Title: Random Return Variables
Diff between rrv versions 0.3.0 dated 2010-11-22 and 0.3.1 dated 2011-06-24
Description: A package for modelling returns as random variables. The
package is partly based on the work of Markowitz (1952, 1959),
however considers both normal and empirical returns.
Author: Charlotte Maia
Maintainer: Charlotte Maia
DESCRIPTION | 18 ++++++++----------
R/money.r | 2 +-
R/portfolio.r | 6 ++++--
inst/doc/Makefile | 27 ++++-----------------------
inst/doc/make-ext |only
inst/doc/rrv1.pdf |binary
inst/doc/rrv1.rnw | 2 +-
inst/doc/rrv2.pdf |binary
inst/doc/rrv2.rnw | 2 +-
9 files changed, 19 insertions(+), 38 deletions(-)
Title: Functions for analyzing psychophysical data in R
Diff between psyphy versions 0.1-3 dated 2009-09-28 and 0.1-4 dated 2011-06-24
Description: An assortment of functions that could be useful in
analyzing data from pyschophysical experiments. It includes
functions for calculating d' from several different
experimental designs, links for m-alternative forced-choice
(mafc) data to be used with the binomial family in glm (and
possibly other contexts) and self-Start functions for
estimating gamma values for CRT screen calibrations.
Author: Kenneth Knoblauch
Maintainer: Ken Knoblauch
DESCRIPTION | 8 +++---
R/glm.lambda.R | 7 +----
R/mafc.R | 72 ++++++++++++++++++++++++++++-----------------------------
inst/NEWS | 9 +++++++
man/mafc.Rd | 10 +++----
5 files changed, 56 insertions(+), 50 deletions(-)
Title: Hierarchical Generalized Linear Models
Diff between hglm versions 1.1.1 dated 2010-06-08 and 1.2-1 dated 2011-06-24
Description: The hglm package is used to fit hierarchical generalized
linear models. It can be used for linear mixed models and
generalized linear mixed models with random effects for a
variety of links and a variety of distributions for both the
outcomes and the random effects. Fixed effects can also be
fitted in the dispersion part of the mean model.
Author: Moudud Alam, Xia Shen, Lars Ronnegard
Maintainer: Lars Ronnegard
hglm-1.1.1/hglm/data/QTLMAS.txt |only
hglm-1.1.1/hglm/data/pump.txt |only
hglm-1.1.1/hglm/data/salamander.txt |only
hglm-1.1.1/hglm/data/seeds.txt |only
hglm-1.1.1/hglm/data/semiconductor.txt |only
hglm-1.1.1/hglm/man/Beta.Rd |only
hglm-1.1.1/hglm/man/GLM.MME.Rd |only
hglm-1.1.1/hglm/man/QTLMAS.rd |only
hglm-1.1.1/hglm/man/hglm.default.Rd |only
hglm-1.1.1/hglm/man/hglm.formula.Rd |only
hglm-1.1.1/hglm/man/inverse.gamma.Rd |only
hglm-1.1.1/hglm/man/print.hglm.Rd |only
hglm-1.1.1/hglm/man/print.summary.hglm.Rd |only
hglm-1.1.1/hglm/man/salamander.rd |only
hglm-1.1.1/hglm/man/seeds.rd |only
hglm-1.1.1/hglm/man/semiconductor.rd |only
hglm-1.1.1/hglm/man/summary.hglm.Rd |only
hglm-1.2-1/hglm/DESCRIPTION | 13
hglm-1.2-1/hglm/NAMESPACE |only
hglm-1.2-1/hglm/R/GAMMA.R |only
hglm-1.2-1/hglm/R/GLM.MME.R | 165 +++----
hglm-1.2-1/hglm/R/hglm.R | 22 -
hglm-1.2-1/hglm/R/hglm.default.R | 623 +++++++++++++++---------------
hglm-1.2-1/hglm/R/hglm.formula.R | 189 ++++-----
hglm-1.2-1/hglm/R/hglm2.R |only
hglm-1.2-1/hglm/R/hglm2.formula.R |only
hglm-1.2-1/hglm/R/plot.hglm.R | 107 ++---
hglm-1.2-1/hglm/R/print.hglm.R | 58 +-
hglm-1.2-1/hglm/R/print.summary.hglm.R | 137 ++++--
hglm-1.2-1/hglm/R/summary.hglm.R | 82 ++-
hglm-1.2-1/hglm/data/QTLMAS.txt.gz |only
hglm-1.2-1/hglm/data/datalist |only
hglm-1.2-1/hglm/data/pump.txt.gz |only
hglm-1.2-1/hglm/data/salamander.txt.gz |only
hglm-1.2-1/hglm/data/seeds.txt.gz |only
hglm-1.2-1/hglm/data/semiconductor.txt.gz |only
hglm-1.2-1/hglm/inst/doc/hglm.pdf |binary
hglm-1.2-1/hglm/man/QTLMAS.Rd |only
hglm-1.2-1/hglm/man/hglm-package.Rd | 40 -
hglm-1.2-1/hglm/man/hglm.Rd | 144 ++++--
hglm-1.2-1/hglm/man/hglm2.Rd |only
hglm-1.2-1/hglm/man/plot.hglm.Rd | 63 ++-
hglm-1.2-1/hglm/man/salamander.Rd |only
hglm-1.2-1/hglm/man/seeds.Rd |only
hglm-1.2-1/hglm/man/semiconductor.Rd |only
45 files changed, 908 insertions(+), 735 deletions(-)
Title: Categorical Regression Splines
Diff between crs versions 0.14-9 dated 2011-06-20 and 0.15-0 dated 2011-06-24
Description: This package provides for estimating regression splines
that handle a mix of continuous and categorical (discrete) data
often encountered in applied settings. I would like to
gratefully acknowledge support from the Natural Sciences and
Engineering Research Council of Canada (NSERC:www.nserc.ca),
the Social Sciences and Humanities Research Council of Canada
(SSHRC:www.sshrc.ca), and the Shared Hierarchical Academic
Research Computing Network (SHARCNET:www.sharcnet.ca).
