Title: Markov-Switching, Bayesian, Vector Autoregression Models
Diff between MSBVAR versions 0.7-1 dated 2012-07-26 and 0.7-2 dated 2012-08-14
Description: Provides methods for estimating frequentist and Bayesian
Vector Autoregression (VAR) models and Markov-switching
Bayesian VAR (MSBVAR). Functions for reduced form and
structural VAR models are also available. Includes methods for
the generating posterior inferences for these models,
forecasts, impulse responses (using likelihood-based error
bands), and forecast error decompositions. Also includes
utility functions for plotting forecasts and impulse responses,
and generating draws from Wishart and singular multivariate
normal densities. Current version includes functionality to
build and evaluate models with Markov switching.
Author: Patrick T. Brandt, with contributions from W. Ryan Davis
Maintainer: Patrick T. Brandt
DESCRIPTION | 8 +--
LICENSE | 2
MD5 | 18 ++++----
R/msvar.R | 2
R/zzz.R | 2
README | 8 ++-
man/gibbs.msbvar.Rd | 3 -
man/simulateMSVAR.Rd | 3 -
src/ForwardFilter.f | 104 ++++++++++++++++++++++++-------------------------
src/ForwardFilterReg.f | 4 +
10 files changed, 81 insertions(+), 73 deletions(-)
Title: Population Genetics
Diff between genetics versions 1.3.6 dated 2011-02-02 and 1.3.7 dated 2012-08-14
Description: Classes and methods for handling genetic data. Includes
classes to represent genotypes and haplotypes at single markers
up to multiple markers on multiple chromosomes. Function
include allele frequencies, flagging homo/heterozygotes,
flagging carriers of certain alleles, estimating and testing
for Hardy-Weinberg disequilibrium, estimating and testing for
linkage disequilibrium, ...
Author: Gregory Warnes, with contributions from Gregor Gorjanc,
Friedrich Leisch, and Michael Man.
Maintainer: Gregory Warnes
genetics-1.3.6/genetics/data/gregorius.R |only
genetics-1.3.7/genetics/.Rinstignore |only
genetics-1.3.7/genetics/DESCRIPTION | 8 ++++----
genetics-1.3.7/genetics/MD5 |only
genetics-1.3.7/genetics/NEWS | 12 ++++++++++++
genetics-1.3.7/genetics/R/HWE.chisq.R | 4 ++--
genetics-1.3.7/genetics/R/hapmcmc.R | 6 +++---
genetics-1.3.7/genetics/R/order.genotype.R | 4 ++--
genetics-1.3.7/genetics/R/power.casectl.plot.R | 10 +++++-----
genetics-1.3.7/genetics/data/gregorius.rda |only
genetics-1.3.7/genetics/inst/NEWS | 12 ++++++++++++
genetics-1.3.7/genetics/inst/doc/genetics_article.pdf |binary
genetics-1.3.7/genetics/man/HWE.test.Rd | 16 ++++++++--------
genetics-1.3.7/genetics/man/genotype.Rd | 6 +++---
genetics-1.3.7/genetics/man/print.LD.Rd | 18 +++++++++---------
genetics-1.3.7/genetics/man/undocumented.Rd | 4 +---
16 files changed, 61 insertions(+), 39 deletions(-)
Title: Expectile and Quantile Regression
Diff between expectreg versions 0.30 dated 2012-02-14 and 0.35 dated 2012-08-14
Description: Expectile and quantile regression of models with nonlinear
effects e.g. spatial, random, ridge using least asymmetric
weighed squares / absolutes as well as boosting; also supplies
expectiles for common distributions.
