Title: analysis of complex survey samples
Diff between survey versions 3.19 dated 2010-01-20 and 3.20 dated 2010-02-09
Description: Summary statistics, generalised linear models, cumulative
link models, Cox models, loglinear models, and general maximum
pseudolikelihood estimation for multistage stratified,
cluster-sampled, unequally weighted survey samples. Variances
by Taylor series linearisation or replicate weights.
Post-stratification, calibration, and raking. Two-phase
subsampling designs. Graphics. Predictive margins by direct
standardization. PPS sampling without replacement. Principal
components, factor analysis.
Author: Thomas Lumley
Maintainer: Thomas Lumley
DESCRIPTION | 11 ++++++-----
INDEX | 2 ++
NAMESPACE | 4 +++-
R/DBI.R | 2 +-
R/multivariate.R |only
R/survey.R | 8 ++++++--
R/surveyrep.R | 28 +++++++++++++++++++++-------
THANKS | 1 +
TODO | 18 ++++++++++++++++--
inst/CITATION | 6 +++---
inst/NEWS | 16 ++++++++++++++++
inst/doc/domain.pdf |binary
inst/doc/epi.pdf |binary
inst/doc/phase1.pdf |binary
inst/doc/pps.pdf |binary
inst/doc/survey.pdf |binary
man/svrepdesign.Rd | 5 +++--
man/svyciprop.Rd | 8 ++++++++
man/svyfactanal.Rd |only
man/svyprcomp.Rd |only
tests/DBIcheck.R | 2 +-
tests/DBIcheck.Rout.save | 4 ++--
22 files changed, 89 insertions(+), 26 deletions(-)
Title: R interface to the UNU.RAN random variate generators
Diff between Runuran versions 0.12.0 dated 2010-01-04 and 0.13.0 dated 2010-02-09
Description: Interface to the UNU.RAN library for Universal Non-Uniform
RANdom variate generators
Author: Josef Leydold and Wolfgang H\"ormann
Maintainer: Josef Leydold
DESCRIPTION | 8
NEWS | 6
R/Runuran.R | 45 +
inst/doc/Runuran.pdf | 1025 +++++++++++++--------------
inst/doc/src/version.tex | 2
man/Runuran-package.Rd | 4
man/mixt.new.Rd |only
src/Makevars.in | 2
src/Runuran.c | 23
src/Runuran.h | 18
src/mixture.c |only
src/performance.c | 7
src/unuran-src/methods/dgt.c | 6
src/unuran-src/methods/dgt.h | 2
src/unuran-src/methods/gibbs.c | 1
src/unuran-src/methods/mixt.c |only
src/unuran-src/methods/mixt.h |only
src/unuran-src/methods/mixt_struct.h |only
src/unuran-src/methods/unur_methods_source.h | 1
src/unuran-src/methods/x_gen.c | 46 -
src/unuran-src/methods/x_gen_source.h | 1
src/unuran-src/methods/x_gen_struct.h | 1
src/unuran-src/unur_cookies.h | 2
src/unuran-src/unuran.h | 5
src/unuran-src/unuran.h.in | 3
src/unuran-src/urng/urng_set.c | 8
src/unuran-src/utils/unur_fp.c | 3
src/unuran-src/utils/unur_fp_source.h | 10
tests/test_unuran.R | 19
29 files changed, 683 insertions(+), 565 deletions(-)
Title: Treelet
Diff between treelet versions 0.1-0 dated 2008-09-19 and 0.2-0 dated 2010-02-09
Description: a novel construction of multi-scale bases that extends
wavelets to non-smooth signals. Returns a hierarchical tree and
a multi-scale orthonormal basis which both reflect the internal
structure of the data.
Author: Di Liu
Maintainer: Di Liu
treelet-0.1-0/treelet/R/Get_C.R |only
treelet-0.1-0/treelet/R/flip.R |only
treelet-0.1-0/treelet/man/Get_C.Rd |only
treelet-0.1-0/treelet/man/flip.Rd |only
treelet-0.2-0/treelet/DESCRIPTION | 25 +++++++++++--------
treelet-0.2-0/treelet/R/Build_JTree.R | 6 ++--
treelet-0.2-0/treelet/R/JTree_Basis.R | 3 --
treelet-0.2-0/treelet/R/JTree_Scores.R | 4 ---
treelet-0.2-0/treelet/R/Run_JTree.R | 17 +++++++------
treelet-0.2-0/treelet/R/Score_JTree.R | 13 +++-------
treelet-0.2-0/treelet/R/draw_tree.R |only
treelet-0.2-0/treelet/man/Build_JTree.Rd | 13 ++++------
treelet-0.2-0/treelet/man/Calc_Energy.Rd | 6 +---
treelet-0.2-0/treelet/man/JTree_Basis.Rd | 12 +++------
treelet-0.2-0/treelet/man/JTree_Scores.Rd | 6 +---
treelet-0.2-0/treelet/man/Run_JTree.Rd | 38 +++++++++++++++++++++++++-----
treelet-0.2-0/treelet/man/Score_JTree.Rd | 9 +++----
treelet-0.2-0/treelet/man/draw_tree.Rd |only
18 files changed, 84 insertions(+), 68 deletions(-)
Title: Design and Analysis of Dose-Finding Studies
Diff between MCPMod versions 1.0-5 dated 2009-10-05 and 1.0-6 dated 2010-02-09
Description: This package implements a methodology for the design and
analysis of dose-response studies that combines aspects of
multiple comparison procedures and modeling approaches (Bretz,
Pinheiro and Branson, 2005, Biometrics 61, 738-748). The
package provides tools for the analysis of dose finding trials
as well as a variety of tools necessary to plan a trial to be
conducted with the MCPMod methodology. **Note: The MCPMod
package will not be further developed, all future development
of the MCP-Mod methodology will be done in the DoseFinding
R-package, which already contains an extended version of
MCP-Mod, and additional functions useful for planning and
analysing dose-finding trials.**
Author: Bjoern Bornkamp, Jose Pinheiro and Frank Bretz
Maintainer: Bjoern Bornkamp
ChangeLog | 14
DESCRIPTION | 15
R/analysisMM.R | 3
R/planMCPMod.R | 14
inst/doc/MCPMod.pdf | 2193 ++++++++++++++++++++++++-------------------------
inst/doc/Rplots.pdf | 810 +++++++++---------
man/LP.Rd | 2
man/MCPMod-package.Rd | 13
man/mvtnorm.control.Rd | 8
man/planMM.Rd | 2
man/plot.LP.Rd | 2
man/plot.planMM.Rd | 2
man/plot.powerMM.Rd | 2
man/powerMM.Rd | 5
man/sampSize.Rd | 9
15 files changed, 1553 insertions(+), 1541 deletions(-)
Title: Kalman filter and smoothers for exponential family state space
models.
