Title: Simplified Bayesian Sensitivity Analysis
Diff between SBSA versions 0.1.1 dated 2011-06-17 and 0.1.2 dated 2011-12-05
Description: Simplified Bayesian Sensitivity Analysis
Author: Davor Cubranic and Paul Gustafson
Maintainer: Davor Cubranic
DESCRIPTION | 9 ++++----
MD5 |only
R/fitSBSA.R | 13 +++++++++---
inst |only
man/fitSBSA.Rd | 5 ++--
src/bsa_binary_mcmc_result.cpp | 4 +++
src/bsa_binary_model.cpp | 12 +++++------
src/bsa_binary_model.h | 2 -
src/bsa_continuous_model.cpp | 14 ++++++-------
src/bsa_continuous_model.h | 2 -
src/bsa_mcmc_result.cpp | 4 +++
src/bsalite-main.cpp | 13 ++++++++++--
src/bsalite_binary-main.cpp | 12 +++++++++--
src/mcmc_binary_sampler.cpp | 14 ++++++-------
src/mcmc_binary_sampler.h | 44 ++++++++++++++++++++++++-----------------
src/mcmc_sampler.cpp | 10 ++++-----
src/mcmc_sampler.h | 16 +++++++-------
17 files changed, 108 insertions(+), 66 deletions(-)
Title: R-interface to gene drop Java Programs for Statistical Genetics
and Computational Statistics (JPSGCS)
Diff between rJPSGCS versions 0.2-4 dated 2011-10-09 and 0.2-5 dated 2011-12-05
Description: R-interface to gene drop programs from Alun Thomas' Java Programs for Statistical Genetics and Computational Statistics (JPSGCS)
Author: Sigal Blay, Jinko Graham, Brad McNeney, Annick Nembot-Simo
Maintainer: Brad McNeney
DESCRIPTION | 12 +++++-------
MD5 | 16 ++++++++++------
R/write.parfile.R | 2 +-
data/exdat.rda |binary
inst/java/GeneDrops.java |only
inst/java/jpsgcs |only
man/read.pedfile.Rd | 9 +++++----
man/write.pedfile.Rd | 2 +-
src/readPEDfile.c | 2 +-
9 files changed, 23 insertions(+), 20 deletions(-)
Title: Solve systems of non linear equations
Diff between nleqslv versions 1.9.0 dated 2011-09-16 and 1.9.1 dated 2011-12-05
Description: Solve a system of non linear equations using a Broyden or a Newton method
with a choice of global strategies such as linesearch and trust region.
There are options for using a numerical or an analytical jacobian and
fixed or automatic scaling of parameters.
Author: Berend Hasselman
Maintainer: Berend Hasselman
DESCRIPTION | 17 ++++++++---------
MD5 | 12 ++++++------
NEWS | 7 +++++++
man/nleqslv.Rd | 1 +
man/zznleqslv-iterationreport.Rd | 2 +-
src/nwout.c | 19 ++++++++-----------
src/nwutil.f | 37 -------------------------------------
7 files changed, 31 insertions(+), 64 deletions(-)
Title: Sensitivity analysis for Observational studies.
Diff between obsSens versions 1.1 dated 2011-02-05 and 1.2 dated 2011-12-05
Description: Observational studies are limited in that there could be an unmeasured variable related to both the response variable and the primary predictor. If this unmeasured variable were included in the analysis it would change the relationship (possibly changing the conclusions). Sensitivity analysis is a way to see how much of a relationship needs to exist with the unmeasured variable before the conclusions change. This package provides tools for doing a sensitivity analysis for regression (linear, logistic, and cox) style models.
Author: Greg Snow
Maintainer: Greg Snow
DESCRIPTION | 20 ++++++--------------
MD5 |only
2 files changed, 6 insertions(+), 14 deletions(-)
Title: Pedigree functions
Diff between kinship2 versions 1.3.1 dated 2011-10-12 and 1.3.3 dated 2011-12-05
Description: Routines to handle family data with a pedigree object. The
initial purpose was to create correlation structures that describe
family relationships such as kinship and identity-by-descent, which
can be used to model family data in mixed effects models, such as in the
coxme function. Also includes a tool for pedigree drawing which is
focused on producing compact layouts without intervention. Recent additions
include utilities to trim the pedigree object with various criteria.