Author: Fabian Sobotka
Maintainer: Fabian Sobotka
ChangeLog | 16 +
DESCRIPTION | 21 -
MD5 | 150 +++++-----
NAMESPACE | 2
R/acv.R | 16 -
R/acv.bundle.R | 56 +--
R/acv.sheets.R | 32 +-
R/asyregpen.lsfit.R | 75 ++---
R/bundle.R | 321 ++++++++++++----------
R/cdf.bundle.R | 110 +++----
R/cdf.qp.R | 127 ++++----
R/coef.expectreg.R | 10
R/coefficients.expectreg.R | 10
R/confint.expectreg.R |only
R/demq.R | 16 -
R/ebeta.R | 22 -
R/echisq.R | 10
R/eemq.R | 22 -
R/eenorm.R | 34 +-
R/eeplot.R | 24 -
R/eexp.R | 10
R/effects.expectreg.R | 10
R/egamma.R | 26 -
R/elnorm.R | 24 -
R/enorm.R | 22 -
R/et.R | 22 -
R/eunif.R | 22 -
R/expectile.R | 64 ++--
R/expectreg.boost.R | 474 ++++++++++++++++-----------------
R/expectreg.ls.R | 597 ++++++++++++++++++++++--------------------
R/expectreg.qp.R | 596 ++++++++++++++++++++++++++++--------------
R/fitampllsfit.R | 49 +--
R/fitasy.R | 22 -
R/fitted.expectreg.R | 10
R/fitted.values.expectreg.R | 10
R/laws.R | 183 ++++++------
R/mono.R | 90 +++---
R/my.approx.R | 46 +--
R/pebeta.R | 16 -
R/pechisq.R | 10
R/peemq.R | 20 -
R/peexp.R | 10
R/pegamma.R | 18 -
R/pelnorm.R | 16 -
R/pemq.R | 16 -
R/penorm.R | 20 -
R/pet.R | 14
R/peunif.R | 16 -
R/plot.bundledensity.R | 16 -
R/plot.expectreg.R | 621 ++++++++++++++++++++++----------------------
R/predict.expectreg.R | 10
R/predict.regbase.R | 313 ++++++++++------------
R/print.expectreg.R | 66 ++--
R/pspfit2d.new.R | 214 +++++++--------
R/qemq.R | 14
R/quant.boost.R | 474 ++++++++++++++++-----------------
R/quant.bundle.R | 516 ++++++++++++++++++------------------
R/rb.R | 346 ++++++++++++------------
R/remq.R | 16 -
R/resid.expectreg.R | 18 -
R/residuals.expectreg.R | 18 -
R/restricted.R | 171 ++++++------
R/sheets.R | 71 ++---
R/summary.expectreg.R |only
R/z[.expectreg.R | 54 +--
man/cdf.qp.Rd | 7
man/enorm.Rd | 4
man/expectile.Rd | 4
man/expectreg-package.Rd | 12
man/expectreg.boost.Rd | 4
man/expectreg.ls.Rd | 13
man/methods.Rd | 26 +
man/northger.bnd.Rd | 4
man/pemq.Rd | 4
man/quant.bundle.Rd | 8
man/rb.Rd | 4
tests/test_expectreg.R | 18 -
77 files changed, 3433 insertions(+), 3120 deletions(-)
Title: Distributions to be used for GAMLSS modelling.
Diff between gamlss.dist versions 4.1-5 dated 2012-07-13 and 4.1-6 dated 2012-08-14
Description: This package contains the distributions for GAMLSS
modelling.
Author: Mikis Stasinopoulos
Maintainer: Mikis Stasinopoulos
gamlss.dist-4.1-5/gamlss.dist/.LSOverride |only
gamlss.dist-4.1-5/gamlss.dist/.Rapp.history |only
gamlss.dist-4.1-6/gamlss.dist/DESCRIPTION | 10 +++++-----
gamlss.dist-4.1-6/gamlss.dist/MD5 | 6 +++---
gamlss.dist-4.1-6/gamlss.dist/R/make-link-gamlss-new.R | 11 ++++++++---
gamlss.dist-4.1-6/gamlss.dist/man/SN2.Rd | 2 +-
6 files changed, 17 insertions(+), 12 deletions(-)
Title: Generalized Additive Models for Location Scale and Shape.
Diff between gamlss versions 4.1-7 dated 2012-07-13 and 4.1-8 dated 2012-08-14
Description: The library for fitting GAMLSS models.
