Author: Adrian Baddeley
Diff between spatstat versions 1.13-2 dated 2008-05-16 and 1.13-3 dated 2008-06-23
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Description: A package for analysing spatial data,
mainly Spatial Point Patterns, including multitype/marked points
and spatial covariates, in any two-dimensional spatial region.
Contains functions for plotting spatial data,
exploratory data analysis, model-fitting, simulation,
spatial sampling, model diagnostics,
and formal inference. Data types include point patterns,
line segment patterns, spatial windows, and
pixel images. Point process models can be
fitted to point pattern data. Cluster type models are fitted
by the method of minimum contrast. Very general Gibbs point
process models can be fitted to point pattern data
using a function ppm similar to lm or glm. Models may
include dependence on covariates, interpoint interaction
and dependence on marks. Fitted models can be simulated automatically.
Also provides facilities for formal inference (such as chi-squared
tests) and model diagnostics (including simulation
envelopes, residuals, residual plots and Q-Q plots).
DESCRIPTION | 6 +-
INDEX | 1
R/Kinhom.S | 40 +-----------------
R/Kmeasure.R | 6 ++
R/Kmulti.S | 23 +++++++---
R/Kmulti.inhom.R | 34 ++++++++--------
R/blur.R |only
R/closepairs.R | 106 +++++++++++++++++++++++++++++++++-----------------
R/rescue.rectangle.R | 5 +-
R/window.S | 14 +++++-
man/00spatstat.Rd | 1
man/Kcross.Rd | 5 +-
man/Kcross.inhom.Rd | 4 +
man/Kdot.Rd | 7 ++-
man/Kdot.inhom.Rd | 12 +++--
man/Kinhom.Rd | 9 ++--
man/blur.Rd |only
man/internal.Rd | 4 +
man/marktable.Rd | 4 -
src/closepair.c | 8 +--
tests/gcc323.R |only
tests/marcelino.R |only
tests/marcelinodata.R |only
23 files changed, 168 insertions(+), 121 deletions(-)
Author: Adrian Baddeley
Diff between scuba versions 1.1-9 dated 2007-10-27 and 1.2-1 dated 2008-06-23
Title: Scuba diving calculations and decompression models
Description: dive profiles, decompression models and gas calculations
for scuba diving
scuba-1.1-9/scuba/R/scuba.R |only
scuba-1.1-9/scuba/data/Halftimes.R |only
scuba-1.1-9/scuba/data/Mvalues.R |only
scuba-1.1-9/scuba/man/Halftimes.Rd |only
scuba-1.1-9/scuba/man/Mvalues.Rd |only
scuba-1.2-1/scuba/DESCRIPTION | 10 -
scuba-1.2-1/scuba/INDEX | 17 +-
scuba-1.2-1/scuba/R/dive.R |only
scuba-1.2-1/scuba/R/gas.R |only
scuba-1.2-1/scuba/R/haldane.R |only
scuba-1.2-1/scuba/R/hm.R |only
scuba-1.2-1/scuba/R/oxtox.R |only
scuba-1.2-1/scuba/data/Bookspan.R |only
scuba-1.2-1/scuba/man/00scuba.Rd | 257 ++++++++++++++++++++++++-------
scuba-1.2-1/scuba/man/Bookspan.Rd |only
scuba-1.2-1/scuba/man/Workman65.Rd | 7
scuba-1.2-1/scuba/man/chop.dive.Rd |only
scuba-1.2-1/scuba/man/depths.dive.Rd |only
scuba-1.2-1/scuba/man/dive.Rd | 86 ++++++++--
scuba-1.2-1/scuba/man/durations.dive.Rd |only
scuba-1.2-1/scuba/man/haldane.Rd | 142 +++++++++++++----
scuba-1.2-1/scuba/man/hm.Rd |only
scuba-1.2-1/scuba/man/internal.Rd | 30 ++-
scuba-1.2-1/scuba/man/is.nitrox.Rd |only
scuba-1.2-1/scuba/man/mod.Rd | 16 +
scuba-1.2-1/scuba/man/ndl.Rd |only
scuba-1.2-1/scuba/man/nitrox.Rd | 14 +
scuba-1.2-1/scuba/man/oxtox.Rd | 16 +
scuba-1.2-1/scuba/man/param.Rd |only
scuba-1.2-1/scuba/man/pickmodel.Rd |only
scuba-1.2-1/scuba/man/saturated.state.Rd |only
scuba-1.2-1/scuba/man/showstates.Rd | 19 --
scuba-1.2-1/scuba/man/tanklist.Rd |only
scuba-1.2-1/scuba/man/times.dive.Rd |only
scuba-1.2-1/scuba/man/trimix.Rd |only
35 files changed, 477 insertions(+), 137 deletions(-)
Author: Hans Peter Wolf
Diff between relax versions 1.081 dated 2007-10-08 and 1.083 dated 2008-06-23
Title: relax -- R Editor for Literate Analysis and lateX
Description: package relax contains some functions for report
writing, presentation, and programming: relax(), tangleR(),
weaveR(), slider(). "relax" is written in R and Tcl/Tk.
relax creates a new window (top level Tcl/Tk widget) that consists
of two text fields and some buttons and menus.