Author: Terry Therneau, Elizabeth Atkinson, Jason Sinnwell, Martha Matsumoto, Daniel Schaid, Shannon McDonnell
Maintainer: Jason Sinnwell
DESCRIPTION | 29 +++-----
MD5 | 47 +++++++------
R/align.pedigree.R | 4 -
R/alignped1.R | 2
R/kinship.R | 63 +++++------------
R/pedigree.legend.R | 2
R/plot.pedigree.R | 4 -
data/minnbreast.rda |binary
data/sample.ped.tab.gz |binary
data/testped1.tab.gz |binary
inst/NEWS.Rd | 99 +++++++++++++++------------
inst/doc/pedigree.pdf |binary
man/kinship.Rd | 4 -
man/pedigree.Rd | 2
man/plot.pedigree.Rd | 16 ++++
noweb/align.Rnw | 7 -
noweb/align2.Rnw | 2
noweb/all.nw | 114 +++++++++++---------------------
noweb/kinship.Rnw | 99 ++++++++++-----------------
noweb/plot.Rnw | 6 -
tests/failure.Rout.save |only
tests/kin1.Rout.save |only
tests/makefam.Rout.save |only
tests/subscript.Rout.save |only
tests/test.pedigree.legend.Rout.save |only
tests/test.pedigree.shrink.Rout.save |only
tests/test.pedigree.trim.Rout.save |only
tests/test.pedigree.unrelated.Rout.save |only
tests/twin.Rout.save |only
29 files changed, 223 insertions(+), 277 deletions(-)
Title: Syntax highlighter
Diff between highlight versions 0.3.0 dated 2011-12-02 and 0.3.1 dated 2011-12-05
Description: Syntax highlighter for R code based
on the results of the R parser. Rendering in HTML and latex
markup. Custom sweave driver performing syntax highlighting
of R code chunks
Author: Romain Francois
Maintainer: Romain Francois
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
NEWS | 5 +++++
R/renderer.R | 7 +++++--
build/highlight.pdf |binary
man/highlight-package.Rd | 4 ++--
6 files changed, 21 insertions(+), 13 deletions(-)
Title: Estimation, simulation and visualization of Hierarchical
Archimedean Copulae (HAC)
Diff between HAC versions 0.1-7 dated 2011-10-26 and 0.1-8 dated 2011-12-05
Description: Package provides the estimation of the structure and the parameters, simulation methods and structural plots of high-dimensional Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin
Maintainer: Ostap Okhrin
ChangeLog | 5 +++++
DESCRIPTION | 19 ++++++++-----------
MD5 | 6 +++---
NAMESPACE | 2 +-
4 files changed, 17 insertions(+), 15 deletions(-)
Title: Gaussian Processes Tool-Kit
Diff between gptk versions 1.04 dated 2011-11-22 and 1.05 dated 2011-12-05
Description: The gptk package implements a general-purpose toolkit for Gaussian
process regression with a variety of covariance functions (e.g. RBF, Mattern, polynomial, etc).
Based on a MATLAB implementation by Neil D. Lawrence. See inst/doc/index.html for more details.
Author: Alfredo A. Kalaitzis
Maintainer: Alfredo A. Kalaitzis
DESCRIPTION | 8 ++++----
MD5 | 32 +++++++++++++++++---------------
R/cmpndKernExpandParam.R | 2 +-
R/demAutoOptimiseGp.R |only
R/demOptimiseGp.R | 6 +++---
R/demRegression.R | 8 ++++----
R/gpComputeAlpha.R | 1 +
R/gpCreate.R | 3 +++
R/gpExpandParam.R | 2 ++
R/gpOptimise.R | 2 +-
R/gpOptions.R | 2 +-
R/gpPlot.R | 15 +++++++--------
R/gpPosteriorMeanVar.R | 8 ++++++--
R/gpUpdateKernels.R | 6 +++++-
R/kernExpandParam.R | 2 +-
R/rbfKernExpandParam.R | 2 +-
R/whiteKernExpandParam.R | 2 +-
man/demAutoOptimiseGp.Rd |only
18 files changed, 58 insertions(+), 43 deletions(-)
Title: Generalized ridge trace plots for ridge regression
Diff between genridge versions 0.5-0 dated 2011-08-26 and 0.6-0 dated 2011-12-05
Description:
The genridge package introduces generalizations of the standard univariate
ridge trace plot used in ridge regression and related methods. These graphical methods
show both bias (actually, shrinkage) and precision, by plotting the covariance ellipsoids of the estimated
coefficients, rather than just the estimates themselves. 2D and 3D plotting methods are provided,
both in the space of the predictor variables and in the transformed space of the PCA/SVD of the
predictors.