Author: Mikis Stasinopoulos
Maintainer: Mikis Stasinopoulos
gamlss-4.1-7/gamlss/R/LO.R |only
gamlss-4.1-7/gamlss/R/cs.R |only
gamlss-4.1-7/gamlss/R/cubicSplinesNewS.R |only
gamlss-4.1-7/gamlss/R/vc.R |only
gamlss-4.1-8/gamlss/DESCRIPTION | 10 -
gamlss-4.1-8/gamlss/MD5 | 36 +--
gamlss-4.1-8/gamlss/NAMESPACE | 5
gamlss-4.1-8/gamlss/R/cubicSplines-10-08-12.R |only
gamlss-4.1-8/gamlss/R/lo_new.R |only
gamlss-4.1-8/gamlss/inst/doc/NEWS.txt | 10 +
gamlss-4.1-8/gamlss/man/Q.stats.Rd | 2
gamlss-4.1-8/gamlss/man/VGD.Rd | 2
gamlss-4.1-8/gamlss/man/centiles.com.Rd | 2
gamlss-4.1-8/gamlss/man/cs.Rd | 238 ++++++++++++--------------
gamlss-4.1-8/gamlss/man/findhyper.Rd | 24 +-
gamlss-4.1-8/gamlss/man/gamlss.cs.Rd | 89 +++------
gamlss-4.1-8/gamlss/man/gamlss.lo.Rd | 93 ++++------
gamlss-4.1-8/gamlss/man/lms.Rd | 2
gamlss-4.1-8/gamlss/man/lo.Rd | 142 ++++++++-------
gamlss-4.1-8/gamlss/man/ra.Rd | 4
gamlss-4.1-8/gamlss/man/random.Rd | 2
gamlss-4.1-8/gamlss/man/stepGAIC.Rd | 6
22 files changed, 324 insertions(+), 343 deletions(-)
Title: Tools for Approximate Bayesian Computation (ABC)
Diff between abc versions 1.5 dated 2012-02-21 and 1.6 dated 2012-08-14
Description: The package implements several ABC algorithms for
performing parameter estimation and model selection.
Cross-validation tools are also available for measuring the
accuracy of ABC estimates, and to calculate the
misclassification probabilities of different models.
Author: Katalin Csillery, Michael Blum and Olivier Francois
Maintainer: Michael Blum
CHANGES | 11 +++++++++++
DESCRIPTION | 9 ++++-----
MD5 | 16 ++++++++--------
R/cv4postpr.R | 2 +-
R/postpr.R | 4 ++++
inst/doc/abcvignette.Rnw | 8 ++++----
man/cv4abc.Rd | 6 +++---
man/cv4postpr.Rd | 4 +++-
vignettes/abcvignette.Rnw | 10 +++++-----
9 files changed, 43 insertions(+), 27 deletions(-)
Title: Sample Selection Models
Diff between sampleSelection versions 0.7-0 dated 2012-03-05 and 0.7-2 dated 2012-08-14
More information about sampleSelection at CRAN
Description: Estimation of Sample Selection Models
Author: Arne Henningsen
Maintainer: Arne Henningsen
DESCRIPTION | 12 +--
MD5 | 29 +++----
NEWS | 11 ++
R/heckit2fit.R | 2
R/probit.R | 24 ++----
R/selection.R | 10 +-
R/tobit2Bfit.R | 51 +++++--------
man/selection.Rd | 8 +-
sampleSelection.Rproj |only
tests/binarySelectionOutcome.R | 20 +++++
tests/binarySelectionOutcome.Rout.save | 128 +++++++++++++++++++++++++++++----
tests/heckit.Rout.save | 18 +---
tests/probit.R | 11 ++
tests/probit.Rout.save | 29 ++++---
tests/selection.R | 11 ++
tests/selection.Rout.save | 95 +++++++++++++++++++++---
16 files changed, 335 insertions(+), 124 deletions(-)
Permanent link
Title: Linear Latent Variable Models
