Author: Jeffrey A. Ryan, Josh M. Ulrich
Title: Extensible Time Series
Description: Provide for uniform handling of R's different time-based
data classes by extending zoo, maximizing native format
information preservation and allowing for user level
customization and extension, while simplifying cross-class
interoperability.
Diff between xts versions 0.6-5 dated 2009-05-13 and 0.6-6 dated 2009-06-14
DESCRIPTION | 8 NAMESPACE | 6 R/Ops.xts.R | 13 R/split.R |only R/xts.R | 6 R/zoo.R | 18 - R/zzz.R | 8 inst/doc/xts.pdf | 818 ++++++++++++++++++++++++++----------------------------- man/split.Rd |only 9 files changed, 432 insertions(+), 445 deletions(-)
Author: Fortran code by R. J. Renka. R functions by Albrecht Gebhardt
Diff between tripack versions 1.2-11 dated 2007-10-09 and 1.3-2 dated 2009-06-14
Title: Triangulation of irregularly spaced data
Description: A constrained two-dimensional Delaunay triangulation
package
tripack-1.2-11/tripack/COPYING |only
tripack-1.2-11/tripack/src-c |only
tripack-1.3-2/tripack/ChangeLog | 62 +++++-----
tripack-1.3-2/tripack/DESCRIPTION | 22 ++-
tripack-1.3-2/tripack/INDEX | 5
tripack-1.3-2/tripack/LICENSE |only
tripack-1.3-2/tripack/R/circles.R |only
tripack-1.3-2/tripack/R/on.convex.hull.R | 1
tripack-1.3-2/tripack/R/plot.tri.R | 12 +-
tripack-1.3-2/tripack/R/plot.voronoi.R | 2
tripack-1.3-2/tripack/R/voronoi.mosaic.R | 18 +--
tripack-1.3-2/tripack/man/add.constraint.Rd | 2
tripack-1.3-2/tripack/man/circles.Rd |only
tripack-1.3-2/tripack/man/convex.hull.Rd | 2
tripack-1.3-2/tripack/man/in.convex.hull.Rd | 2
tripack-1.3-2/tripack/man/neighbours.Rd | 2
tripack-1.3-2/tripack/man/on.convex.hull.Rd | 2
tripack-1.3-2/tripack/man/plot.tri.Rd | 5
tripack-1.3-2/tripack/man/plot.voronoi.Rd | 2
tripack-1.3-2/tripack/man/print.summary.tri.Rd | 2
tripack-1.3-2/tripack/man/print.summary.voronoi.Rd | 2
tripack-1.3-2/tripack/man/print.tri.Rd | 2
tripack-1.3-2/tripack/man/print.voronoi.Rd | 2
tripack-1.3-2/tripack/man/summary.tri.Rd | 2
tripack-1.3-2/tripack/man/summary.voronoi.Rd | 2
tripack-1.3-2/tripack/man/tri.Rd | 2
tripack-1.3-2/tripack/man/tri.find.Rd | 4
tripack-1.3-2/tripack/man/tri.mesh.Rd | 2
tripack-1.3-2/tripack/man/triangles.Rd | 2
tripack-1.3-2/tripack/man/voronoi.Rd | 3
tripack-1.3-2/tripack/man/voronoi.findrejectsites.Rd | 2
tripack-1.3-2/tripack/src/awvor.f |only
tripack-1.3-2/tripack/src/dsos.f |only
tripack-1.3-2/tripack/src/func.f |only
tripack-1.3-2/tripack/src/inhull.f | 111 +++++++------------
tripack-1.3-2/tripack/src/init.c |only
tripack-1.3-2/tripack/src/tripack.h |only
tripack-1.3-2/tripack/src/voronoi.f | 7 -
38 files changed, 144 insertions(+), 140 deletions(-)
Author: Thomas Scheike with contributions from Torben Martinussen and
Jeremy Silver
Title: timereg package for Flexible regression models for survival
data.
Description: Programs for Martinussen and Scheike (2006), `Dynamic
Regression Models for Survival Data', Springer Verlag. Plus
more recent developments. Additive survival model,
semiparmetric proportional odds model, cumulative residuals,
excess risk models and more. Flexible competing risks
regression including GOF-tests.