Author: Michael Friendly
Maintainer: Michael Friendly
DESCRIPTION | 30 +++++++++++++++---------------
MD5 | 30 +++++++++++++++++++-----------
NAMESPACE | 20 +++++++++++++++++++-
NEWS | 15 +++++++++++++++
R/plot.ridge.R | 10 +++++++---
R/plot3d.ridge.R |only
R/precision.R |only
R/ridge.R | 4 ++++
R/traceplot.R | 10 ++++++++--
R/vif.ridge.R |only
data |only
man/Acetylene.Rd |only
man/genridge-package.Rd | 24 +++++++++++++++++++-----
man/pca.ridge.Rd | 9 ++++++---
man/plot.ridge.Rd | 21 ++++++++++++++-------
man/plot3d.ridge.Rd |only
man/precision.Rd |only
man/ridge.Rd | 7 ++++++-
man/traceplot.Rd | 5 +++++
man/vif.ridge.Rd |only
20 files changed, 137 insertions(+), 48 deletions(-)
Title: Fast Rcpp implementation of Gauss-Hermite quadrature
Diff between fastGHQuad versions 0.1 dated 2011-12-03 and 0.1-1 dated 2011-12-05
Description: Fast, numerically-stable Gauss-Hermite quadrature
Author: Alexander W Blocker
Maintainer: Alexander W Blocker
ChangeLog |only
DESCRIPTION | 8 ++++----
MD5 | 5 +++--
src/lib.cpp | 6 +++---
4 files changed, 10 insertions(+), 9 deletions(-)
Title: Exponentially Modified Gaussian (EMG) Distribution
Diff between emg versions 1.0.2 dated 2011-10-25 and 1.0.3 dated 2011-12-05
Description: Provides basic distribution functions for a mixture model of a gaussian and exponential distribution.
Author: Shawn Garbett, Mark Kozdoba
Maintainer: Shawn Garbett
DESCRIPTION | 11 +++++------
MD5 | 7 ++++---
NAMESPACE |only
R/pemg.R | 13 ++++++++-----
man/emg-package.Rd | 4 ++--
5 files changed, 19 insertions(+), 16 deletions(-)
Title: Visualization of a correlation matrix
Diff between corrplot versions 0.54 dated 2011-12-02 and 0.60 dated 2011-12-05
Description: The corrplot package is a graphical display of a correlation matrix, confidence interval. It also contains some algorithms to do matrix reordering.
Author: Taiyun Wei
Maintainer: Taiyun Wei
corrplot-0.54/corrplot/R/colorlegend.r |only
corrplot-0.54/corrplot/R/corr.rect.R |only
corrplot-0.54/corrplot/R/corrplot.circle.R |only
corrplot-0.54/corrplot/R/corrplot.color.R |only
corrplot-0.54/corrplot/R/corrplot.ellipse.R |only
corrplot-0.54/corrplot/R/corrplot.number.R |only
corrplot-0.54/corrplot/R/corrplot.pie.R |only
corrplot-0.54/corrplot/R/corrplot.shade.R |only
corrplot-0.54/corrplot/R/corrplot.square.R |only
corrplot-0.54/corrplot/man/colorlegend.rd |only
corrplot-0.54/corrplot/man/corr.rect.Rd |only
corrplot-0.60/corrplot/DESCRIPTION | 13
corrplot-0.60/corrplot/MD5 | 32 -
corrplot-0.60/corrplot/NAMESPACE | 12
corrplot-0.60/corrplot/NEWS |only
corrplot-0.60/corrplot/R/colorlegend.R |only
corrplot-0.60/corrplot/R/corrMatOrder.R |only
corrplot-0.60/corrplot/R/corrRect.R |only
corrplot-0.60/corrplot/R/corrRect.hclust.R |only
corrplot-0.60/corrplot/R/corrplot.R | 234 ++++--------
corrplot-0.60/corrplot/R/corrplot.mixed.R |only
corrplot-0.60/corrplot/README |only
corrplot-0.60/corrplot/man/colorlegend.Rd |only
corrplot-0.60/corrplot/man/corrMatOrder.Rd |only
corrplot-0.60/corrplot/man/corrRect.Rd |only
corrplot-0.60/corrplot/man/corrplot-package.Rd | 6
corrplot-0.60/corrplot/man/corrplot.Rd | 472 ++++++++++++-------------
corrplot-0.60/corrplot/man/corrplot.mixed.Rd |only
28 files changed, 357 insertions(+), 412 deletions(-)
Title: Procedures to generate IRT adaptive tests (CAT)
Diff between catR versions 2.0 dated 2011-10-23 and 2.1 dated 2011-12-05
Description: The catR package allows the generation of response
patterns under computerized adaptive testing (CAT)
framework, with the choice of several starting rules,
next item selection routines, stopping rules and
ability estimators. Control methods for item exposure
and content balancing are also included.
Author: David Magis (U Liege, Belgium), Gilles Raiche (UQAM,
Canada)
Maintainer: David Magis
DESCRIPTION | 21 ++++----
MD5 | 12 ++--
NEWS | 17 ++++++
R/randomCAT.R | 136 +++++++++++++++++++++++++++++++++++++++++--------------
inst/doc/Rd2.pdf |binary
man/randomCAT.Rd | 44 +++++++++++++++--
man/tcals.Rd | 8 +--
7 files changed, 178 insertions(+), 60 deletions(-)
Title: Bayesian network structure learning, parameter learning and
inference
Diff between bnlearn versions 2.7 dated 2011-10-08 and 2.8 dated 2011-12-05
Description: Bayesian network structure learning (via constraint-based,
score-based and hybrid algorithms), parameter learning (via ML and
Bayesian estimators) and inference.