Diff between lava versions 1.0-9 dated 2012-07-06 and 1.1-3 dated 2012-08-14
Description: Estimation and simulation of latent variable models
Author: Klaus K. Holst
Maintainer: Klaus K. Holst
lava-1.0-9/lava/data/gamborg.rda |only
lava-1.0-9/lava/man/gamborg.Rd |only
lava-1.1-3/lava/DESCRIPTION | 15 +--
lava-1.1-3/lava/MD5 | 110 ++++++++++++-----------
lava-1.1-3/lava/NAMESPACE | 149 ++++++++++++++++----------------
lava-1.1-3/lava/R/addvar.R | 7 -
lava-1.1-3/lava/R/cancel.R | 12 +-
lava-1.1-3/lava/R/coef.R | 28 ++++--
lava-1.1-3/lava/R/confint.R | 12 +-
lava-1.1-3/lava/R/distribution.R | 9 -
lava-1.1-3/lava/R/endogenous.R | 2
lava-1.1-3/lava/R/estimate.multigroup.R | 3
lava-1.1-3/lava/R/eventTime.R |only
lava-1.1-3/lava/R/exogenous.R | 2
lava-1.1-3/lava/R/finalize.R | 115 +++++++++++++++---------
lava-1.1-3/lava/R/fix.R | 6 -
lava-1.1-3/lava/R/functional.R | 8 -
lava-1.1-3/lava/R/gof.R | 14 +--
lava-1.1-3/lava/R/graph.R | 2
lava-1.1-3/lava/R/heavytail.R | 19 ++--
lava-1.1-3/lava/R/index.sem.R | 2
lava-1.1-3/lava/R/iv.R | 3
lava-1.1-3/lava/R/kill.R | 7 -
lava-1.1-3/lava/R/labels.R | 124 ++++++++++++++++++++++----
lava-1.1-3/lava/R/latent.R | 20 ++--
lava-1.1-3/lava/R/lava-package.R | 2
lava-1.1-3/lava/R/lvm.R | 81 +++++++++++------
lava-1.1-3/lava/R/measurement.R | 2
lava-1.1-3/lava/R/missingMLE.R | 3
lava-1.1-3/lava/R/modelPar.R | 10 +-
lava-1.1-3/lava/R/multigroup.R | 19 +++-
lava-1.1-3/lava/R/nodecolor.R | 19 +++-
lava-1.1-3/lava/R/parameter.R | 4
lava-1.1-3/lava/R/path.R | 65 ++++++++++++-
lava-1.1-3/lava/R/plot.R | 17 ++-
lava-1.1-3/lava/R/profile.R | 17 ++-
lava-1.1-3/lava/R/randomslope.R | 8 -
lava-1.1-3/lava/R/regression.R | 22 ++--
lava-1.1-3/lava/R/sim.R | 16 ++-
lava-1.1-3/lava/R/startvalues.R | 30 +++---
lava-1.1-3/lava/R/subgraph.R | 1
lava-1.1-3/lava/R/subset.R | 11 +-
lava-1.1-3/lava/R/summary.R | 8 -
lava-1.1-3/lava/R/survival.R | 7 -
lava-1.1-3/lava/R/utils.R | 31 ++++++
lava-1.1-3/lava/R/vars.R | 2
lava-1.1-3/lava/data/bmidata.rda |only
lava-1.1-3/lava/inst/CITATION | 29 +++---
lava-1.1-3/lava/man/bmidata.Rd |only
lava-1.1-3/lava/man/confint.lvmfit.Rd | 16 +++
lava-1.1-3/lava/man/constrain-set.Rd | 2
lava-1.1-3/lava/man/covariance.Rd | 4
lava-1.1-3/lava/man/eventTime.Rd |only
lava-1.1-3/lava/man/intercept.Rd | 4
lava-1.1-3/lava/man/internal.Rd | 2
lava-1.1-3/lava/man/labels-set.Rd | 4
lava-1.1-3/lava/man/regression-set.Rd | 16 +--
lava-1.1-3/lava/man/sim.Rd | 7 +
lava-1.1-3/lava/man/vars.Rd | 8 -
59 files changed, 727 insertions(+), 409 deletions(-)
Title: Learning Bayesian Networks with Mixed Variables
Diff between deal versions 1.2-34 dated 2011-11-02 and 1.2-35 dated 2012-08-14
Description: Bayesian networks with continuous and/or discrete
variables can be learned and compared from data.