Diff between timereg versions 1.2-0 dated 2009-06-08 and 1.2-2 dated 2009-06-14
DESCRIPTION | 6 +++--- R/predict-timereg.r | 4 ++-- 2 files changed, 5 insertions(+), 5 deletions(-)
Author: Susanne Heim, with support from Paul Eilers, Thomas Kneib, and
Michael Kobl
Title: 2d and 3d Space-Varying Coefficient Models
Description: 2d and 3d space-varying coefficient models are fitted to
regular grid data using either a full B-spline tensor product
approach or a sequential approximation. The latter one is
computationally more efficient. Resolution increment is
enabled.
Diff between svcm versions 0.1.1 dated 2007-04-19 and 0.1.2 dated 2009-06-14
DESCRIPTION | 18 ++++++++++++------ inst/CITATION | 19 +++++++++++-------- man/svcm-package.Rd | 2 +- 3 files changed, 24 insertions(+), 15 deletions(-)
Author: Jeffrey A. Ryan
Title: Quantitative Financial Modelling Framework
Description: Specify, build, trade, and analyse quantitative financial
trading strategies
Diff between quantmod versions 0.3-9 dated 2009-06-08 and 0.3-10 dated 2009-06-14
DESCRIPTION | 8 ++++---- R/adjustOHLC.R | 2 +- R/getSymbols.R | 7 +++++-- man/getSymbols.yahoo.Rd | 8 +++++++- 4 files changed, 17 insertions(+), 8 deletions(-)
Author: Reinhold Hatzinger
Title: Utilities to fit paired comparison models for preferences
Description: Generates design matrix for analysing real paired
comparisons and derived paired comparison data (Likert type
items / ratings or rankings) using a loglinear approach. Fits
loglinear Bradley-Terry model (LLBT) exploting an eliminate
feature. Computes pattern models for paired comparisons,
rankings, and ratings. Some treatment of missing values (MCAR
and MNAR).
Diff between prefmod versions 0.8-15 dated 2009-06-02 and 0.8-16 dated 2009-06-14
DESCRIPTION | 8 ++++---- NAMESPACE | 2 +- R/patt.worth.R | 11 ++++++----- man/plotworth.Rd | 2 +- man/prefmod-package.Rd | 4 ++-- 5 files changed, 14 insertions(+), 13 deletions(-)
Author: Jim Lemon,Ben Bolker,Sander Oom, Eduardo Klein,Barry
Rowlingson, Hadley Wickham,Anupam Tyagi, Olivier
Eterradossi,Gabor Grothendieck, Michael Toews,John Kane,Mike
Cheetham, Rolf Turner,Carl Witthoft,Julian Stander, Thomas
Petzoldt,Remko Duursma,Elisa Biancotto, Ofir Levy
Title: Various plotting functions
Description: Lots of plots, various labeling, axis and color scaling
functions.