Author: Jeffrey S. Racine
Maintainer: Jeffrey S. Racine
crs-0.14-9/crs/Readme |only
crs-0.14-9/crs/a.out.dSYM |only
crs-0.14-9/crs/inst/doc/.Rhistory |only
crs-0.14-9/crs/inst/doc/enumitem.sty |only
crs-0.15-0/crs/CHANGELOG | 63 -
crs-0.15-0/crs/DESCRIPTION | 10
crs-0.15-0/crs/R/crs.R | 146 +--
crs-0.15-0/crs/R/crscv.R | 74 -
crs-0.15-0/crs/R/crsiv.R | 6
crs-0.15-0/crs/R/frscv.R | 148 +--
crs-0.15-0/crs/R/frscvNOMAD.R | 798 ++++++++--------
crs-0.15-0/crs/R/get.option.types.R | 88 -
crs-0.15-0/crs/R/kernel.R | 2
crs-0.15-0/crs/R/krscv.R | 284 +++---
crs-0.15-0/crs/R/krscvNOMAD.R | 849 ++++++++----------
crs-0.15-0/crs/R/matrix.combns.R | 28
crs-0.15-0/crs/R/print.snomadr.R | 76 -
crs-0.15-0/crs/R/snomadr.R | 270 ++---
crs-0.15-0/crs/R/stepCV.R | 94 -
crs-0.15-0/crs/R/zzz.R | 2
crs-0.15-0/crs/README |only
crs-0.15-0/crs/crsver | 2
crs-0.15-0/crs/demo/radial_rgl.R | 35
crs-0.15-0/crs/inst/doc/crs.Rnw | 4
crs-0.15-0/crs/inst/doc/crs.pdf |binary
crs-0.15-0/crs/inst/doc/crs_faq.pdf |binary
crs-0.15-0/crs/inst/doc/spline_primer.pdf |binary
crs-0.15-0/crs/man/crs.Rd | 10
crs-0.15-0/crs/man/frscv.Rd | 11
crs-0.15-0/crs/man/frscvNOMAD.Rd | 6
crs-0.15-0/crs/man/gsl-bs.Rd | 8
crs-0.15-0/crs/man/krscv.Rd | 35
crs-0.15-0/crs/man/krscvNOMAD.Rd | 12
crs-0.15-0/crs/man/snomadr.Rd | 49 -
crs-0.15-0/crs/man/tensor.prod.model.matrix.Rd | 2
crs-0.15-0/crs/man/uniquecombs.Rd | 7
crs-0.15-0/crs/src/RuniqueCombs.c | 4
crs-0.15-0/crs/src/bspline.c | 29
crs-0.15-0/crs/src/gsl_bspline.h | 26
crs-0.15-0/crs/src/nomad_src/Clock.hpp | 2
crs-0.15-0/crs/src/nomad_src/Direction.hpp | 2
crs-0.15-0/crs/src/nomad_src/Double.cpp | 1
crs-0.15-0/crs/src/nomad_src/Double.hpp | 2
crs-0.15-0/crs/src/nomad_src/Eval_Point.cpp | 2
crs-0.15-0/crs/src/nomad_src/Eval_Point.hpp | 3
crs-0.15-0/crs/src/nomad_src/Phase_One_Evaluator.hpp | 1
crs-0.15-0/crs/src/nomad_src/Quad_Model_Evaluator.hpp | 1
crs-0.15-0/crs/src/snomadr.cpp | 1
48 files changed, 1616 insertions(+), 1577 deletions(-)
Title: Gradient Boosting
Diff between bst versions 0.2 dated 2011-03-31 and 0.3-1 dated 2011-06-24
Description: The package contains HingeBoost for binary and multi-class
classification with unequal misclassification costs. Functional
gradient descent algorithm to optimize the cost-sensitive hinge
loss. The algorithm can fit linear classifier with linear least
squares, nonlinear classifer with smoothing spline (or trees)
as base learner.