Author: Susanne Gammelgaard Bottcher
Maintainer: Claus Dethlefsen
DESCRIPTION | 12 +++++++-----
MD5 | 16 ++++++++--------
R/generic.R | 30 +++++++++++++++---------------
data/ksl.rda |binary
data/ksl.txt.gz |binary
data/rats.txt.gz |binary
data/reinis.rda |binary
demo/rats.R | 2 +-
demo/regression.R | 2 +-
9 files changed, 32 insertions(+), 30 deletions(-)
Title: Clinical Trial Design and Data Analysis Functions
Diff between clinfun versions 1.0.0 dated 2012-03-13 and 1.0.1 dated 2012-08-14
Description: Utilities to make your clinical collaborations easier if
not fun.
Author: Venkatraman E. Seshan
Maintainer: Venkatraman E. Seshan
CHANGES | 9 ++++++++-
DESCRIPTION | 6 +++---
MD5 | 10 +++++-----
R/coxphQuantile.R | 5 +++--
R/roc.area.test.R | 2 +-
R/roc.curve.R | 2 +-
6 files changed, 21 insertions(+), 13 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2011-04-06 0.6.10
2011-03-24 0.6.9
2010-06-09 0.6.7
2010-04-15 0.6.6
2010-04-06 0.6.5
2009-08-31 0.5
Title: Obtain, organize, and visualize NCEP weather data
Diff between RNCEP versions 1.0.4 dated 2012-04-05 and 1.0.5 dated 2012-08-14
Description: This package contains functions to retrieve, organize, and
visualize weather data from the NCEP/NCAR Reanalysis and
NCEP/DOE Reanalysis II datasets. Data are queried via the
Internet and may be obtained for a specified spatial and
temporal extent or interpolated to a point in space and time.
We also provide functions to visualize these weather data on a
map. There are also functions to simulate flight trajectories
according to specified behavior using either NCEP wind data or
data specified by the user.
Author: Michael U. Kemp
Maintainer: Michael U. Kemp
DESCRIPTION | 8 ++++----
MD5 | 22 +++++++++++-----------
R/NCEP.Groundspeed.R | 2 +-
R/NCEP.flight.R | 10 +++++-----
R/NCEP.interp.gaussian.R | 8 ++++----
R/NCEP.interp.pressure.R | 8 ++++----
R/NCEP.interp.surface.R | 10 +++++-----
R/robust.NCEP.interp.gaussian.R | 8 ++++----
R/robust.NCEP.interp.pressure.R | 8 ++++----
R/robust.NCEP.interp.surface.R | 8 ++++----
inst/CITATION | 25 +++++++++++++++++++++++--
man/RNCEP-package.Rd | 8 ++++----
12 files changed, 73 insertions(+), 52 deletions(-)
Title: RMAWGEN (R Multi-site Auto-regressive Weather GENerator): a
package to generate daily time series from monthly mean values
Diff between RMAWGEN versions 1.2.5.1 dated 2012-06-13 and 1.2.5.3 dated 2012-08-14
Description: This package contains S3 and S4 functions for spatial
multi-site stochastic generation of daily timeseries of
temperature and precipitation. The implemented tools make use
of Vectorial AutoRegressive models (VARs). The VAR is
calibrated by daily instrumental "Gaussianized" time series and
then works with monthly timeseries as input.
Bugs/comments/questions/collaboration of any kind are warmly
welcomed.
Author: Emanuele Cordano, Emanuele Eccel
Maintainer: Emanuele Cordano
DESCRIPTION | 12 ++---
MD5 | 19 ++++----
R/ComprehensivePrecipitationGenerator.R | 62 +++++++++++++++++++++--------
R/ComprehensiveTemperatureGenerator.R | 36 ++++++++--------
R/RMAWGEN-package.R | 4 -
R/extractTnFromAnomalies.R | 4 -
R/extractTxFromAnomalies.R | 3 -
inst/doc/examples/trentino_map_2stations.R |only
man/ComprehensivePrecipitationGenerator.Rd | 58 +++++++++++++++++++++------
man/ComprehensiveTemperatureGenerator.Rd | 26 ++++++++----
man/RMAWGEN-package.Rd | 7 +--
11 files changed, 154 insertions(+), 77 deletions(-)
Title: Confidence intervals for two sample comparisons
Diff between pairwiseCI versions 0.1-19 dated 2009-12-03 and 0.1-20 dated 2012-08-14
Description: Calculation of the parametric, nonparametric confidence
intervals for the difference or ratio of location parameters,
nonparametric confidence interval for the Behrens-Fisher
problem and for the difference, ratio and odds-ratio of
binomial proportions for comparison of independent samples. The
package provides common wrapper functions to split data sets
and apply confidence intervals or tests to these subsets. A by
statement allows calculation of CI separately for the levels of
further factors. CI are not adjusted for multiplicity.