Diff between plotrix versions 2.6 dated 2009-05-24 and 2.6-1 dated 2009-06-14
DESCRIPTION | 8 ++++---- NEWS | 9 +++++++++ R/gantt.R | 8 ++------ R/gap.barplot.R | 2 +- R/gap.plot.R | 32 +++++++++++++++++--------------- R/radial.plot.R | 42 +++++++++++++++++++++++++++++++++--------- R/twoord.plot.R | 4 +++- man/hierobarp.Rd | 2 +- man/radial.plot.Rd | 11 ++++++++--- man/twoord.plot.Rd | 3 ++- 10 files changed, 80 insertions(+), 41 deletions(-)
Author: Jonathan P. Weeks
Diff between plink versions 1.1-2 dated 2009-06-02 and 1.1-3 dated 2009-06-14
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
nonequivalent groups 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 | 8 ++++----
R/plink.R | 46 ++++++++++++++++++++++++++++------------------
R/plot.R | 1 -
inst/CITATION | 4 ++--
inst/NEWS | 17 +++++++++++++++++
man/plink-methods.Rd | 26 +++++++++++++++++++-------
6 files changed, 70 insertions(+), 32 deletions(-)
Author: Katherine S. Pollard, Houston N. Gilbert, Yongchao Ge, Sandra
Taylor, Sandrine Dudoit
Title: Resampling-based multiple hypothesis testing
Description: Non-parametric bootstrap and permutation resampling-based
multiple testing procedures (including empirical Bayes methods)
for controlling the family-wise error rate (FWER), generalized
family-wise error rate (gFWER), tail probability of the
proportion of false positives (TPPFP), and false discovery rate
(FDR). Several choices of bootstrap-based null distribution
are implemented (centered, centered and scaled,
quantile-transformed). Single-step and step-wise methods are
available. Tests based on a variety of t- and F-statistics
(including t-statistics based on regression parameters from
linear and survival models as well as those based on
correlation parameters) are included. When probing hypotheses
with t-statistics, users may also select a potentially faster
null distribution which is multivariate normal with mean zero
and variance covariance matrix derived from the vector
influence function. Results are reported in terms of adjusted
p-values, confidence regions and test statistic cutoffs. The
procedures are directly applicable to identifying
differentially expressed genes in DNA microarray experiments.
Diff between multtest versions 2.0.0 dated 2009-05-10 and 2.1.1 dated 2009-06-14
DESCRIPTION | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-)
Author: Christopher Jackson
Diff between msm versions 0.9 dated 2009-06-10 and 0.9.1 dated 2009-06-14
Title: Multi-state Markov and hidden Markov models in continuous time
Description: Functions for fitting general continuous-time Markov and
hidden Markov multi-state models to longitudinal data. Both
Markov transition rates and the hidden Markov output process
can be modelled in terms of covariates. A variety of
observation schemes are supported, including processes observed
at arbitrary times, completely-observed processes, and censored
states.
ChangeLog | 9 ++++++++-
DESCRIPTION | 8 ++++----
inst/NEWS | 7 +++++++
inst/doc/msm-manual.pdf |binary
tests/simple.R | 8 ++++----
5 files changed, 23 insertions(+), 9 deletions(-)
Author: Kengo NAGASHIMA and Yasunori SATO
Title: Modified Maximum Contrast Method
Description: This package provides an implementation of modified
maximum contrast method. Current version supports function
mmcm.resamp that gives P-value for the modified maximum
contrast statistics by using a resampling based procedure.
Diff between mmcm versions 1.0-0 dated 2009-01-26 and 1.0-1 dated 2009-06-14
DESCRIPTION | 26 ++++++++++++++------------ NEWS | 1 + man/mmcm.Rd | 2 +- man/mmcm.resamp.Rd | 2 +- src/mmcm.resamp.c | 10 +++++----- src/mmcm.resamp.h | 14 +++----------- 6 files changed, 25 insertions(+), 30 deletions(-)
Author: Original by Joseph L. Schafer
Diff between mix versions 1.0-6 dated 2007-06-19 and 1.0-7 dated 2009-06-14
Title: Estimation/multiple Imputation for Mixed Categorical and
Continuous Data
Description: Estimation/multiple imputation programs for mixed
categorical and continuous data
ChangeLog |only
DESCRIPTION | 22 ++++----
src/mix.f | 163 +++++++++++++++++++++++++++++-------------------------------
3 files changed, 92 insertions(+), 93 deletions(-)
Author: Andrew Gelman
Diff between mi versions 0.07-3 dated 2009-06-10 and 0.07-4 dated 2009-06-14
Title: Missing Data Imputation and Model Checking
Description: Missing-data imputation and model checking
DESCRIPTION | 8 ++++----
R/mi.pooled.R | 13 +++++++------
2 files changed, 11 insertions(+), 10 deletions(-)
Author: Richard Bourgon
Diff between intervals versions 0.12.0 dated 2009-06-08 and 0.12.1 dated 2009-06-14
Title: Tools for working with points and intervals
Description: Tools for working with and comparing sets of points and
intervals.
