESCRIPTION | 12 +-
MD5 | 170 +++++++++++++++++++--------------------
NAMESPACE | 2
NEWS | 5 +
R/display-density.r | 22 ++---
R/display-faces.r | 11 +-
R/display-trails.r | 2
R/path-andrews.r | 6 -
R/path-index.r | 6 -
R/tour-frozen.r | 45 +++++-----
man/Flea-measurements.Rd | 2
man/Laser-measurements.Rd | 2
man/Olive-oil-measurements.Rd | 2
man/Ozone-measurements.Rd | 2
man/Places-Ratings.Rd | 2
man/Rat-CNS.Rd | 2
man/Tropical-Atmosphere-Ocean.Rd | 2
man/anaglyph.Rd | 2
man/andrews.Rd | 2
man/animate.Rd | 8 -
man/bases_little.Rd | 6 -
man/basis_init.Rd | 2
man/basis_nearby.Rd | 2
man/basis_random.Rd | 2
man/blank_plot.Rd | 2
man/center.Rd | 2
man/check_freezer_safe.Rd | 2
man/cmass.Rd | 2
man/dependence_tour.Rd | 2
man/display_andrews.Rd | 2
man/display_depth.Rd | 2
man/display_dist.Rd | 2
man/display_faces.Rd | 2
man/display_image.Rd | 2
man/display_pcp.Rd | 2
man/display_scatmat.Rd | 2
man/display_stars.Rd | 2
man/display_stereo.Rd | 2
man/display_trails.Rd | 6 -
man/display_xy.Rd | 10 +-
man/draw_tour_axes.Rd | 2
man/find_best_dir.Rd | 2
man/find_best_frozen_dir.Rd | 2
man/find_frozen_path_peak.Rd | 2
man/find_path_peak.Rd | 2
man/find_platform.Rd | 2
man/freeze.Rd | 4
man/frozen_guided_tour.Rd | 2
man/frozen_tour.Rd | 2
man/geodesic_info.Rd | 2
man/geodesic_path.Rd | 2
man/grand_tour.Rd | 2
man/guided_tour.Rd | 6 -
man/holes.Rd | 2
man/interpolate.Rd | 2
man/is_orthonormal.Rd | 2
man/lda_pp.Rd | 2
man/little_tour.Rd | 2
man/local_tour.Rd | 2
man/new_geodesic_path.Rd | 6 -
man/new_tour.Rd | 2
man/normalise.Rd | 2
man/orthonormalise.Rd | 2
man/orthonormalise_by.Rd | 2
man/path_curves.Rd | 2
man/path_dist.Rd | 2
man/path_index.Rd | 2
man/paths_index.Rd | 2
man/pda_pp.Rd | 2
man/planned_tour.Rd | 2
man/plot.path_curve.Rd | 2
man/plot.path_index.Rd | 2
man/proj_dist.Rd | 2
man/project3d.Rd | 2
man/render.Rd | 2
man/rescale.Rd | 2
man/save_history.Rd | 2
man/search_better.Rd | 2
man/search_better_random.Rd | 2
man/search_frozen_geodesic.Rd | 2
man/search_geodesic.Rd | 2
man/sphere.Rd | 2
man/step_angle.Rd | 2
man/step_fraction.Rd | 2
man/to_stop.Rd | 2
man/xnul.Rd | 2
86 files changed, 239 insertions(+), 226 deletions(-)
Title: Conjugate Gradient Minimization of Nonlinear Functions
Diff between Rcgmin versions 2013-02.20 dated 2013-02-27 and 2013-2.21 dated 2014-12-05
Description: Conjugate gradient minimization of nonlinear functions
with box constraints incorporating the Dai/Yuan update. This
implementation should be used in place of the "CG" algorithm
of the optim() function.
Author: John C. Nash
Maintainer: John C. Nash
Rcgmin-2013-02.20/Rcgmin/FLAGS |only
Rcgmin-2013-02.20/Rcgmin/Makefile |only
Rcgmin-2013-2.21/Rcgmin/DESCRIPTION | 17 +++++++++--------
Rcgmin-2013-2.21/Rcgmin/MD5 | 14 +++++---------
Rcgmin-2013-2.21/Rcgmin/NAMESPACE | 3 +++
Rcgmin-2013-2.21/Rcgmin/NEWS | 9 +++++++++
Rcgmin-2013-2.21/Rcgmin/R/Rcgminb.R | 4 ++--
Rcgmin-2013-2.21/Rcgmin/R/Rcgminu.R | 4 ++--
8 files changed, 30 insertions(+), 21 deletions(-)
Title: An Infra-Structure for Performance Estimation of Predictive
Models
Diff between performanceEstimation versions 0.1.1 dated 2014-03-11 and 1.0.0 dated 2014-12-05
More information about performanceEstimation at CRAN
Description: An infra-structure for estimating the predictive performance
of predictive models. In this context, it can also be used to compare and/or select among
different alternative ways of solving one or more predictive tasks. The main goal of the
package is to provide a generic infra-structure to estimate the values of different metrics
of predictive performance using different estimation procedures. These estimation tasks can be
applied to any solutions (workflows) to the predictive tasks. The package provides easy to use
standard workflows that allow the usage of any available R modeling algorithm together with
some pre-defined data pre-processing steps and also prediction post-processing methods. It also provides means for addressing issues related with the statistical significance of the observed differences.
Author: Luis Torgo [aut, cre]
Maintainer: Luis Torgo
performanceEstimation-0.1.1/performanceEstimation/man/BootSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/CvSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/EstimationSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/HldSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/LoocvSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/McSettings-class.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/getIterationsResults.Rd |only
performanceEstimation-0.1.1/performanceEstimation/man/timeseriesMetrics.Rd |only
performanceEstimation-1.0.0/performanceEstimation/CHANGES | 9
performanceEstimation-1.0.0/performanceEstimation/DESCRIPTION | 31
performanceEstimation-1.0.0/performanceEstimation/MD5 | 120 -
performanceEstimation-1.0.0/performanceEstimation/NAMESPACE | 49
performanceEstimation-1.0.0/performanceEstimation/R/classDefs.R | 295 ++-
performanceEstimation-1.0.0/performanceEstimation/R/evaluationMetrics.R | 30
performanceEstimation-1.0.0/performanceEstimation/R/experiments.R | 798 ++++++----
performanceEstimation-1.0.0/performanceEstimation/R/methods.R | 341 ++--
performanceEstimation-1.0.0/performanceEstimation/R/resultsAnalysis.R | 331 +++-
performanceEstimation-1.0.0/performanceEstimation/R/resultsManipulation.R | 118 -
performanceEstimation-1.0.0/performanceEstimation/R/smote.R |only
performanceEstimation-1.0.0/performanceEstimation/R/workflows.R | 393 +++-
performanceEstimation-1.0.0/performanceEstimation/inst/CITATION | 18
performanceEstimation-1.0.0/performanceEstimation/inst/doc/performanceEstimation.pdf |binary
performanceEstimation-1.0.0/performanceEstimation/man/Bootstrap-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/CDdiagram.BD.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/CDdiagram.Nemenyi.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/CV-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/ComparisonResults-class.Rd | 42
performanceEstimation-1.0.0/performanceEstimation/man/EstCommon-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/EstimationMethod-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/EstimationResults-class.Rd | 37