Diff between KFAS versions 0.5.6 dated 2010-02-09 and 0.5.7 dated 2010-02-09
Description: Package KFAS provides functions for Kalman filtering,
state, disturbance and simulation smoothing, forecasting and
simulation of state space models. All functions can use exact
diffuse initialisation when distributions of some or all
elements of initial state vector are unknown. Filtering, state
smoothing and simulation functions use sequential processing
algorithm, which is faster than standard approach, and it also
allows singularity of prediction error variance matrix. KFAS
also contains function for computing the likelihood of
exponential family state space models and function for state
smoothing of exponential family state space models. These
non-gaussian functions are still under heavy developement.
Author: Jouni Helske
Maintainer: Jouni Helske
DESCRIPTION | 8 ++++----
man/kf.Rd | 4 ++--
2 files changed, 6 insertions(+), 6 deletions(-)
Title: Spatial Point Pattern analysis, model-fitting, simulation, tests
Diff between spatstat versions 1.17-5 dated 2010-01-06 and 1.17-6 dated 2010-02-09
Description: A package for analysing spatial data, mainly Spatial Point
Patterns, including multitype/marked points and spatial
covariates, in any two-dimensional spatial region. Also
supports three-dimensional point patterns. 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, pixel images and
tessellations. 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).
Author: Adrian Baddeley
Maintainer: Adrian Baddeley
DESCRIPTION | 30 +-
INDEX |only
NEWS |only
R/Fest.S | 4
R/First.R | 15 -
R/Gest.S | 4
R/Gmulti.S | 4
R/Hest.R | 2
R/Jest.S | 4
R/Jmulti.S | 4
R/Kest.S | 4
R/areadiff.R | 144 +++++++++++
R/discarea.R | 19 -
R/envelope.R | 14 -
R/eval.fv.R | 12
R/fv.R | 229 ++++++++++++++----
R/hyperframe.R | 47 ++-
R/hypersub.R | 5
R/marks.R | 6
R/mincontrast.R | 4
R/mpl.R | 6
R/news.R |only
R/nnclean.R |only
R/options.R | 4
R/pcf.R | 6
R/plot.fv.R | 12
R/ppmclass.R | 17 -
R/ppp.S | 15 -
R/ppx.R | 27 ++
R/psp.R | 11
R/update.ppm.R | 18 -
inst/doc/POLYGONS.txt |only
inst/doc/shapefiles.pdf | 593 ++++++++++++++++++++++++------------------------
man/areaGain.Rd | 24 +
man/areaLoss.Rd | 29 +-
man/bind.fv.Rd |only
man/collapse.fv.Rd |only
man/dilated.areas.Rd | 11
man/fv.Rd |only
man/fv.object.Rd | 2
man/internal.Rd | 26 +-
man/latest.news.Rd |only
man/nbfires.Rd | 65 ++---
man/nnclean.Rd |only
man/spatstat-package.Rd | 10
man/with.hyperframe.Rd | 13 -
46 files changed, 906 insertions(+), 534 deletions(-)
Title: statistical disclosure control for tabular data
Diff between sdcTable versions 0.0.9 dated 2010-02-08 and 0.0.10 dated 2010-02-09
Description: R-Package for statistical disclosure control for tabular
data.
Author: Bernhard Meindl
Maintainer: Bernhard Meindl
DESCRIPTION | 8 ++++----
R/zzz.R | 2 +-
configure.win |only
src/Makevars |only
src/Makevars.win | 2 ++
5 files changed, 7 insertions(+), 5 deletions(-)
Title: Statistics for psychiatric research
Diff between rpsychi versions 0.1 dated 2010-02-07 and 0.2 dated 2010-02-09
Description: The rpsychi offers a number of functions for psychiatry,
psychiatric nursing, clinical psychology. Functions are
primarily for statistical significance testing using published
work. For example, you can conduct a factorial analysis of
variance (ANOVA), which requires only the mean, standard
deviation, and sample size for each cell, rather than the
individual data. This package covers fundamental statistical
tests such as t-test, chi-square test, analysis of variance,
and multiple regression analysis. With some exceptions, you can
obtain effect size and its confidence interval. These functions
help you to obtain effect size from published work, and then to
conduct a priori power analysis or meta-analysis, even if a
researcher do not report effect size in a published work.