DESCRIPTION | 12 ++++++------
1 file changed, 6 insertions(+), 6 deletions(-)
Author: Olivier Briet
Diff between gsarima versions 0.0-1.1 dated 2009-02-23 and 0.0-2 dated 2009-06-14
Title: Two functions for Generalized SARIMA time series simulation
Description: Write SARIMA models in (finite) AR representation and
simulate generalized multiplicative seasonal autoregressive
moving average (time) series with Normal / Gaussian, Poisson or
negative binomial distribution.
DESCRIPTION | 21 +--
NAMESPACE | 3
R/arrep.R | 175 ++++++++++++++--------------
R/garsim.R | 301 ++++++++++++++++++++++++-------------------------
man/arrep.Rd | 1
man/garsim.Rd | 21 +++
man/gsarima-package.Rd |only
7 files changed, 275 insertions(+), 247 deletions(-)
Author: Michael Lawrence, John Verzani
Title: Toolkit implementation of gWidgets for RGtk2
Description: Port of gWidgets API to RGtk2
Diff between gWidgetsRGtk2 versions 0.0-51 dated 2009-03-03 and 0.0-52 dated 2009-06-14
ChangeLog | 9 +++++++++ DESCRIPTION | 12 +++++++----- R/gaction.R | 2 +- R/gcheckboxgroup.R | 2 +- R/gdialogs.R | 35 +++++++++++++++++++++++++++-------- R/gdroplist.R | 2 +- R/gedit.R | 2 +- R/gfile.R | 6 +++--- R/glabel.R | 2 +- R/gtext.R | 2 +- R/icons.R | 1 + 11 files changed, 53 insertions(+), 22 deletions(-)
Author: Arthur Allignol
Title: Empirical Transition Matrix
Description: Matrix of transition probabilities for any
time-inhomogeneous multistate model with finite state space
Diff between etm versions 0.4-0 dated 2009-04-14 and 0.4-3 dated 2009-06-14
ChangeLog | 24 +++++++++++++++++++++--- DESCRIPTION | 9 +++++---- NAMESPACE | 6 ++++-- R/clos.R |only R/etm.R | 9 +++++++-- R/plot.clos.etm.R |only R/print.clos.etm.R |only man/clos.Rd |only man/etm.Rd | 9 +++++++-- man/plot.clos.etm.Rd |only man/print.clos.etm.Rd |only src/los_etm.cc |only src/matrix.cc |only src/matrix.h |only 14 files changed, 44 insertions(+), 13 deletions(-)
Author: Vincent Arel-Bundock
Diff between countrycode versions 0.1 dated 2009-06-03 and 0.2 dated 2009-06-14
Title: Create and manipulate data frames that contain country names or
country coding schemes
Description: Standardizes country names, converts them into one of
seven coding schemes, assigns region descriptors, and generates
empty dyadic or country-year dataframes from the coding
schemes.
DESCRIPTION | 13 ++++++++-----
R/countrycode.R | 13 +------------
R/countryframe.R |only
data/countrycode_data.rda |binary
man/countrycode-package.Rd | 6 +++---
man/countrycode.Rd | 5 +++--
man/countrycode.nomatch.Rd | 4 ++--
man/countrycode_data.Rd | 17 ++++++-----------
man/countryframe.Rd |only
9 files changed, 23 insertions(+), 35 deletions(-)
Author: Rasmus E. Benestad
Diff between clim.pact versions 2.2-36 dated 2009-06-03 and 2.2-37 dated 2009-06-14
Title: Climate analysis and empirical-statistical downscaling (ESD)
package for monthly and daily data.
Description: The package contains R functions for retrieving data,
making climate analysis and downscaling of monthly mean and
daily mean global climate scenarios. (Windows-users may need to
obtain the 'ncdf' package from URL
'http://www.stats.ox.ac.uk/pub/RWin/' to get clim.pact to
work). The package is also described in the book
'Empirical-Statistical Downscaling
(http://www.worldscibooks.com/environsci/6908.html)
DESCRIPTION | 8 ++++----
R/catFields.R | 18 +++++++++---------
R/eof.R | 10 +++++++---
R/objDS.R | 4 ++--
R/retrieve.nc.R | 19 ++++++++++++++-----
man/catFields.Rd | 5 +++--
6 files changed, 39 insertions(+), 25 deletions(-)
Author: Tom Radivoyevitch
Title: Combinatorially Complex Equilibrium Model Selection
Description: Dissociation constants of quasi-equilibriums of enzymes
and protein-ligand binding equilibriums in general are
systematically scanned though possibilities of being infinity
and/or equal to others. The automatically generated space of
models is then fitted to data.
