Title: A general-purpose package for dynamic report generation in R
Diff between knitr versions 0.1 dated 2012-01-17 and 0.2 dated 2012-01-28
More information about knitr at CRAN
Description: This package provides a general-purpose tool for dynamic
report generation in R, which can be used to deal with any type
of (plain text) files, including Sweave and HTML. The patterns
of code chunks and inline R expressions can be customized. R
code is evaluated as if it were copied and pasted in an R
terminal thanks to the evaluate package (e.g. we do not need to
explicitly print() plots from ggplot2 or lattice). R code can
be reformatted by the formatR package so that long lines are
automatically wrapped, with indent and spaces being added, and
comments being preserved. A simple caching mechanism is
provided to cache results from computations for the first time
and the computations will be skipped the next time. Almost all
common graphics devices, including those in base R and add-on
packages like Cairo, cairoDevice and tikzDevice, are built-in
with this package and it is straightforward to switch between
devices without writing any special functions. The width and
height as well as alignment of plots in the output document can
be specified in chunk options (the size of plots for graphics
devices is still supported as usual). Multiple plots can be
recorded in a single code chunk, and it is also allowed to
rearrange plots to the end of a chunk or just keep the last
plot. Warnings, messages and errors are written in the output
document by default (can be turned off). Currently LaTeX, HTML
and Markdown are supported, and other output formats can be
supported by hook functions. The large collection of hooks in
this package makes it possible for the user to control almost
everything in the R code input and output. Hooks can be used
either to format the output or to run a specified R code
fragment before or after a code chunk. Most features are
borrowed or inspired by Sweave, cacheSweave, pgfSweave, brew
and decumar.
Author: Yihui Xie
Maintainer: Yihui Xie
knitr-0.1/knitr/inst/examples/knitr-code-themes.Rnw |only
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knitr-0.2/knitr/R/cache.R | 4
knitr-0.2/knitr/R/defaults.R | 16 +
knitr-0.2/knitr/R/eclipse.R | 3
knitr-0.2/knitr/R/hooks.R | 48 +++--
knitr-0.2/knitr/R/output.R | 153 ++++++++++++++---
knitr-0.2/knitr/R/package.R | 14 +
knitr-0.2/knitr/R/parser.R | 30 ++-
knitr-0.2/knitr/R/pattern.R | 2
knitr-0.2/knitr/R/plot.R | 19 ++
knitr-0.2/knitr/R/themes.R | 5
knitr-0.2/knitr/R/utils.R | 65 ++++++-
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knitr-0.2/knitr/man/eclipse_theme.Rd | 5
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47 files changed, 501 insertions(+), 186 deletions(-)
Path: /cran/updated | permanent link
Title: The Trapezoidal Distribution
Diff between trapezoid versions 1.0-4 dated 2012-01-02 and 1.0-5 dated 2012-01-28
More information about trapezoid at CRAN
Description: The trapezoid package provides dtrapezoid, ptrapezoid,
qtrapezoid, and rtrapezoid functions for the trapezoidal
distribution.
Author: Jeremy Thoms Hetzel [aut, cre]
Maintainer: Jeremy Thoms Hetzel
ChangeLog | 1 +
DESCRIPTION | 16 +++++++++-------
MD5 | 14 +++++++-------
NAMESPACE | 2 +-
inst/doc/trapezoid.Rnw | 3 ++-
inst/doc/trapezoid.pdf |binary
man/trapezoid.Rd | 13 +++++++------
vignettes/trapezoid.Rnw | 3 ++-
8 files changed, 29 insertions(+), 23 deletions(-)
Path: /cran/updated | permanent link
Title: Shape constrained additive models
Diff between scam versions 1.1 dated 2012-01-22 and 1.1-1 dated 2012-01-28
More information about scam at CRAN
Description: Routines for generalized additive modelling under shape
constraints on the component functions of the linear predictor.
Models can contain multiple shape constrained (univariate
and/or bivariate) and unconstrained terms. The routines of
mgcv(gam) package are used for setting up the model matrix,
printing and plotting the results. Penalized likelihood
maximization based on Newton-Raphson method is used to fit a
model with multiple smoothing parameter selection by GCV or
UBRE/AIC.
