Author: Jonathan P. Weeks
Diff between plink versions 1.1-3 dated 2009-06-14 and 1.1-4 dated 2009-06-19
Title: IRT Separate Calibration Linking Methods
Description: This package uses item response theory methods to compute
linking constants and conduct chain linking of unidimensional
or multidimensional tests for multiple groups under a common
item design. The unidimensional methods include the Mean/Mean,
Mean/Sigma, Haebara, and Stocking-Lord methods for dichotomous
(1PL, 2PL and 3PL) and/or polytomous (graded response, partial
credit/generalized partial credit, nominal, and multiple-choice
model) items. The multidimensional methods include the
Reckase-Martineau method and extensions of the Haebara and
Stocking-Lord method using a single dilation parameter,
multiple dilation parameters, or the Oshima, Davey, & Lee
approach for multidimensional extensions of all the
unidimensional dichotomous and polytomous item response models.
The package also includes functions for importing item and/or
ability parameters from common IRT software and ploting item
characteristic/category curves or surfaces and vector plots.
DESCRIPTION | 37 ++--
R/drm.R | 4
R/gpcm.R | 6
R/grm.R | 6
R/mcm.R | 2
R/mixed.R | 2
R/nrm.R | 2
R/plink.R | 130 ++++++++++-----
R/plot.R | 442 ++++++++++++++++++++++++++++++---------------------
R/read.bilog.R | 20 +-
inst/CITATION | 4
inst/NEWS | 28 +++
man/drm-methods.Rd | 12 -
man/gpcm-methods.Rd | 12 -
man/grm-methods.Rd | 8
man/mixed-methods.Rd | 9 +
man/plink-methods.Rd | 45 +++--
man/plot.irt.prob.Rd | 3
man/read.bilog.Rd | 20 +-
19 files changed, 496 insertions(+), 296 deletions(-)
Author: Chris Fraley and Adrian Raftery
Title: Model-Based Clustering / Normal Mixture Modeling
Description: Model-based clustering and normal mixture modeling
including Bayesian regularization
Diff between mclust versions 3.2 dated 2009-04-29 and 3.2.1 dated 2009-06-19
CHANGELOG | 3 ++- DESCRIPTION | 11 ++++++----- R/mclust.R | 15 +++++++++++---- 3 files changed, 19 insertions(+), 10 deletions(-)
Author: Grace Chiu
Diff between bentcableAR versions 0.2 dated 2009-06-18 and 0.2.1 dated 2009-06-19
Title: Bent-Cable Regression for Independent Data or Autoregressive
Time Series
Description: This package contains two main interfaces for fitting and
diagnosing bent-cable regressions for autoregressive
time-series data or independent data (time series or
otherwise). The interfaces are 'bentcable.ar()' and
'bentcable.dev.plot()'. Some components in the package can also
be used as stand-alone functions. The bent cable
(linear-quadratic-linear) generalizes the broken stick
(linear-linear), which is also handled by this package. Version
0.2 corrects a glitch in the computation of confidence
intervals for the CTP.
DESCRIPTION | 8 ++++----
man/bentcableAR.Rd | 4 ++--
2 files changed, 6 insertions(+), 6 deletions(-)
Author: Ollivier TARAMASCO
Title: Hidden Markov Models simulations and estimations
Description: Discrete, univariate or multivariate gaussian, mixture of
univariate or multivariate gaussian HMM functions for
simulation and estimation.
