Title: analysis of complex survey samples
Diff between survey versions 3.28-2 dated 2012-07-03 and 3.29 dated 2012-09-25
Description: Summary statistics, two-sample tests, 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
survey-3.28-2/survey/.gdb_history |only
survey-3.29/survey/DESCRIPTION | 6 -
survey-3.29/survey/INDEX | 5
survey-3.29/survey/MD5 | 67 +++++++------
survey-3.29/survey/NAMESPACE | 7 +
survey-3.29/survey/R/chisqsum.R | 4
survey-3.29/survey/R/grake.R | 1
survey-3.29/survey/R/multistage.R | 2
survey-3.29/survey/R/stdize.R |only
survey-3.29/survey/R/surveyby.R | 4
survey-3.29/survey/R/surveygraph.R | 11 +-
survey-3.29/survey/R/surveyrep.R | 159 +++++++++++++++++++++++++++----
survey-3.29/survey/R/svykappa.R | 55 +++++-----
survey-3.29/survey/R/svysmooth.R | 2
survey-3.29/survey/R/svyttest.R | 8 -
survey-3.29/survey/THANKS | 1
survey-3.29/survey/TODO | 4
survey-3.29/survey/data/nhanes.rda |only
survey-3.29/survey/inst/NEWS | 26 +++++
survey-3.29/survey/inst/doc/domain.pdf |binary
survey-3.29/survey/inst/doc/epi.pdf |binary
survey-3.29/survey/inst/doc/phase1.pdf |binary
survey-3.29/survey/inst/doc/pps.pdf |binary
survey-3.29/survey/inst/doc/survey.pdf |binary
survey-3.29/survey/man/calibrate.Rd | 9 +
survey-3.29/survey/man/estweights.Rd | 5
survey-3.29/survey/man/nhanes.Rd |only
survey-3.29/survey/man/regTermTest.Rd | 2
survey-3.29/survey/man/svyciprop.Rd | 11 +-
survey-3.29/survey/man/svycoxph.Rd | 2
survey-3.29/survey/man/svyglm.Rd | 10 +
survey-3.29/survey/man/svykappa.Rd | 3
survey-3.29/survey/man/svyplot.Rd | 2
survey-3.29/survey/man/svyranktest.Rd | 5
survey-3.29/survey/man/svysmooth.Rd | 5
survey-3.29/survey/man/svystandardize.Rd |only
survey-3.29/survey/man/withReplicates.Rd | 12 ++
survey-3.29/survey/tests/badcal.R |only
38 files changed, 325 insertions(+), 103 deletions(-)
Title: Clinical Trial Design and Data Analysis Functions
Diff between clinfun versions 1.0.1 dated 2012-08-14 and 1.0.2 dated 2012-09-25
Description: Utilities to make your clinical collaborations easier if
not fun.
Author: Venkatraman E. Seshan
Maintainer: Venkatraman E. Seshan
clinfun-1.0.1/clinfun/man/permtests.Rd |only
clinfun-1.0.2/clinfun/CHANGES | 6 ++
clinfun-1.0.2/clinfun/DESCRIPTION | 6 +-
clinfun-1.0.2/clinfun/INDEX | 5 -
clinfun-1.0.2/clinfun/MD5 | 13 ++--
clinfun-1.0.2/clinfun/R/jonkheere.R | 79 +++++++++++++++++++++------
clinfun-1.0.2/clinfun/man/jonckheere.test.Rd |only
clinfun-1.0.2/clinfun/man/permlogrank.Rd |only
clinfun-1.0.2/clinfun/src/fdwilcox.c |only
clinfun-1.0.2/clinfun/src/jtpdf.f |only
10 files changed, 83 insertions(+), 26 deletions(-)
Title: A package for estimating age-specific survival from incomplete
capture-recapture/recovery data
Diff between BaSTA versions 1.3 dated 2012-07-13 and 1.4 dated 2012-09-25
Description: This package estimates survival and mortality with
covariates from capture-recapture/recovery data in a Bayesian
framework when many individuals are of unknown age. It includes
tools for data checking, model diagnostics and outputs such as
life-tables and plots.
Author: Fernando Colchero, Owen Jones, Maren Rebke
Maintainer: Fernando Colchero
DESCRIPTION | 8
MD5 | 20 +-
R/basta.default.R | 363 +++++++++++++++++++++-----------------------
R/summary.basta.R | 29 ++-
data/sim1.RData |binary
data/sim1Out.RData |binary
inst/doc/BaSTAoverview.Rnw | 20 +-
man/BaSTA-package.Rd | 4
man/basta.Rd | 12 -
man/summary.basta.Rd | 15 +
vignettes/BaSTAoverview.Rnw | 20 +-
11 files changed, 269 insertions(+), 222 deletions(-)
Title: Rcpp integration for Armadillo templated linear algebra library
Diff between RcppArmadillo versions 0.3.4.1 dated 2012-09-18 and 0.3.4.2 dated 2012-09-25
Description: R and Armadillo integration using Rcpp Armadillo is a
templated C++ linear algebra library (by Conrad Sanderson) that
aims towards a good balance between speed and ease of use.
Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions.
Various matrix decompositions are provided through optional
integration with LAPACK and ATLAS libraries.
A delayed evaluation approach is employed (during compile time) to
combine several operations into one, and to reduce (or
eliminate) the need for temporaries. This is accomplished
through recursive templates and template meta-programming.
This library is useful if C++ has been decided as the language of
choice (due to speed and/or integration capabilities), rather
than another language.
The RcppArmadillo package includes the header files from the templated
Armadillo library (currently version 3.4.2). Thus users do not
need to install Armadillo itself in order to use RcppArmadillo.
This Armadillo integration provides a nice illustration of the
capabilities of the Rcpp package for seamless R and C++
integration.
Armadillo is licensed under the GNU LGPL version 3 or later, while
RcppArmadillo (the Rcpp bindings/bridge to Armadillo) is
licensed under the GNU GPL version 2 or later, as is the rest
of Rcpp.
Author: Romain Francois, Dirk Eddelbuettel and Doug Bates
Maintainer: Dirk Eddelbuettel
ChangeLog | 6
DESCRIPTION | 10
MD5 | 68 +-
inst/NEWS.Rd | 10
inst/doc/RcppArmadillo-intro.pdf |binary
inst/doc/RcppArmadillo-unitTests.pdf |binary
inst/doc/unitTests-results/RcppArmadillo-unitTests.html | 6
inst/doc/unitTests-results/RcppArmadillo-unitTests.txt | 32
inst/include/armadillo_bits/Mat_meat.hpp | 12
inst/include/armadillo_bits/SpMat_bones.hpp | 55 -
inst/include/armadillo_bits/SpMat_iterators_meat.hpp | 49 +
inst/include/armadillo_bits/SpMat_meat.hpp | 481 +++++++++------
inst/include/armadillo_bits/SpSubview_bones.hpp | 2
inst/include/armadillo_bits/SpSubview_iterators_meat.hpp | 40 +
inst/include/armadillo_bits/SpSubview_meat.hpp | 69 --
inst/include/armadillo_bits/arma_ostream_meat.hpp | 41 +
inst/include/armadillo_bits/arma_version.hpp | 2
inst/include/armadillo_bits/diskio_meat.hpp | 2
inst/include/armadillo_bits/fn_accu.hpp | 4
inst/include/armadillo_bits/fn_dot.hpp | 4
inst/include/armadillo_bits/fn_n_unique.hpp | 2
inst/include/armadillo_bits/fn_trace.hpp | 2
inst/include/armadillo_bits/operator_div.hpp | 6
inst/include/armadillo_bits/operator_minus.hpp | 4
inst/include/armadillo_bits/operator_plus.hpp | 2
inst/include/armadillo_bits/operator_schur.hpp | 28
inst/include/armadillo_bits/operator_times.hpp | 8
inst/include/armadillo_bits/span.hpp | 10
inst/include/armadillo_bits/spglue_minus_meat.hpp | 116 ++-
inst/include/armadillo_bits/spglue_plus_meat.hpp | 128 ++-
inst/include/armadillo_bits/spglue_times_meat.hpp | 13
inst/include/armadillo_bits/spop_max_meat.hpp | 8
inst/include/armadillo_bits/spop_min_meat.hpp | 8
inst/include/armadillo_bits/spop_sum_meat.hpp | 8
man/RcppArmadillo-package.Rd | 4
35 files changed, 769 insertions(+), 471 deletions(-)
Title: Independent Surrogate Variable Analysis
Diff between isva versions 1.6 dated 2012-09-25 and 1.7 dated 2012-09-25
Description: Independent Surrogate Variable Analysis is an algorithm
for feature selection in the presence of potential confounding
factors.