Author: Yasuyuki Okumura
Maintainer: Yasuyuki Okumura
DESCRIPTION | 8 ++++----
NEWS | 12 ++++++++----
R/ind.twoway.R |only
man/dep.t.test.second.Rd | 6 ++++--
man/ind.oneway.second.Rd | 2 ++
man/ind.twoway.Rd |only
man/ind.twoway.second.Rd | 14 ++++++++++++--
man/rpsychi-package.Rd | 6 ++++--
8 files changed, 34 insertions(+), 14 deletions(-)
Title: Precision of Geometric Sampling
Diff between pgs versions 0.2-0 dated 2009-07-21 and 0.3-0 dated 2010-02-09
Description: Computation of mean squared errors of stereological
predictors.
Author: Kien Kieu
Maintainer: Kien Kieu
DESCRIPTION | 10 +++++-----
R/pgs.R | 17 ++++++++++-------
inst/doc/pgs_user.Rnw | 2 +-
inst/doc/pgs_user.pdf |binary
4 files changed, 16 insertions(+), 13 deletions(-)
Title: Regression Methods for IBD Linkage With Covariates
Diff between ibdreg versions 0.1.2 dated 2008-11-05 and 0.1.3 dated 2010-02-09
Description: A method to test genetic linkage with covariates by
regression methods with response IBD sharing for relative
pairs. Account for correlations of IBD statistics and
covariates for relative pairs within the same pedigree.
Author: Jason P. Sinnwell and Daniel J. Schaid
Maintainer: Jason P. Sinnwell
DESCRIPTION | 17 +++++++++++------
LICENSE |only
man/Ginv.Rd | 11 +++++------
man/align.ibd.var.Rd | 23 +++++------------------
man/chibar3.w.Rd | 17 +++++------------
man/create.ibd.dat.Rd | 14 +++++---------
man/create.pairs.frame.Rd | 20 +++++---------------
man/exact.ibd.var.Rd | 17 +++++------------
man/ibd.df.merlin.Rd | 23 +++++------------------
man/ibd.moments.Rd | 24 +++++++-----------------
man/ibdreg.Rd | 8 ++------
man/linkage.all.Rd | 14 ++------------
man/linkage.tests.Rd | 13 +++----------
man/lsConstrain.fit.Rd | 14 ++------------
man/mergeIBD.Rd | 20 ++------------------
man/minpRows.Rd | 17 ++---------------
man/pairSum.Rd | 14 +++++---------
man/pchibar.Rd | 17 +++++------------
man/plot.ibdreg.Rd | 14 ++------------
man/plot.ibdreg.unexpect.Rd | 17 ++---------------
man/plot.linkage.all.Rd | 20 +++++---------------
man/plot.linkage.tests.Rd | 17 +++++------------
man/plotpval.Rd | 13 ++++++-------
man/print.ibd.var.Rd | 20 +++++---------------
man/print.ibdreg.Rd | 17 ++---------------
man/print.linkage.all.Rd | 20 +++++---------------
man/print.linkage.tests.Rd | 17 +++++------------
man/printBanner.Rd | 17 +++++++----------
man/resources.Rd | 4 ----
man/sim.ibd.setup.Rd | 20 +++++---------------
man/sim.ibd.var.Rd | 11 +++++------
man/sim.mark.prop.Rd | 14 +++++---------
man/sr.class.Rd | 10 ----------
man/sr.strsplit.Rd | 1 -
34 files changed, 135 insertions(+), 380 deletions(-)
Title: Simple key-value database using SQLite
Diff between filehashSQLite versions 0.2-2 dated 2007-05-01 and 0.2-3 dated 2010-02-09
More information about filehashSQLite at CRAN
Description: Simple key-value database using SQLite as the backend
Author: Roger D. Peng
Maintainer: Roger D. Peng
DESCRIPTION | 25 +++++++++++++------------
man/filehashSQLite-class.Rd | 15 ++++++++-------
tests/reg-tests.R | 2 +-
tests/reg-tests.Rout.save | 14 ++++----------
4 files changed, 26 insertions(+), 30 deletions(-)
Permanent link
Title: SNP-Haplotype Adaptive REgression (SHARE)
Diff between SHARE versions 1.0.4 dated 2010-01-22 and 1.0.5 dated 2010-02-09
Description: An adaptive algorithm to select the most informative set
of SNPs for genetic association
Author: James Y. Dai
Maintainer: Ting-Yuan Liu
DESCRIPTION | 8 -
R/cshare.R | 6
inst/doc/SHARE.pdf | 370 +++++++++++++++++++++++++----------------------------
man/shareTest.Rd | 3
4 files changed, 188 insertions(+), 199 deletions(-)
Title: Overlays on Google map tiles in R
Diff between RgoogleMaps versions 1.1.6 dated 2009-10-13 and 1.1.7 dated 2010-02-09
Description: This package serves two purposes: (i) Provide a
comfortable R interface to query the Google server for static
maps, and (ii) Use the map as a background image to overlay
plots within R. This requires proper coordinate scaling. NOTE:
To do anything but downloading static map tiles, RgoogleMaps
needs EITHER rgdal OR ReadImages OR rimage installed ! Such an
OR dependency is difficult to express in the Depends field, so
I moved those packages to suggested. rgdal is your package if
you prefer png file format and ReadImages or rimage if you
prefer jpg format. In the latter cases, you will also need the
libjpeg library installed.