This package implements the Grow-Shrink (GS) algorithm, the Incremental
Association (IAMB) algorithm, the Interleaved-IAMB (Inter-IAMB)
algorithm, the Fast-IAMB (Fast-IAMB) algorithm, the Max-Min Parents
and Children (MMPC) algorithm, the ARACNE and Chow-Liu algorithms, the
Hill-Climbing (HC) greedy search algorithm, the Tabu Search (TABU)
algorithm, the Max-Min Hill-Climbing (MMHC) algorithm and the two-stage
Restricted Maximization (RSMAX2) algorithm for both discrete and Gaussian
networks, along with many score functions and conditional
independence tests.
Some utility functions (model comparison and manipulation, random
data generation, arc orientation testing, simple and advanced plots)
are included, as well as support for parameter estimation and
inference, conditional probability queries and cross-validation.
Author: Marco Scutari
Maintainer: Marco Scutari
bnlearn-2.7/bnlearn/src/gaussian.posterior.c |only
bnlearn-2.8/bnlearn/Changelog | 12 +
bnlearn-2.8/bnlearn/DESCRIPTION | 39 ++--
bnlearn-2.8/bnlearn/MD5 | 132 +++++++-------
bnlearn-2.8/bnlearn/R/arc.operations.R | 3
bnlearn-2.8/bnlearn/R/arc.strength.R | 22 +-
bnlearn-2.8/bnlearn/R/backend-indep.R | 13 -
bnlearn-2.8/bnlearn/R/backend-score.R | 6
bnlearn-2.8/bnlearn/R/bootstrap.R | 2
bnlearn-2.8/bnlearn/R/choose.direction.R | 8
bnlearn-2.8/bnlearn/R/ci.test.R | 3
bnlearn-2.8/bnlearn/R/cpq.R | 4
bnlearn-2.8/bnlearn/R/cv.R | 15 +
bnlearn-2.8/bnlearn/R/discretize.R | 2
bnlearn-2.8/bnlearn/R/fast-iamb.R | 9 -
bnlearn-2.8/bnlearn/R/frontend-bn.R | 2
bnlearn-2.8/bnlearn/R/frontend-bootstrap.R | 8
bnlearn-2.8/bnlearn/R/frontend-learning.R | 20 ++
bnlearn-2.8/bnlearn/R/frontend-plot.R | 2
bnlearn-2.8/bnlearn/R/frontend-predict.R | 17 +
bnlearn-2.8/bnlearn/R/frontend-print.R | 4
bnlearn-2.8/bnlearn/R/frontend-simulation.R | 47 -----
bnlearn-2.8/bnlearn/R/frontend-strength.R | 6
bnlearn-2.8/bnlearn/R/globals.R | 23 +-
bnlearn-2.8/bnlearn/R/graph-generation.R | 6
bnlearn-2.8/bnlearn/R/graphviz.R | 9 -
bnlearn-2.8/bnlearn/R/grow-shrink.R | 8
bnlearn-2.8/bnlearn/R/hill-climbing.R | 4
bnlearn-2.8/bnlearn/R/incremental-association.R | 8
bnlearn-2.8/bnlearn/R/init.R | 10 -
bnlearn-2.8/bnlearn/R/inter-iamb.R | 8
bnlearn-2.8/bnlearn/R/learning-algorithms.R | 100 ++++++++++-
bnlearn-2.8/bnlearn/R/loss.R | 10 -
bnlearn-2.8/bnlearn/R/maxmin-pc.R | 12 -
bnlearn-2.8/bnlearn/R/mvber.R | 2
bnlearn-2.8/bnlearn/R/naive.bayes.R |only
bnlearn-2.8/bnlearn/R/scores.R | 134 +++++----------
bnlearn-2.8/bnlearn/R/tabu.R | 2
bnlearn-2.8/bnlearn/R/tan.R |only
bnlearn-2.8/bnlearn/R/test.R | 2
bnlearn-2.8/bnlearn/R/utils-graph.R | 25 ++
bnlearn-2.8/bnlearn/R/utils-misc.R | 2
bnlearn-2.8/bnlearn/R/utils-sanitization.R | 190 +++++++++++++++++++--
bnlearn-2.8/bnlearn/inst/bibtex/bnlearn.bib | 9 +
bnlearn-2.8/bnlearn/man/arc.strength.Rd | 26 +-
bnlearn-2.8/bnlearn/man/bnlearn-package.Rd | 9 -
bnlearn-2.8/bnlearn/man/modelstring.Rd | 2
bnlearn-2.8/bnlearn/man/score.Rd | 29 ++-
bnlearn-2.8/bnlearn/src/bayesian.network.c | 6
bnlearn-2.8/bnlearn/src/bootstrap.c | 16 +
bnlearn-2.8/bnlearn/src/common.c | 28 ++-
bnlearn-2.8/bnlearn/src/common.h | 14 +
bnlearn-2.8/bnlearn/src/configurations.c | 19 +-
bnlearn-2.8/bnlearn/src/cpdag.c | 124 ++++++++++++++
bnlearn-2.8/bnlearn/src/dirichlet.posterior.c | 105 ++++++++---
bnlearn-2.8/bnlearn/src/discrete.loglikelihood.c | 4
bnlearn-2.8/bnlearn/src/linear.algebra.c | 203 +++++++++++++++++++++++
bnlearn-2.8/bnlearn/src/linear.correlation.c | 6
bnlearn-2.8/bnlearn/src/loss.c | 4
bnlearn-2.8/bnlearn/src/mi.matrix.c | 89 +++++++++-
bnlearn-2.8/bnlearn/src/monte.carlo.c | 28 +--