performanceEstimation-1.0.0/performanceEstimation/man/EstimationTask-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/Holdout-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/LOOCV-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/MonteCarlo-class.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/PredTask-class.Rd | 49
performanceEstimation-1.0.0/performanceEstimation/man/WFoutput-class.Rd | 72
performanceEstimation-1.0.0/performanceEstimation/man/Workflow-class.Rd | 79
performanceEstimation-1.0.0/performanceEstimation/man/bootEstimates.Rd | 89 -
performanceEstimation-1.0.0/performanceEstimation/man/classificationMetrics.Rd | 9
performanceEstimation-1.0.0/performanceEstimation/man/cvEstimates.Rd | 118 -
performanceEstimation-1.0.0/performanceEstimation/man/estimationSummary.Rd | 38
performanceEstimation-1.0.0/performanceEstimation/man/getIterationInfo.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/getIterationPreds.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/getScores.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/getWorkflow.Rd | 16
performanceEstimation-1.0.0/performanceEstimation/man/hldEstimates.Rd | 115 -
performanceEstimation-1.0.0/performanceEstimation/man/is.classification.Rd | 20
performanceEstimation-1.0.0/performanceEstimation/man/is.regression.Rd | 21
performanceEstimation-1.0.0/performanceEstimation/man/knnImp.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/loocvEstimates.Rd | 87 -
performanceEstimation-1.0.0/performanceEstimation/man/mcEstimates.Rd | 101 -
performanceEstimation-1.0.0/performanceEstimation/man/mergeEstimationRes.Rd | 72
performanceEstimation-1.0.0/performanceEstimation/man/metricNames.Rd | 17
performanceEstimation-1.0.0/performanceEstimation/man/metricsSummary.Rd | 20
performanceEstimation-1.0.0/performanceEstimation/man/pairedComparisons.Rd | 176 +-
performanceEstimation-1.0.0/performanceEstimation/man/performanceEstimation.Rd | 166 +-
performanceEstimation-1.0.0/performanceEstimation/man/rankWorkflows.Rd | 28
performanceEstimation-1.0.0/performanceEstimation/man/regressionMetrics.Rd | 33
performanceEstimation-1.0.0/performanceEstimation/man/responseValues.Rd | 15
performanceEstimation-1.0.0/performanceEstimation/man/runWorkflow.Rd | 13
performanceEstimation-1.0.0/performanceEstimation/man/signifDiffs.Rd | 75
performanceEstimation-1.0.0/performanceEstimation/man/smote.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/standardPOST.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/standardPRE.Rd |only
performanceEstimation-1.0.0/performanceEstimation/man/standardWF.Rd | 201 +-
performanceEstimation-1.0.0/performanceEstimation/man/subset-methods.Rd | 4
performanceEstimation-1.0.0/performanceEstimation/man/taskNames.Rd | 17
performanceEstimation-1.0.0/performanceEstimation/man/timeseriesWF.Rd | 167 --
performanceEstimation-1.0.0/performanceEstimation/man/topPerformer.Rd | 18
performanceEstimation-1.0.0/performanceEstimation/man/topPerformers.Rd | 20
performanceEstimation-1.0.0/performanceEstimation/man/workflowInformation.Rd | 40
performanceEstimation-1.0.0/performanceEstimation/man/workflowNames.Rd | 17
performanceEstimation-1.0.0/performanceEstimation/man/workflowPredictions.Rd | 59
performanceEstimation-1.0.0/performanceEstimation/man/workflowVariants.Rd | 42
74 files changed, 2881 insertions(+), 1745 deletions(-)
Permanent link
Title: Tools to Support Optimization Methods
Diff between optextras versions 2013-10.27 dated 2013-11-08 and 2013-10.28 dated 2014-12-05
Description: Tools to assist in safely applying user-generated objective and
derivative functions to optimization programs. "Optimization" at the
time of writing refers primarily to function minimization methods with at most
bounds and masks on the parameters.
Tools are provided to check the basic computation of objective functions that
the user provides, along with proposed gradient and Hessian functions,
as well as to wrap such functions to avoid failures when inadmissible parameters
are provided. Checks on bounds and masks (fixed parameters) are available, as
are a check on scaling or optimality conditions. An axial search to seek lower
points on the objective function surface is included. Though numDeriv is
used as the primary tool for numerical derivative approximations, forward,
central and backward gradient approximation codes for convenience.
Author: John C. Nash [aut, cre]
Maintainer: John C. Nash
DESCRIPTION | 28 +++++++++++++++-------------
MD5 | 6 +++---
NAMESPACE | 3 +++
NEWS | 5 +++++
4 files changed, 26 insertions(+), 16 deletions(-)
Title: Functions for Nonlinear Least Squares Solutions
Diff between nlmrt versions 2013-9.24 dated 2014-05-05 and 2013-9.25 dated 2014-12-05
Description: nlmrt provides tools for working with nonlinear least squares problems
using a calling structure similar to, but much simpler than, that of the nls()
function. Moreover, where nls() specifically does NOT deal with small or zero
residual problems, nlmrt is quite happy to solve them. It also attempts to be
more robust in finding solutions, thereby avoiding 'singular gradient' messages
that arise in the Gauss-Newton method within nls(). The Marquardt-Nash approach
in nlmrt generally works more reliably to get a solution, though this solution
may be one of a set of possibilities, and may also be statistically unsatisfactory.
Because of the intended aggressive policy to find solutions, the approach may
use additional and unnecessary function and Jacobian evaluations.
Note that the Jacobian function is developed using analytic expressions rather
than numerical approximations if this is possible.
Added print and summary as of August 28, 2012.
Author: John C. Nash [aut, cre]
Maintainer: John C. Nash
DESCRIPTION | 18 +++++++++++-------
MD5 | 8 ++++----
NEWS | 5 +++++
build/vignette.rds |binary
vignettes/nlmrt-vignette.Rnw | 1 +
5 files changed, 21 insertions(+), 11 deletions(-)
Title: Creating and Plotting Data Objects for Understanding Random
Forests
Diff between ggRandomForests versions 1.0.0 dated 2014-10-15 and 1.1.0 dated 2014-12-05
More information about ggRandomForests at CRAN
Description: The ggRandomForests package contains tools for creating and
plotting data structures to visually understand random forest models. The
functions are designed for use with the randomForestSRC package. This
package is structured to extract intermediate data objects from the random
forest. S3 Plot functions, which use the ggplot2 package, are included for
each data object.