Diff between RHmm versions 1.3.0 dated 2009-04-27 and 1.3.1 dated 2009-06-19
DESCRIPTION | 10 ++++++---- R/RHmm-HyperNew.R | 4 ++-- R/RHmm-internals.R | 4 ++-- R/RHmm.R | 4 ++-- README | 14 +++++++++++--- src/AllDistributions.h | 2 +- src/Debogage.h | 2 +- src/Hmm.h | 4 ++-- src/Kmeans.cpp | 2 +- src/Kmeans.h | 6 +++--- src/Main.cpp |only src/MultivariateNormalUtil.cpp | 2 +- src/MultivariateNormalUtil.h | 2 +- src/OTMathUtil.h | 2 +- src/REquivalents.h | 2 +- src/RHmm.cpp | 2 +- src/RHmm.h | 2 +- src/SamplesUtil.cpp | 2 +- src/SamplesUtil.h | 2 +- src/cBaumWelch.cpp | 2 +- src/cBaumWelch.h | 2 +- src/cBaumWelchInParam.cpp | 2 +- src/cBaumWelchInParam.h | 2 +- src/cDiscrete.cpp | 2 +- src/cDiscrete.h | 2 +- src/cDistribution.h | 2 +- src/cHmm.cpp | 2 +- src/cHmm.h | 2 +- src/cHmmFit.cpp | 2 +- src/cHmmFit.h | 2 +- src/cInParam.cpp | 2 +- src/cInParam.h | 2 +- src/cLogBaumWelch.cpp | 2 +- src/cLogBaumWelch.h | 2 +- src/cMixtMultivariateNormal.cpp | 2 +- src/cMixtMultivariateNormal.h | 2 +- src/cMixtUnivariateNormal.cpp | 2 +- src/cMixtUnivariateNormal.h | 2 +- src/cMultivariateNormal.cpp | 2 +- src/cMultivariateNormal.h | 2 +- src/cOTError.cpp | 2 +- src/cOTError.h | 2 +- src/cOTMatrix.cpp | 2 +- src/cOTMatrix.h | 2 +- src/cOTVector.cpp | 2 +- src/cOTVector.h | 2 +- src/cRUtils.cpp | 2 +- src/cRUtils.h | 2 +- src/cRandomGenerator.h | 2 +- src/cUnivariateNormal.cpp | 2 +- src/cUnivariateNormal.h | 2 +- src/cViterbi.cpp | 2 +- src/cViterbi.h | 2 +- src/logprob.cpp | 2 +- src/logprob.h | 2 +- 55 files changed, 75 insertions(+), 65 deletions(-)
Author: Pedro Brasil
Diff between DiagnosisMed versions 0.2.2 dated 2009-06-07 and 0.2.2.1 dated 2009-06-19
Title: Diagnostic test accuracy evaluation for medical professionals.
Description: DiagnosisMed is a package to analyze data from diagnostic
test accuracy evaluating health conditions. It is being built
to be used by health professionals. This package is - or soon
will be - able to estimate sample size for common situations in
diagnostic test accuracy, estimate sensitivity and specificity
from categorical and continuous test results including some
evaluations of indeterminate results, or compare different
analysis strategies into measures commonly used by health
professionals.
DESCRIPTION | 12 +-
R/ROC.r | 135 +++++++++++++-------------------
R/TGROC.r | 213 ++++++++++++----------------------------------------
R/diagnosis.r | 16 ++-
R/diagnosisI.r | 16 ++-
R/plot.ROC.r | 2
R/plot.TGROC.r |only
R/print.ROC.r | 2
man/LRgrgaph.Rd | 7 +
man/ROC.Rd | 8 +
man/TGROC.Rd | 14 ++-
man/diagnosis.Rd | 2
man/interact.ROC.Rd | 1
man/plot.diag.Rd | 1
14 files changed, 169 insertions(+), 260 deletions(-)
Author: Friedrich Leisch
Title: Flexible Cluster Algorithms
Description: The main function kcca implements a general framework for
k-centroids cluster analysis supporting arbitrary distance
measures and centroid computation. Further cluster methods
include hard competitive learning, neural gas, and QT
clustering. There are numerous visualization methods for
cluster results (neighborhood graphs, convex cluster hulls,
barcharts of centroids, ...), and bootstrap methods for the
analysis of cluster stability.