Author: Andrew E Teschendorff
Maintainer:
DESCRIPTION | 6 +++---
MD5 | 14 +++++++-------
R/DoISVA.R | 34 +++++++++++++++++++++++++++++-----
R/EstDimRMT.R | 22 ++++++++++++++++++++--
R/isvaFn.R | 4 ++--
man/DoISVA.Rd | 8 ++++----
man/EstDimRMT.Rd | 3 ++-
man/isva-package.Rd | 2 +-
8 files changed, 68 insertions(+), 25 deletions(-)
Title: A package for graphical modelling in R
Diff between gRbase versions 1.6-2 dated 2012-08-06 and 1.6-3 dated 2012-09-25
Description: The gRbase package provides certain general constructs
which are used by other graphical modelling packages, in
particular by the packages gRain, gRim and gRc.
gRbase contains several datasets relevant for use in connection with
graphical models. Almost all datasets used in the book
Graphical Models with R (2012) are contained in gRbase.
gRbase implements several graph algorithms (based mainly on
representing graphs as adjacency matrices - either in the form
of a standard matrix or a sparse matrix). Some graph algorithms
are: * maximum cardinality search (for marked and unmarked
graphs). * moralize * triangulate * junctionTree
gRbase facilities for array operations,
gRbase implements functions for testing for conditional independence.
gRbase illustrates how hierarchical log-linear models (hllm) may be
implemented and describes concept of gmData (graphical meta
data). These features, however, are not maintained anymore and
remains in gRbase only because there exists a paper describing
these facilities: A Common Platform for Graphical Models in R:
The gRbase Package, Journal of Statistical Software, Vol 14, No
17, 2005.
Author: Søren Højsgaard
Maintainer: Søren Højsgaard
ChangeLog | 11
DESCRIPTION | 37 +-
MD5 | 35 +-
R/GraphAlgo-JunctionTree.R | 4
R/GraphAlgo-TopoSort-DAG.R | 13
R/GraphAlgo-mcs.R | 219 ++++++++------
R/GraphAlgo-mcsmarked.R | 295 +++++++++++-------
R/GraphAlgo-moralize.R | 47 ---
R/GraphAlgo-triangulate.R | 653 ------------------------------------------
R/combnPrimR.R | 10
R/globals.R |only
R/utilities.R | 54 +--
R/yyyPrim.R | 5
gRbase-Ex.R | 2
inst/doc/gRbase-arrayops1.pdf |binary
inst/doc/gRbase-arrayops2.pdf |binary
inst/doc/gRbase-graphs.pdf |binary
inst/doc/gRbase-zzz.pdf |binary
man/GraphAlgo-rip.Rd | 5
19 files changed, 428 insertions(+), 962 deletions(-)
Title: provides objects and tools to manipulate irregular unhomogeneous
time data and subtime data.
Diff between timetools versions 1.1-2 dated 2012-04-25 and 1.1-3 dated 2012-09-25
Description: This package is intended to manipulate irregular time
series such as subtime series, series based on time intervals,
etc. This package uses only POSIX* format. Main things defined
in this package are the classes POSIXcti, POSIXctp,
TimeIntervalDataFrame, TimeInstantDataFrame, SubtimeDataFrame,
methods to switch from one class to another and the
changeSupport method for TimeIntervalDataFrame.
Author: Vladislav Navel
Maintainer: Vladislav Navel
timetools-1.1-2/timetools/timetools-Ex.R |only
timetools-1.1-3/timetools/DESCRIPTION | 8 ++++----
timetools-1.1-3/timetools/MD5 | 17 ++++++++---------
timetools-1.1-3/timetools/R/00generic.R | 6 ++++--
timetools-1.1-3/timetools/R/TimeInstantDataFrame.R | 6 ++++--
timetools-1.1-3/timetools/R/TimeIntervalDataFrame.R | 8 +++++---
timetools-1.1-3/timetools/R/changeSupport.R | 8 ++++++--
timetools-1.1-3/timetools/README | 6 ++++++
timetools-1.1-3/timetools/TODO | 4 ++++
timetools-1.1-3/timetools/man/timetools-package.Rd | 4 ++--
10 files changed, 43 insertions(+), 24 deletions(-)
Title: Infrastructure for seriation
Diff between seriation versions 1.0-6 dated 2011-10-19 and 1.0-7 dated 2012-09-25
Description: Infrastructure for seriation with an implementation of
several seriation/sequencing techniques to reorder matrices,
dissimilarity matrices, and dendrograms. Also contains some
visualizations techniques based on seriation.