Author: John Ehrlinger
Maintainer: John Ehrlinger
ggRandomForests-1.0.0/ggRandomForests/data/airq_interaction.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/airq_prtl.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/airq_rf.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/airq_vs.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/iris_interaction.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/iris_prtl.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/iris_rf.rdata |only
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ggRandomForests-1.0.0/ggRandomForests/data/veteran_prtl.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/veteran_rf.rdata |only
ggRandomForests-1.0.0/ggRandomForests/data/veteran_vs.rdata |only
ggRandomForests-1.0.0/ggRandomForests/inst/doc/useR2014.pdf |only
ggRandomForests-1.0.0/ggRandomForests/man/ggRandomForests.Rd |only
ggRandomForests-1.1.0/ggRandomForests/DESCRIPTION | 15
ggRandomForests-1.1.0/ggRandomForests/MD5 | 143 +++--
ggRandomForests-1.1.0/ggRandomForests/NAMESPACE | 17
ggRandomForests-1.1.0/ggRandomForests/NEWS | 10
ggRandomForests-1.1.0/ggRandomForests/R/airq_prtl.R | 4
ggRandomForests-1.1.0/ggRandomForests/R/combine.gg_partial.R |only
ggRandomForests-1.1.0/ggRandomForests/R/gg_error.ggRandomForests.R | 3
ggRandomForests-1.1.0/ggRandomForests/R/gg_minimal_depth.ggRandomForests.R | 1
ggRandomForests-1.1.0/ggRandomForests/R/gg_partial.ggRandomForests.R | 2
ggRandomForests-1.1.0/ggRandomForests/R/gg_variable.ggRandomForests.R | 6
ggRandomForests-1.1.0/ggRandomForests/R/gg_vimp.ggRandomForests.R | 45 +
ggRandomForests-1.1.0/ggRandomForests/R/help.R | 7
ggRandomForests-1.1.0/ggRandomForests/R/mtcars_interaction.R |only
ggRandomForests-1.1.0/ggRandomForests/R/mtcars_prtl.R |only
ggRandomForests-1.1.0/ggRandomForests/R/mtcars_rf.R | 4
ggRandomForests-1.1.0/ggRandomForests/R/mtcars_vs.R |only
ggRandomForests-1.1.0/ggRandomForests/R/pbc_ggpart.R |only
ggRandomForests-1.1.0/ggRandomForests/R/pbc_interaction.R | 10
ggRandomForests-1.1.0/ggRandomForests/R/pbc_prtl.R |only
ggRandomForests-1.1.0/ggRandomForests/R/pbc_rf.R |only
ggRandomForests-1.1.0/ggRandomForests/R/pbc_vs.R |only
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_error.R | 18
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_interaction.R | 48 +
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_minimal_depth.R | 23
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_partial.R | 17
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_partial_list.R | 50 +-
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_rfsrc.R | 26 -
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_survival.R | 2
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_variable.R | 241 +++++++---
ggRandomForests-1.1.0/ggRandomForests/R/plot.gg_vimp.R | 60 ++
ggRandomForests-1.1.0/ggRandomForests/R/print.gg_error.R |only
ggRandomForests-1.1.0/ggRandomForests/R/print.gg_interaction.R |only
ggRandomForests-1.1.0/ggRandomForests/R/print.gg_minimal_depth.R | 28 -
ggRandomForests-1.1.0/ggRandomForests/R/print.gg_rfsrc.R |only
ggRandomForests-1.1.0/ggRandomForests/R/rebuild_cache_datasets.R |only
ggRandomForests-1.1.0/ggRandomForests/R/veteran_interaction.R |only
ggRandomForests-1.1.0/ggRandomForests/R/veteran_prtl.R | 4
ggRandomForests-1.1.0/ggRandomForests/README.md | 19
ggRandomForests-1.1.0/ggRandomForests/build |only
ggRandomForests-1.1.0/ggRandomForests/data/airq_interaction.rda |only
ggRandomForests-1.1.0/ggRandomForests/data/airq_prtl.rda |only
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ggRandomForests-1.1.0/ggRandomForests/data/datalist |only
ggRandomForests-1.1.0/ggRandomForests/data/iris_interaction.rda |only
ggRandomForests-1.1.0/ggRandomForests/data/iris_prtl.rda |only
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ggRandomForests-1.1.0/ggRandomForests/data/veteran_rf.rda |only
ggRandomForests-1.1.0/ggRandomForests/data/veteran_vs.rda |only
ggRandomForests-1.1.0/ggRandomForests/inst/CITATION | 4
ggRandomForests-1.1.0/ggRandomForests/inst/doc/randomForestSurvival.R |only
ggRandomForests-1.1.0/ggRandomForests/inst/doc/randomForestSurvival.Rnw |only
ggRandomForests-1.1.0/ggRandomForests/inst/doc/randomForestSurvival.pdf |only
ggRandomForests-1.1.0/ggRandomForests/man/airq_prtl.Rd | 4
ggRandomForests-1.1.0/ggRandomForests/man/combine.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/ggRandomForests-package.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/gg_variable.ggRandomForests.Rd | 6
ggRandomForests-1.1.0/ggRandomForests/man/mtcars_interaction.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/mtcars_prtl.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/mtcars_rf.Rd | 4
ggRandomForests-1.1.0/ggRandomForests/man/mtcars_vs.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/pbc_ggpart.Rd |only
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ggRandomForests-1.1.0/ggRandomForests/man/pbc_rf.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/pbc_vs.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/plot.gg_partial_list.Rd | 4
ggRandomForests-1.1.0/ggRandomForests/man/plot.gg_variable.Rd | 13
ggRandomForests-1.1.0/ggRandomForests/man/plot.gg_vimp.Rd | 8
ggRandomForests-1.1.0/ggRandomForests/man/print.gg_error.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/print.gg_interaction.Rd |only
ggRandomForests-1.1.0/ggRandomForests/man/print.gg_minimal_depth.Rd | 17
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ggRandomForests-1.1.0/ggRandomForests/man/veteran_prtl.Rd | 4
ggRandomForests-1.1.0/ggRandomForests/tests/testthat/test_gg_partial.R | 26 -
ggRandomForests-1.1.0/ggRandomForests/tests/testthat/test_gg_vimp.R | 4
ggRandomForests-1.1.0/ggRandomForests/vignettes |only
106 files changed, 649 insertions(+), 258 deletions(-)
Permanent link
Title: Change Point Logistic Regression
Diff between chngpt versions 2014.5-29 dated 2014-05-29 and 2014.12-2 dated 2014-12-05
Description: Hypothesis testing in change point logistic regression with or without interaction terms. Several options are provided for testing in models with interaction, including a maximum of likelihood ratios test that determines p-value through Monte Carlo. Estimation under change point model is also included, but less developed at this point.
Author: Youyi Fong
Maintainer: Youyi Fong
DESCRIPTION | 10 +--
MD5 | 16 ++---
NAMESPACE | 2
R/chngpt.test.R | 164 +++++++++++++++++++++++++++--------------------------
R/chngptm.R | 15 +++-
R/sim.sigmoid.R | 2
man/chngpt.Rd | 2
man/chngpt.test.Rd | 78 +++++++++++++------------
man/chngptm.Rd | 4 -
9 files changed, 158 insertions(+), 135 deletions(-)
Title: Effects under Linear, Logistic and Poisson Regression Models
with Transformed Variables
Diff between tlm versions 0.1.2 dated 2014-09-08 and 0.1.3 dated 2014-12-05
Description: Computation of effects under linear, logistic and Poisson regression models with transformed variables. Logarithm and power transformations are allowed. Effects can be displayed both numerically and graphically in both the original and the transformed space of the variables.
Author: Jose Barrera-Gomez and Xavier Basagana
Maintainer: Jose Barrera-Gomez
DESCRIPTION | 10 +--
MD5 | 26 +++++-----
NEWS |only
inst/doc/tlm-manual.pdf |binary
inst/doc/tlm.R | 121 +++++++++++++++++++++++-------------------------
inst/doc/tlm.Rnw | 15 +----
inst/doc/tlm.pdf |binary
man/MY.Rd | 5 -
man/effect.Rd | 5 -
man/effectInfo.Rd | 5 -
man/summary.tlm.Rd | 5 -
man/tlm-package.Rd | 9 +--
man/tlm.Rd | 5 -
vignettes/Sweave2.sty |only
vignettes/tlm.Rnw | 15 +----
15 files changed, 99 insertions(+), 122 deletions(-)
Title: Easily Tidy Data with spread() and gather() Functions.
Diff between tidyr versions 0.1 dated 2014-07-21 and 0.2.0 dated 2014-12-05
Description: An evolution of reshape2. It's designed specifically for data
tidying (not general reshaping or aggregating) and works well with
dplyr data pipelines.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham
DESCRIPTION | 25 ++++++++------
MD5 | 55 ++++++++++++++++++--------------
NAMESPACE | 12 ++++++-
R/expand.R |only
R/gather.R | 16 +++++++--
R/separate.R | 70 +++++++++++++++++++++++++++++------------
R/spread.R | 48 +++++++++++++++++++++-------
R/unnest.R |only
R/utils.R | 18 +++++++++-
README.md | 8 ++++
build/vignette.rds |binary
inst/doc/tidy-data.Rmd | 16 +++++----
inst/doc/tidy-data.html | 35 ++++++++++++++------
man/expand.Rd |only
man/expand_.Rd |only
man/extract.Rd | 6 +--
man/extract_.Rd | 2 -
man/extract_numeric.Rd | 12 +++++--
man/gather.Rd | 2 -
man/gather_.Rd | 4 +-
man/separate.Rd | 29 ++++++++++++++--
man/separate_.Rd | 15 +++++++-
man/seq_range.Rd |only
man/spread.Rd | 11 ++++--
man/spread_.Rd | 7 ++--
man/unite.Rd | 6 +--
man/unite_.Rd | 2 -
man/unnest.Rd |only
man/unnest_.Rd |only
tests/testthat/test-gather.R |only
tests/testthat/test-separate.R |only
tests/testthat/test-spread.R | 23 +++++++++++++
vignettes/tidy-data.Rmd | 16 +++++----
33 files changed, 317 insertions(+), 121 deletions(-)
Title: Side Effect Risks in Hospital : Simulation and Estimation
Diff between rhosp versions 1.05 dated 2013-12-11 and 1.06 dated 2014-12-05
Description: Evaluating risk (that a patient arises a side effect) during hospitalization is the main purpose of this package. Several methods (Parametric, non parametric and De Vielder estimation) to estimate the risk constant (R) are implemented in this package. There are also functions to simulate the different models of this issue in order to quantify the previous estimators. It is necessary to read at least the first six pages of the report to understand the topic.