Author: Markus Loecher, Sense Networks
Maintainer: Markus Loecher, Sense Networks
DESCRIPTION | 10 +--
R/GetMap.OSM.R |only
R/GetMap.R | 28 +++++++++--
R/GetMap.bbox.R | 32 +-----------
R/MapBackground.R | 93 ++++++++++++++-----------------------
R/PlotOnStaticMap.R | 42 +++++++++++++---
R/PlotPolysOnStaticMap.R | 18 ++++---
R/ReadMapTile.R |only
R/myplot.imagematrix.R |only
inst/doc/InverseMapping.aux |only
inst/doc/InverseMapping.log |only
inst/doc/InverseMapping.pdf |only
inst/doc/InverseMapping.synctex.gz |only
inst/doc/Princeton.png |only
inst/doc/Princeton.png.rda |only
inst/doc/RgoogleMaps-intro.Rnw | 31 +++++++++---
inst/doc/RgoogleMaps-intro.pdf |binary
inst/shapes |only
man/GetMap.OSM.Rd |only
man/GetMap.Rd | 18 +++++--
man/MapBackground.Rd | 5 +
man/PlotOnStaticMap.Rd | 16 ++++--
man/PlotPolysOnStaticMap.Rd | 50 +++++++++++++++++++
man/ReadMapTile.Rd |only
man/RgoogleMaps-package.Rd | 8 +--
man/myplot.imagematrix.Rd |only
man/mypolygon.Rd | 2
27 files changed, 220 insertions(+), 133 deletions(-)
Title: Rcpp R/C++ interface package
Diff between Rcpp versions 0.7.4 dated 2010-01-31 and 0.7.5 dated 2010-02-09
Description: Seamless R and C++ integration The Rcpp package contains a
C++ library that facilitates the integration of R and C++ in
various ways.
R data types (SEXP) are matched to C++ objects in a class hierarchy.
All R types are supported (vectors, functions, environment, etc
...) and each type is mapped to a dedicated class. For
example, numeric vectors are represented as instances of the
Rcpp::NumericVector class, environments are represented as
instances of Rcpp::Environment, functions are represented as
Rcpp::Function, etc ...
The underlying C++ library also offers the Rcpp::wrap function which is
a templated function that transforms an arbitrary object into a
SEXP. This makes it straightforward to implement C++ logic in
terms of standard C++ types such as STL containers and then
wrap them when they need to be returned to R. Internally, wrap
uses advanced template meta programming techniques and
currently supports : primitive types (bool, int, double,
size_t, Rbyte, Rcomplex, std::string), STL containers (e.g
std::vector
Author: Dirk Eddelbuettel and Romain Francois, with contributions by
Simon Urbanek and David Reiss; based on code written during
2005 and 2006 by Dominick Samperi
Maintainer: Dirk Eddelbuettel
Rcpp-0.7.4/Rcpp/inst/examples/RcppInline/RcppSexpTests.r |only
Rcpp-0.7.4/Rcpp/src/Rcpp/ComplexVector.h |only
Rcpp-0.7.4/Rcpp/src/Rcpp/GenericVector.h |only
Rcpp-0.7.4/Rcpp/src/Rcpp/IntegerVector.h |only
Rcpp-0.7.4/Rcpp/src/Rcpp/LogicalVector.h |only
Rcpp-0.7.4/Rcpp/src/Rcpp/NumericVector.h |only
Rcpp-0.7.4/Rcpp/src/Rcpp/RawVector.h |only
Rcpp-0.7.4/Rcpp/src/RcppSexp.h |only
Rcpp-0.7.4/Rcpp/src/SimpleVector.cpp |only
Rcpp-0.7.5/Rcpp/DESCRIPTION | 55
Rcpp-0.7.5/Rcpp/NAMESPACE | 3
Rcpp-0.7.5/Rcpp/NEWS | 56
Rcpp-0.7.5/Rcpp/cleanup | 2
Rcpp-0.7.5/Rcpp/doxyfile | 1400 +++++-----
Rcpp-0.7.5/Rcpp/inst/ChangeLog | 131
Rcpp-0.7.5/Rcpp/inst/THANKS |only
Rcpp-0.7.5/Rcpp/inst/discovery/cxx0x.R | 5
Rcpp-0.7.5/Rcpp/inst/doc/Makefile | 18
Rcpp-0.7.5/Rcpp/inst/doc/Rcpp-unitTests.Rnw | 22
Rcpp-0.7.5/Rcpp/inst/doc/Rcpp-unitTests.pdf |binary
Rcpp-0.7.5/Rcpp/inst/doc/unitTests |only
Rcpp-0.7.5/Rcpp/inst/doc/unitTests-results/Rcpp-unitTests.html | 10
Rcpp-0.7.5/Rcpp/inst/doc/unitTests-results/Rcpp-unitTests.txt | 432 +--
Rcpp-0.7.5/Rcpp/inst/examples/RcppInline/RObject.r |only
Rcpp-0.7.5/Rcpp/inst/examples/functionCallback/README | 7
Rcpp-0.7.5/Rcpp/inst/examples/functionCallback/RcppFunctionCallExample.cpp | 108
Rcpp-0.7.5/Rcpp/inst/examples/functionCallback/newApiExample.r |only
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.IntegerVector.R | 22
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.Language.R | 10
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.RObject.R | 169 -
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.RcppMatrix.R | 17
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.RcppVector.R | 17
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.S4.R | 26
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.environments.R | 4
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.traits.R |only
Rcpp-0.7.5/Rcpp/inst/unitTests/runit.wrap.R |only
Rcpp-0.7.5/Rcpp/src/CharacterVector.cpp | 11
Rcpp-0.7.5/Rcpp/src/Dimension.cpp | 14
Rcpp-0.7.5/Rcpp/src/DottedPair.cpp | 15
Rcpp-0.7.5/Rcpp/src/Environment.cpp | 6