Author: Natalya Pya
Maintainer: Natalya Pya
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/uni.smooth.const.R | 20 ++++++++++----------
man/scam-package.Rd | 4 ++--
man/smooth.construct.mdcv.smooth.spec.Rd | 7 +++----
5 files changed, 23 insertions(+), 24 deletions(-)
Path: /cran/updated | permanent link
Title: Linear Student-t Mixed-Effects Models with Censored Data
Diff between tlmec versions 0.0-1 dated 2011-12-02 and 0.0-2 dated 2012-01-28
More information about tlmec at CRAN
Description: Fit a linear mixed effects model for censored data with
Student-t or normal distributions. The errors are assumed
independent and identically distributed.
Author: Larissa Matos
Maintainer: Larissa Matos
ChangeLog | 6 ++
DESCRIPTION | 15 +++---
MD5 | 12 ++---
R/linearN.R | 25 +++++-----
R/linearT.R | 123 ++++++++++++++++++++++++++++++++++++++--------------
data/UTIdata.tab.gz |binary
man/tlmec.Rd | 2
7 files changed, 125 insertions(+), 58 deletions(-)
Path: /cran/updated | permanent link
More information about ReCiPa at CRAN
Path: /cran/new | permanent link
Title: Reads mass spectrometry data in mzXML format.
Diff between readMzXmlData versions 2.1 dated 2012-01-26 and 2.1.1 dated 2012-01-28
More information about readMzXmlData at CRAN
Description: Functions for reading mass spectrometry data in mzXML
format.
Author: Sebastian Gibb, Jarek Tuszynski
Maintainer: Sebastian Gibb
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
NAMESPACE | 4 ----
NEWS | 6 +++++-
R/parseMzXml.R | 2 +-
man/readMzXmlData-package.Rd | 4 ++--
6 files changed, 17 insertions(+), 17 deletions(-)
Path: /cran/updated | permanent link
Title: Random name generating function and data set
Diff between randomNames versions 0.0-4 dated 2011-11-20 and 0.0-5 dated 2012-01-28
More information about randomNames at CRAN
Description: Function to generate random gender and ethnicity correct
first and/or last names. Names are chosen proportionally based
upon their probability of appearing in a large scale data base
of real names.
Author: Damian W. Betebenner
Maintainer: Damian W. Betebenner
DESCRIPTION | 15 +++++++++------
MD5 | 10 +++++-----
R/randomNames.R | 6 +++---
inst/CITATION | 8 ++++----
inst/NEWS | 4 ++++
man/randomNames-package.Rd | 4 ++--
6 files changed, 27 insertions(+), 20 deletions(-)
Path: /cran/updated | permanent link
Title: A Package for Running jags from R
Diff between R2jags versions 0.03-05 dated 2012-01-27 and 0.03-06 dated 2012-01-28
More information about R2jags at CRAN
Description: Using this package to call jags from R.
Author: Yu-Sung Su
Maintainer: Yu-Sung Su
CHANGELOG | 7 ++++
DESCRIPTION | 8 ++---
MD5 | 14 ++++-----
NAMESPACE | 1
R/jags.R | 26 ++++++++++++++++-
R/jagsParallel.R | 5 ++-
R/print.R | 8 ++++-
man/jags.Rd | 80 ++++++++++++++++++++++++++++++++++++++++++++-----------
8 files changed, 117 insertions(+), 32 deletions(-)
Path: /cran/updated | permanent link
Title: A package for LEarning STATistics
Diff between lestat versions 1.6 dated 2011-12-21 and 1.7 dated 2012-01-28
More information about lestat at CRAN
Description: This package contains some simple objects and functions to
do statistics using linear models and a Bayesian framework.
Author: Petter Mostad
Maintainer: Petter Mostad
DESCRIPTION | 12
MD5 | 42 +-
NAMESPACE | 57 +++
R/lestat.R | 787 +++++++++++++++++++++++++++++++++++++++----
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man/precision.Rd | 4
man/print.normal.Rd | 5
man/probability.Rd | 2
man/probabilitydensity.Rd | 2
man/simulate.normal.Rd | 5
man/summary.normal.Rd | 5
man/tdistribution.Rd | 2
man/variance.Rd | 4
26 files changed, 851 insertions(+), 94 deletions(-)
Path: /cran/updated | permanent link
Title: Diagnostic tools for two-level normal hierarchical linear models
Diff between HLMdiag versions 0.1.3 dated 2012-01-03 and 0.1.4 dated 2012-01-28
More information about HLMdiag at CRAN
Description: A suite of diagnostic tools for two-level normal
hierarchical linear models. The package offers not only
traditional case-deletion diagnostics (Cook's distance,
covratio, covtrace, and MDFFITS) but also provides graphics for
residual analysis. Currently, case deletion is performed by
iteratively refitting the model using lmer in the lme4 package,
so for data sets with many groups, computation is currently
slow.