Author: Christophe Dutang and Julie Barthes
Maintainer: Christophe Dutang
rhosp-1.05/rhosp/inst/doc/rhosp.R |only
rhosp-1.06/rhosp/DESCRIPTION | 8 ++++----
rhosp-1.06/rhosp/MD5 | 4 ++--
rhosp-1.06/rhosp/build |only
4 files changed, 6 insertions(+), 6 deletions(-)
Title: Toolbox for Pseudo and Quasi Random Number Generation and RNG
Tests.
Diff between randtoolbox versions 1.15 dated 2014-07-24 and 1.16 dated 2014-12-05
Description: The package provides (1) pseudo random generators - general linear congruential generators (Park Miller) and multiple recursive generators (Knuth TAOCP), generalized feedback shift register (SF-Mersenne Twister algorithm and WELL generators); (2) quasi random generators - the Torus algorithm, the Sobol sequence, the Halton sequence (thus include Van der Corput sequence) and (3) some additional tests such as the gap test, the serial test, the poker test... The package depends on rngWELL package but it can be provided without this dependency on demand to the maintainer. For true random number generation, use the 'random' package, for Latin Hypercube Sampling (a hybrid QMC method), use the 'lhs' package, a number of RNGs and tests for RNGs are provided by 'RDieHarder', all available on CRAN. There is also a small stand-alone package 'rngwell19937' for the WELL19937a RNG.
Author: R port by Yohan Chalabi, Christophe Dutang, Petr Savicky and Diethelm Wuertz (underlying C codes of (i) the SFMT algorithm from M. Matsumoto and M. Saito, (ii) the Knuth-TAOCP RNG from D. Knuth).
Maintainer: Christophe Dutang
DESCRIPTION | 11 +++++------
MD5 | 20 ++++++++++----------
inst/CITATION | 5 ++---
inst/NEWS | 12 +++++++-----
inst/doc/fullpres.Rnw | 5 +----
inst/doc/fullpres.pdf |binary
inst/doc/shortintro.Rnw | 2 --
inst/doc/shortintro.pdf |binary
src/version.c | 2 +-
vignettes/fullpres.Rnw | 5 +----
vignettes/shortintro.Rnw | 2 --
11 files changed, 27 insertions(+), 37 deletions(-)
Title: Bayesian reconstruction of disease outbreaks by combining
epidemiologic and genomic data
Diff between outbreaker versions 1.1-3 dated 2014-05-08 and 1.1-4 dated 2014-12-05
Description: Bayesian reconstruction of disease outbreaks using epidemiological and genetic information.
Author: Thibaut Jombart
Maintainer: Thibaut Jombart
DESCRIPTION | 14 -
MD5 | 42 ++--
R/interface.R | 135 ++++++++-----
R/simOutbreak.R | 25 --
data/fakeOutbreak.RData |binary
man/outbreaker.Rd | 73 ++++---
man/simOutbreak.Rd | 2
src/distances.c | 2
src/init.c | 62 +++---
src/init.h | 4
src/likelihood.c | 246 +++++++++++++++++--------
src/likelihood.h | 26 +-
src/matvec.c | 24 +-
src/mcmc.c | 472 ++++++++++++++++++++++++++++--------------------
src/mcmc.h | 8
src/moves.c | 416 +++++++++++++++++++++---------------------
src/moves.h | 22 +-
src/outbreaker.c | 88 ++++----
src/prior.c | 18 +
src/prior.h | 4
src/structures.c | 88 +++++---
src/structures.h | 20 +-
22 files changed, 1029 insertions(+), 762 deletions(-)
Title: Gumbel Copula
Diff between gumbel versions 1.04 dated 2012-07-31 and 1.05 dated 2014-12-05
Description: stand alone package providing R functions for the Gumbel-Hougaard copula. We provide probability functions (cumulative distribution and density functions), simulation function (Gumbel copula multivariate simulation) and estimation functions (Maximum Likelihood Estimation, Inference For Margins, Moment Based Estimation and Canonical Maximum Likelihood).
Author: Anne-Lise Caillat, Christophe Dutang, Veronique Larrieu and Triet Nguyen
Maintainer: Christophe Dutang
gumbel-1.04/gumbel/vignettes/img/densite.pdf |only
gumbel-1.04/gumbel/vignettes/img/simulation1234.pdf |only
gumbel-1.05/gumbel/DESCRIPTION | 23 ++++++--------------
gumbel-1.05/gumbel/MD5 | 21 +++++++++---------
gumbel-1.05/gumbel/build |only
gumbel-1.05/gumbel/data/windEchirolles.rda |binary
gumbel-1.05/gumbel/data/windStMartin.rda |binary
gumbel-1.05/gumbel/inst/CITATION | 2 -
gumbel-1.05/gumbel/inst/doc/gumbel.Rnw | 4 +--
gumbel-1.05/gumbel/inst/doc/gumbel.pdf |binary
gumbel-1.05/gumbel/man/gumbel.Rd | 18 ++++++++++-----
gumbel-1.05/gumbel/vignettes/gumbel.Rnw | 4 +--
gumbel-1.05/gumbel/vignettes/img/densite.png |only
gumbel-1.05/gumbel/vignettes/img/simulation1234.png |only
14 files changed, 36 insertions(+), 36 deletions(-)
Title: Cross-Recurrence Quantification Analysis for Categorical and
Continuous Time-Series
Diff between crqa versions 1.0.4 dated 2014-03-17 and 1.0.5 dated 2014-12-05
Description:
CRQA is a package to perform cross-recurrence quantification
analysis between two time-series, of either categorical or
continuous values. It provides different methods
for profiling cross-recurrence, i.e., only looking
at the diagonal recurrent points, as well as more
in-depth measures of the whole cross-recurrence plot,
e.g., recurrence rate.
Author: Moreno I. Coco and Rick Dale
Maintainer: Moreno I. Coco
DESCRIPTION | 8 -
MD5 | 26 +--
NAMESPACE | 6
R/checkts.R | 54 ++++++--
R/crqa.R | 153 ++++++++++++++++-------
R/optimizeParam.R | 335 +++++++++++++++++++++++++++------------------------
R/runcrqa.R | 35 +++--
R/wincrqa.R | 90 +++++++++----
man/checkts.Rd | 22 ++-
man/crqa.Rd | 52 ++++---
man/optimizeParam.Rd | 36 +++--
man/runcrqa.Rd | 10 -
man/tt.Rd | 2
man/wincrqa.Rd | 44 +++---
14 files changed, 532 insertions(+), 341 deletions(-)
Title: Analyses of Phylogenetics and Evolution
Diff between ape versions 3.1-4 dated 2014-07-15 and 3.2 dated 2014-12-05
Description: ape provides functions for reading, writing, plotting, and manipulating phylogenetic trees, analyses of comparative data in a phylogenetic framework, ancestral character analyses, analyses of diversification and macroevolution, computing distances from allelic and nucleotide data, reading and writing nucleotide sequences as well as importing from BioConductor, and several tools such as Mantel's test, generalized skyline plots, graphical exploration of phylogenetic data (alex, trex, kronoviz), estimation of absolute evolutionary rates and clock-like trees using mean path lengths and penalized likelihood. Phylogeny estimation can be done with the NJ, BIONJ, ME, MVR, SDM, and triangle methods, and several methods handling incomplete distance matrices (NJ*, BIONJ*, MVR*, and the corresponding triangle method). Some functions call external applications (PhyML, Clustal, T-Coffee, Muscle) whose results are returned into R.