Diff between ccems versions 1.02 dated 2009-03-21 and 1.03 dated 2009-06-14
ccems-1.02/ccems/inst/papers/RX/fig4dens.r |only ccems-1.02/ccems/inst/papers/RX/fig5fit.r |only ccems-1.02/ccems/inst/papers/TK1/TK1.r |only ccems-1.03/ccems/DESCRIPTION | 10 - ccems-1.03/ccems/NAMESPACE | 2 ccems-1.03/ccems/R/ems.R | 50 +++-- ccems-1.03/ccems/R/fitModel.R | 31 ++- ccems-1.03/ccems/R/mkEq.R | 1 ccems-1.03/ccems/R/mkGrids.R | 108 ++++++++++-- ccems-1.03/ccems/R/mkHTML.R | 13 - ccems-1.03/ccems/R/mkModel.R | 36 ++-- ccems-1.03/ccems/R/mkSpurs.R | 54 +++++- ccems-1.03/ccems/R/mkg.R | 116 ++++++------- ccems-1.03/ccems/R/simulateData.R | 126 +++++++++++---- ccems-1.03/ccems/R/testgC.R | 2 ccems-1.03/ccems/data/TK1.rda |binary ccems-1.03/ccems/inst/doc/ccems.pdf |binary ccems-1.03/ccems/inst/doc/versionNotes.txt | 15 + ccems-1.03/ccems/inst/papers/BMCsysBio08/RtCcems.R | 4 ccems-1.03/ccems/inst/papers/BMCsysBio08/massEstimated.r |only ccems-1.03/ccems/inst/papers/BMCsysBio08/plotRt.R |only ccems-1.03/ccems/inst/papers/RX/RX.r | 89 +++------- ccems-1.03/ccems/inst/papers/RX/attic |only ccems-1.03/ccems/inst/papers/RX/fig4n5AICdens.r |only ccems-1.03/ccems/inst/papers/RX/fig6plotP1s.r |only ccems-1.03/ccems/inst/papers/RX/fig7n8fitsExtrap.r |only ccems-1.03/ccems/inst/papers/RX/figS2plotP1s.r |only ccems-1.03/ccems/inst/papers/RX/fit2Pgrids.r |only ccems-1.03/ccems/inst/papers/RX/genHillFit.r |only ccems-1.03/ccems/inst/papers/RX/mkGridsOnly2P5.r |only ccems-1.03/ccems/inst/papers/TK1/LA3fits2lit.r |only ccems-1.03/ccems/inst/papers/TK1/MAsSlopesSSEsF4n6.r |only ccems-1.03/ccems/inst/papers/TK1/attic |only ccems-1.03/ccems/inst/papers/TK1/fit3Ps2litF7.r |only ccems-1.03/ccems/inst/papers/TK1/fullFits2litCV.r |only ccems-1.03/ccems/inst/papers/TK1/hillFits.r |only ccems-1.03/ccems/inst/papers/TK1/hillFits2simF5.r |only ccems-1.03/ccems/inst/papers/TK1/mkAdaptExpDes.r |only ccems-1.03/ccems/inst/papers/TK1/mkFullFactExpDes.r |only ccems-1.03/ccems/inst/papers/TK1/mkOuts.r |only ccems-1.03/ccems/inst/papers/TK1/physioExtrapETF8.r |only ccems-1.03/ccems/inst/papers/TK1/simFullFitFull.r |only ccems-1.03/ccems/inst/papers/TK1/viewExpDesResults.r |only ccems-1.03/ccems/man/TK1.Rd | 81 +++++---- ccems-1.03/ccems/man/ccems-package.Rd | 12 - ccems-1.03/ccems/man/ems.Rd | 44 ++++- ccems-1.03/ccems/man/mkGrids.Rd | 42 +++-- ccems-1.03/ccems/man/mkModel.Rd | 26 ++- ccems-1.03/ccems/man/mkSpurs.Rd | 33 ++- ccems-1.03/ccems/man/mkg.Rd | 6 ccems-1.03/ccems/man/simulateData.Rd | 6 51 files changed, 594 insertions(+), 313 deletions(-)
Author: Michael Friendly and John Fox
Title: Generalized Canonical Discriminant Analysis
Description: Functions for computing and graphing canonical
discriminant analyses.