Author: Frank Schaarschmidt, Daniel Gerhard
Maintainer: Frank Schaarschmidt
pairwiseCI-0.1-19/pairwiseCI/R/HD.diff.R |only
pairwiseCI-0.1-19/pairwiseCI/R/HD.ratio.R |only
pairwiseCI-0.1-19/pairwiseCI/data/dieldrin.rda |only
pairwiseCI-0.1-19/pairwiseCI/man/dieldrin.Rd |only
pairwiseCI-0.1-20/pairwiseCI/DESCRIPTION | 24 ++--
pairwiseCI-0.1-20/pairwiseCI/MD5 |only
pairwiseCI-0.1-20/pairwiseCI/NAMESPACE |only
pairwiseCI-0.1-20/pairwiseCI/R/np.re.R |only
pairwiseCI-0.1-20/pairwiseCI/R/pairwiseCI.R | 4
pairwiseCI-0.1-20/pairwiseCI/R/pairwiseCICont.R | 4
pairwiseCI-0.1-20/pairwiseCI/data/Oats.rda |binary
pairwiseCI-0.1-20/pairwiseCI/data/behenic.rda |binary
pairwiseCI-0.1-20/pairwiseCI/man/np.re.Rd |only
pairwiseCI-0.1-20/pairwiseCI/man/pairwiseCI.Rd | 38 +------
pairwiseCI-0.1-20/pairwiseCI/man/pairwiseCIInt.Rd | 2
pairwiseCI-0.1-20/pairwiseCI/man/pairwiseCImethodsCont.Rd | 70 ++------------
pairwiseCI-0.1-20/pairwiseCI/man/pairwiseCImethodsProp.Rd | 12 --
17 files changed, 39 insertions(+), 115 deletions(-)
Title: Mathematical Morphology in Any Number of Dimensions
Diff between mmand versions 0.1.1 dated 2012-05-01 and 0.1.2 dated 2012-08-14
Description: This package provides tools for performing mathematical
morphology operations, such as erosion and dilation, on data of
arbitrary dimensionality. It can also be used for smoothing and
other image processing-style operations.
Author: Jon Clayden
Maintainer: Jon Clayden
mmand-0.1.1/mmand/.gitignore |only
mmand-0.1.2/mmand/DESCRIPTION | 8 ++++----
mmand-0.1.2/mmand/MD5 | 8 ++++----
mmand-0.1.2/mmand/NEWS | 8 ++++++++
mmand-0.1.2/mmand/man/gameOfLife.Rd | 2 +-
mmand-0.1.2/mmand/src/morph.c | 21 ++++++++++-----------
6 files changed, 27 insertions(+), 20 deletions(-)
Title: Gene region-level testing procedure for SNP data, using the min
P test resampling approach
Diff between minPtest versions 1.3 dated 2012-06-04 and 1.4 dated 2012-08-14
Description: Package minPtest is designed for estimating a gene
region-level summary for SNP data from case-control studies
using a permutation-based resampling method, called min P test,
allowing execution on a compute cluster or multicore computer.