Author: Emmanuel Paradis [aut, cre, cph],
Simon Blomberg [aut, cph],
Ben Bolker [aut, cph],
Julien Claude [aut, cph],
Hoa Sien Cuong [aut, cph],
Richard Desper [aut, cph],
Gilles Didier [aut, cph],
Benoit Durand [aut, cph],
Julien Dutheil [aut, cph],
Olivier Gascuel [aut, cph],
Christoph Heibl [aut, cph],
Daniel Lawson [aut, cph],
Vincent Lefort [aut, cph],
Pierre Legendre [aut, cph],
Jim Lemon [aut, cph],
Rosemary McCloskey [aut, cph],
Johan Nylander [aut, cph],
Rainer Opgen-Rhein [aut, cph],
Andrei-Alin Popescu [aut, cph],
Manuela Royer-Carenzi [aut, cph],
Klaus Schliep [aut, cph],
Korbinian Strimmer [aut, cph],
Damien de Vienne [aut, cph]
Maintainer: Emmanuel Paradis
DESCRIPTION | 18 +++-
MD5 | 70 +++++++++--------
NAMESPACE | 4 +
R/DNA.R | 27 ++++++
R/ace.R | 2
R/def.R |only
R/dist.topo.R | 1
R/is.ultrametric.R | 2
R/multi2di.R | 16 ++--
R/nodepath.R |only
R/phymltest.R | 4 -
R/plot.phylo.R | 4 -
R/read.nexus.R | 8 +-
R/read.tree.R | 2
R/reconstruct.R |only
R/rtt.R | 6 -
R/scales.R | 42 ++++++----
R/vcv.phylo.R | 2
R/vcv2phylo.R |only
R/write.nexus.data.R | 176 ++++++++++++++++++---------------------------
build/vignette.rds |binary
data/hivtree.newick.rda |binary
data/landplants.newick.rda |binary
data/opsin.newick.rda |binary
inst/doc/MoranI.pdf |binary
man/all.equal.phylo.Rd | 4 -
man/ape-internal.Rd | 6 +
man/as.alignment.Rd | 32 +++++++-
man/axisPhylo.Rd | 8 +-
man/compar.lynch.Rd | 2
man/corClasses.Rd | 3
man/def.Rd |only
man/diversi.gof.Rd | 6 -
man/mst.Rd | 2
man/nodepath.Rd |only
man/plot.phylo.Rd | 1
man/reconstruct.Rd |only
man/vcv.phylo.Rd | 2
man/vcv2phylo.Rd |only
man/write.nexus.data.Rd | 29 +++----
40 files changed, 266 insertions(+), 213 deletions(-)
Title: Hierarchical Clustering with P-Values via Multiscale Bootstrap
Resampling
Diff between pvclust versions 1.3-0 dated 2014-10-08 and 1.3-1 dated 2014-12-05
Description: An implementation of multiscale bootstrap resampling for
assessing the uncertainty in hierarchical cluster analysis.
It provides AU (approximately unbiased) p-value as well as
BP (bootstrap probability) value for each cluster in a dendrogram.
Author: Ryota Suzuki
Maintainer: Ryota Suzuki
DESCRIPTION | 16 -
MD5 | 20 -
NAMESPACE | 36 +--
R/pvclust-internal.R | 540 +++++++++++++++++++++++++--------------------------
man/lung.Rd | 122 +++++------
man/msfit.Rd | 138 ++++++-------
man/msplot.Rd | 32 +--
man/plot.pvclust.Rd | 130 ++++++------
man/print.pvclust.Rd | 72 +++---
man/pvpick.Rd | 96 ++++-----
man/seplot.Rd | 46 ++--
11 files changed, 624 insertions(+), 624 deletions(-)
Title: Bayesian Estimation of Incoherent Neutron Scattering Backgrounds
Diff between BBEST versions 0.1-0 dated 2014-08-15 and 0.1-1 dated 2014-12-05
Description: We implemented a Bayesian-statistics approach for
subtraction of incoherent scattering from neutron total-scattering data.
In this approach, the estimated background signal associated with
incoherent scattering maximizes the posterior probability, which combines
the likelihood of this signal in reciprocal and real spaces with the prior
that favors smooth lines.
Author: Anton Gagin and Igor Levin with contributions from Charles R. Hogg III
Maintainer: Anton Gagin
DESCRIPTION | 10 +++++-----
MD5 | 8 +++++---
README.md | 6 ++++++
inst/extdata |only
man/set.sigma.Rd | 6 +++++-
5 files changed, 21 insertions(+), 9 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2009-10-08 1.5-0
2008-04-16 1.4-0
2007-03-27 1.3-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2012-07-02 0.0.5
Title: Robust Time Series Filters
Diff between robfilter versions 4.0 dated 2012-09-13 and 4.1 dated 2014-12-05
Description: A set of functions to filter time series based on concepts
from robust statistics.
Author: Roland Fried
Maintainer: Roland Fried
robfilter-4.0/robfilter/privdata |only
robfilter-4.0/robfilter/scripts |only
robfilter-4.1/robfilter/DESCRIPTION | 7 ++++---
robfilter-4.1/robfilter/MD5 | 26 +++++++++++---------------
robfilter-4.1/robfilter/NAMESPACE | 3 ++-
robfilter-4.1/robfilter/R/adore.filter.R | 2 +-
robfilter-4.1/robfilter/R/madore.filter.R | 4 ++--
robfilter-4.1/robfilter/R/mscarm.filter.R | 7 +++----
robfilter-4.1/robfilter/R/scarm.filter.R | 4 ++--
robfilter-4.1/robfilter/R/sysdata.rda |binary
robfilter-4.1/robfilter/man/mscarm.filter.Rd | 2 ++
robfilter-4.1/robfilter/src/LQDAdvanced.h | 17 +++++++++++++----
robfilter-4.1/robfilter/src/RMquick.cpp | 14 +++++++++++++-
robfilter-4.1/robfilter/src/robust.cpp | 11 ++++++++++-
14 files changed, 63 insertions(+), 34 deletions(-)
Title: Risk regression models for survival analysis with competing
risks
Diff between riskRegression versions 0.0.8 dated 2013-01-08 and 1.0.9 dated 2014-12-05
More information about riskRegression at CRAN
Description: Risk regression models for survival analysis with and without
competing risks.