Text (chunks) and code (chunks) are inserted in the upper text field (report field).
Code chunks are evaluated by clicking on EvalRCode.
Results are shown in the lower text field (output field) and
will be transfered to the report field by pressing on Insert.
In this way you get correct reports. These reports can be
loaded again in cause of presentation, modification and result checking.
tangleR() and weaveR() implement a plain kind of tangling
and weaving. slider() is designed to define sliders for interactive
experiments in a simple way.
The syntax rules of code chunks and text chunks are defined by
the noweb system proposed by Norman Ramsey
(http://www.eecs.harvard.edu/~nr/noweb/intro.html).
For integrating jpeg graphics into the text field you need the
Tcl/Tk Img package of Jan Nijtmans
(see: http://members.chello.nl/~j.nijtmans/img.html or
http://tkimg.sourceforge.net/, the package is found on
http://sourceforge.net/projects/tkimg).
The license terms concerning the img package are found in
the source file of the package, see: relax/src/tkimg1.3.tar.gz.
The windows version of relax
contains the Tcl/Tk img package, so no further installations
have to be done.
relax-1.081/relax/inst/lib/img1.3 |only
relax-1.083/relax/DESCRIPTION | 29
relax-1.083/relax/R/relax.R | 965 ++++++++++++++++++++------
relax-1.083/relax/R/slider.R | 121 ++-
relax-1.083/relax/R/tangleR.R | 20
relax-1.083/relax/R/weaveR.R | 59 -
relax-1.083/relax/R/weaveRhtml.R | 24
relax-1.083/relax/inst/config/settings.init | 5
relax-1.083/relax/inst/config/settings.relax | 5
relax-1.083/relax/inst/lib/LaTeX-head.tex | 9
relax-1.083/relax/inst/src/relax.rev | 995 ++++++++++++++++++++-------
relax-1.083/relax/inst/src/tkimg1.3.tar.gz |only
relax-1.083/relax/inst/src/webR.rev | 96 +-
relax-1.083/relax/man/relax.Rd | 2
relax-1.083/relax/man/slider.Rd | 56 -
15 files changed, 1722 insertions(+), 664 deletions(-)
Author: Jim Lemon
Diff between prettyR versions 1.3-1 dated 2008-06-16 and 1.3-2 dated 2008-06-23
Title: Pretty descriptive stats.
Description: Functions for conventionally formatted descriptive stats, and
to format R output as HTML.
DESCRIPTION | 8 ++++----
R/describe.R | 7 +++++--
man/AddNav.Rd | 2 +-
man/HTMLgraph.Rd | 2 +-
man/R2html.Rd | 7 ++++++-
man/StartNav.Rd | 2 +-
man/createIndxFile.Rd | 2 +-
7 files changed, 19 insertions(+), 11 deletions(-)
Author: Felix Andrews
Diff between playwith versions 0.8-55 dated 2008-06-18 and 0.8-56 dated 2008-06-23
Title: A GUI for interactive plots using GTK+
Description: A graphical user interface for viewing and interacting with R plots.
It tries to work out the structure of a plot, in order to interact with it.
The built-in features include: navigating the data space, identifying data points,
editing and annotating the plot, and saving to a file. New tools can be defined.
This package is based on RGtk2, and so requires the GTK+ libraries.
DESCRIPTION | 6 +--
R/playTools.R | 12 ++++---
R/playwith.R | 89 +++++++++++++++++++++++++-------------------------------
inst/NEWS | 8 +++++
man/playwith.Rd | 8 ++---
5 files changed, 63 insertions(+), 60 deletions(-)
Author: Douglas Bates
Diff between lme4 versions 0.99875-9 dated 2007-10-14 and 0.999375-17 dated 2008-06-23
Title: Linear mixed-effects models using S4 classes
Description: Fit linear and generalized linear mixed-effects models.