Diff between flexclust versions 1.1-2 dated 2009-02-22 and 1.2-0 dated 2009-06-19
flexclust-1.1-2/flexclust/inst/NEWS |only flexclust-1.2-0/flexclust/DESCRIPTION | 23 ++- flexclust-1.2-0/flexclust/NAMESPACE | 15 +- flexclust-1.2-0/flexclust/NEWS | 15 ++ flexclust-1.2-0/flexclust/R/AAA-classes.R | 12 + flexclust-1.2-0/flexclust/R/barplot.R | 143 ++++++++++++++++++----- flexclust-1.2-0/flexclust/R/bootstrap.R | 5 flexclust-1.2-0/flexclust/R/bundestag.R | 15 +- flexclust-1.2-0/flexclust/R/kcca.R | 35 +++-- flexclust-1.2-0/flexclust/R/shadow.R |only flexclust-1.2-0/flexclust/R/stripes.R |only flexclust-1.2-0/flexclust/R/utils.R | 17 ++ flexclust-1.2-0/flexclust/inst/CITATION | 53 ++------ flexclust-1.2-0/flexclust/man/barplot-methods.Rd | 39 +++++- flexclust-1.2-0/flexclust/man/bundestag.Rd | 10 + flexclust-1.2-0/flexclust/man/kcca.Rd | 15 ++ flexclust-1.2-0/flexclust/man/predict-methods.Rd | 3 flexclust-1.2-0/flexclust/man/propBarchart.Rd |only flexclust-1.2-0/flexclust/man/shadow.Rd |only flexclust-1.2-0/flexclust/man/shadowStars.Rd |only flexclust-1.2-0/flexclust/man/stepFlexclust.Rd | 14 +- flexclust-1.2-0/flexclust/man/stripes.Rd |only 22 files changed, 303 insertions(+), 111 deletions(-)
Author: Peter K Dunn
Diff between tweedie versions 1.6.2 dated 2009-02-16 and 1.6.6 dated 2009-06-19
Title: Tweedie exponential family models
Description: Maximum likelihood computations for Tweedie families.
CHANGE.log | 14 +++++
DESCRIPTION | 12 ++---
R/tweedie.R | 115 ++++++++++++++++++++++++++++++++-----------------
man/tweedie-package.Rd | 12 ++---
man/tweedie.profile.Rd | 20 +++++++-
5 files changed, 122 insertions(+), 51 deletions(-)
Author: Arne Henningsen and Jeff D. Hamann
Title: Estimating Systems of Simultaneous Equations
Description: This package contains functions for fitting simultaneous
systems of linear and nonlinear equations using Ordinary Least
Squares (OLS), Weighted Least Squares (WLS), Seemingly
Unrelated Regressions (SUR), Two-Stage Least Squares (2SLS),
Weighted Two-Stage Least Squares (W2SLS), and Three-Stage Least
Squares (3SLS).
Diff between systemfit versions 1.1-0 dated 2009-06-18 and 1.1-2 dated 2009-06-19
systemfit-1.1-0/systemfit/tests |only systemfit-1.1-2/systemfit/DESCRIPTION | 8 systemfit-1.1-2/systemfit/NEWS | 7 systemfit-1.1-2/systemfit/inst/doc/systemfit.pdf | 573 +++++++++++------------ systemfit-1.1-2/systemfit/man/systemfit.Rd | 31 + 5 files changed, 328 insertions(+), 291 deletions(-)
Author: Stefano Maria Iacus
Title: Simulation and Inference for Stochastic Differential Equations
Description: Companion package to the book Simulation and Inference for
Stochastic Differential Equations With R Examples, ISBN
978-0-387-75838-1, Springer, NY.
Diff between sde versions 2.0.5 dated 2009-04-15 and 2.0.6 dated 2009-06-19
DESCRIPTION | 12 ++++++------ R/zzz.R | 4 ++-- 2 files changed, 8 insertions(+), 8 deletions(-)
Author: Petr Savicky
Diff between pspearman versions 0.1-10 dated 2009-03-04 and 0.2-5 dated 2009-06-19
Title: Spearman's rank correlation test
Description: Spearman's rank correlation test with precomputed exact
null distribution for n <= 22.