Author: Thomas Alexander Gerds, Thomas Harder Scheike
Maintainer: Thomas Alexander Gerds
riskRegression-0.0.8/riskRegression/R/modelMatrix.R |only
riskRegression-0.0.8/riskRegression/R/print.modelMatrix.R |only
riskRegression-0.0.8/riskRegression/R/readFormula.R |only
riskRegression-0.0.8/riskRegression/R/rhs.R |only
riskRegression-0.0.8/riskRegression/examples |only
riskRegression-0.0.8/riskRegression/prepareData |only
riskRegression-1.0.9/riskRegression/DESCRIPTION | 23
riskRegression-1.0.9/riskRegression/MD5 | 88
riskRegression-1.0.9/riskRegression/NAMESPACE | 50
riskRegression-1.0.9/riskRegression/R/ARR.R | 1
riskRegression-1.0.9/riskRegression/R/CSC.R | 274 +-
riskRegression-1.0.9/riskRegression/R/FGR.R | 280 +--
riskRegression-1.0.9/riskRegression/R/LRR.R | 1
riskRegression-1.0.9/riskRegression/R/coef.riskRegression.R | 10
riskRegression-1.0.9/riskRegression/R/plot.CauseSpecificCox.R | 1
riskRegression-1.0.9/riskRegression/R/plot.predictedRisk.R | 1
riskRegression-1.0.9/riskRegression/R/plot.riskRegression.R | 272 +-
riskRegression-1.0.9/riskRegression/R/plotEffects.R | 159 +
riskRegression-1.0.9/riskRegression/R/predict.CauseSpecificCox.R | 4
riskRegression-1.0.9/riskRegression/R/predict.FGR.R | 50
riskRegression-1.0.9/riskRegression/R/predict.riskRegression.R | 195 +-
riskRegression-1.0.9/riskRegression/R/print.CauseSpecificCox.R | 35
riskRegression-1.0.9/riskRegression/R/print.FGR.R | 1
riskRegression-1.0.9/riskRegression/R/print.riskRegression.R | 184 -
riskRegression-1.0.9/riskRegression/R/print.subjectWeights.R | 3
riskRegression-1.0.9/riskRegression/R/print.timevarCoefList.R | 1
riskRegression-1.0.9/riskRegression/R/riskRegression-package.R |only
riskRegression-1.0.9/riskRegression/R/riskRegression.R | 926 +++++-----
riskRegression-1.0.9/riskRegression/R/subjectWeights.R | 235 +-
riskRegression-1.0.9/riskRegression/R/summary.FGR.R | 1
riskRegression-1.0.9/riskRegression/R/summary.riskRegression.R | 251 +-
riskRegression-1.0.9/riskRegression/R/timevarCoef.R | 2
riskRegression-1.0.9/riskRegression/R/timevarCoefList.R | 2
riskRegression-1.0.9/riskRegression/R/timevarCoefMatrix.R | 24
riskRegression-1.0.9/riskRegression/data/Melanoma.rda |binary
riskRegression-1.0.9/riskRegression/man/CSC.Rd | 121 -
riskRegression-1.0.9/riskRegression/man/FGR.Rd | 106 -
riskRegression-1.0.9/riskRegression/man/Melanoma.Rd | 77
riskRegression-1.0.9/riskRegression/man/plot.riskRegression.Rd | 164 +
riskRegression-1.0.9/riskRegression/man/plotEffects.Rd | 174 -
riskRegression-1.0.9/riskRegression/man/predict.riskRegression.Rd | 96 -
riskRegression-1.0.9/riskRegression/man/riskRegression.Rd | 235 +-
riskRegression-1.0.9/riskRegression/man/subjectWeights.Rd | 105 -
riskRegression-1.0.9/riskRegression/src/itfit.c | 832 ++++++--
riskRegression-1.0.9/riskRegression/src/matrix.h |only
riskRegression-1.0.9/riskRegression/src/riskregression.h | 50
riskRegression-1.0.9/riskRegression/tests |only
47 files changed, 2971 insertions(+), 2063 deletions(-)
Permanent link
Title: Prediction Error Curves for risk prediction models in survival
analysis
Diff between pec versions 2.3.7 dated 2014-09-05 and 2.4.4 dated 2014-12-05
Description: Validation of risk predictions obtained from survival models and
competing risk models based on censored data using inverse weighting and
cross-validation.
Author: Thomas A. Gerds
Maintainer: Thomas A. Gerds
DESCRIPTION | 24 +-
MD5 | 53 +++--
NAMESPACE | 7
R/CindexBootstrapCrossValidation.R | 4
R/CindexKFoldCrossValidation.R | 4
R/bootstrapCrossValidation.R | 6
R/calPlot.R | 8
R/cindex.R | 7
R/crps.R | 2
R/ipcw.R | 43 +++-
R/kFoldCrossValidation.R | 4
R/pec.R | 262 +++++++++++++++--------------
R/predictEventProb.R | 44 ++--
R/predictEventProb.selectFGR.R | 2
R/predictSurvProb.R | 330 ++++++++++++++++---------------------
R/predictSurvProb.cforest.R | 9 -
R/predictSurvProb.ctree.R | 19 ++
R/predictSurvProb.penfitS3.R | 1
R/pseudoPecMethods.R | 8
R/resolveSplitMethod.R | 192 +++++++++++----------
man/ipcw.Rd | 1
man/pec.Rd | 20 +-
man/pecCforest.Rd | 15 +
man/pecCtree.Rd |only
man/pecRpart.Rd |only
man/predictEventProb.Rd | 4
man/predictSurvProb.Rd | 27 +--
man/selectFGR.Rd | 2
tests |only
29 files changed, 569 insertions(+), 529 deletions(-)
Title: Multivariate Analysis of Mixed Data
Diff between PCAmixdata versions 2.1 dated 2014-02-10 and 2.2 dated 2014-12-05
Description: Principal Component Analysis, orthogonal rotation and multiple factor analysis for a mixture of quantitative and qualitative variables.
Author: Marie Chavent and Vanessa Kuentz and Amaury Labenne and Benoit Liquet and Jerome Saracco.
Maintainer: Amaury Labenne
PCAmixdata-2.1/PCAmixdata/R/Cut.Group.R |only
PCAmixdata-2.1/PCAmixdata/R/Tri.Data.R |only
PCAmixdata-2.1/PCAmixdata/data/INSEE.rda |only
PCAmixdata-2.1/PCAmixdata/man/Cut.Group.Rd |only
PCAmixdata-2.1/PCAmixdata/man/INSEE.Rd |only
PCAmixdata-2.1/PCAmixdata/man/Tri.Data.Rd |only
PCAmixdata-2.2/PCAmixdata/DESCRIPTION | 22
PCAmixdata-2.2/PCAmixdata/MD5 | 106 +-
PCAmixdata-2.2/PCAmixdata/NAMESPACE | 16
PCAmixdata-2.2/PCAmixdata/R/Lg.R | 3
PCAmixdata-2.2/PCAmixdata/R/MFAmix.R | 523 +++++------
PCAmixdata-2.2/PCAmixdata/R/PCAmix.R | 687 ++++++--------
PCAmixdata-2.2/PCAmixdata/R/PCArot.R | 18
PCAmixdata-2.2/PCAmixdata/R/RV.R | 41
PCAmixdata-2.2/PCAmixdata/R/RV.pond.R | 42
PCAmixdata-2.2/PCAmixdata/R/nb.level.R | 13
PCAmixdata-2.2/PCAmixdata/R/plot.MFAmix.R | 971 +++++++++++----------
PCAmixdata-2.2/PCAmixdata/R/plot.PCAmix.R | 471 +++++++---
PCAmixdata-2.2/PCAmixdata/R/predict.MFAmix.R | 140 +--
PCAmixdata-2.2/PCAmixdata/R/predict.PCAmix.R | 117 +-
PCAmixdata-2.2/PCAmixdata/R/print.MFAmix.R | 49 -
PCAmixdata-2.2/PCAmixdata/R/print.PCAmix.R | 48 -
PCAmixdata-2.2/PCAmixdata/R/recod.R | 229 ++--
PCAmixdata-2.2/PCAmixdata/R/recodqual.R | 16
PCAmixdata-2.2/PCAmixdata/R/recodquant.R | 15
PCAmixdata-2.2/PCAmixdata/R/sol.2dim.R | 66 -
PCAmixdata-2.2/PCAmixdata/R/splitgroups.R |only
PCAmixdata-2.2/PCAmixdata/R/splitmix.R |only
PCAmixdata-2.2/PCAmixdata/R/summary.MFAmix.R | 110 +-
PCAmixdata-2.2/PCAmixdata/R/summary.PCAmix.R | 88 -
PCAmixdata-2.2/PCAmixdata/R/svd.triplet.R | 92 -
PCAmixdata-2.2/PCAmixdata/R/tab.disjonctif.NA.R | 74 -
PCAmixdata-2.2/PCAmixdata/data/gironde.rda |only
PCAmixdata-2.2/PCAmixdata/man/Lg.Rd | 84 -
PCAmixdata-2.2/PCAmixdata/man/Lg.pond.Rd | 81 -
PCAmixdata-2.2/PCAmixdata/man/MFAmix.Rd | 208 ++--
PCAmixdata-2.2/PCAmixdata/man/PCAmix.Rd | 332 +++----
PCAmixdata-2.2/PCAmixdata/man/PCArot.Rd | 65 -
PCAmixdata-2.2/PCAmixdata/man/RV.Rd | 75 -
PCAmixdata-2.2/PCAmixdata/man/RV.pond.Rd | 81 -
PCAmixdata-2.2/PCAmixdata/man/decathlon.Rd | 63 -
PCAmixdata-2.2/PCAmixdata/man/gironde.Rd |only
PCAmixdata-2.2/PCAmixdata/man/nb.level.Rd | 33
PCAmixdata-2.2/PCAmixdata/man/plot.MFAmix.Rd | 296 +++---
PCAmixdata-2.2/PCAmixdata/man/plot.PCAmix.Rd | 232 ++---
PCAmixdata-2.2/PCAmixdata/man/predict.MFAmix.Rd | 115 +-
PCAmixdata-2.2/PCAmixdata/man/predict.PCAmix.Rd | 95 +-
PCAmixdata-2.2/PCAmixdata/man/print.MFAmix.Rd | 49 -
PCAmixdata-2.2/PCAmixdata/man/print.PCAmix.Rd | 8
PCAmixdata-2.2/PCAmixdata/man/recod.Rd | 104 +-
PCAmixdata-2.2/PCAmixdata/man/recodqual.Rd | 13
PCAmixdata-2.2/PCAmixdata/man/recodquant.Rd | 64 -
PCAmixdata-2.2/PCAmixdata/man/splitgroups.Rd |only
PCAmixdata-2.2/PCAmixdata/man/splitmix.Rd |only
PCAmixdata-2.2/PCAmixdata/man/summary.MFAmix.Rd | 60 -
PCAmixdata-2.2/PCAmixdata/man/summary.PCAmix.Rd | 88 -
PCAmixdata-2.2/PCAmixdata/man/svd.triplet.Rd | 66 -
PCAmixdata-2.2/PCAmixdata/man/tab.disjonctif.NA.Rd | 23
PCAmixdata-2.2/PCAmixdata/man/vnf.Rd | 11
PCAmixdata-2.2/PCAmixdata/man/wine.Rd | 2
60 files changed, 3193 insertions(+), 3012 deletions(-)
Title: Product-limit estimation for censored event history analysis
Diff between prodlim versions 1.4.5 dated 2014-09-02 and 1.5.0 dated 2014-12-05
Description: Fast and user friendly implementation of nonparametric estimators
for censored event history (survival) analysis. Kaplan-Meier and
Aalen-Johansen method.