Rcpp-0.7.5/Rcpp/src/ExpressionVector.cpp | 25
Rcpp-0.7.5/Rcpp/src/Function.cpp | 10
Rcpp-0.7.5/Rcpp/src/Language.cpp | 9
Rcpp-0.7.5/Rcpp/src/Makevars | 2
Rcpp-0.7.5/Rcpp/src/Makevars.win | 7
Rcpp-0.7.5/Rcpp/src/Pairlist.cpp | 8
Rcpp-0.7.5/Rcpp/src/Promise.cpp | 9
Rcpp-0.7.5/Rcpp/src/RObject.cpp | 60
Rcpp-0.7.5/Rcpp/src/Rcpp.h | 6
Rcpp-0.7.5/Rcpp/src/Rcpp/CharacterVector.h | 131
Rcpp-0.7.5/Rcpp/src/Rcpp/Dimension.h | 2
Rcpp-0.7.5/Rcpp/src/Rcpp/DottedPair.h | 58
Rcpp-0.7.5/Rcpp/src/Rcpp/Environment.h | 13
Rcpp-0.7.5/Rcpp/src/Rcpp/ExpressionVector.h | 2
Rcpp-0.7.5/Rcpp/src/Rcpp/Function.h | 26
Rcpp-0.7.5/Rcpp/src/Rcpp/Language.h | 32
Rcpp-0.7.5/Rcpp/src/Rcpp/Pairlist.h | 22
Rcpp-0.7.5/Rcpp/src/Rcpp/Promise.h | 3
Rcpp-0.7.5/Rcpp/src/Rcpp/RObject.h | 150 -
Rcpp-0.7.5/Rcpp/src/Rcpp/SEXP_Vector.h | 18
Rcpp-0.7.5/Rcpp/src/Rcpp/SimpleVector.h | 66
Rcpp-0.7.5/Rcpp/src/Rcpp/Symbol.h | 3
Rcpp-0.7.5/Rcpp/src/Rcpp/VectorBase.h | 29
Rcpp-0.7.5/Rcpp/src/Rcpp/WeakReference.h | 3
Rcpp-0.7.5/Rcpp/src/Rcpp/XPtr.h | 9
Rcpp-0.7.5/Rcpp/src/Rcpp/as.h |only
Rcpp-0.7.5/Rcpp/src/Rcpp/grow.h | 21
Rcpp-0.7.5/Rcpp/src/Rcpp/internal/convertible.h |only
Rcpp-0.7.5/Rcpp/src/Rcpp/internal/r_coerce.h |only
Rcpp-0.7.5/Rcpp/src/Rcpp/internal/r_vector.h |only
Rcpp-0.7.5/Rcpp/src/Rcpp/internal/wrap.h | 501 ++-
Rcpp-0.7.5/Rcpp/src/Rcpp/traits |only
Rcpp-0.7.5/Rcpp/src/RcppCommon.cpp | 20
Rcpp-0.7.5/Rcpp/src/RcppCommon.h | 116
Rcpp-0.7.5/Rcpp/src/RcppDatetime.cpp | 1
Rcpp-0.7.5/Rcpp/src/RcppDoxygenExamples.h |only
Rcpp-0.7.5/Rcpp/src/Symbol.cpp | 13
Rcpp-0.7.5/Rcpp/src/VectorBase.cpp | 31
Rcpp-0.7.5/Rcpp/src/WeakReference.cpp | 7
Rcpp-0.7.5/Rcpp/src/as.cpp | 58
Rcpp-0.7.5/Rcpp/src/coerce.cpp |only
Rcpp-0.7.5/Rcpp/src/grow.cpp | 2
82 files changed, 2563 insertions(+), 1470 deletions(-)
Title: Siena - Simulation Investigation for Empirical Network Analysis
Diff between RSiena versions 1.0.8 dated 2010-01-13 and 1.0.9 dated 2010-02-09
Description: Fits models to longitudinal networks
Author: Various
Maintainer: Ruth Ripley
RSiena-1.0.8/RSiena/src/model/effects/AverageSimilarityEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/AverageSimilarityEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/BehaviorDependentBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/BehaviorDependentBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/BehaviorMainBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/BehaviorMainBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/ChangingCovariateBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/ChangingCovariateBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/ChangingCovariateMainBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/ChangingCovariateMainBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/ConstantCovariateBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/ConstantCovariateBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/ConstantCovariateMainBehaviorEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/ConstantCovariateMainBehaviorEffect.h |only
RSiena-1.0.8/RSiena/src/model/effects/TotalSimilarityEffect.cpp |only
RSiena-1.0.8/RSiena/src/model/effects/TotalSimilarityEffect.h |only
RSiena-1.0.9/RSiena/DESCRIPTION | 12
RSiena-1.0.9/RSiena/NAMESPACE | 4
RSiena-1.0.9/RSiena/R/Sienatest.r | 17
RSiena-1.0.9/RSiena/R/effects.r | 58
RSiena-1.0.9/RSiena/R/effectsDocumentation.r |only
RSiena-1.0.9/RSiena/R/globals.r | 16
RSiena-1.0.9/RSiena/R/print07Report.r | 28
RSiena-1.0.9/RSiena/R/printDataReport.r | 16
RSiena-1.0.9/RSiena/R/siena01.r | 6
RSiena-1.0.9/RSiena/R/siena07.r | 6
RSiena-1.0.9/RSiena/R/sienaeffects.r |only
RSiena-1.0.9/RSiena/R/sienaprint.r | 29
RSiena-1.0.9/RSiena/R/simstatsc.r | 89
RSiena-1.0.9/RSiena/changeLog | 62
RSiena-1.0.9/RSiena/configure.win | 2
RSiena-1.0.9/RSiena/data/allEffects.csv | 339
RSiena-1.0.9/RSiena/inst/doc/effects.pdf |only
RSiena-1.0.9/RSiena/inst/doc/s_man400.pdf |12406 ++++------
RSiena-1.0.9/RSiena/man/RSiena-package.Rd | 4
RSiena-1.0.9/RSiena/man/effectsDocumentation.Rd |only
RSiena-1.0.9/RSiena/man/getEffects.Rd | 6
RSiena-1.0.9/RSiena/man/includeEffects.Rd |only
RSiena-1.0.9/RSiena/man/includeInteraction.Rd |only
RSiena-1.0.9/RSiena/man/setEffect.Rd |only
RSiena-1.0.9/RSiena/man/siena07.Rd | 4
RSiena-1.0.9/RSiena/man/sienaFit.Rd | 148
RSiena-1.0.9/RSiena/src/Makefile.win | 31
RSiena-1.0.9/RSiena/src/Makevars | 2
RSiena-1.0.9/RSiena/src/model/EffectInfo.cpp | 72