bnlearn-2.8/bnlearn/src/mutual.information.c | 6
bnlearn-2.8/bnlearn/src/mvber.c | 2
bnlearn-2.8/bnlearn/src/parse.c | 2
bnlearn-2.8/bnlearn/src/predict.c | 8
bnlearn-2.8/bnlearn/src/sampling.c | 17 -
bnlearn-2.8/bnlearn/src/shrinkage.c | 11 -
bnlearn-2.8/bnlearn/src/symmetric.c | 2
bnlearn-2.8/bnlearn/src/wishart.posterior.c |only
69 files changed, 1223 insertions(+), 477 deletions(-)
Title: Paired (pBI) and Unpaired Biomarker Identifier (uBI) including a
method to infer networks.
Diff between BiomarkeR versions 1.2 dated 2011-06-17 and 1.3 dated 2011-12-05
Description: This package allows to rank features and infer networks based on the Paired (pBI) and Unpaired Biomarker Identifier (uBI).
Author: Michael Netzer
Maintainer: Michael Netzer
DESCRIPTION | 14 ++++++--------
MD5 |only
R/BI.R | 11 +++++++----
R/inferBIGraph.R | 27 +++++++++++++++++----------
data/BIdata.RData |binary
inst/doc/BiomarkeR.Rnw | 21 ++++++++++++---------
inst/doc/BiomarkeR.bib | 13 +++++++++++++
inst/doc/BiomarkeR.pdf |binary
man/BiomarkeR-package.Rd | 1 +
man/pBIGraph.Rd | 2 +-
man/uBIGraph.Rd | 2 +-
11 files changed, 58 insertions(+), 33 deletions(-)
Title: Automatic Text Classification via Supervised Learning
Diff between RTextTools versions 1.3.1 dated 2011-08-23 and 1.3.2 dated 2011-12-05
Description: RTextTools is a machine learning package for automatic text classification that makes it simple for novice users to get started with machine learning, while allowing experienced users to easily experiment with different settings and algorithm combinations. The package includes nine algorithms for ensemble classification (svm, slda, boosting, bagging, random forests, glmnet, decision trees, neural networks, maximum entropy), comprehensive analytics, and thorough documentation.
Author: Timothy P. Jurka, Loren Collingwood, Amber E. Boydstun, Emiliano Grossman, Wouter van Atteveldt
Maintainer: Timothy P. Jurka
ChangeLog | 25 ++++++++++++++++++++++++-
DESCRIPTION | 22 +++++++---------------
MD5 | 18 +++++++++---------
R/create_matrix.R | 21 +++++++++++++++------
R/cross_validate.R | 4 ++--
R/train_model.R | 4 ++--
man/RTextTools-package.Rd | 6 +++---
man/create_matrix.Rd | 5 ++++-
man/cross_validate.Rd | 22 ++++++++++++++--------
man/train_model.Rd | 21 ++++++++++++++-------
10 files changed, 94 insertions(+), 54 deletions(-)
Title: Rcpp integration for Armadillo templated linear algebra library
Diff between RcppArmadillo versions 0.2.31 dated 2011-11-29 and 0.2.32 dated 2011-12-05
Description: R and Armadillo integration using Rcpp
Armadillo is a templated C++ linear algebra library (by Conrad Sanderson)
that aims towards a good balance between speed and ease of use. Integer,
floating point and complex numbers are supported, as well as a subset of
trigonometric and statistics functions. Various matrix decompositions are
provided through optional integration with LAPACK and ATLAS libraries.
A delayed evaluation approach is employed (during compile time) to combine
several operations into one, and to reduce (or eliminate) the need for
temporaries. This is accomplished through recursive templates and template
meta-programming.
This library is useful if C++ has been decided as the language of choice
(due to speed and/or integration capabilities), rather than another language.
The RcppArmadillo package includes the header files from the templated
Armadillo library (currently version 2.4.0). Thus users do not need to
install Armadillo itself in order to use RcppArmadillo.
This Armadillo integration provides a nice illustration of the
capabilities of the Rcpp package for seamless R and C++ integration.
