Title: Rcpp Integration for the Armadillo Templated Linear Algebra
Library
Diff between RcppArmadillo versions 0.4.550.1.0 dated 2014-11-28 and 0.4.600.0 dated 2014-12-27
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.
The RcppArmadillo package includes the header files from the templated
Armadillo library. Thus users do not need to install Armadillo itself in
order to use RcppArmadillo. Armadillo is licensed under the MPL 2.0, while
RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is licensed under the
GNU GPL version 2 or later, as is the rest of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Dirk Eddelbuettel
ChangeLog | 28 +++
DESCRIPTION | 8
MD5 | 66 +++----
inst/NEWS.Rd | 22 ++
inst/doc/RcppArmadillo-intro.pdf |binary
inst/doc/RcppArmadillo-unitTests.pdf |binary
inst/include/armadillo_bits/Col_bones.hpp | 6
inst/include/armadillo_bits/Col_meat.hpp | 60 ++++++
inst/include/armadillo_bits/Mat_bones.hpp | 3
inst/include/armadillo_bits/Mat_meat.hpp | 13 +
inst/include/armadillo_bits/Proxy.hpp | 168 -------------------
inst/include/armadillo_bits/Row_bones.hpp | 6
inst/include/armadillo_bits/Row_meat.hpp | 60 ++++++
inst/include/armadillo_bits/arma_version.hpp | 6
inst/include/armadillo_bits/arrayops_meat.hpp | 46 +++--
inst/include/armadillo_bits/compiler_setup.hpp | 185 +++++++++++++++++----
inst/include/armadillo_bits/eGlue_bones.hpp | 1
inst/include/armadillo_bits/eGlue_meat.hpp | 6
inst/include/armadillo_bits/eOp_bones.hpp | 1
inst/include/armadillo_bits/eglue_core_meat.hpp | 13 -
inst/include/armadillo_bits/eop_core_meat.hpp | 13 -
inst/include/armadillo_bits/fn_accu.hpp | 120 ++++++++++---
inst/include/armadillo_bits/fn_norm.hpp | 210 +++++++++++++++++-------
inst/include/armadillo_bits/gmm_diag_meat.hpp | 2
inst/include/armadillo_bits/op_all_meat.hpp | 42 ++--
inst/include/armadillo_bits/op_diagvec_meat.hpp | 2
inst/include/armadillo_bits/op_dot_meat.hpp | 2
inst/include/armadillo_bits/op_expmat_meat.hpp | 11 +
inst/include/armadillo_bits/op_htrans_meat.hpp | 84 +++++++--
inst/include/armadillo_bits/op_reshape_meat.hpp | 2
inst/include/armadillo_bits/op_strans_meat.hpp | 136 ++++++++++-----
inst/include/armadillo_bits/subview_bones.hpp | 42 +---
inst/include/armadillo_bits/subview_meat.hpp | 120 +++++++++++++
inst/include/armadillo_bits/unwrap.hpp | 124 +++++++-------
34 files changed, 1073 insertions(+), 535 deletions(-)
Title: Mixture Models for Clustering and Classification
Diff between mixture versions 1.1 dated 2014-07-12 and 1.2 dated 2014-12-27
Description: An implementation of all 14 Gaussian parsimonious
clustering models (GPCMs) for model-based clustering and
model-based classification.
Author: Ryan P. Browne, Aisha ElSherbiny and Paul D. McNicholas
Maintainer: Ryan Browne
ChangeLog | 18 ++++++---
DESCRIPTION | 10 ++---
MD5 | 18 +++++----
NAMESPACE | 6 ++-
R/mixture.R | 108 +++++++++++++++++++++++++++++++++------------------------
inst/CITATION | 38 ++++++++++----------
man/gpcm.Rd | 33 ++++++-----------
man/mixture.Rd | 10 ++---
src |only
9 files changed, 132 insertions(+), 109 deletions(-)
Title: Miscellaneous Collection of Functions for Medical Data Analysis
Diff between rmngb versions 0.5-1 dated 2014-09-21 and 0.6-1 dated 2014-12-27
Description: A collection of miscellaneous functions for medical data analysis. Visualization
of multidimensional data, diagnostic test calibration, pairwise tests for qualitative variables and outcome simulation.
Author: Antoine Filipovic Pierucci
Maintainer: Antoine Filipovic Pierucci
DESCRIPTION | 14 ++++++++------
MD5 | 16 ++++++++++------
NAMESPACE | 4 +++-
NEWS | 9 +++++++++
R/counter.R |only
R/kde2dQuantile.R | 8 ++++----
R/mergeV.R |only
R/utils.R | 6 ------
man/closest.Rd | 18 +-----------------
man/counter.Rd |only
man/mergeV.Rd |only
11 files changed, 35 insertions(+), 40 deletions(-)
Title: Efficient Bayesian Inference for Stochastic Volatility (SV)
Models
Diff between stochvol versions 0.9-0 dated 2014-10-16 and 0.9-1 dated 2014-12-27
Description: Efficient algorithms for fully Bayesian estimation of stochastic volatility (SV) models via Markov chain Monte Carlo (MCMC) methods.