RSiena-1.0.9/RSiena/src/model/EffectInfo.h | 33
RSiena-1.0.9/RSiena/src/model/Model.cpp | 52
RSiena-1.0.9/RSiena/src/model/Model.h | 7
RSiena-1.0.9/RSiena/src/model/effects/AllEffects.h | 17
RSiena-1.0.9/RSiena/src/model/effects/AverageAlterEffect.cpp | 47
RSiena-1.0.9/RSiena/src/model/effects/AverageAlterEffect.h | 8
RSiena-1.0.9/RSiena/src/model/effects/AverageReciprocatedAlterEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/AverageReciprocatedAlterEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/BalanceEffect.cpp | 171
RSiena-1.0.9/RSiena/src/model/effects/BalanceEffect.h | 16
RSiena-1.0.9/RSiena/src/model/effects/BehaviorEffect.cpp | 67
RSiena-1.0.9/RSiena/src/model/effects/BehaviorEffect.h | 19
RSiena-1.0.9/RSiena/src/model/effects/BetweennessEffect.cpp | 208
RSiena-1.0.9/RSiena/src/model/effects/BetweennessEffect.h | 12
RSiena-1.0.9/RSiena/src/model/effects/CovariateAlterEffect.cpp | 23
RSiena-1.0.9/RSiena/src/model/effects/CovariateAlterEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/CovariateDependentBehaviorEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/CovariateDependentBehaviorEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/CovariateEgoAlterEffect.cpp | 52
RSiena-1.0.9/RSiena/src/model/effects/CovariateEgoAlterEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/CovariateEgoEffect.cpp | 24
RSiena-1.0.9/RSiena/src/model/effects/CovariateEgoEffect.h | 3
RSiena-1.0.9/RSiena/src/model/effects/CovariateIndirectTiesEffect.cpp | 162
RSiena-1.0.9/RSiena/src/model/effects/CovariateIndirectTiesEffect.h | 13
RSiena-1.0.9/RSiena/src/model/effects/CovariateSimilarityEffect.cpp | 50
RSiena-1.0.9/RSiena/src/model/effects/CovariateSimilarityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsBehaviorEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsBehaviorEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsEffect.cpp | 252
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsEffect.h | 15
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsSimilarityEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/DenseTriadsSimilarityEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/DensityEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/DensityEffect.h | 3
RSiena-1.0.9/RSiena/src/model/effects/DistanceTwoEffect.cpp | 188
RSiena-1.0.9/RSiena/src/model/effects/DistanceTwoEffect.h | 12
RSiena-1.0.9/RSiena/src/model/effects/DyadicCovariateMainEffect.cpp | 16
RSiena-1.0.9/RSiena/src/model/effects/DyadicCovariateMainEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/DyadicCovariateReciprocityEffect.cpp | 31
RSiena-1.0.9/RSiena/src/model/effects/DyadicCovariateReciprocityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/EffectFactory.cpp | 125
RSiena-1.0.9/RSiena/src/model/effects/FourCyclesEffect.cpp | 31
RSiena-1.0.9/RSiena/src/model/effects/FourCyclesEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/HigherCovariateEffect.cpp | 42
RSiena-1.0.9/RSiena/src/model/effects/HigherCovariateEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/InInDegreeAssortativityEffect.cpp | 35
RSiena-1.0.9/RSiena/src/model/effects/InInDegreeAssortativityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/InOutDegreeAssortativityEffect.cpp | 35
RSiena-1.0.9/RSiena/src/model/effects/InOutDegreeAssortativityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/IndegreeActivityEffect.cpp | 28
RSiena-1.0.9/RSiena/src/model/effects/IndegreeActivityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/IndegreeEffect.cpp | 21
RSiena-1.0.9/RSiena/src/model/effects/IndegreeEffect.h | 6
RSiena-1.0.9/RSiena/src/model/effects/IndegreePopularityEffect.cpp | 33
RSiena-1.0.9/RSiena/src/model/effects/IndegreePopularityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/InteractionCovariateEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/InteractionCovariateEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/InverseOutdegreeEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/InverseOutdegreeEffect.h | 7
RSiena-1.0.9/RSiena/src/model/effects/InverseSquaredOutdegreeEffect.cpp | 23
RSiena-1.0.9/RSiena/src/model/effects/InverseSquaredOutdegreeEffect.h | 7
RSiena-1.0.9/RSiena/src/model/effects/IsolateEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/IsolateEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/LinearShapeEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/LinearShapeEffect.h | 6