pspearman-0.1-10/pspearman/man/pspearman-package.Rd |only
pspearman-0.2-5/pspearman/CHANGELOG | 4
pspearman-0.2-5/pspearman/DESCRIPTION | 11 -
pspearman-0.2-5/pspearman/NAMESPACE |only
pspearman-0.2-5/pspearman/R/init.R | 6
pspearman-0.2-5/pspearman/R/spearman.data.R |only
pspearman-0.2-5/pspearman/R/spearman.test.R | 186 +++++++++++---------
pspearman-0.2-5/pspearman/man/pspearman.Rd |only
pspearman-0.2-5/pspearman/man/spearman.test.Rd | 68 +++----
9 files changed, 146 insertions(+), 129 deletions(-)
Author: Andrew Gelman
Diff between mi versions 0.08-01 dated 2009-06-17 and 0.08-02 dated 2009-06-19
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
CHANGELOG | 3 +++
DESCRIPTION | 8 ++++----
R/AllInternal.R | 2 +-
R/mi.R | 4 +---
R/mi.binary.R | 10 ++++------
R/mi.continuous.R | 14 ++++++--------
R/mi.count.R | 11 +++++------
R/mi.info.R | 4 ++--
R/plot.R | 10 ++++++----
R/resid.R | 4 ++--
10 files changed, 34 insertions(+), 36 deletions(-)
Author: Dimitris Rizopoulos
Diff between ltm versions 0.9-0 dated 2009-03-02 and 0.9-1 dated 2009-06-19
Title: Latent Trait Models under IRT
Description: Analysis of multivariate dichotomous and polytomous data
using latent trait models under the Item Response Theory
approach. It includes the Rasch, the Two-Parameter Logistic,
the Birnbaum's Three-Parameter, the Graded Response, and the
Generalized Partial Credit Models.
DESCRIPTION | 32 +++++++++++++++++++-------------
R/EM.R | 2 +-
R/GHpoints.R | 2 +-
R/GoF.gpcm.R | 2 +-
R/GoF.rasch.R | 2 +-
R/IRT.parm.R | 2 +-
R/IRT.parm.grm.R | 2 +-
R/IRT.parm.ltm.R | 2 +-
R/IRT.parm.rasch.R | 2 +-
R/IRT.parm.tpm.R | 2 +-
R/anova.gpcm.R | 2 +-
R/anova.grm.R | 2 +-
R/anova.ltm.R | 2 +-
R/anova.rasch.R | 2 +-
R/anova.tpm.R | 2 +-
R/betas.gpcm.R | 2 +-
R/betas.grm.R | 2 +-
R/betas.ltm.R | 2 +-
R/betas.rasch.R | 2 +-
R/biserial.cor.R | 2 +-
R/cd.tpm.R | 2 +-
R/cd.vec.R | 2 +-
R/chisq.irt.R | 2 +-
R/coef.gpcm.R | 4 ++--
R/coef.grm.R | 4 ++--
R/coef.ltm.R | 4 ++--
R/coef.rasch.R | 4 ++--
R/coef.tpm.R | 4 ++--
R/cprobs.R | 2 +-
R/crf.GPCM.R | 2 +-
R/crf.GPCM2.R | 2 +-
R/cronbach.alpha.R | 2 +-
R/cumprobs.R | 2 +-
R/descript.R | 2 +-
R/factor.scores.R | 2 +-
R/factor.scores.gpcm.R | 2 +-
R/factor.scores.grm.R | 2 +-
R/factor.scores.ltm.R | 2 +-
R/factor.scores.rasch.R | 2 +-
R/factor.scores.tpm.R | 2 +-
R/fd.vec.R | 2 +-
R/fitted.gpcm.R | 4 ++--
R/fitted.grm.R | 2 +-
R/fitted.ltm.R | 2 +-
R/fitted.rasch.R | 2 +-
R/fitted.tpm.R | 2 +-
R/fscores.g.R | 2 +-
R/fscores.gp.R | 2 +-
R/fscores.l.R | 2 +-
R/fscores.r.R | 2 +-
R/fscores.t.R | 2 +-
R/gauher.R | 2 +-
R/gpcm.R | 2 +-
R/grm.R | 2 +-
R/infoGPCM.R | 2 +-
R/infoprobs.R | 2 +-