lme4-0.99875-9/lme4/R/gsummary.R |only
lme4-0.99875-9/lme4/R/pedigree.R |only
lme4-0.99875-9/lme4/inst/doc/auto |only
lme4-0.99875-9/lme4/man/gsummary.Rd |only
lme4-0.99875-9/lme4/man/hatTrace.Rd |only
lme4-0.99875-9/lme4/man/lmer-class.Rd |only
lme4-0.99875-9/lme4/man/nlmer-class.Rd |only
lme4-0.99875-9/lme4/man/nlmer.Rd |only
lme4-0.99875-9/lme4/man/pedigree-class.Rd |only
lme4-0.99875-9/lme4/man/pedigree.Rd |only
lme4-0.99875-9/lme4/man/pooledSD.Rd |only
lme4-0.99875-9/lme4/src/Wishart.c |only
lme4-0.99875-9/lme4/src/Wishart.h |only
lme4-0.99875-9/lme4/src/glmer.c |only
lme4-0.99875-9/lme4/src/glmer.h |only
lme4-0.99875-9/lme4/src/lme4_utils.c |only
lme4-0.99875-9/lme4/src/lme4_utils.h |only
lme4-0.99875-9/lme4/src/lmer2.c |only
lme4-0.99875-9/lme4/src/lmer2.h |only
lme4-0.99875-9/lme4/src/pedigree.c |only
lme4-0.99875-9/lme4/src/pedigree.h |only
lme4-0.99875-9/lme4/src/unused |only
lme4-0.999375-17/lme4/ChangeLog | 605 +++-
lme4-0.999375-17/lme4/DESCRIPTION | 17
lme4-0.999375-17/lme4/Done | 29
lme4-0.999375-17/lme4/NAMESPACE | 65
lme4-0.999375-17/lme4/NEWS |only
lme4-0.999375-17/lme4/R/AllClass.R | 255 -
lme4-0.999375-17/lme4/R/AllGeneric.R | 29
lme4-0.999375-17/lme4/R/carryOver.R | 150
lme4-0.999375-17/lme4/R/jml.R |only
lme4-0.999375-17/lme4/R/lmList.R | 48
lme4-0.999375-17/lme4/R/lmer.R | 2883 +++++++++----------
lme4-0.999375-17/lme4/R/mlirt.R | 136
lme4-0.999375-17/lme4/ToDo | 26
lme4-0.999375-17/lme4/data/Dyestuff.rda |only
lme4-0.999375-17/lme4/data/Dyestuff2.rda |only
lme4-0.999375-17/lme4/data/Pastes.rda |only
lme4-0.999375-17/lme4/data/Penicillin.rda |only
lme4-0.999375-17/lme4/inst/doc/Doxyfile | 132
lme4-0.999375-17/lme4/inst/doc/Implementation.Rnw | 216 -
lme4-0.999375-17/lme4/inst/doc/Implementation.pdf |binary
lme4-0.999375-17/lme4/inst/doc/Notes.Rnw |only
lme4-0.999375-17/lme4/inst/doc/Notes.pdf |only
lme4-0.999375-17/lme4/inst/doc/Theory.Rnw | 412 +-
lme4-0.999375-17/lme4/inst/doc/Theory.pdf |binary
lme4-0.999375-17/lme4/man/Dyestuff.Rd |only
lme4-0.999375-17/lme4/man/HPDinterval.Rd |only
lme4-0.999375-17/lme4/man/Pastes.Rd |only
lme4-0.999375-17/lme4/man/Penicillin.Rd |only
lme4-0.999375-17/lme4/man/VarCorr.Rd | 34
lme4-0.999375-17/lme4/man/cake.Rd | 6
lme4-0.999375-17/lme4/man/cbpp.Rd | 11
lme4-0.999375-17/lme4/man/fixef.Rd | 8
lme4-0.999375-17/lme4/man/lmList-class.Rd | 6
lme4-0.999375-17/lme4/man/lmList.Rd | 7
lme4-0.999375-17/lme4/man/lmer.Rd | 166 -
lme4-0.999375-17/lme4/man/mcmcsamp.Rd | 69
lme4-0.999375-17/lme4/man/mer-class.Rd |only
lme4-0.999375-17/lme4/man/merMCMC-class.Rd |only
lme4-0.999375-17/lme4/man/ranef.Rd | 40
lme4-0.999375-17/lme4/man/refit.Rd |only
lme4-0.999375-17/lme4/src/Syms.h | 45
lme4-0.999375-17/lme4/src/init.c | 144
lme4-0.999375-17/lme4/src/lmer.c | 3310 ++++++++++++----------
lme4-0.999375-17/lme4/src/lmer.h | 48
lme4-0.999375-17/lme4/tests/lmer.R | 110
lme4-0.999375-17/lme4/tests/lmer.Rout.save |only
lme4-0.999375-17/lme4/tests/nlmer.R |only
lme4-0.999375-17/lme4/tests/nlmer.Rout.save |only
70 files changed, 5068 insertions(+), 3939 deletions(-)
Author: Laercio Junio da Silva
Diff between laercio versions 0.9-1 dated 2008-06-11 and 0.9-2 dated 2008-06-23
Title: Duncan test, Tukey test and Scott-Knott test.