Author: Thomas A. Gerds
Maintainer: Thomas A. Gerds
prodlim-1.4.5/prodlim/R/NN.R |only
prodlim-1.4.5/prodlim/R/SpecialFrame.R |only
prodlim-1.4.5/prodlim/R/cluster.R |only
prodlim-1.4.5/prodlim/man/NN.Rd |only
prodlim-1.5.0/prodlim/DESCRIPTION | 14 -
prodlim-1.5.0/prodlim/MD5 | 54 ++--
prodlim-1.5.0/prodlim/NAMESPACE | 2
prodlim-1.5.0/prodlim/R/EventHistory.frame.R | 161 ++++++++----
prodlim-1.5.0/prodlim/R/Hist.R | 253 +++++++++++---------
prodlim-1.5.0/prodlim/R/atRisk.R | 172 +++++++------
prodlim-1.5.0/prodlim/R/model.design.R | 250 ++++++++++++++-----
prodlim-1.5.0/prodlim/R/parseSpecialNames.R | 204 +++++++++-------
prodlim-1.5.0/prodlim/R/plot.prodlim.R | 9
prodlim-1.5.0/prodlim/R/plotCompetingRiskModel.R | 2
prodlim-1.5.0/prodlim/R/prodlim.R | 218 ++++++++---------
prodlim-1.5.0/prodlim/R/quantile.prodlim.R | 72 +++--
prodlim-1.5.0/prodlim/R/strip.terms.R |only
prodlim-1.5.0/prodlim/R/summary.prodlim.R | 7
prodlim-1.5.0/prodlim/man/EventHistory.frame.Rd | 72 ++++-
prodlim-1.5.0/prodlim/man/atRisk.Rd | 10
prodlim-1.5.0/prodlim/man/model.design.Rd | 102 +++++---
prodlim-1.5.0/prodlim/man/parseSpecialNames.Rd | 53 +++-
prodlim-1.5.0/prodlim/man/plot.prodlim.Rd | 4
prodlim-1.5.0/prodlim/man/plotCompetingRiskModel.Rd | 3
prodlim-1.5.0/prodlim/man/prodlim.Rd | 29 +-
prodlim-1.5.0/prodlim/man/quantile.prodlim.Rd | 4
prodlim-1.5.0/prodlim/man/strip.terms.Rd |only
prodlim-1.5.0/prodlim/src/IntIndex.c | 2
prodlim-1.5.0/prodlim/src/icens_prodlim.c | 2
prodlim-1.5.0/prodlim/src/prodlim_comprisk.c | 10
prodlim-1.5.0/prodlim/src/prodlim_surv.c | 1
31 files changed, 1076 insertions(+), 634 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-09-02 1.2.4
2009-05-10 1.2.2
2007-11-27 1.2.1
2007-02-11 1.1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-07 3.1
2014-04-19 3.0
2014-04-14 2.7
2014-01-27 2.2
2013-11-20 2.0
2013-11-15 1.9.1
2013-11-11 1.9
2013-09-29 1.4
2013-09-26 1.3
2013-09-04 1.0
2013-07-29 0.7
2013-05-28 0.5
2013-04-13 0.3
2013-04-01 0.2
2013-03-20 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-01-28 2014.01-2
2014-01-15 2014.01-1
Title: Approximate Gaussian processes Using the Fourier Basis
Diff between spectralGP versions 1.3.1 dated 2012-11-17 and 1.3.2 dated 2014-12-05
Description: Routines for creating, manipulating, and performing
Bayesian inference about Gaussian processes in
one and two dimensions using the Fourier basis approximation:
simulation and plotting of processes, calculation of
coefficient variances, calculation of process density,
coefficient proposals (for use in MCMC). It uses R environments to
store GP objects as references/pointers.
Author: Chris Paciorek
Maintainer: Chris Paciorek
spectralGP-1.3.1/spectralGP/oldNAMESPACE |only
spectralGP-1.3.1/spectralGP/oldS3NAMESPACE |only
spectralGP-1.3.1/spectralGP/zzz.R |only
spectralGP-1.3.2/spectralGP/DESCRIPTION | 25 +++++++++++++------------
spectralGP-1.3.2/spectralGP/MD5 | 9 +++------
spectralGP-1.3.2/spectralGP/R/onLoad.R | 6 ++++--
spectralGP-1.3.2/spectralGP/man/image.plot.Rd | 12 ++++++------
7 files changed, 26 insertions(+), 26 deletions(-)
Title: Reconstruct Human Populations of the Recent Past
Diff between popReconstruct versions 1.0-3 dated 2013-09-24 and 1.0-4 dated 2014-12-05
More information about popReconstruct at CRAN
Description: Implements the Bayesian hierarchical model described by Wheldon, Raftery, Clark and Gerland (see: http://www.csss.washington.edu/Papers/wp108.pdf) for simultaneously estimating age-specific population counts, fertility rates, mortality rates and net international migration flows, at the national level.
Author: Mark C. Wheldon
Maintainer: "Mark C. Wheldon"
ChangeLog | 10 +++++++++-
DESCRIPTION | 19 ++++++++-----------
MD5 | 5 +++--
build |only
4 files changed, 20 insertions(+), 14 deletions(-)
Permanent link
Title: Retrieve Oklahoma Mesonet climatological data
Diff between okmesonet versions 0.1.4 dated 2012-09-14 and 0.1.5 dated 2014-12-05
Description: okmesonet retrieves and summarizes Oklahoma (USA) Mesonet
climatological data provided by the Oklahoma Climatological Survey.
Measurements are recorded every five minutes at approximately 120 stations
throughout Oklahoma and are available in near real-time.