Armadillo is licensed under the GNU LGPL version 3 or later, while
RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is licenses under
the GNU GPL version 2 or later, as is the rest of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Romain Francois, Dirk Eddelbuettel and Doug Bates
ChangeLog | 6
DESCRIPTION | 10 -
MD5 | 10 -
inst/NEWS | 22 +++
inst/include/armadillo_bits/arma_version.hpp | 6
inst/include/armadillo_bits/diagview_meat.hpp | 175 +++++++++++++++++++++-----
6 files changed, 188 insertions(+), 41 deletions(-)
Title: Prediction Intervals for Three Basic Statistical Models
Diff between PredictiveRegression versions 0.1-2 dated 2011-11-20 and 0.1-3 dated 2011-12-05
More information about PredictiveRegression at CRAN
Description: Three prediction algorithms described in the paper
"On-line predictive linear regression"
Annals of Statistics 37, 1566 - 1590 (2009)
Author: Vladimir Vovk
Maintainer: Vladimir Vovk
DESCRIPTION | 8 ++++----
LICENSE | 2 +-
MD5 | 6 +++---
R/iidpred.R | 4 ++--
4 files changed, 10 insertions(+), 10 deletions(-)
Permanent link
Title: NGA Earthquake Ground Motion Prediction Equations
Diff between nga versions 1.3 dated 2010-12-14 and 1.4 dated 2011-12-05
Description: This package implements the earthquake ground motion
prediction equations developed as part of the Next Generation
Attenuation of Ground Motions (NGA) project coordinated by the
Pacific Earthquake Engineering Research Center (PEER) in 2008. The
models implemented in this package are AS08 (Abrahamson & Silva,
2008), BA08 (Boore & Atkinson, 2008), CB08 (Campbell & Bozorgnia,
2008), and CY08 (Chiou & Youngs, 2008). This numerical
implementation has been validated by comparing the results for
128,000 test cases against the results obtained using the Fortran
implementation composed by David M. Boore and Kenneth W. Campbell.
Users are encouraged to view U.S. Geological Survey Open-File
Report 1296, entitled "Implementation of the Next Generation
Attenuation (NGA) Ground-Motion Prediction Equations in Fortran and
R," by J. Kaklamanos, D. M. Boore, E. M. Thompson, and
K. W. Campbell (2010) for further details on these programs. More
details (including a change log) are available at
Author: James Kaklamanos
Maintainer: James Kaklamanos
DESCRIPTION | 45 ++++++++++++++++++++++-----------------------
MD5 |only
data/KBflatfile.rda |binary
man/KBflatfile.Rd | 19 +++++++++++--------
man/Sa.Rd | 5 +++--
man/Sa.nga.Rd | 13 +++++++------
man/Z2.5.calc.Rd | 2 +-
man/coefs.Rd | 3 +--
man/coefs.t.cb.Rd | 1 -
man/dip.calc.Rd | 2 +-
man/distance.Rd | 7 +++++--
man/modelPeriods.Rd | 5 +++--
man/periods.Rd | 3 ++-
man/subs.cb.Rd | 2 +-
14 files changed, 57 insertions(+), 50 deletions(-)
Title: Low-memory Multinomial Logistic Regression with Support for Text
Classification
Diff between maxent versions 1.2.1 dated 2011-08-02 and 1.3.0 dated 2011-12-05
Description: maxent is an R package with tools for low-memory multinomial logistic regression, also known as maximum entropy. The focus of this maximum entropy classifier is to minimize memory consumption on very large datasets, particularly sparse document-term matrices represented by the tm package.
Author: Timothy P. Jurka
Maintainer: Timothy P. Jurka
maxent-1.2.1/maxent/src/blmvm.cpp |only
maxent-1.2.1/maxent/src/blmvm.h |only
maxent-1.3.0/maxent/ChangeLog |only
maxent-1.3.0/maxent/DESCRIPTION | 19 -
maxent-1.3.0/maxent/MD5 |only
maxent-1.3.0/maxent/R/as.compressed.matrix.R | 12
maxent-1.3.0/maxent/R/maxent.R | 70 ++--
maxent-1.3.0/maxent/R/predict.maxent.R | 38 --
maxent-1.3.0/maxent/R/tune.maxent.R |only
maxent-1.3.0/maxent/data/NYTimes.csv.gz |binary
maxent-1.3.0/maxent/data/USCongress.csv.gz |only
maxent-1.3.0/maxent/data/datalist | 1
maxent-1.3.0/maxent/man/USCongress.Rd |only
maxent-1.3.0/maxent/man/as.compressed.matrix.Rd | 6
maxent-1.3.0/maxent/man/maxent-package.Rd | 10
maxent-1.3.0/maxent/man/maxent.Rd | 32 +-
maxent-1.3.0/maxent/man/predict.maxent.Rd | 4
maxent-1.3.0/maxent/man/tune.maxent.Rd |only
maxent-1.3.0/maxent/src/lbfgs.cpp |only
maxent-1.3.0/maxent/src/lbfgs.h |only
maxent-1.3.0/maxent/src/mathvec.h |only
maxent-1.3.0/maxent/src/maxent.cpp | 347 ++++++++----------------
maxent-1.3.0/maxent/src/maxent.h | 75 +++--
maxent-1.3.0/maxent/src/owlqn.cpp |only
maxent-1.3.0/maxent/src/rmaxent.cpp | 71 ----
maxent-1.3.0/maxent/src/sgd.cpp |only
26 files changed, 266 insertions(+), 419 deletions(-)
Title: Software for Bayesian Inference
Diff between LaplacesDemon versions 11.11.03 dated 2011-11-03 and 11.12.05 dated 2011-12-05
Description: Laplace's Demon is software for Bayesian inference.