Description: The package contains functions to compare and group means.
DESCRIPTION | 10 ++--
R/LScottKnott.R | 2
R/LScottKnott.aov.r | 103 +++++++++++++++++++++++++++++++------------------
R/ldata.R | 2
man/LDuncan.Rd | 7 +--
man/LScottKnott.Rd | 9 ++--
man/LTukey.Rd | 6 +-
man/laercio-package.Rd | 8 +--
man/ldata.Rd | 6 +-
9 files changed, 95 insertions(+), 58 deletions(-)
Author: Jonathan M. Lees
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to analyze seismic data, via, spectrum analysis, wavelet transforms, particle motion, hodograms.
Diff between RSEIS versions 1.1-0 dated 2008-04-27 and 1.1-1 dated 2008-06-23
DESCRIPTION | 4 +-- R/GLUE.GET.seis.R | 4 +-- R/PICK.GEN.R | 56 ++++++++++++++++++++++++++++++++++++++------------- R/SPECT.drive.R | 3 +- R/ZGET.sac.R |only R/butfilt.R | 13 +++++++++++ R/choosfilt.R | 4 ++- R/dogetsac.R |only R/recdate.R | 10 +++++++-- R/screens.R | 3 +- R/seisorder.R |only R/wlet.drive.R | 4 ++- inst/doc/hodo.pdf |binary inst/doc/hodo.tex |only inst/doc/rseis.pdf |binary man/Comp1Dvel.Rd | 3 -- man/GAZI.Rd | 3 -- man/MTMplot.Rd | 5 ---- man/Mmorlet.Rd | 2 - man/PLOT.TTCURVE.Rd | 2 - man/PSTLTcurve.Rd | 6 +---- man/RSEIS-package.Rd | 2 - man/ReadSet.Instr.Rd | 2 - man/SEARCHPIX.Rd | 2 - man/TTteles.Rd | 2 - man/ZGET.sac.Rd |only man/addtix.Rd | 3 -- man/brune.doom.Rd | 7 ++++-- man/brune.func.Rd | 6 ++++- man/butfilt.Rd | 2 - man/complex.hodo.Rd | 2 - man/dogetsac.Rd |only man/envelope.Rd | 2 - man/getphaselag2.Rd | 2 - man/gwpix2ypx.Rd | 1 man/hodogram.Rd | 2 - man/idpoints.hodo.Rd | 3 -- man/peaks.Rd | 2 - man/plotwlet.Rd | 2 - man/prep1wig.Rd | 45 ++++++++++++++++++++++++++++++++++++++++ man/prepSEIS.Rd | 56 ++++++++++++++++++++++++++++++++++++++++++++++++++- man/recdate.Rd | 11 +++++++++- man/seisorder.Rd |only man/selAPX.Rd | 2 - man/setwelch.Rd | 3 -- man/wlet.do.Rd | 2 - src/get_sacNhead.c |only 47 files changed, 216 insertions(+), 67 deletions(-)
Author: Hector Corrada Bravo
Title: R interface to CPLEX
Description: R interface to CPLEX solvers for linear, quadratic, and
(linear and quadratic) mixed integer programs. A working
installation of CPLEX is required for usage of the Rcplex
package. See the file "INSTALL" for details on how to install
the Rcplex package in Linux/Unix-like systems and Windows
systems. Support for sparse matrices is provided by an included
S3-style class "simple_triplet_matrix" and by objects from the
Matrix package class hierarchy.
Diff between Rcplex versions 0.1-2 dated 2008-06-09 and 0.1-3 dated 2008-06-23
DESCRIPTION | 13 ++++++------- configure | 55 +++++++++++++++++++++---------------------------------- configure.win |only inst/INSTALL | 33 ++++++++++++++++++++++++--------- inst/README | 3 +-- src/Makevars.win |only src/Rcplex.c | 9 ++++++++- 7 files changed, 60 insertions(+), 53 deletions(-)
Author: David Harte
Title: Hidden Markov Models
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Changes" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Diff between HiddenMarkov versions 1.2-4 dated 2008-02-18 and 1.2-5 dated 2008-06-23
HiddenMarkov-1.2-4/HiddenMarkov/man/Overview.Rd |only HiddenMarkov-1.2-4/HiddenMarkov/man/changes.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/DESCRIPTION | 8 ++++---- HiddenMarkov-1.2-5/HiddenMarkov/R/dthmm.R | 2 +- HiddenMarkov-1.2-5/HiddenMarkov/man/Changes.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/HiddenMarkov.Rd |only HiddenMarkov-1.2-5/HiddenMarkov/man/neglogLik.Rd | 2 +- HiddenMarkov-1.2-5/HiddenMarkov/man/simulate.Rd | 2 +- 8 files changed, 7 insertions(+), 7 deletions(-)