Diff between candisc versions 0.5-13 dated 2009-02-03 and 0.5-15 dated 2009-06-14
DESCRIPTION | 35 +++++++++++++++++++---------------- NAMESPACE | 3 ++- R/dataIndex.R |only R/plot.candisc.R | 9 ++++++--- inst/CHANGES | 5 +++++ man/candisc-package.Rd | 9 +++++++-- man/candisc.Rd | 14 +++++++++++--- man/dataIndex.Rd |only 8 files changed, 50 insertions(+), 25 deletions(-)
Author: Marco Scutari
Title: Bayesian network structure learning
Description: Bayesian network structure learning via constraint-based
(also known as 'conditional independence') and score-based
algorithms. This package implements the Grow-Shrink (GS)
algorithm, the Incremental Association (IAMB) algorithm, the
Interleaved-IAMB (Inter-IAMB) algorithm, the Fast-IAMB
(Fast-IAMB) algorithm, the Max-Min Parents and Children (MMPC)
algorithm and the Hill-Climbing (HC) greedy search algorithm
for both discrete and Gaussian networks, along with many score
functions and conditional independence tests. Some utility
functions (model comparison and manipulation, random data
generation, arc orientation testing, simple and advanced plots)
are also included.
Diff between bnlearn versions 1.4 dated 2009-05-05 and 1.4.1 dated 2009-06-14
DESCRIPTION | 8 ++++---- man/00.bnlearn-package.Rd | 14 +++++++------- 2 files changed, 11 insertions(+), 11 deletions(-)
Author: Bettina Gruen
Title: Bayesian Mixture Models with JAGS
Description: Bayesian mixture models of univariate Gaussian
distributions using JAGS
Diff between bayesmix versions 0.6-0 dated 2008-05-20 and 0.6-1 dated 2009-06-14
DESCRIPTION | 17 ++++++++++------- R/BMMmodel.R | 1 + 2 files changed, 11 insertions(+), 7 deletions(-)
Author: S original by David W. Scott R port by Albrecht Gebhardt
Diff between ash versions 1.0-10 dated 2008-02-04 and 1.0-11 dated 2009-06-14
Title: David Scott's ASH routines
Description: David Scotts ASH routines
ChangeLog | 12 ++++++++----
DESCRIPTION | 15 +++++++++------
R/ash.R | 23 +++++++++++++++++++++++
src/ash.f | 23 ++++++++++++++++++++++-
4 files changed, 62 insertions(+), 11 deletions(-)
Author: Fortran code by H. Akima R port by Albrecht Gebhardt
Diff between akima versions 0.5-1 dated 2006-02-03 and 0.5-2 dated 2009-06-14
Title: Interpolation of irregularly spaced data
Description: Linear or cubic spline interpolation for irregular gridded
data
akima-0.5-1/akima/src-c |only
akima-0.5-2/akima/ChangeLog | 10 ++++++----
akima-0.5-2/akima/DESCRIPTION | 21 ++++++++++++---------
akima-0.5-2/akima/INDEX | 4 ++--
akima-0.5-2/akima/LICENSE |only
akima-0.5-2/akima/src/init.c | 16 ++++++++++++++++
6 files changed, 36 insertions(+), 15 deletions(-)
Author: Michael Lawrence
Diff between RGtk2 versions 2.12.12 dated 2009-06-02 and 2.12.13 dated 2009-06-14
Title: R bindings for Gtk 2.8.0 and above
Description: Facilities in the R language for programming graphical
interfaces using Gtk, the Gimp Tool Kit.