Author: Michael Hahsler, Christian Buchta and Kurt Hornik
Maintainer: Michael Hahsler
seriation-1.0-6/seriation/CHANGES |only
seriation-1.0-6/seriation/inst/doc/jss.bst |only
seriation-1.0-6/seriation/inst/doc/jss.cls |only
seriation-1.0-7/seriation/DESCRIPTION | 13 +++--
seriation-1.0-7/seriation/MD5 | 24 ++++-----
seriation-1.0-7/seriation/data/Irish.rda |binary
seriation-1.0-7/seriation/data/Munsingen.rda |binary
seriation-1.0-7/seriation/data/Psych24.rda |binary
seriation-1.0-7/seriation/data/Townships.rda |binary
seriation-1.0-7/seriation/data/Zoo.rda |binary
seriation-1.0-7/seriation/inst/NEWS |only
seriation-1.0-7/seriation/inst/doc/seriation.pdf |binary
seriation-1.0-7/seriation/src/arsa.f | 56 +++++++++++++++++------
seriation-1.0-7/seriation/src/bburcg.f | 43 +++++++++++++----
seriation-1.0-7/seriation/src/bbwrcg.f | 30 +++++++++---
15 files changed, 118 insertions(+), 48 deletions(-)
Title: Pearson Distribution System
Diff between PearsonDS versions 0.93 dated 2012-04-02 and 0.94 dated 2012-09-25
Description: Implementation of the Pearson distribution system,
including full support for the (d,p,q,r)-family of functions
for probability distributions and fitting via method of moments
and maximum likelihood method.
Author: Martin Becker and Stefan Klößner
Maintainer: Martin Becker
DESCRIPTION | 11 ++-
MD5 | 25 ++++----
NAMESPACE | 1
R/fit.r | 82 +++++++++++++++++++++++----
R/pearsonIV.r | 148 ++++++++++++++++++++++++++++----------------------
R/plots.r | 22 ++++---
inst/CHANGES | 13 ++++
inst/CITATION | 5 +
man/Pearson.rd | 2
man/PearsonDS.rd | 4 +
man/pearsonDiagram.Rd | 6 +-
man/pearsonFitM.Rd | 3 -
man/pearsonFitML.Rd | 1
man/pearsonMSC.Rd |only
14 files changed, 213 insertions(+), 110 deletions(-)
Title: Spatial dependence: weighting schemes, statistics and models
Diff between spdep versions 0.5-50 dated 2012-08-31 and 0.5-51 dated 2012-09-25
Description: A collection of functions to create spatial weights matrix
objects from polygon contiguities, from point patterns by
distance and tessellations, for summarizing these objects, and
for permitting their use in spatial data analysis, including
regional aggregation by minimum spanning tree; a collection of
tests for spatial autocorrelation, including global Moran's I,
APLE, Geary's C, Hubert/Mantel general cross product statistic,
Empirical Bayes estimates and Assunção/Reis Index, Getis/Ord
G and multicoloured join count statistics, local Moran's I and
Getis/Ord G, saddlepoint approximations and exact tests for
global and local Moran's I; and functions for estimating
spatial simultaneous autoregressive (SAR) lag and error models,
impact measures for lag models, weighted and unweighted SAR and
CAR spatial regression models, semi-parametric and Moran
eigenvector spatial filtering, GM SAR error models, and
generalized spatial two stage least squares models.
Author: Roger Bivand
Maintainer: Roger Bivand
spdep-0.5-50/spdep/inst/etc/shapes/columbusRegression.txt |only
spdep-0.5-50/spdep/inst/etc/weights/e80_queen.gal |only
spdep-0.5-51/spdep/ChangeLog | 25 +++++++
spdep-0.5-51/spdep/DESCRIPTION | 10 +--
spdep-0.5-51/spdep/MD5 | 20 ++----
spdep-0.5-51/spdep/NAMESPACE | 3
spdep-0.5-51/spdep/R/jacobian.R | 44 +++++++++++++-
spdep-0.5-51/spdep/inst/ChangeLog | 25 +++++++
spdep-0.5-51/spdep/inst/doc/CO69.pdf |binary
spdep-0.5-51/spdep/inst/doc/sids.pdf |binary
spdep-0.5-51/spdep/man/do_ldet.Rd | 25 +++++++
spdep-0.5-51/spdep/spdep-Ex.R | 14 +++-
12 files changed, 146 insertions(+), 20 deletions(-)
Title: Survival Regression with Smoothed Error Distribution
Diff between smoothSurv versions 1.0 dated 2012-01-07 and 1.1 dated 2012-09-25
Description: This package contains primarily a function to fit a
regression model with possibly right, left or interval censored
observations and with the error distribution expressed as a
mixture of G-splines. Core part of the computation is done in
compiled C++ written using the Scythe Statistical Libary
Version 0.3.