Author: Adam Loy
Maintainer: Adam Loy
DESCRIPTION | 26 +++++++++++++-------------
MD5 | 6 +++---
NEWS | 3 +++
R/group_level_residual_functions.R | 4 ++--
4 files changed, 21 insertions(+), 18 deletions(-)
Path: /cran/updated | permanent link
Title: Graphical Interaction Models
Diff between gRim versions 0.1.6 dated 2012-01-19 and 0.1.7 dated 2012-01-28
More information about gRim at CRAN
Description: Implements graphical interaction models for contingency
tables (i.e. log-linear models) and graphical Gaussian models
for the multivariate normal data (i.e. covariance selection
models) and mixed interaction models
Author: Søren Højsgaard
Maintainer: Søren Højsgaard
ChangeLog | 6 ++++++
DESCRIPTION | 6 +++---
MD5 | 14 +++++++-------
R/iModel-general.R | 11 ++++++++++-
R/pFormula.R | 30 ++++++++++++++++--------------
R/pFormula2.R | 4 ++--
inst/doc/gRim.pdf |binary
src/_utils_mat.c | 2 +-
8 files changed, 45 insertions(+), 28 deletions(-)
Path: /cran/updated | permanent link
More information about geotools at CRAN
Path: /cran/new | permanent link
Title: Probabilistic Forecasting using Ensembles and Bayesian Model
Averaging
Diff between ensembleBMA versions 5.0.2 dated 2011-11-09 and 5.0.3 dated 2012-01-28
More information about ensembleBMA at CRAN
Description: Bayesian Model Averaging to create probabilistic forecasts
from ensemble forecasts and weather observations.
Author: Chris Fraley, Adrian E. Raftery, J. McLean Sloughter, Tilmann
Gneiting, University of Washington.
Maintainer: Chris Fraley
CHANGELOG | 2 ++
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/fitBMAnormal.R | 2 +-
4 files changed, 10 insertions(+), 8 deletions(-)
Path: /cran/updated | permanent link
Title: Ecological models and data (book support)
Diff between emdbook versions 1.3.1 dated 2011-04-28 and 1.3.2 dated 2012-01-28
More information about emdbook at CRAN
Description: Auxiliary functions and data sets for _Ecological Models
and Data_, a book presenting maximum likelihood estimation and
related topics for ecologists (ISBN 978-0-691-12522-0)
Author: Ben Bolker
Maintainer: Ben Bolker
emdbook-1.3.1/emdbook/inst/doc |only
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emdbook-1.3.2/emdbook/data/FirDBHFec.csv.gz |binary
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emdbook-1.3.2/emdbook/man/lambertW.Rd | 19 ++++++++++++---
11 files changed, 42 insertions(+), 41 deletions(-)
Path: /cran/updated | permanent link
Title: Useful libraries for building a Java based GUI under R
Diff between CommonJavaJars versions 1.0-0 dated 2011-05-17 and 1.0-1 dated 2012-01-28
More information about CommonJavaJars at CRAN
Description: Useful libraries for building a Java based GUI under R
Author: Kornelius Rohmeyer
Maintainer: Kornelius Rohmeyer
DESCRIPTION | 6 +++---
MD5 |only
NAMESPACE |only
inst/doc/CommonJavaJars.Rnw | 3 ++-
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man/CommonJavaJars-package.Rd | 3 +--
8 files changed, 6 insertions(+), 6 deletions(-)
Path: /cran/updated | permanent link
More information about bild at CRAN
Path: /cran/new | permanent link
Title: Tools for general maximum likelihood estimation
Diff between bbmle versions 1.0.4 dated 2012-01-02 and 1.0.4.1 dated 2012-01-28
More information about bbmle at CRAN
Description: Methods and functions for fitting maximum likelihood
models in R. This package modifies and extends the mle classes
in the stats4 package.