Author: Stefanie Hieke
Maintainer: Stefanie Hieke
minPtest-1.3/minPtest/.directory |only
minPtest-1.3/minPtest/inst/doc/.directory |only
minPtest-1.3/minPtest/inst/doc/plots/.directory |only
minPtest-1.4/minPtest/DESCRIPTION | 8 ++---
minPtest-1.4/minPtest/MD5 | 16 +++++-----
minPtest-1.4/minPtest/R/minPtest.R | 7 ++--
minPtest-1.4/minPtest/R/plot.minPtest.R | 2 -
minPtest-1.4/minPtest/inst/doc/plots/plot_minPtest1_object1.pdf |binary
minPtest-1.4/minPtest/inst/doc/plots/plot_minPtest2_object2.pdf |binary
minPtest-1.4/minPtest/inst/doc/vignette.Snw | 2 -
minPtest-1.4/minPtest/inst/doc/vignette.pdf |binary
minPtest-1.4/minPtest/man/minPtest.Rd | 13 ++++++--
12 files changed, 28 insertions(+), 20 deletions(-)
Title: Fractional Factorial designs with 2-level factors
Diff between FrF2 versions 1.6-1 dated 2012-07-20 and 1.6-2 dated 2012-08-14
Description: This package creates regular and non-regular Fractional
Factorial designs. Furthermore, analysis tools for Fractional
Factorial designs with 2-level factors are offered (main
effects and interaction plots for all factors simultaneously,
cube plot for looking at the simultaneous effects of three
factors, full or half normal plot, alias structure in a more
readable format than with the built-in function alias). The
package is still under development. While much of the intended
functionality is already available, some changes and
improvements are still to be expected. Suggestions are welcome.
Author: Ulrike Groemping
Maintainer: Ulrike Groemping
DESCRIPTION | 8 +--
FrF2-Ex.R | 71 +++++++++++++++++++++++++------
MD5 | 21 ++++-----
NAMESPACE | 2
R/CIG.R | 103 +++++++++++++++++++++++++++++++++-------------
R/gen2CIG.R |only
R/sysdata.rda |binary
inst/NEWS | 7 +++
man/CIG.Rd | 30 ++++++++++++-
man/CatalogueAccessors.Rd | 8 ++-
man/utilitiesCat.Rd | 2
tests/FrF2test.Rout.save | 6 +-
12 files changed, 192 insertions(+), 66 deletions(-)
Title: Evaluation and experimental design for binomial group testing
Diff between binGroup versions 1.0-10 dated 2012-07-18 and 1.1-0 dated 2012-08-14
Description: This package provides methods for estimation and
hypothesis testing of proportions in group testing designs. It
involves methods for estimating a proportion in a single
population (assuming sensitivity and specificity 1 in designs
with equal group sizes), as well as hypothesis tests and
functions for experimental design for this situation. For
estimating one proportion or the difference of proportions, a
number of confidence interval methods are included, which can
deal with various different pool sizes. Further, regression
methods are implemented for simple pooling and matrix pooling
designs.
Author: Boan Zhang, Christopher Bilder, Brad Biggerstaff, Frank
Schaarschmidt
Maintainer: Frank Schaarschmidt
DESCRIPTION | 10
MD5 | 12 -
NAMESPACE | 3
R/binGroupReg.r | 496 +++++++++++++++++++++++++++++++++++++++++++++++-
man/binGroup-package.Rd | 6
man/gtreg.Rd | 2
man/gtreg.halving.Rd |only
man/sim.halving.Rd |only
8 files changed, 511 insertions(+), 18 deletions(-)
Title: A collection of functions for estimating centrographic
statistics and computational geometries for spatial point
patterns
Diff between aspace versions 3.1 dated 2012-08-08 and 3.2 dated 2012-08-14
Description: A collection of functions for computing centrographic
statistics (e.g., standard distance, standard deviation
ellipse, standard deviation box) for observations taken at
point locations. Separate plotting functions have been
developed for each measure. Users interested in writing results
to ESRI shapefiles can do so by using results from aspace
functions as inputs to the convert.to.shapefile and
write.shapefile functions in the shapefiles library. The aspace
library was originally conceived to aid in the analysis of
spatial patterns of travel behaviour (see Buliung and Remmel,
2008). Major changes in the current version include (1) removal
of dependencies on several external libraries (e.g., gpclib,
maptools, sp), (2) the separation of plotting and estimation
capabilities, (3) reduction in the number of functions, and (4)
expansion of analytical capabilities with additional functions
for descriptive analysis and visualization (e.g., standard
deviation box, centre of minimum distance, central feature).