Author: Arnošt Komárek
Maintainer: Arnošt Komárek
smoothSurv-1.0/smoothSurv/smoothSurv-Ex.R |only
smoothSurv-1.1/smoothSurv/DESCRIPTION | 20 ++++++++++----------
smoothSurv-1.1/smoothSurv/MD5 | 5 ++---
smoothSurv-1.1/smoothSurv/inst/CITATION | 4 ++--
4 files changed, 14 insertions(+), 15 deletions(-)
Title: Mixture of methods including mixtures
Diff between mixAK versions 2.4 dated 2012-06-19 and 2.6 dated 2012-09-25
Description: This package contains a mixture of statistical methods
including the MCMC methods to analyze normal mixtures
Author: Arnošt Komárek
Maintainer: Arnošt Komárek
DESCRIPTION | 8
MD5 | 30 -
R/GLMM_MCMC.R | 24 -
R/GLMM_MCMCifit.R | 8
R/GLMM_MCMCwrapper.R | 35 -
R/fitted.GLMM_MCMC.R | 24 +
data/Acidity.rda |binary
data/Enzyme.rda |binary
data/Galaxy.rda |binary
inst/CITATION | 6
inst/doc/PBCseq.R | 941 ++++++++++++++++++-------------------------------
man/GLMMMCMC.Rd | 68 +++
man/GLMMMCMCwrapper.Rd | 6
man/NMixMCMC.Rd | 7
src/GLMM_Deviance.cpp | 38 -
src/GLMM_MCMC.cpp | 4
16 files changed, 513 insertions(+), 686 deletions(-)
Title: Evolutionary Multiobjective Optimization Algorithms
Diff between emoa versions 0.4-8 dated 2011-10-18 and 0.5-0 dated 2012-09-25
Description: Collection of building blocks for the design and analysis
of evolutionary multiobjective optimization algorithms.
Author: Olaf Mersmann
Maintainer: Olaf Mersmann
ChangeLog | 18 ++++++
DESCRIPTION | 14 ++--
MD5 | 65 +++++++++++-----------
NAMESPACE | 80 ++++++++++++++--------------
R/emoa.r | 1
R/indicators.r | 18 ++++++
R/selection.r | 3 -
data/cec2007.rda |binary
man/binary_indicator.Rd | 92 +++++++++++++++++++-------------
man/cec2007_functions.Rd | 22 +++++--
man/cec2009_functions.Rd | 59 +++++++++++++-------
man/coalesce.Rd | 23 +++++---
man/crowding_distance.Rd | 19 ++++--
man/dom_op.Rd | 39 ++++++++-----
man/dominated_hypervolume.Rd | 111 ++++++++++++++++++++++-----------------
man/emoa-package.Rd | 47 +++++++---------
man/emoa_console_logger.Rd | 21 +++++--
man/emoa_control.Rd | 49 ++++++++++-------
man/emoa_logger.Rd | 29 +++++++---
man/emoa_null_logger.Rd | 14 +++-
man/inbounds.Rd | 29 ++++++----
man/nds_hv_selection.Rd | 43 +++++++++------
man/nds_rank.Rd | 36 +++++++-----
man/nondominated_points.Rd | 29 ++++++----
man/normalize_points.Rd | 31 +++++++---
man/pm_control.Rd | 46 +++++++++-------
man/pm_operator.Rd | 33 ++++++++---
man/sbx_control.Rd | 51 ++++++++++-------
man/sbx_operator.Rd | 47 ++++++++++------
man/steady_state_emoa_control.Rd | 49 ++++++++++-------
man/unary_r2_indicator.Rd |only
man/which_points_on_edge.Rd | 23 +++++---
src/r_ind.c | 55 ++++++++++++++++---
src/weight_vectors.h | 8 +-
34 files changed, 754 insertions(+), 450 deletions(-)
Title: Bindings for the Geospatial Data Abstraction Library
Diff between rgdal versions 0.7-18 dated 2012-08-30 and 0.7-19 dated 2012-09-25
Description: Provides bindings to Frank Warmerdam's Geospatial Data
Abstraction Library (GDAL) (>= 1.6.0) and access to
projection/transformation operations from the PROJ.4 library.
The GDAL and PROJ.4 libraries are external to the package, and,
when installing the package from source, must be correctly
installed first. Both GDAL raster and OGR vector map data can
be imported into R, and GDAL raster data and OGR vector data
exported. Use is made of classes defined in the sp package.
Windows and Mac Intel OS X binaries (including GDAL, PROJ.4 and
Expat) are provided on CRAN.
Author: Timothy H. Keitt
Maintainer: Roger Bivand
ChangeLog | 1184 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++
DESCRIPTION | 8
MD5 | 8
R/sp_gdal.R | 4
inst/ChangeLog | 1184 +++++++++++++++++++++++++++++++++++++++++++++++++++++++++
5 files changed, 2380 insertions(+), 8 deletions(-)
Title: classes and methods for spatio-temporal data
Diff between spacetime versions 0.7-1 dated 2012-07-04 and 0.8-0 dated 2012-09-25
Description: A package with classes and methods for spatio-temporal
data. In particular, space-time regular lattices, sparse
lattices, irregular data, and simple trajectories are
supported. Utility functions are provided for plotting data as
map sequences (lattice or animation) or multiple time series;
for spatial and temporal selection, as well as methods for
retrieving coordinates, for subsetting, print, summary, etc.