Author: Byron Hall
Maintainer: Byron Hall
LaplacesDemon-11.11.03/LaplacesDemon/R/Cov2Cor.R |only
LaplacesDemon-11.11.03/LaplacesDemon/man/Cov2Cor.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/CHANGELOG | 25
LaplacesDemon-11.12.05/LaplacesDemon/DESCRIPTION | 8
LaplacesDemon-11.12.05/LaplacesDemon/MD5 | 169 +
LaplacesDemon-11.12.05/LaplacesDemon/NAMESPACE | 14
LaplacesDemon-11.12.05/LaplacesDemon/R/BayesFactor.R | 2
LaplacesDemon-11.12.05/LaplacesDemon/R/CSF.R | 3
LaplacesDemon-11.12.05/LaplacesDemon/R/Combine.R | 32
LaplacesDemon-11.12.05/LaplacesDemon/R/Consort.R | 707 -------
LaplacesDemon-11.12.05/LaplacesDemon/R/ESS.R | 8
LaplacesDemon-11.12.05/LaplacesDemon/R/Elicitation.R | 9
LaplacesDemon-11.12.05/LaplacesDemon/R/GIV.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/Gelman.Diagnostic.R | 3
LaplacesDemon-11.12.05/LaplacesDemon/R/HPD.R | 7
LaplacesDemon-11.12.05/LaplacesDemon/R/Importance.R | 3
LaplacesDemon-11.12.05/LaplacesDemon/R/KS.Diagnostic.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/LML.R | 94 -
LaplacesDemon-11.12.05/LaplacesDemon/R/LaplaceApproximation.R | 414 +++-
LaplacesDemon-11.12.05/LaplacesDemon/R/LaplacesDemon.R | 897 +++++++---
LaplacesDemon-11.12.05/LaplacesDemon/R/MCSE.R | 20
LaplacesDemon-11.12.05/LaplacesDemon/R/Matrices.R | 44
LaplacesDemon-11.12.05/LaplacesDemon/R/Model.Spec.Time.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/OnLoad.R | 6
LaplacesDemon-11.12.05/LaplacesDemon/R/PosteriorChecks.R | 40
LaplacesDemon-11.12.05/LaplacesDemon/R/SIR.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/as.initial.values.R | 40
LaplacesDemon-11.12.05/LaplacesDemon/R/burnin.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/caterpillar.plot.R | 37
LaplacesDemon-11.12.05/LaplacesDemon/R/de.Finetti.Game.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/distributions.R | 31
LaplacesDemon-11.12.05/LaplacesDemon/R/partial.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/plot.importance.R |only
LaplacesDemon-11.12.05/LaplacesDemon/R/plot.laplace.R | 35
LaplacesDemon-11.12.05/LaplacesDemon/R/predict.laplace.R | 24
LaplacesDemon-11.12.05/LaplacesDemon/R/print.laplace.R | 21
LaplacesDemon-11.12.05/LaplacesDemon/inst/CITATION | 59
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/BayesianInference.Stex | 6
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/BayesianInference.pdf |binary
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/Examples.Stex | 14
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/Examples.pdf |binary
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/LaplacesDemonTutorial.Stex | 158 +
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/LaplacesDemonTutorial.pdf |binary
LaplacesDemon-11.12.05/LaplacesDemon/inst/doc/References.bib | 56
LaplacesDemon-11.12.05/LaplacesDemon/man/BayesFactor.Rd | 37
LaplacesDemon-11.12.05/LaplacesDemon/man/CenterScale.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/Combine.Rd | 28
LaplacesDemon-11.12.05/LaplacesDemon/man/Consort.Rd | 39
LaplacesDemon-11.12.05/LaplacesDemon/man/ESS.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/Elicitation.Rd | 13
LaplacesDemon-11.12.05/LaplacesDemon/man/GIV.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/Gelman.Diagnostic.Rd | 122 -
LaplacesDemon-11.12.05/LaplacesDemon/man/HPD.Rd | 8
LaplacesDemon-11.12.05/LaplacesDemon/man/Importance.Rd | 18
LaplacesDemon-11.12.05/LaplacesDemon/man/KLD.Rd | 14
LaplacesDemon-11.12.05/LaplacesDemon/man/KS.Diagnostic.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/LML.Rd | 117 -
LaplacesDemon-11.12.05/LaplacesDemon/man/LaplaceApproximation.Rd | 498 ++---
LaplacesDemon-11.12.05/LaplacesDemon/man/LaplacesDemon-package.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/LaplacesDemon.Rd | 668 +++----
LaplacesDemon-11.12.05/LaplacesDemon/man/MCSE.Rd | 75