Author: Zhu Wang
Maintainer: Zhu Wang
DESCRIPTION | 10 ++--
NAMESPACE | 8 ++-
R/bst.R | 106 +++++++++++++++++++++++++---------------------------
R/fpartial.R |only
R/mhinge.R | 52 +++++++++++++++----------
R/msvm.R |only
R/simdata.R |only
man/bst-internal.Rd | 2
man/bst.Rd | 25 ++++--------
man/cv.bst.Rd | 1
man/cv.msvm.Rd |only
man/ex1data.Rd |only
man/mhinge.Rd | 11 +----
man/msvm.Rd |only
14 files changed, 108 insertions(+), 107 deletions(-)
Title: Bayesian Linear Mixed-Effects models
Diff between blme versions 0.01-2 dated 2011-06-23 and 0.01-3 dated 2011-06-24
Description: Maximum a posteriori estimation for linear and generalized
linear mixed-effects models in a Bayesian setting. Extends lme4
by Douglas Bates and Martin Maechler.
Author: Vincent Dorie
Maintainer: Vincent Dorie
DESCRIPTION | 8 ++++----
R/covariance_defaults.R | 26 +++++++++++++-------------
2 files changed, 17 insertions(+), 17 deletions(-)
Title: adegenet: a R package for the multivariate analysis of genetic
markers.
Diff between adegenet versions 1.2-8 dated 2010-11-04 and 1.3-0 dated 2011-06-24
Description: Classes and functions for genetic data analysis within the
multivariate framework.
Author: Thibaut Jombart
Maintainer: Thibaut Jombart
..pdf |only
ChangeLog | 46 +++
DESCRIPTION | 35 +-
R/SNPbin.R |only
R/auxil.R | 119 +++++++-
R/basicMethods.R | 213 ++++++++-------
R/classes.R | 2
R/colorplot.R | 3
R/dapc.R | 582 ++++++++++++++++++++++++++++++++++++++++---
R/find.clust.R | 188 +++++++++++--
R/fstat.R | 35 +-
R/genind2genpop.R | 9
R/glFunctions.R |only
R/glHandle.R |only
R/glPlot.R |only
R/glSim.R |only
R/gstat.randtest.R | 72 ++---
R/handling.R | 196 ++++++++++++++
R/haploGen.R | 39 +-
R/import.R | 463 ++++++++++++++++++++++++++++++++++
R/inbreeding.R |only
R/loadingplot.R | 41 +--
R/makefreq.R | 2
R/zzz.R | 3
data/H3N2.RData |binary
data/dapcIllus.RData |binary
data/datalist |only
data/eHGDP.RData |binary
data/microbov.RData |binary
data/nancycats.RData |binary
data/rupica.RData |binary
data/sim2pop.RData |binary
data/spcaIllus.RData |binary
inst/doc |only
inst/files/AFLP.txt |only
inst/files/exampleSnpDat.snp |only
inst/files/usflu.fasta |only
inst/svn-commit.tmp |only
man/H3N2.Rd | 38 ++
man/SNPbin.Rd |only
man/accessors.Rd | 77 ++++-
man/adegenet.package.Rd | 72 +++--
man/as.SNPbin.Rd |only
man/as.genind.Rd | 7
man/as.genlight.Rd |only
man/ascore.Rd | 3
man/auxil.Rd | 54 ++-
man/colorplot.Rd | 2
man/dapc.Rd | 293 ++++++++++++++-------
man/dapcGraphics.Rd |only
man/export.Rd | 22 -
man/fasta2genlight.Rd |only
man/find.clusters.Rd | 181 +++++++++----
man/fstat.Rd | 24 -
man/genind.Rd | 8
man/genlight.Rd |only
man/glAux.Rd |only
man/glPca.Rd |only
man/glPlot.Rd |only
man/glSim.Rd |only
man/gstat.randtest.Rd | 6
man/haploGen.Rd | 6
man/hybridize.Rd | 2
man/inbreeding.Rd |only
man/loadingplot.Rd | 12
man/microbov.Rd | 3
man/propShared.Rd | 3
man/read.PLINK.Rd |only
man/read.snp.Rd |only
man/seploc.Rd | 40 ++
man/seppop.Rd | 36 ++
man/seqTrack.Rd | 2
man/virClasses.Rd | 1
src/GLfunctions.c |only
src/GLfunctions.h |only
src/snpbin.c |only
src/snpbin.h |only
77 files changed, 2378 insertions(+), 562 deletions(-)
Title: Rcpp integration for Armadillo templated linear algebra library
Diff between RcppArmadillo versions 0.2.22 dated 2011-06-06 and 0.2.23 dated 2011-06-24
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 1.99.5). 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
RcppArmadillo-0.2.22/RcppArmadillo/inst/include/armadillo_bits/fn_princomp_cov.hpp |only
RcppArmadillo-0.2.22/RcppArmadillo/inst/include/armadillo_bits/op_princomp_cov_bones.hpp |only
RcppArmadillo-0.2.22/RcppArmadillo/inst/include/armadillo_bits/op_princomp_cov_meat.hpp |only
RcppArmadillo-0.2.23/RcppArmadillo/ChangeLog | 21
RcppArmadillo-0.2.23/RcppArmadillo/DESCRIPTION | 10
RcppArmadillo-0.2.23/RcppArmadillo/NAMESPACE | 14
RcppArmadillo-0.2.23/RcppArmadillo/R/fastLm.R | 22
RcppArmadillo-0.2.23/RcppArmadillo/inst/NEWS | 22
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo | 3
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/Cube_meat.hpp | 12
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/Mat_bones.hpp | 2
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/Mat_meat.hpp | 150 +++-
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/arma_version.hpp | 4
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/auxlib_bones.hpp | 15