Author: Edzer Pebesma [cre, aut], Benedict Graeler [ctb], Tom Gottfried
[ctb], Robert J. Hijmans [ctb]
Maintainer: Edzer Pebesma
spacetime-0.7-1/spacetime/ChangeLog |only
spacetime-0.7-1/spacetime/inst/doc/spacetime.Rnw |only
spacetime-0.7-1/spacetime/inst/doc/spacetime.bib |only
spacetime-0.7-1/spacetime/inst/doc/spacetime.pdf |only
spacetime-0.8-0/spacetime/DESCRIPTION | 24 -
spacetime-0.8-0/spacetime/MD5 | 109 +++--
spacetime-0.8-0/spacetime/NAMESPACE | 9
spacetime-0.8-0/spacetime/R/Class-ST.R | 14
spacetime-0.8-0/spacetime/R/Class-STFDF.R | 1
spacetime-0.8-0/spacetime/R/Class-STIDF.R | 1
spacetime-0.8-0/spacetime/R/Class-STLDF.R | 37 +-
spacetime-0.8-0/spacetime/R/Class-STSDF.R | 1
spacetime-0.8-0/spacetime/R/Class-STTDF.R | 1
spacetime-0.8-0/spacetime/R/ST-methods.R | 21 -
spacetime-0.8-0/spacetime/R/STFDF-methods.R | 14
spacetime-0.8-0/spacetime/R/STIDF-methods.R | 30 +
spacetime-0.8-0/spacetime/R/STLDF-methods.R | 124 ------
spacetime-0.8-0/spacetime/R/STSDF-methods.R | 14
spacetime-0.8-0/spacetime/R/STTDF-methods.R | 5
spacetime-0.8-0/spacetime/R/aggregate.R |only
spacetime-0.8-0/spacetime/R/coerce.R | 22 -
spacetime-0.8-0/spacetime/R/endtime.R |only
spacetime-0.8-0/spacetime/R/eof.R | 6
spacetime-0.8-0/spacetime/R/interval.R | 31 -
spacetime-0.8-0/spacetime/R/over.R | 229 +-----------
spacetime-0.8-0/spacetime/R/plot.R | 32 -
spacetime-0.8-0/spacetime/R/raster.R |only
spacetime-0.8-0/spacetime/R/stconstruct.R | 52 +-
spacetime-0.8-0/spacetime/R/tgrass.R |only
spacetime-0.8-0/spacetime/R/timematch.R |only
spacetime-0.8-0/spacetime/data/air.rda |binary
spacetime-0.8-0/spacetime/inst/ChangeLog | 93 +++++
spacetime-0.8-0/spacetime/inst/doc/cls.fig | 55 ---
spacetime-0.8-0/spacetime/inst/doc/cls.pdf |binary
spacetime-0.8-0/spacetime/inst/doc/jss816.Rnw |only
spacetime-0.8-0/spacetime/inst/doc/jss816.bib |only
spacetime-0.8-0/spacetime/inst/doc/jss816.pdf |only
spacetime-0.8-0/spacetime/inst/doc/move.fig | 130 +++----
spacetime-0.8-0/spacetime/inst/doc/move.pdf |binary
spacetime-0.8-0/spacetime/inst/doc/sto.pdf |binary
spacetime-0.8-0/spacetime/inst/doc/stpg.pdf |binary
spacetime-0.8-0/spacetime/man/ST-class.Rd | 13
spacetime-0.8-0/spacetime/man/STFDF-class.Rd | 7
spacetime-0.8-0/spacetime/man/STIDF-class.Rd | 8
spacetime-0.8-0/spacetime/man/STLDF-class.Rd | 2
spacetime-0.8-0/spacetime/man/STSDF-class.Rd | 35 +
spacetime-0.8-0/spacetime/man/delta.Rd |only
spacetime-0.8-0/spacetime/man/interval.Rd | 9
spacetime-0.8-0/spacetime/man/over.Rd | 8
spacetime-0.8-0/spacetime/man/stconstruct.Rd | 5
spacetime-0.8-0/spacetime/man/stplot.Rd | 1
spacetime-0.8-0/spacetime/man/tgrass.Rd |only
spacetime-0.8-0/spacetime/man/timematch.Rd | 65 ++-
spacetime-0.8-0/spacetime/tests/basic.R | 20 +
spacetime-0.8-0/spacetime/tests/basic.Rout.save | 328 +++++++++++++-----
spacetime-0.8-0/spacetime/tests/over.R | 53 ++
spacetime-0.8-0/spacetime/tests/over.Rout.save | 205 ++++++++++-
spacetime-0.8-0/spacetime/tests/raster.R |only
spacetime-0.8-0/spacetime/tests/raster.Rout.save |only
spacetime-0.8-0/spacetime/tests/stconstruct.Rout.save | 16
spacetime-0.8-0/spacetime/tests/traj.Rout.save | 13
spacetime-0.8-0/spacetime/tests/wind.R | 2
spacetime-0.8-0/spacetime/tests/wind.Rout.save | 4
spacetime-0.8-0/spacetime/tm.R |only
64 files changed, 1046 insertions(+), 803 deletions(-)
Title: Modelling and analysis of real-time PCR data
Diff between qpcR versions 1.3-6 dated 2012-02-22 and 1.3-7 dated 2012-09-25
Description: Model fitting, optimal model selection and calculation of
various features that are essential in the analysis of
quantitative real-time polymerase chain reaction (qPCR).