DESCRIPTION | 6
configure | 1729 ++++++++++++++++++++++++++++++++++++++++++++++++++++++++++-
configure.in | 2
src/Makevars | 2
src/Rgtk.c | 1
5 files changed, 1731 insertions(+), 9 deletions(-)
Author: Henrik Bengtsson
Diff between R.huge versions 0.1.7 dated 2009-06-08 and 0.1.8 dated 2009-06-14
Title: Methods for accessing huge amounts of data [DEPRECATED]
Description: THIS PACKAGE HAS BEEN DEPRECATED. Do not start building
new projects based on it. The main usage of it was inside the
aroma.affymetrix package. (The package currently provides a
class representing a matrix where the actual data is stored in
a binary format on the local file system. This way the size
limit of the data is set by the file system and not the
memory.)
DESCRIPTION | 24 ++++++++++++------------
R/999.package.R | 5 +++--
inst/NEWS | 5 +++++
man/AbstractFileArray.Rd | 2 +-
man/FileMatrix.Rd | 2 +-
man/FileVector.Rd | 2 +-
man/R.huge-package.Rd | 5 +++--
7 files changed, 26 insertions(+), 19 deletions(-)
Author: Elizabeth Freeman, Tracey Frescino
Title: Creates Random Forest and Stochastic Gradient Boosting Models,
and applies them to GIS .img files to build detailed prediction
maps.
Description: This package will create sophisticated models of training
data and validate the models with an independant test set,
cross validation, or in the case of Random Forest Models, with
Out OF Bag (OOB) predictions on the training data. It will
creat graphs and tables of the model validation results. It
will apply these models to GIS .img files of predictors to
create detailed prediction surfaces. It will handle large
predictor files for map making, by reading in the .img files in
chuncks, and output to the .txt file the prediction for each
data chunk, before reading the next chenk of data.
Diff between ModelMap versions 1.1.11 dated 2009-03-28 and 1.1.13 dated 2009-06-14
DESCRIPTION | 8 ++++---- R/model.map.R | 4 ++-- inst/CHANGELOG | 10 +++++++++- man/ModelMap-package.Rd | 4 ++-- 4 files changed, 17 insertions(+), 9 deletions(-)
Author: Volodymyr Melnykov
Diff between MixSim versions 0.1-03 dated 2009-04-26 and 0.1-04 dated 2009-06-14
Title: Simulating Data to Study Performance of Clustering Algorithms.
Description: MixSim
DESCRIPTION | 8 ++++----
INDEX | 2 +-
fixed.txt | 4 ++--
log.txt | 3 +++
src/libOverlap.c | 2 +-
src/libQF.c | 1 -
6 files changed, 11 insertions(+), 9 deletions(-)
Author: Markus Helbig
Diff between JGR versions 1.6-6 dated 2009-06-09 and 1.6-7 dated 2009-06-14
Title: JGR - Java Gui for R
Description: Java GUI for R - cross-platform, universal and unified
Graphical User Interface for R. For full functionality on
Windows and Mac OS X JGR requires a start application which
depends on your OS. This can be downloaded from JGR's website:
http://www.rosuda.org/JGR
DESCRIPTION | 4 ++--
NEWS | 3 +++
R/JGR.R | 4 ++--
inst/java/JGR.jar |binary
4 files changed, 7 insertions(+), 4 deletions(-)
Author: Lin et al.
Title: Testing for monotonic relationship between gene expression and
doses in a microarray experiment.
Description: Several testing procedures including the global likelihood
ratio test (Bartholomew, 1961), Williams (1971, 1972), Marcus
(1976), M (Hu et al. 2005) and the modified M (Lin et al. 2007)
are used to test for the monotonic trend in gene expression
with respect to doses. BH (Benjamini and Hochberg 1995) and BY
(Benjamini and Yekutilie 2004) FDR controlling procedures are
applied to adjust the raw p-values obtained from the
permutations.