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/auxlib_meat.hpp | 352 +++++-----
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/config.hpp | 8
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/debug.hpp | 224 ++++--
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/diskio_bones.hpp | 12
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/diskio_meat.hpp | 301 +++++++-
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/field_meat.hpp | 18
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_chol.hpp | 30
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_eig.hpp | 84 +-
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_inv.hpp | 36 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_log_det.hpp | 10
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_lu.hpp | 33
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_misc.hpp | 12
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_pinv.hpp | 33
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_princomp.hpp | 49 +
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_qr.hpp | 11
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_rank.hpp | 13
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_solve.hpp | 13
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_svd.hpp | 25
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/fn_syl_lyap.hpp | 18
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/forward_bones.hpp | 3
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/glue_join_meat.hpp | 71 +-
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/glue_solve_meat.hpp | 13
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/lapack_bones.hpp | 95 ++
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_chol_meat.hpp | 6
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_inv_bones.hpp | 6
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_inv_meat.hpp | 39 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_max_meat.hpp | 50 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_median_meat.hpp | 115 +--
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_min_meat.hpp | 50 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_misc_bones.hpp | 14
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_misc_meat.hpp | 46 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_pinv_meat.hpp | 39 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_princomp_bones.hpp | 20
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_princomp_meat.hpp | 248 ++-----
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_prod_meat.hpp | 34
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_stddev_meat.hpp | 38 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_sum_meat.hpp | 36 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/op_var_meat.hpp | 38 -
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/running_stat_meat.hpp | 4
RcppArmadillo-0.2.23/RcppArmadillo/inst/include/armadillo_bits/running_stat_vec_meat.hpp | 4
RcppArmadillo-0.2.23/RcppArmadillo/inst/unitTests/runit.fastLm.R | 8
RcppArmadillo-0.2.23/RcppArmadillo/man/fastLm.Rd | 32
RcppArmadillo-0.2.23/RcppArmadillo/src/fastLm.cpp | 15
57 files changed, 1695 insertions(+), 886 deletions(-)
Title: A suite of functions to back-fit fixed effects and forward-fit
random effects, as well as other miscellaneous functions.
Diff between LMERConvenienceFunctions versions 1.6 dated 2011-06-22 and 1.6.1 dated 2011-06-24
More information about LMERConvenienceFunctions at CRAN
Description: Functions to back-fit fixed effects (on F or t values and,
potentially, log-likelihood ratio testing) and to forward-fit
random effects (using log-likelihood ratio testing). Note that
the back- and forward-fitting of generalized linear
mixed-effects regression (\code{glmer}s) models is not yet
supported. The package also includes a function to compute
ANOVAs with upper- and lower-bound p-values (anti-conservative
and conservative, respectively), a function to graph model
criticism plots, functions to trim data on model residuals or
on a response variable (per subject), a function to perform
posthoc analyses, and a function to plot (dynamic) 3d plots pf
models fitted by LMER.
Author: Antoine Tremblay
Maintainer: Antoine Tremblay, IWK Health Center
DESCRIPTION | 8 ++++----
R/plotLMER3d.fnc.R | 6 ++++++
man/LMERConvenienceFunctions-package.Rd | 4 ++--
3 files changed, 12 insertions(+), 6 deletions(-)
Permanent link