Author: Brady Allred, Torre Hovick, Samuel Fuhlendorf
Maintainer: Brady Allred
okmesonet-0.1.4/okmesonet/man/data.checkgeoinfo.Rd |only
okmesonet-0.1.4/okmesonet/man/data.downloadstn.Rd |only
okmesonet-0.1.5/okmesonet/DESCRIPTION | 16 ++++++------
okmesonet-0.1.5/okmesonet/MD5 | 26 ++++++++++-----------
okmesonet-0.1.5/okmesonet/NEWS | 6 ++++
okmesonet-0.1.5/okmesonet/R/okmesonet.R | 18 ++++++--------
okmesonet-0.1.5/okmesonet/R/okmts.R | 2 -
okmesonet-0.1.5/okmesonet/R/updatestn.R | 5 +---
okmesonet-0.1.5/okmesonet/README | 8 +++---
okmesonet-0.1.5/okmesonet/data/okstations.rda |binary
okmesonet-0.1.5/okmesonet/man/checkgeoinfo.Rd |only
okmesonet-0.1.5/okmesonet/man/downloadstn.Rd |only
okmesonet-0.1.5/okmesonet/man/okmesonet-package.Rd | 5 +++-
okmesonet-0.1.5/okmesonet/man/okmts.Rd | 2 -
okmesonet-0.1.5/okmesonet/man/okstations.Rd | 8 +++---
okmesonet-0.1.5/okmesonet/man/updatestn.Rd | 6 +---
16 files changed, 53 insertions(+), 49 deletions(-)
Title: Constrained Inference for Linear Mixed Effects Models
Diff between CLME versions 1.0-1 dated 2014-10-17 and 2.0-1 dated 2014-12-05
Description: Constrained inference for linear mixed effects models using residual bootstrap methodology
Author: Casey M. Jelsema
Maintainer: Casey M. Jelsema
CLME-1.0-1/CLME/R/clme.em.all.r |only
CLME-1.0-1/CLME/R/constrained.lme.r |only
CLME-1.0-1/CLME/R/lrt.stat.r |only
CLME-1.0-1/CLME/R/pava.functions.r |only
CLME-1.0-1/CLME/R/resid.boot.r |only
CLME-1.0-1/CLME/R/shiny.clme.r |only
CLME-1.0-1/CLME/R/shiny.server.r |only
CLME-1.0-1/CLME/R/shiny.ui.r |only
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CLME-1.0-1/CLME/man/pava.functions.Rd |only
CLME-1.0-1/CLME/man/resid.boot.Rd |only
CLME-1.0-1/CLME/vignettes/CLME.pdf |only
CLME-2.0-1/CLME/DESCRIPTION | 17 -
CLME-2.0-1/CLME/MD5 | 95 +++---
CLME-2.0-1/CLME/NAMESPACE | 46 ++-
CLME-2.0-1/CLME/NEWS | 14
CLME-2.0-1/CLME/R/clme.em.fixed.r | 325 +++++++++------------
CLME-2.0-1/CLME/R/clme.em.mixed.r | 431 +++++++++++++---------------
CLME-2.0-1/CLME/R/clme.em.r |only
CLME-2.0-1/CLME/R/clme.r | 457 +++++++++++++++++++++---------
CLME-2.0-1/CLME/R/clme_resids.r |only
CLME-2.0-1/CLME/R/create.constraints.r | 102 ++++--
CLME-2.0-1/CLME/R/minque.r | 221 +++++++-------
CLME-2.0-1/CLME/R/plot.clme.r | 133 ++++----
CLME-2.0-1/CLME/R/resid_boot.r |only
CLME-2.0-1/CLME/R/shiny_clme.r |only
CLME-2.0-1/CLME/R/summary.clme.r | 338 ++++++++++++----------
CLME-2.0-1/CLME/R/test.stat.r |only
CLME-2.0-1/CLME/R/utilities.r |only
CLME-2.0-1/CLME/build |only
CLME-2.0-1/CLME/data/fibroid.rda |only
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CLME-2.0-1/CLME/man/VarCorr.clme.Rd |only
CLME-2.0-1/CLME/man/as.clme.Rd |only
CLME-2.0-1/CLME/man/clme.Rd | 166 ++++++----
CLME-2.0-1/CLME/man/clme_em.Rd |only
CLME-2.0-1/CLME/man/clme_resids.Rd |only
CLME-2.0-1/CLME/man/confint.clme.Rd |only
CLME-2.0-1/CLME/man/create.constraints.Rd | 161 +++++-----
CLME-2.0-1/CLME/man/fibroid.Rd |only
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CLME-2.0-1/CLME/man/logLik.clme.Rd |only
CLME-2.0-1/CLME/man/lrt.stat.Rd | 144 +++------
CLME-2.0-1/CLME/man/minque.Rd | 153 ++++------
CLME-2.0-1/CLME/man/model.frame.clme.Rd |only
CLME-2.0-1/CLME/man/model.matrix.clme.Rd |only
CLME-2.0-1/CLME/man/model_terms_clme.Rd |only
CLME-2.0-1/CLME/man/nobs.clme.Rd |only
CLME-2.0-1/CLME/man/plot.clme.Rd | 148 ++++-----
CLME-2.0-1/CLME/man/print.clme.Rd |only
CLME-2.0-1/CLME/man/print.varcorr_clme.Rd |only
CLME-2.0-1/CLME/man/ranef.clme.Rd |only
CLME-2.0-1/CLME/man/rat.blood.Rd | 32 +-
CLME-2.0-1/CLME/man/resid_boot.Rd |only
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CLME-2.0-1/CLME/man/shiny.clme.Rd | 26 -
CLME-2.0-1/CLME/man/sigma.clme.Rd |only
CLME-2.0-1/CLME/man/summary.clme.Rd | 106 ++----
CLME-2.0-1/CLME/man/vcov.clme.Rd |only
CLME-2.0-1/CLME/man/w.stat.Rd | 33 --
CLME-2.0-1/CLME/vignettes/CLME_ref.bib |only
CLME-2.0-1/CLME/vignettes/FC01.pdf |only
CLME-2.0-1/CLME/vignettes/FC02.pdf |only
CLME-2.0-1/CLME/vignettes/FC03.pdf |only
CLME-2.0-1/CLME/vignettes/clme_intro.Rnw |only
CLME-2.0-1/CLME/vignettes/orders.eps |only
73 files changed, 1704 insertions(+), 1462 deletions(-)
Title: brnn (Bayesian regularization for feed-forward neural networks)
Diff between brnn versions 0.3 dated 2013-03-15 and 0.4 dated 2014-12-05
Description: Bayesian regularization for feed-forward neural networks
Author: Paulino Perez Rodriguez, Daniel Gianola
Maintainer: Paulino Perez Rodriguez
brnn-0.3/brnn/history.txt |only
brnn-0.3/brnn/inst/brnn.R |only
brnn-0.4/brnn/DESCRIPTION | 13 ++++++-------
brnn-0.4/brnn/MD5 | 9 ++++-----
brnn-0.4/brnn/NAMESPACE | 1 +
brnn-0.4/brnn/R/brnn.R | 6 +++---
brnn-0.4/brnn/inst/history.txt |only
7 files changed, 14 insertions(+), 15 deletions(-)
Title: Bayesian Linear Regression
Diff between BLR versions 1.3 dated 2012-03-20 and 1.4 dated 2014-12-05
Description: Bayesian Linear Regression
Author: Gustavo de los Campos, Paulino Perez Rodriguez,
Maintainer: Paulino Perez Rodriguez
BLR-1.3/BLR/history.txt |only
BLR-1.4/BLR/DESCRIPTION | 11 ++++++-----
BLR-1.4/BLR/MD5 | 8 ++++----
BLR-1.4/BLR/NAMESPACE | 8 +-------
BLR-1.4/BLR/R/BLRw_c.R | 8 ++++----
BLR-1.4/BLR/inst |only
6 files changed, 15 insertions(+), 20 deletions(-)
Title: Adaptive Rejection Sampling
Diff between ars versions 0.4 dated 2009-03-24 and 0.5 dated 2014-12-05
Description: Adaptive Rejection Sampling, Original version
Author: Paulino Perez Rodriguez
Maintainer: Paulino Perez Rodriguez
ars-0.4/ars/index |only
ars-0.5/ars/DESCRIPTION | 13 +++++++------
ars-0.5/ars/MD5 |only
ars-0.5/ars/R/ars.R | 12 ++++++------
ars-0.5/ars/src/ars.cpp | 4 ++--
5 files changed, 15 insertions(+), 14 deletions(-)