Author: Andrej-Nikolai Spiess
Maintainer: Andrej-Nikolai Spiess
qpcR-1.3-6/qpcR/man/batschetal.rd |only
qpcR-1.3-6/qpcR/man/boggy.rd |only
qpcR-1.3-6/qpcR/man/dyemelt.Rd |only
qpcR-1.3-6/qpcR/man/guescinietal.Rd |only
qpcR-1.3-6/qpcR/man/htPCR.Rd |only
qpcR-1.3-6/qpcR/man/lievensetal.rd |only
qpcR-1.3-6/qpcR/man/parMAK.rd |only
qpcR-1.3-6/qpcR/man/repsdat.rd |only
qpcR-1.3-6/qpcR/man/rutledge.Rd |only
qpcR-1.3-6/qpcR/man/testdat.Rd |only
qpcR-1.3-6/qpcR/man/vermeulen.Rd |only
qpcR-1.3-7/qpcR/DESCRIPTION | 9
qpcR-1.3-7/qpcR/MD5 | 98 +--
qpcR-1.3-7/qpcR/NAMESPACE | 2
qpcR-1.3-7/qpcR/NEWS | 29
qpcR-1.3-7/qpcR/R/KOD.r | 14
qpcR-1.3-7/qpcR/R/eff.R | 18
qpcR-1.3-7/qpcR/R/efficiency.R | 66 +-
qpcR-1.3-7/qpcR/R/expfit.R | 44 -
qpcR-1.3-7/qpcR/R/getPar.r | 3
qpcR-1.3-7/qpcR/R/maxRatio.r | 10
qpcR-1.3-7/qpcR/R/modlist.r | 41 -
qpcR-1.3-7/qpcR/R/mselect.r | 4
qpcR-1.3-7/qpcR/R/pcrbatch.r | 40 -
qpcR-1.3-7/qpcR/R/pcrfit.r | 112 ---
qpcR-1.3-7/qpcR/R/pcrimport.R | 2
qpcR-1.3-7/qpcR/R/predict.pcrfit.r | 34 -
qpcR-1.3-7/qpcR/R/propagate.R | 35 -
qpcR-1.3-7/qpcR/R/ratioPar.r |only
qpcR-1.3-7/qpcR/R/ratiobatch.r | 176 ++++--
qpcR-1.3-7/qpcR/R/ratiocalc.r | 129 ++--
qpcR-1.3-7/qpcR/R/refmean.R | 47 -
qpcR-1.3-7/qpcR/R/resplot.R | 13
qpcR-1.3-7/qpcR/R/utils.R | 228 +++----
qpcR-1.3-7/qpcR/data/competimer.rda |only
qpcR-1.3-7/qpcR/data/datalist | 8
qpcR-1.3-7/qpcR/data/dil4reps94.rda |only
qpcR-1.3-7/qpcR/data/karlen1.rda |only
qpcR-1.3-7/qpcR/data/karlen2.rda |only
qpcR-1.3-7/qpcR/data/karlen3.rda |only
qpcR-1.3-7/qpcR/data/qpcR_functions.rda |binary
qpcR-1.3-7/qpcR/data/reps384.rda |only
qpcR-1.3-7/qpcR/man/KOD.rd | 2
qpcR-1.3-7/qpcR/man/calib.Rd | 13
qpcR-1.3-7/qpcR/man/calib2.rd | 6
qpcR-1.3-7/qpcR/man/eff.Rd | 6
qpcR-1.3-7/qpcR/man/efficiency.Rd | 17
qpcR-1.3-7/qpcR/man/expfit.Rd | 30 -
qpcR-1.3-7/qpcR/man/maxRatio.rd | 4
qpcR-1.3-7/qpcR/man/modlist.Rd | 25
qpcR-1.3-7/qpcR/man/pcrbatch.Rd | 18
qpcR-1.3-7/qpcR/man/pcrfit.Rd | 67 +-
qpcR-1.3-7/qpcR/man/propagate.Rd | 31 -
qpcR-1.3-7/qpcR/man/qpcR_datasets.rd |only
qpcR-1.3-7/qpcR/man/qpcR_functions.rd | 92 +--
qpcR-1.3-7/qpcR/man/ratioPar.rd |only
qpcR-1.3-7/qpcR/man/ratiobatch.rd | 127 ++--
qpcR-1.3-7/qpcR/man/ratiocalc.Rd | 119 +---
qpcR-1.3-7/qpcR/man/resplot.Rd | 8
qpcR-1.3-7/qpcR/qpcR_functions.r | 937 ++++++++++++++++----------------
60 files changed, 1416 insertions(+), 1248 deletions(-)
Title: Estimate permutation p-values for importance metrics.