Author: Randy Bui, Ron N. Buliung, Tarmo K. Remmel
Maintainer: Ron N. Buliung
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/calc_sde.R | 4 ++--
man/aspace.package.Rd | 4 ++--
man/centre.Rd | 2 +-
5 files changed, 13 insertions(+), 13 deletions(-)
Title: Stepwise covariate selection for the Fine & Gray competing risks
regression model
Diff between crrstep versions 2012-5.3 dated 2012-05-04 and 2012-8.13 dated 2012-08-14
Description: Performs forward and backwards stepwise regression for the
Proportional subdistribution hazards model in competing risks
(Fine & Gray 1999). Procedure uses AIC, BIC and BICcr as
selection criteria. BICcr has a penalty of k = log(n*), where
n* is the number of primary events.
Author: Ravi Varadhan & Deborah Kuk
Maintainer: Ravi Varadhan
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/crrstep.R | 1 +
man/crrstep-package.Rd | 4 ++--
man/crrstep.Rd | 2 +-
5 files changed, 12 insertions(+), 11 deletions(-)
Title: Tools for analyzing QTL experiments
Diff between qtl versions 1.24-9 dated 2012-05-25 and 1.25-15 dated 2012-08-14
Description: Analysis of experimental crosses to identify genes (called
quantitative trait loci, QTLs) contributing to variation in
quantitative traits.
Author: Karl W Broman
Maintainer: Karl W Broman
qtl-1.24-9/qtl/inst/docs/Sources/MQM/.Rprofile |only
qtl-1.25-15/qtl/DESCRIPTION | 8
qtl-1.25-15/qtl/MD5 | 65 +--
qtl-1.25-15/qtl/R/addqtl.R | 158 ++++----
qtl-1.25-15/qtl/R/fitqtl.R | 191 +++++-----
qtl-1.25-15/qtl/R/refineqtl.R | 74 ++--
qtl-1.25-15/qtl/R/scanqtl.R | 62 +--
qtl-1.25-15/qtl/R/simulate.R | 14
qtl-1.25-15/qtl/R/stepwiseqtl.R | 165 +++++----
qtl-1.25-15/qtl/R/summary.scanone.R | 12
qtl-1.25-15/qtl/R/util.R | 75 +++-
qtl-1.25-15/qtl/R/write.cross.R | 15
qtl-1.25-15/qtl/R/write.cross.qtab.R |only
qtl-1.25-15/qtl/inst/INSTALL_ME.txt | 16
qtl-1.25-15/qtl/inst/STATUS.txt | 444 +++++++++++++------------
qtl-1.25-15/qtl/inst/TODO.txt | 62 +--
qtl-1.25-15/qtl/man/addpair.Rd | 26 -
qtl-1.25-15/qtl/man/addqtl.Rd | 19 -
qtl-1.25-15/qtl/man/fitqtl.Rd | 30 -
qtl-1.25-15/qtl/man/fitstahl.Rd | 6
qtl-1.25-15/qtl/man/hyper.Rd | 2
qtl-1.25-15/qtl/man/inferredpartitions.Rd | 3
qtl-1.25-15/qtl/man/mqmgetmodel.Rd | 1
qtl-1.25-15/qtl/man/mqmpermutation.Rd | 3
qtl-1.25-15/qtl/man/mqmscanfdr.Rd | 8
qtl-1.25-15/qtl/man/refineqtl.Rd | 17
qtl-1.25-15/qtl/man/scanPhyloQTL.Rd | 3
qtl-1.25-15/qtl/man/scanone.Rd | 22 -
qtl-1.25-15/qtl/man/scanqtl.Rd | 27 -
qtl-1.25-15/qtl/man/stepwiseqtl.Rd | 3
qtl-1.25-15/qtl/man/write.cross.Rd | 16
qtl-1.25-15/qtl/src/hmm_bci.c | 8
qtl-1.25-15/qtl/src/hmm_f2i.c | 8
qtl-1.25-15/qtl/src/stahl_mf.c | 8
qtl-1.25-15/qtl/src/zeroin.c |only
qtl-1.25-15/qtl/src/zeroin.h |only
36 files changed, 871 insertions(+), 700 deletions(-)