Diff between IsoGene versions 1.0-13 dated 2009-05-27 and 1.0-14 dated 2009-06-14
DESCRIPTION | 8 ++++---- R/Isofudge.R | 14 ++++++++++---- man/IsoTestSAM.Rd | 4 ++-- 3 files changed, 16 insertions(+), 10 deletions(-)
Author: Jeffrey A. Ryan
Title: R API to Interactive Brokers Trader Workstation
Description: Provides native Raccess to Interactive Brokers Trader
Workstation API.
Diff between IBrokers versions 0.2-1 dated 2009-05-13 and 0.2-2 dated 2009-06-14
DESCRIPTION | 8 NAMESPACE | 1 R/processMsg.R | 3 R/readBin.R |only R/reqContractDetails.R | 3 R/reqHistoricalData.R | 61 + R/twsConnect.R | 2 R/zzz.R | 2 inst/doc/IBrokers.pdf | 895 ++++++++++++++-------------- inst/doc/RealTime.Rnw | 30 inst/doc/RealTime.pdf | 1469 +++++++++++++++++++++++++---------------------- man/reqHistoricalData.Rd | 30 man/twsConnect.Rd | 11 13 files changed, 1336 insertions(+), 1179 deletions(-)
Author: Ravi Varadhan
Title: Solving and Optimizing Large-Scale Nonlinear Systems
Description: Barzilai-Borwein spectral methods for solving nonlinear
system of equations, and for optimizing nonlinear objective
functions subject to simple constraints. A tutorial style
introduction to this package is available in a vignette on the
CRAN download page or, when the package is loaded in an R
session, with vignette("BB").
Diff between BB versions 2008.11-1 dated 2008-11-26 and 2009.6-1 dated 2009-06-14
BB-2008.11-1/BB/Rplots.pdf |only BB-2009.6-1/BB/DESCRIPTION | 28 +- BB-2009.6-1/BB/NAMESPACE | 5 BB-2009.6-1/BB/NEWS | 25 ++ BB-2009.6-1/BB/R/BBoptim.R |only BB-2009.6-1/BB/R/BBsolve.R |only BB-2009.6-1/BB/R/dfsane.R | 18 + BB-2009.6-1/BB/R/multiStart.R |only BB-2009.6-1/BB/R/sane.R | 18 + BB-2009.6-1/BB/R/spg.R | 39 +++ BB-2009.6-1/BB/demo/00Index | 1 BB-2009.6-1/BB/demo/multiStart.R |only BB-2009.6-1/BB/demo/nlmin.R | 39 ++- BB-2009.6-1/BB/demo/nlsolve.R | 21 +- BB-2009.6-1/BB/inst/doc/BB.Stex | 323 ++++++++++++++++++++----------- BB-2009.6-1/BB/inst/doc/BB.pdf |binary BB-2009.6-1/BB/man/BB-package.Rd | 17 + BB-2009.6-1/BB/man/BBoptim.Rd |only BB-2009.6-1/BB/man/BBsolve.Rd |only BB-2009.6-1/BB/man/dfsane.Rd | 4 BB-2009.6-1/BB/man/multiStart.Rd |only BB-2009.6-1/BB/man/sane.Rd | 7 BB-2009.6-1/BB/man/spg.Rd | 70 ++++-- BB-2009.6-1/BB/tests/BBsolve.R |only BB-2009.6-1/BB/tests/broyds.R | 9 BB-2009.6-1/BB/tests/broydt2.R | 9 BB-2009.6-1/BB/tests/ccreact.R | 9 BB-2009.6-1/BB/tests/expo3.R | 10 BB-2009.6-1/BB/tests/extrosbk.R | 9 BB-2009.6-1/BB/tests/multiStartBrownln.R |only BB-2009.6-1/BB/tests/multiStartHDP.R |only BB-2009.6-1/BB/tests/multiStartNRC.R |only BB-2009.6-1/BB/tests/multiStartTroesch.R |only BB-2009.6-1/BB/tests/trigexp.R | 9 BB-2009.6-1/BB/tests/troesch.R | 9 35 files changed, 477 insertions(+), 202 deletions(-)