Author: Ben Bolker
Maintainer: Ben Bolker
bbmle-1.0.4.1/bbmle/DESCRIPTION | 12 +-
bbmle-1.0.4.1/bbmle/MD5 | 96 +++---------------
bbmle-1.0.4.1/bbmle/inst/NEWS.Rd | 7 +
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38 files changed, 36 insertions(+), 84 deletions(-)
Path: /cran/updated | permanent link
Title: Model selection and multimodel inference based on (Q)AIC(c)
Diff between AICcmodavg versions 1.22 dated 2012-01-20 and 1.23 dated 2012-01-28
More information about AICcmodavg at CRAN
Description: This package includes functions to create model selection
tables based on Akaike's information criterion (AIC) and the
second-order AIC (AICc), as well as their quasi-likelihood
counterparts (QAIC, QAICc). Tables are printed with delta AIC
and Akaike weights. The package also features functions to
conduct classic model averaging (multimodel inference) for a
given parameter of interest or predicted values, as well as a
shrinkage version of model averaging parameter estimates.
Other handy functions enable the computation of relative
variable importance, evidence ratios, and confidence sets for
the best model. The present version works with linear models
('lm' class), generalized linear models ('glm' class), linear
models fit by generalized least squares ('gls' class), linear
mixed models ('lme' class), generalized linear mixed models
('mer' class), multinomial and ordinal logistic regressions
('multinom' and 'polr' classes), and nonlinear models ('nls'
class). The package also supports various models incorporating
detection probabilities such as single-season occupancy models
('unmarkedFitOccu' class), multiple-season occupancy models
('unmarkedFitColExt' class), single-season heterogeneity models
('unmarkedFitOccuRN' class), single-season and multiple-season
N-mixture models for repeated counts ('unmarkedFitPCount' and
'unmarkedFitPCO' classes, respectively), and distance sampling
models ('unmarkedFitDS' and 'unmarkedFitGDS' classes).
Author: Marc J. Mazerolle
Maintainer: Marc J. Mazerolle
DESCRIPTION | 8 ++++----
MD5 | 8 ++++----
R/predictSE.mer.r | 17 +++++++++++------
inst/NEWS | 7 +++++++
man/AICcmodavg-package.Rd | 4 ++--
5 files changed, 28 insertions(+), 16 deletions(-)
Path: /cran/updated | permanent link
Title: R Code for MARK Analysis
Diff between RMark versions 2.0.9 dated 2011-12-06 and 2.1.0 dated 2012-01-28
More information about RMark at CRAN
Description: This package provides an interface to the software package
MARK developed by Gary White. MARK is freely available at
(http://www.phidot.org/software/mark/download/) but is not open
source.
Author: Jeff Laake
Maintainer: Jeff Laake
DESCRIPTION | 22 ++++++++++------------
MD5 | 16 ++++++++--------
R/RMark-package.R | 14 +++++++++++++-
R/make.mark.model.R | 14 ++++++++------
R/mark.R | 4 +++-
R/process.data.R | 7 +++++--
R/run.mark.model.R | 47 +++++++++++++++++++++++++++--------------------
man/Whatsnew.Rd | 49 ++++++++++++++++++++++++++++++++++---------------
man/mark.Rd | 4 +++-
9 files changed, 111 insertions(+), 66 deletions(-)
Path: /cran/updated | permanent link
Title: Statistical Disclosure Control methods for the generation of
public- and scientific-use files.
Diff between sdcMicro versions 2.6.7 dated 2011-11-10 and 3.0.0 dated 2012-01-28
More information about sdcMicro at CRAN
Description: Data from statistical agencies and other institutions are
mostly confidential. This package can be used for the
generation of anonymized (micro)data, i.e. for the generation
of public- and scientific-use files. The package includes also
a graphical user interface.