R/information.R | 2 +-
R/iprobs.R | 2 +-
R/item.fit.R | 2 +-
R/jacobian.R | 2 +-
R/linpred.GPCM.R | 2 +-
R/logLik.gpcm.R | 2 +-
R/logLik.grm.R | 2 +-
R/logLik.ltm.R | 2 +-
R/logLik.rasch.R | 2 +-
R/logLik.tpm.R | 2 +-
R/logLiktpm.R | 2 +-
R/loglikgpcm.R | 2 +-
R/loglikgrm.R | 2 +-
R/loglikltm.R | 2 +-
R/ltm.R | 2 +-
R/ltm.fit.R | 2 +-
R/margins.R | 2 +-
R/margins.gpcm.R | 2 +-
R/margins.grm.R | 2 +-
R/margins.ltm.R | 2 +-
R/margins.rasch.R | 2 +-
R/margins.tpm.R | 2 +-
R/matArrays.R | 2 +-
R/matMeans.R | 2 +-
R/matSums.R | 2 +-
R/matches.R | 2 +-
R/mult.choice.R | 2 +-
R/observedFreqs.R | 2 +-
R/onAttach.R | 2 +-
R/person.fit.R | 2 +-
R/plot.aov.gpcm.R | 2 +-
R/plot.descript.R | 3 +--
R/plot.fscores.R | 2 +-
R/plot.gpcm.R | 2 +-
R/plot.grm.R | 2 +-
R/plot.ltm.R | 2 +-
R/plot.rasch.R | 2 +-
R/plot.tpm.R | 2 +-
R/plot.unidimTest.R | 2 +-
R/print.GoF.gpcm.R | 2 +-
R/print.GoF.rasch.R | 2 +-
R/print.aov.gpcm.R | 2 +-
R/print.aov.grm.R | 2 +-
R/print.aov.ltm.R | 2 +-
R/print.aov.rasch.R | 2 +-
R/print.aov.tpm.R | 2 +-
R/print.cronbachAlpha.R | 2 +-
R/print.descript.R | 2 +-
R/print.fscores.R | 2 +-
R/print.gpcm.R | 2 +-
R/print.grm.R | 2 +-
R/print.information.R | 2 +-
R/print.itemFit.R | 8 ++++----
R/print.ltm.R | 2 +-
R/print.margins.gpcm.R | 2 +-
R/print.margins.grm.R | 2 +-
R/print.margins.ltm.R | 2 +-
R/print.persFit.R | 6 +++---
R/print.rasch.R | 2 +-
R/print.rcor.test.R | 9 ++++-----
R/print.summ.gpcm.R | 2 +-
R/print.summ.grm.R | 2 +-
R/print.summ.ltm.R | 2 +-
R/print.summ.rasch.R | 2 +-
R/print.summ.tpm.R | 2 +-
R/print.tpm.R | 2 +-
R/print.unidimTest.R | 2 +-
R/probs.R | 2 +-
R/rasch.R | 2 +-
R/rcor.test.R | 2 +-
R/residuals.gpcm.R | 2 +-
R/residuals.grm.R | 2 +-
R/residuals.ltm.R | 2 +-
R/residuals.rasch.R | 2 +-
R/residuals.tpm.R | 2 +-
R/rmvlogis.R | 2 +-
R/rmvordlogis.R | 2 +-
R/scoregpcm.R | 2 +-
R/scoregpcmSNW.R | 2 +-
R/scoregrm.R | 2 +-
R/scoreltm.R | 2 +-
R/scoretpm.R | 2 +-
R/simulate.gpcm.R | 2 +-
R/simulate.grm.R | 2 +-
R/start.val.gpcm.R | 2 +-
R/start.val.grm.R | 2 +-
R/start.val.ltm.R | 2 +-
R/start.val.rasch.R | 2 +-
R/start.val.tpm.R | 2 +-
R/summary.gpcm.R | 2 +-
R/summary.grm.R | 2 +-
R/summary.ltm.R | 2 +-
R/summary.rasch.R | 2 +-
R/summary.tpm.R | 2 +-
R/testEquatingData.R | 2 +-
R/thetas.tpm.R | 2 +-
R/tpm.R | 2 +-
R/unidimTest.R | 2 +-
R/vcov.gpcm.R | 2 +-
R/vcov.grm.R | 2 +-
R/vcov.ltm.R | 2 +-
R/vcov.rasch.R | 2 +-
R/vcov.tpm.R | 2 +-
data/Abortion.rda |binary
data/Environment.rda |binary
data/LSAT.rda |binary
data/Mobility.rda |binary
data/Science.rda |binary
data/WIRS.rda |binary
inst/NEWS | 11 +++++++++++
man/ltm-package.Rd | 4 ++--
167 files changed, 204 insertions(+), 189 deletions(-)