RSiena-1.0.9/RSiena/src/model/effects/MainCovariateEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/MainCovariateEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/NetworkEffect.cpp | 95
RSiena-1.0.9/RSiena/src/model/effects/NetworkEffect.h | 530
RSiena-1.0.9/RSiena/src/model/effects/NetworkInteractionEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/NetworkInteractionEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/OutInDegreeAssortativityEffect.cpp | 35
RSiena-1.0.9/RSiena/src/model/effects/OutInDegreeAssortativityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/OutOutDegreeAssortativityEffect.cpp | 35
RSiena-1.0.9/RSiena/src/model/effects/OutOutDegreeAssortativityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeActivityEffect.cpp | 21
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeActivityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeActivitySqrtEffect.cpp | 23
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeActivitySqrtEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeEffect.cpp | 21
RSiena-1.0.9/RSiena/src/model/effects/OutdegreeEffect.h | 8
RSiena-1.0.9/RSiena/src/model/effects/OutdegreePopularityEffect.cpp | 34
RSiena-1.0.9/RSiena/src/model/effects/OutdegreePopularityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/PopularityAlterEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/PopularityAlterEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/QuadraticShapeEffect.cpp | 21
RSiena-1.0.9/RSiena/src/model/effects/QuadraticShapeEffect.h | 6
RSiena-1.0.9/RSiena/src/model/effects/ReciprocalDegreeBehaviorEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/ReciprocalDegreeBehaviorEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/ReciprocatedSimilarityEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/ReciprocatedSimilarityEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/ReciprocityEffect.cpp | 39
RSiena-1.0.9/RSiena/src/model/effects/ReciprocityEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/SameCovariateEffect.cpp | 59
RSiena-1.0.9/RSiena/src/model/effects/SameCovariateEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/SimilarityEffect.cpp |only
RSiena-1.0.9/RSiena/src/model/effects/SimilarityEffect.h |only
RSiena-1.0.9/RSiena/src/model/effects/ThreeCyclesEffect.cpp | 19
RSiena-1.0.9/RSiena/src/model/effects/ThreeCyclesEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/TransitiveMediatedTripletsEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/TransitiveMediatedTripletsEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTiesEffect.cpp | 17
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTiesEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTriadsEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTriadsEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTripletsEffect.cpp | 20
RSiena-1.0.9/RSiena/src/model/effects/TransitiveTripletsEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/WWXClosureEffect.cpp | 26
RSiena-1.0.9/RSiena/src/model/effects/WWXClosureEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/WXXClosureEffect.cpp | 286
RSiena-1.0.9/RSiena/src/model/effects/WXXClosureEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/XWXClosureEffect.cpp | 378
RSiena-1.0.9/RSiena/src/model/effects/XWXClosureEffect.h | 2
RSiena-1.0.9/RSiena/src/model/effects/generic/AlterFunction.cpp | 112
RSiena-1.0.9/RSiena/src/model/effects/generic/AlterFunction.h | 128
RSiena-1.0.9/RSiena/src/model/effects/generic/BetweennessFunction.cpp | 132
RSiena-1.0.9/RSiena/src/model/effects/generic/BetweennessFunction.h | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/ConstantFunction.cpp | 56
RSiena-1.0.9/RSiena/src/model/effects/generic/ConstantFunction.h | 66
RSiena-1.0.9/RSiena/src/model/effects/generic/DifferenceFunction.cpp | 134
RSiena-1.0.9/RSiena/src/model/effects/generic/DifferenceFunction.h | 82
RSiena-1.0.9/RSiena/src/model/effects/generic/EgoInDegreeFunction.cpp | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/EgoInDegreeFunction.h | 72
RSiena-1.0.9/RSiena/src/model/effects/generic/EgoOutDegreeFunction.cpp | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/EgoOutDegreeFunction.h | 72
RSiena-1.0.9/RSiena/src/model/effects/generic/GenericNetworkEffect.cpp | 184
RSiena-1.0.9/RSiena/src/model/effects/generic/GenericNetworkEffect.h | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/InDegreeFunction.cpp | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/InDegreeFunction.h | 72