Author: Matthias Templ, Alexander Kowarik, Bernhard Meindl
Maintainer: Matthias Templ
sdcMicro-2.6.7/sdcMicro/inst/doc/fancyvrb.sty |only
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sdcMicro-3.0.0/sdcMicro/DESCRIPTION | 22 +-
sdcMicro-3.0.0/sdcMicro/MD5 | 96 ++++++----
sdcMicro-3.0.0/sdcMicro/NAMESPACE | 8
sdcMicro-3.0.0/sdcMicro/R/dUtility.R | 2
sdcMicro-3.0.0/sdcMicro/R/mdav.R |only
sdcMicro-3.0.0/sdcMicro/R/microaggregation.R | 186 ++++++++-------------
sdcMicro-3.0.0/sdcMicro/R/plot.indivRisk.r | 2
sdcMicro-3.0.0/sdcMicro/R/plotMicro.R | 8
sdcMicro-3.0.0/sdcMicro/R/print.micro.R | 2
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sdcMicro-3.0.0/sdcMicro/R/swappNum.R | 1
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sdcMicro-3.0.0/sdcMicro/man/Tarragona.Rd | 2
sdcMicro-3.0.0/sdcMicro/man/addNoise.Rd | 1
sdcMicro-3.0.0/sdcMicro/man/dRisk.Rd | 8
sdcMicro-3.0.0/sdcMicro/man/dUtility.Rd | 8
sdcMicro-3.0.0/sdcMicro/man/free1.Rd | 7
sdcMicro-3.0.0/sdcMicro/man/microData.Rd | 2
sdcMicro-3.0.0/sdcMicro/man/microaggregation.Rd | 32 ++-
sdcMicro-3.0.0/sdcMicro/man/pram.Rd | 8
sdcMicro-3.0.0/sdcMicro/man/print.suda2.Rd |only
sdcMicro-3.0.0/sdcMicro/man/rankSwap.Rd |only
sdcMicro-3.0.0/sdcMicro/man/sdcMicro-package.Rd | 10 -
sdcMicro-3.0.0/sdcMicro/man/suda2.Rd |only
sdcMicro-3.0.0/sdcMicro/man/swappNum-deprecated.Rd |only
sdcMicro-3.0.0/sdcMicro/man/swappNum.Rd | 2
sdcMicro-3.0.0/sdcMicro/man/testdata.Rd |only
sdcMicro-3.0.0/sdcMicro/src/0Main.cpp |only
sdcMicro-3.0.0/sdcMicro/src/Framework.h |only
sdcMicro-3.0.0/sdcMicro/src/Makevars |only
sdcMicro-3.0.0/sdcMicro/src/Makevars.in |only
sdcMicro-3.0.0/sdcMicro/src/Makevars.win |only
sdcMicro-3.0.0/sdcMicro/src/Mdav.h |only
sdcMicro-3.0.0/sdcMicro/src/Pram.h |only
sdcMicro-3.0.0/sdcMicro/src/Pram_Bernd.h |only
sdcMicro-3.0.0/sdcMicro/src/RankSwapping.h |only
sdcMicro-3.0.0/sdcMicro/src/Suda2.h |only
sdcMicro-3.0.0/sdcMicro/vignettes |only
60 files changed, 212 insertions(+), 212 deletions(-)
Path: /cran/updated | permanent link
Title: CORElearn - classification, regression, feature evaluation and
ordinal evaluation
Diff between CORElearn versions 0.9.37 dated 2012-01-17 and 0.9.39 dated 2012-01-28
More information about CORElearn at CRAN
Description: CORElearn is machine learning suite ported to R from
standalone C++ package. It contains several model learning
techniques in classification and regression, for example
classification and regression trees with optional constructive
induction and models in the leafs, random forests, kNN, naive
Bayes, and locally weighted regression. It is especially
strong in feature evaluation algorithms where it contains
several variants of Relief algorithm and many impurity based
attribute evaluation functions, e.g., Gini, information gain,
MDL, DKM, ... Its additional strength is ordEval algorithm and
its visualization used for ordinal features and class. Several
algorithms support parallel multithreaded execution via OpenMP.
Windows binary versions supporting multithreading are available
on package website, as CRAN uses different toolchain. The top
level documentation is reachable through ?CORElearn.
Author: Marko Robnik-Sikonja
Maintainer: Marko Robnik-Sikonja
CORElearn-0.9.37/CORElearn/configure.win |only
CORElearn-0.9.39/CORElearn/ChangeLog | 2
CORElearn-0.9.39/CORElearn/DESCRIPTION | 8
CORElearn-0.9.39/CORElearn/MD5 | 15 -
CORElearn-0.9.39/CORElearn/R/testCore.R | 233 ++++++++++++++++------------
CORElearn-0.9.39/CORElearn/man/testCore.Rd | 29 +--
CORElearn-0.9.39/CORElearn/src/Makevars | 4
CORElearn-0.9.39/CORElearn/src/frontend.cpp | 2
CORElearn-0.9.39/CORElearn/src/relieff.cpp | 2
9 files changed, 169 insertions(+), 126 deletions(-)
Path: /cran/updated | permanent link