LaplacesDemon-11.12.05/LaplacesDemon/man/Matrices.Rd | 252 +-
LaplacesDemon-11.12.05/LaplacesDemon/man/Mode.Rd | 1
LaplacesDemon-11.12.05/LaplacesDemon/man/Model.Spec.Time.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/PosteriorChecks.Rd | 38
LaplacesDemon-11.12.05/LaplacesDemon/man/Precision.Rd | 64
LaplacesDemon-11.12.05/LaplacesDemon/man/SIR.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/burnin.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/caterpillar.plot.Rd | 7
LaplacesDemon-11.12.05/LaplacesDemon/man/de.Finetti.Game.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Asymmetric.Laplace.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Asymmetric.Log.Laplace.Rd | 2
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Inverse.Wishart.Rd | 16
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Log.Laplace.Rd | 2
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Multivariate.Laplace.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Multivariate.Power.Exponential.Rd | 8
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Power.Exponential.Rd | 8
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Skew.Laplace.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Truncated.Rd | 5
LaplacesDemon-11.12.05/LaplacesDemon/man/dist.Wishart.Rd | 16
LaplacesDemon-11.12.05/LaplacesDemon/man/interval.Rd | 18
LaplacesDemon-11.12.05/LaplacesDemon/man/log-log.Rd | 8
LaplacesDemon-11.12.05/LaplacesDemon/man/logit.Rd | 8
LaplacesDemon-11.12.05/LaplacesDemon/man/partial.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/plot.demonoid.Rd | 84
LaplacesDemon-11.12.05/LaplacesDemon/man/plot.demonoid.ppc.Rd | 73
LaplacesDemon-11.12.05/LaplacesDemon/man/plot.importance.Rd |only
LaplacesDemon-11.12.05/LaplacesDemon/man/plot.laplace.Rd | 66
LaplacesDemon-11.12.05/LaplacesDemon/man/plot.laplace.ppc.Rd | 73
LaplacesDemon-11.12.05/LaplacesDemon/man/predict.demonoid.Rd | 37
LaplacesDemon-11.12.05/LaplacesDemon/man/predict.laplace.Rd | 100 -
LaplacesDemon-11.12.05/LaplacesDemon/man/print.demonoid.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/print.laplace.Rd | 4
LaplacesDemon-11.12.05/LaplacesDemon/man/summary.demonoid.ppc.Rd | 149 -
LaplacesDemon-11.12.05/LaplacesDemon/man/summary.laplace.ppc.Rd | 179 -
95 files changed, 3110 insertions(+), 2755 deletions(-)
Title: Generalized Order-Restricted Information Criterion
Diff between goric versions 0.0-3 dated 2011-11-21 and 0.0-4 dated 2011-12-05
Description: Generalized Order-Restricted Information Criterion (GORIC) value for a set of hypotheses in multivariate regression models
Author: Daniel Gerhard and Rebecca M. Kuiper
Maintainer: Rebecca M. Kuiper
DESCRIPTION | 8 +++---
MD5 | 12 ++++-----
R/goric.R | 6 ++--
R/orlm.R | 11 +++++++-
man/goric-package.Rd | 4 +--
man/goric.Rd | 2 -
man/orlm.Rd | 65 ++++++++++++++++++++++++++++++++++++++++++++++-----
7 files changed, 85 insertions(+), 23 deletions(-)
Title: Kriging methods for computer experiments
Diff between DiceKriging versions 1.3 dated 2011-08-18 and 1.3.2 dated 2011-12-05
Description: Estimation, validation and prediction of kriging models.
Important functions : km, print.km, plot.km, predict.km.
Author: Olivier Roustant, David Ginsbourger, Yves Deville
Maintainer: Olivier Roustant
CHANGELOG | 10
DESCRIPTION | 8
MD5 | 24 -
NAMESPACE | 13
R/checkNames.R |only
R/covStruct_MatAndGrad.R | 3
R/kmData.R |only
R/kmStruct.R | 103 +++----
R/leaveOneOut.km.R | 3
man/DiceKriging-package.Rd | 178 ++++++------
man/checkNames.Rd |only
man/km.Rd | 643 ++++++++++++++++++++++-----------------------
man/kmData.Rd |only
man/predict.km.Rd |binary
man/simulate.km.Rd |binary
15 files changed, 496 insertions(+), 489 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2007-10-21 1.1.5
2005-01-28 1.1.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2007-04-15 1.3.2