RSiena-1.0.9/RSiena/src/model/effects/generic/InStarFunction.cpp | 134
RSiena-1.0.9/RSiena/src/model/effects/generic/InStarFunction.h | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/InTieFunction.cpp | 78
RSiena-1.0.9/RSiena/src/model/effects/generic/InTieFunction.h | 70
RSiena-1.0.9/RSiena/src/model/effects/generic/IntAlterFunction.cpp | 32
RSiena-1.0.9/RSiena/src/model/effects/generic/IntAlterFunction.h | 76
RSiena-1.0.9/RSiena/src/model/effects/generic/IntSqrtFunction.cpp | 128
RSiena-1.0.9/RSiena/src/model/effects/generic/IntSqrtFunction.h | 88
RSiena-1.0.9/RSiena/src/model/effects/generic/NetworkAlterFunction.cpp | 100
RSiena-1.0.9/RSiena/src/model/effects/generic/NetworkAlterFunction.h | 134
RSiena-1.0.9/RSiena/src/model/effects/generic/OutDegreeFunction.cpp | 96
RSiena-1.0.9/RSiena/src/model/effects/generic/OutDegreeFunction.h | 72
RSiena-1.0.9/RSiena/src/model/effects/generic/OutTieFunction.cpp | 78
RSiena-1.0.9/RSiena/src/model/effects/generic/OutTieFunction.h | 70
RSiena-1.0.9/RSiena/src/model/effects/generic/ProductFunction.cpp | 130
RSiena-1.0.9/RSiena/src/model/effects/generic/ProductFunction.h | 60
RSiena-1.0.9/RSiena/src/model/effects/generic/ReciprocatedTwoPathFunction.cpp | 134
RSiena-1.0.9/RSiena/src/model/effects/generic/ReciprocatedTwoPathFunction.h | 98
RSiena-1.0.9/RSiena/src/model/effects/generic/TwoPathFunction.cpp | 134
RSiena-1.0.9/RSiena/src/model/effects/generic/TwoPathFunction.h | 96
RSiena-1.0.9/RSiena/src/model/tables/BetweennessTable.cpp | 192
RSiena-1.0.9/RSiena/src/model/tables/BetweennessTable.h | 72
RSiena-1.0.9/RSiena/src/model/tables/Cache.cpp | 134
RSiena-1.0.9/RSiena/src/model/tables/Cache.h | 82
RSiena-1.0.9/RSiena/src/model/tables/EgocentricConfigurationTable.cpp | 114
RSiena-1.0.9/RSiena/src/model/tables/EgocentricConfigurationTable.h | 88
RSiena-1.0.9/RSiena/src/model/tables/NetworkCache.cpp | 354
RSiena-1.0.9/RSiena/src/model/tables/NetworkCache.h | 552
RSiena-1.0.9/RSiena/src/model/variables/BehaviorVariable.cpp | 9
RSiena-1.0.9/RSiena/src/model/variables/BehaviorVariable.h | 1
RSiena-1.0.9/RSiena/src/network/CommonNeighborIterator.cpp | 200
RSiena-1.0.9/RSiena/src/network/CommonNeighborIterator.h | 64
RSiena-1.0.9/RSiena/src/network/IncidentTieIterator.cpp | 206
RSiena-1.0.9/RSiena/src/network/IncidentTieIterator.h | 112
RSiena-1.0.9/RSiena/src/network/Network.cpp | 1272 -
RSiena-1.0.9/RSiena/src/network/Network.h | 274
RSiena-1.0.9/RSiena/src/network/NetworkUtils.cpp | 182
RSiena-1.0.9/RSiena/src/network/NetworkUtils.h | 90
RSiena-1.0.9/RSiena/src/network/OneModeNetwork.cpp | 1110
RSiena-1.0.9/RSiena/src/network/OneModeNetwork.h | 152
RSiena-1.0.9/RSiena/src/network/TieIterator.cpp | 262
RSiena-1.0.9/RSiena/src/network/TieIterator.h | 132
RSiena-1.0.9/RSiena/src/siena07.cpp | 45
RSiena-1.0.9/RSiena/src/win32/Makefile | 9
RSiena-1.0.9/RSiena/tests/parallel.R | 40
RSiena-1.0.9/RSiena/tests/parallel.Rout.save | 1076
220 files changed, 13298 insertions(+), 14102 deletions(-)
Title: Kalman filter and smoothers for exponential family state space
models.
Diff between KFAS versions 0.5.5 dated 2010-02-03 and 0.5.6 dated 2010-02-09
Description: Package KFAS provides functions for Kalman filtering,
state, disturbance and simulation smoothing, forecasting and
simulation of state space models. All functions can use exact
diffuse initialisation when distributions of some or all
elements of initial state vector are unknown. Filtering, state
smoothing and simulation functions use sequential processing
algorithm, which is faster than standard approach, and it also
allows singularity of prediction error variance matrix. KFAS
also contains function for computing the likelihood of
exponential family state space models and function for state
smoothing of exponential family state space models. These
non-gaussian functions are still under heavy developement.
Author: Jouni Helske
Maintainer: Jouni Helske
DESCRIPTION | 8 -
R/KFAS.R | 2
man/distsmoother.Rd | 15 +--
man/eflik.Rd | 137 +++++++++++++++++------------
man/eflik0.Rd | 126 +++++++++++++++++----------
man/efsmoother.Rd | 64 +++++++------
man/forecast.Rd | 44 +++++----
man/kf.Rd | 238 ++++++++++++++++++++++++++++++++--------------------
man/ks.Rd | 63 ++++++++-----
man/simsmoother.Rd | 14 +--
src/ks.f90 | 34 +++----
11 files changed, 448 insertions(+), 297 deletions(-)