Author: Gregor Kastner [aut, cre]
Maintainer: Gregor Kastner
DESCRIPTION | 10 +++++-----
MD5 | 16 ++++++++--------
NEWS | 7 ++++++-
build/vignette.rds |binary
data/exrates.RData |binary
inst/doc/article.Rnw | 15 ++++++++++++++-
inst/doc/article.pdf |binary
vignettes/article.Rnw | 15 ++++++++++++++-
vignettes/mybib.bib | 2 +-
9 files changed, 48 insertions(+), 17 deletions(-)
Title: A Framework to Perform Phylotranscriptomics Analyses for
Evolutionary Developmental Biology Research
Diff between myTAI versions 0.0.1 dated 2014-11-01 and 0.0.2 dated 2014-12-27
Description: A statistical framework to combine evolutionary information with transcriptome data to detect evolutionary signals and conserved stages in biological processes
Author: Hajk-Georg Drost
Maintainer: Hajk-Georg Drost
DESCRIPTION | 20 -
MD5 | 124 ++++----
NAMESPACE | 2
R/EarlyConservationTest.R | 127 ++++++--
R/FlatLineTest.R | 66 ++--
R/PlotBarRE.R | 2
R/PlotCorrelation.R | 2
R/PlotDistribution.R | 2
R/PlotMeans.R | 8
R/PlotPattern.R | 57 ++-
R/PlotRE.R | 2
R/ReductiveHourglassTest.R | 111 +++++--
R/TAI.R | 2
R/TDI.R | 2
R/age.apply.R | 2
R/base.R | 80 +++--
R/bootMatrix.R | 2
R/combinatorialSignificance.R | 26 +
R/datasets.R | 4
R/ecScore.R | 2
R/pMatrix.R | 2
R/rel_exp.R | 4
R/rhScore.R | 2
R/tf.R | 2
README.md | 9
inst/doc/Advanced.R | 67 ++++
inst/doc/Advanced.Rmd | 88 +++++-
inst/doc/Advanced.html | 74 ++++-
inst/doc/Intermediate.R | 159 ++++++-----
inst/doc/Intermediate.Rmd | 182 ++++++++----
inst/doc/Intermediate.html | 197 ++++++++-----
inst/doc/Introduction.R | 350 +++++++++++++++++-------
inst/doc/Introduction.Rmd | 490 ++++++++++++++++++++++++++--------
inst/doc/Introduction.html | 422 +++++++++++++++++++++--------
man/DivergenceExpressionSetExample.Rd | 5
man/EarlyConservationTest.Rd | 10
man/FlatLineTest.Rd | 9
man/MatchMap.Rd | 19 -
man/PhyloExpressionSetExample.Rd | 5
man/PlotBarRE.Rd | 5
man/PlotCorrelation.Rd | 5
man/PlotDistribution.Rd | 5
man/PlotMeans.Rd | 5
man/PlotPattern.Rd | 7
man/PlotRE.Rd | 5
man/RE.Rd | 5
man/REMatrix.Rd | 5
man/ReductiveHourglassTest.Rd | 10
man/TAI.Rd | 5
man/TDI.Rd | 5
man/age.apply.Rd | 5
man/bar.colors.Rd | 5
man/bootMatrix.Rd | 5
man/combinatorialSignificance.Rd | 7
man/ecScore.Rd | 5
man/is.ExpressionSet.Rd | 5
man/omitMatrix.Rd | 5
man/pMatrix.Rd | 5
man/rhScore.Rd | 5
man/tf.Rd | 5
vignettes/Advanced.Rmd | 88 +++++-
vignettes/Intermediate.Rmd | 182 ++++++++----
vignettes/Introduction.Rmd | 490 ++++++++++++++++++++++++++--------
63 files changed, 2584 insertions(+), 1029 deletions(-)
Title: Extremely Randomized Trees (ExtraTrees) Method for
Classification and Regression
Diff between extraTrees versions 1.0.4 dated 2014-11-08 and 1.0.5 dated 2014-12-27
Description: Classification and regression based on an ensemble of decision trees. The package also provides extensions of ExtraTrees to multi-task learning and quantile regression. Uses Java implementation of the method.
Author: Jaak Simm, Ildefons Magrans de Abril
Maintainer: Jaak Simm
DESCRIPTION | 12 +--
MD5 | 25 +++----
R/extraTrees.default.R | 10 +++
build/vignette.rds |binary
inst/CHANGELOG | 4 +
inst/doc/extraTrees.pdf |binary
inst/java/ExtraTrees.jar |binary
inst/tests/testthat/test-regression.r | 24 +++++++
inst/tests/testthat/test-weights.r |only
java/src/org/extratrees/AbstractTrees.java | 85 ++++++++++++++++----------
java/src/org/extratrees/ExtraTrees.java | 4 -
java/src/org/extratrees/FactorExtraTrees.java | 4 -
java/src/org/extratrees/ShuffledIterator.java | 10 ++-
man/extraTrees.Rd | 26 +++++++
14 files changed, 146 insertions(+), 58 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-12-10 1.7
2014-07-15 1.6
2014-05-24 1.5
2013-12-28 1.4
2013-08-15 1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-05-07 0.6
2013-11-28 0.5
2009-04-22 0.01
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-12-13 1.0.1