Diff between rfPermute versions 1.4 dated 2012-09-21 and 1.5 dated 2012-09-25
Description: Estimate significance of importance metrics for a Random
Forest model by permuting the response variable. Produces null
distribution of importance metrics for each predictor variable
and p-value of observed.
Author: Eric Archer
Maintainer: Eric Archer
DESCRIPTION | 11 +++++------
MD5 | 10 +++++-----
R/rfPermute.R | 8 ++++++--
R/rfPermute.default.R | 15 +++++++++++----
R/rfPermute.formula.R | 9 +++++----
man/rfPermute.Rd | 20 +++++++++++++++-----
6 files changed, 47 insertions(+), 26 deletions(-)
Title: Independent Surrogate Variable Analysis
Diff between isva versions 1.5 dated 2012-09-24 and 1.6 dated 2012-09-25
Description: Independent Surrogate Variable Analysis is an algorithm
for feature selection in the presence of potential confounding
factors.
Author: Andrew E Teschendorff
Maintainer:
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/isvaFn.R | 6 ++++--
man/isva-package.Rd | 4 ++--
4 files changed, 13 insertions(+), 11 deletions(-)
Title: Bias-corrected Bayesian Classification with Selected Features
Diff between BCBCSF versions 0.0-1 dated 2011-09-14 and 0.0-2 dated 2012-09-25
Description: This software is used to predict the discrete class labels
based on a selected subset of high-dimensional features, such
as expression levels of genes. The data are modeled with a
hierarchical Bayesian models using heavy-tailed t distributions
as priors. When a large number of features are available, one
may like to select only a subset of features to use, typically
those features strongly correlated with the response in
training cases. Such a feature selection procedure is however
invalid since the relationship between the response and the
features has be exaggerated by feature selection. This package
provides a way to avoid this bias and yield better-calibrated
predictions for future cases when one uses F-statistic to
select features.
Author: Longhai Li
Maintainer: Longhai Li
DESCRIPTION | 8 ++++----
MD5 | 11 ++++++-----
NAMESPACE |only
R/loadpkg.r | 7 +++----
R/tr-pr.r | 4 ++--
man/analyzefit.Rd | 4 ++--
man/data.Rd | 3 ++-
7 files changed, 19 insertions(+), 18 deletions(-)
Title: Descriptive statistics
Diff between descr versions 0.9.8 dated 2012-08-07 and 0.9.9 dated 2012-09-25
Description: This package contains functions to describe weighted
categorical variables and functions to facilitate the character
encoding conversion of objects.
Author: Jakson Aquino. Includes R source code and/or documentation
written by Dirk Enzmann, Marc Schwartz, and Nitin Jain
Maintainer: Jakson Aquino
DESCRIPTION | 8 +--
MD5 | 24 ++++-----
NEWS | 7 ++
R/CrossTable.R | 5 --
R/compmeans.R | 1
R/xtable.R | 2
inst/po/pt_BR/LC_MESSAGES/R-descr.mo |binary
man/CrossTable.Rd | 12 ----
man/LogRegR2.Rd | 9 ---
man/compmeans.Rd | 2
po/R-descr.pot | 80 ++++++++++++++++----------------
po/R-pt_BR.po | 86 +++++++++++++++++------------------
po/descr.pot | 2
13 files changed, 114 insertions(+), 124 deletions(-)