Author: Torsten Hothorn, Peter Buhlmann, Thomas Kneib, Matthias Schmid
and Benjamin Hofner
Title: Model-Based Boosting
Description: Functional gradient descent algorithms (boosting) for
optimizing general loss functions utilizing componentwise least
squares, either of parametric linear form or smoothing splines,
or regression trees as base learners for fitting generalized
linear, additive and interaction models to potentially
high-dimensional data.
Diff between mboost versions 1.1-1 dated 2009-04-22 and 1.1-2 dated 2009-07-21
DESCRIPTION | 8 +- NAMESPACE | 2 NEWS |only R/bbs2.R |only R/crossvalidation.R | 23 ++++++- R/glmboost.R | 10 +-- R/xsp.R | 112 ++++++++++++++++++++++++++------------ inst/CHANGES | 15 +++++ inst/doc/SurvivalEnsembles.pdf |binary inst/doc/mboost_illustrations.Rnw | 2 inst/doc/mboost_illustrations.pdf |binary man/FP.Rd | 26 ++++---- man/Family.Rd | 23 ++++--- man/baselearners.Rd | 40 +++++++------ man/blackboost.Rd | 35 ++++++----- man/boost_family-class.Rd | 13 ++-- man/control.Rd | 10 ++- man/cvrisk.Rd | 14 ++++ man/gamboost.Rd | 37 +++++++----- man/glmboost.Rd | 40 +++++++------ man/methods.Rd | 31 +++++----- man/survFit.Rd | 10 ++- tests/mboost_illustrations.R | 2 to_do_list.txt | 13 ++++ 24 files changed, 300 insertions(+), 166 deletions(-)
Author: REvolution Computing
Title: Iterator construct for R
Description: Support for iterators, which allow a programmer to
traverse through all the elements of a vector, list, or other
collection of data.
Diff between iterators versions 1.0.1 dated 2009-06-30 and 1.0.2 dated 2009-07-21
DESCRIPTION | 6 ++-- R/iterators.R | 61 ++++++++++++++++++++++++++++--------------------- inst/doc/iterators.pdf |binary inst/doc/iterators.tex |only 4 files changed, 38 insertions(+), 29 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 included, as well as basic parametric and bootstrap
inference functions.
Diff between bnlearn versions 1.4.1 dated 2009-06-14 and 1.5 dated 2009-07-21
bnlearn-1.4.1/bnlearn/man/00.bnlearn-package.Rd |only bnlearn-1.4.1/bnlearn/man/10.gs.Rd |only bnlearn-1.4.1/bnlearn/man/11.iamb.Rd |only bnlearn-1.4.1/bnlearn/man/12.fast.iamb.Rd |only bnlearn-1.4.1/bnlearn/man/13.inter.iamb.Rd |only bnlearn-1.4.1/bnlearn/man/14.mmpc.Rd |only bnlearn-1.4.1/bnlearn/man/15.hc.Rd |only bnlearn-1.4.1/bnlearn/man/20.mb.Rd |only bnlearn-1.4.1/bnlearn/man/21.arcops.Rd |only bnlearn-1.4.1/bnlearn/man/22.modelstring.Rd |only bnlearn-1.4.1/bnlearn/man/23.compare.Rd |only bnlearn-1.4.1/bnlearn/man/24.graphgen.Rd |only bnlearn-1.4.1/bnlearn/man/25.ordering.Rd |only bnlearn-1.4.1/bnlearn/man/30.score.Rd |only bnlearn-1.4.1/bnlearn/man/31.ci.test.Rd |only bnlearn-1.4.1/bnlearn/man/32.choose.direction.Rd |only bnlearn-1.4.1/bnlearn/man/33.arc.strength.Rd |only bnlearn-1.4.1/bnlearn/man/40.rbn.Rd |only bnlearn-1.4.1/bnlearn/man/50.plot.bn.Rd |only bnlearn-1.4.1/bnlearn/man/51.graphviz.plot.Rd |only bnlearn-1.4.1/bnlearn/man/52.strength.plot.Rd |only bnlearn-1.4.1/bnlearn/man/A0.learning-test.Rd |only bnlearn-1.4.1/bnlearn/man/A1.gaussian-test.Rd |only bnlearn-1.4.1/bnlearn/man/A2.asia.Rd |only bnlearn-1.4.1/bnlearn/man/A3.lizards.Rd |only bnlearn-1.4.1/bnlearn/man/A4.alarm.Rd |only bnlearn-1.4.1/bnlearn/man/A5.marks.Rd |only bnlearn-1.4.1/bnlearn/man/B0.bn.class.Rd |only bnlearn-1.4.1/bnlearn/man/B1.bn-strength.Rd |only bnlearn-1.4.1/bnlearn/man/C0.snow.Rd |only bnlearn-1.4.1/bnlearn/man/C1.deal.Rd |only bnlearn-1.5/bnlearn/Changelog | 26 ++ bnlearn-1.5/bnlearn/DESCRIPTION | 15 - bnlearn-1.5/bnlearn/NAMESPACE | 23 ++ bnlearn-1.5/bnlearn/R/arc.strength.R | 62 ++++++ bnlearn-1.5/bnlearn/R/backend-indep.R | 15 - bnlearn-1.5/bnlearn/R/backend-score.R | 23 +- bnlearn-1.5/bnlearn/R/bootstrap.R |only bnlearn-1.5/bnlearn/R/choose.direction.R | 125 +++++++++++++- bnlearn-1.5/bnlearn/R/ci.test.R | 4 bnlearn-1.5/bnlearn/R/cpdag.R |only bnlearn-1.5/bnlearn/R/fit.R |only bnlearn-1.5/bnlearn/R/formula.R | 35 +++ bnlearn-1.5/bnlearn/R/frontend-amat.R | 10 - bnlearn-1.5/bnlearn/R/frontend-arcs.R | 9 - bnlearn-1.5/bnlearn/R/frontend-bootstrap.R |only bnlearn-1.5/bnlearn/R/frontend-fit.R |only bnlearn-1.5/bnlearn/R/frontend-formula.R | 24 +- bnlearn-1.5/bnlearn/R/frontend-graph.R | 14 + bnlearn-1.5/bnlearn/R/frontend-lattice.R |only bnlearn-1.5/bnlearn/R/frontend-learning.R | 10 - bnlearn-1.5/bnlearn/R/frontend-plot.R | 13 - bnlearn-1.5/bnlearn/R/frontend-print.R | 49 +++++ bnlearn-1.5/bnlearn/R/frontend-score.R | 90 ++-------- bnlearn-1.5/bnlearn/R/frontend-strength.R |only bnlearn-1.5/bnlearn/R/globals.R | 31 ++- bnlearn-1.5/bnlearn/R/graphviz.R | 80 ++++++--- bnlearn-1.5/bnlearn/R/grow-shrink.R | 2 bnlearn-1.5/bnlearn/R/hill-climbing.R | 32 --- bnlearn-1.5/bnlearn/R/init.R | 7 bnlearn-1.5/bnlearn/R/inter-iamb.R | 29 +++ bnlearn-1.5/bnlearn/R/lattice.R |only bnlearn-1.5/bnlearn/R/learning-algorithms.R | 41 ++-- bnlearn-1.5/bnlearn/R/maxmin-pc.R | 8 bnlearn-1.5/bnlearn/R/scores.R | 163 ++++++++++-------- bnlearn-1.5/bnlearn/R/utils-arcs.R | 26 +- bnlearn-1.5/bnlearn/R/utils-graph.R | 14 - bnlearn-1.5/bnlearn/R/utils-misc.R | 5 bnlearn-1.5/bnlearn/R/utils-sanitization.R | 204 +++++++++++++++++++++-- bnlearn-1.5/bnlearn/inst/bibtex/bnlearn.bib | 81 ++------- bnlearn-1.5/bnlearn/inst/network.scripts/alarm.R | 6 bnlearn-1.5/bnlearn/man/alarm.Rd |only bnlearn-1.5/bnlearn/man/arc.strength.Rd |only bnlearn-1.5/bnlearn/man/arcops.Rd |only bnlearn-1.5/bnlearn/man/asia.Rd |only bnlearn-1.5/bnlearn/man/bn.class.Rd |only bnlearn-1.5/bnlearn/man/bn.fit.Rd |only bnlearn-1.5/bnlearn/man/bn.fit.class.Rd |only bnlearn-1.5/bnlearn/man/bn.fit.methods.Rd |only bnlearn-1.5/bnlearn/man/bn.fit.plots.Rd |only bnlearn-1.5/bnlearn/man/bn.strength-class.Rd |only bnlearn-1.5/bnlearn/man/bnboot.Rd |only bnlearn-1.5/bnlearn/man/bnlearn-package.Rd |only bnlearn-1.5/bnlearn/man/boot.strength.Rd |only bnlearn-1.5/bnlearn/man/choose.direction.Rd |only bnlearn-1.5/bnlearn/man/ci.test.Rd |only bnlearn-1.5/bnlearn/man/compare.Rd |only bnlearn-1.5/bnlearn/man/constraint.Rd |only bnlearn-1.5/bnlearn/man/cpdag.Rd |only bnlearn-1.5/bnlearn/man/deal.Rd |only bnlearn-1.5/bnlearn/man/gaussian-test.Rd |only bnlearn-1.5/bnlearn/man/graphgen.Rd |only bnlearn-1.5/bnlearn/man/graphviz.plot.Rd |only bnlearn-1.5/bnlearn/man/hc.Rd |only bnlearn-1.5/bnlearn/man/learning-test.Rd |only bnlearn-1.5/bnlearn/man/lizards.Rd |only bnlearn-1.5/bnlearn/man/marks.Rd |only bnlearn-1.5/bnlearn/man/mb.Rd |only bnlearn-1.5/bnlearn/man/mmpc.Rd |only bnlearn-1.5/bnlearn/man/modelstring.Rd |only bnlearn-1.5/bnlearn/man/ordering.Rd |only bnlearn-1.5/bnlearn/man/plot.bn.Rd |only bnlearn-1.5/bnlearn/man/rbn.Rd |only bnlearn-1.5/bnlearn/man/score.Rd |only bnlearn-1.5/bnlearn/man/snow.Rd |only bnlearn-1.5/bnlearn/man/strength.plot.Rd |only bnlearn-1.5/bnlearn/src/Makevars | 2 bnlearn-1.5/bnlearn/src/acyclic.c | 77 ++++++-- bnlearn-1.5/bnlearn/src/arcs2amat.c | 28 +-- bnlearn-1.5/bnlearn/src/bayesian.network.c | 2 bnlearn-1.5/bnlearn/src/bn.recovery.c | 6 bnlearn-1.5/bnlearn/src/bootstrap.c |only bnlearn-1.5/bnlearn/src/common.h | 4 bnlearn-1.5/bnlearn/src/dirichlet.posterior.c |only bnlearn-1.5/bnlearn/src/discrete.loglikelihood.c | 51 +++-- bnlearn-1.5/bnlearn/src/graph.generation.c | 146 ++++++++++------ bnlearn-1.5/bnlearn/src/is.row.equal.c | 111 ++++++++++++ bnlearn-1.5/bnlearn/src/linear.algebra.c | 18 +- bnlearn-1.5/bnlearn/src/monte.carlo.c | 49 +++-- bnlearn-1.5/bnlearn/src/mutual.information.c | 86 ++++++--- bnlearn-1.5/bnlearn/src/path.c | 74 +++++--- bnlearn-1.5/bnlearn/src/pearson.x2.c | 87 ++++++--- bnlearn-1.5/bnlearn/src/score.delta.helper.c |only 123 files changed, 1393 insertions(+), 624 deletions(-)
Author: Aaron A. King
Diff between ouch versions 2.5-4 dated 2009-03-13 and 2.5-6 dated 2009-07-21
Title: Ornstein-Uhlenbeck models for phylogenetic comparative
hypotheses
Description: Fit and compare Ornstein-Uhlenbeck models for evolution
along a phylogenetic tree.
DESCRIPTION | 11 ++++------
R/hansen.R | 2 -
inst/CITATION | 4 +--
inst/ChangeLog | 26 +++++++++++++++++++++++--
inst/SVN-REVISION |only
man/hansen.Rd | 4 +--
man/hansentree-methods.Rd | 4 ---
man/ouch-package.Rd | 47 +++++++++++++++++++++++++++-------------------
8 files changed, 63 insertions(+), 35 deletions(-)
Author: Arne Henningsen
Title: Microeconomic Analysis and Modelling
Description: Tools for microeconomic analysis and microeconomic
modelling
Diff between micEcon versions 0.5-18 dated 2009-05-05 and 0.5-22 dated 2009-07-21
DESCRIPTION | 8 INDEX | 8 R/cesEst.R |only R/print.summary.translogRayEst.R |only R/print.translogRayEst.R |only R/summary.translogRayEst.R |only R/translogProdFuncMargCost.R |only R/translogRayDeriv.R |only R/translogRayEst.R |only man/USMeatConsump.Rd | 2 man/aidsBestA0.Rd | 2 man/aidsCalc.Rd | 2 man/aidsConcav.Rd | 2 man/aidsConsist.Rd | 2 man/aidsElas.Rd | 2 man/aidsEst.Rd | 2 man/aidsMono.Rd | 2 man/aidsUtility.Rd | 2 man/cesEst.Rd |only man/fitted.aidsEst.Rd | 2 man/logLik.aidsEst.Rd | 2 man/lrtest.aidsEst.Rd | 2 man/predict.snqProfitEst.Rd | 2 man/print.snqProfitEst.Rd | 4 man/residuals.snqProfitEst.Rd | 2 man/snqProfitCalc.Rd | 2 man/snqProfitEla.Rd | 2 man/snqProfitEst.Rd | 2 man/snqProfitFixEla.Rd | 2 man/snqProfitHessian.Rd | 2 man/snqProfitHessianDeriv.Rd | 2 man/snqProfitImposeConvexity.Rd | 4 man/snqProfitShadowPrices.Rd | 2 man/snqProfitWeights.Rd | 2 man/summary.aidsElas.Rd | 2 man/summary.aidsEst.Rd | 2 man/summary.translogRayEst.Rd |only man/translogMonoRestr.Rd | 6 man/translogProdFuncMargCost.Rd |only man/translogRayDeriv.Rd |only man/translogRayEst.Rd |only tests/aids.R | 52 +-- tests/aids.Rout.save | 73 ++-- tests/cesTest.R |only tests/cesTest.Rout.save |only tests/cobbDouglasTest.Rout.save | 4 tests/colMediansTest.Rout.save | 4 tests/indices.Rout.save | 4 tests/insertColRow.Rout.save | 4 tests/npregHomTest.Rout.save | 4 tests/quadFunc.Rout.save | 16 - tests/snqProfit.R | 8 tests/snqProfit.Rout.save | 26 + tests/translog.R | 132 +++++++++ tests/translog.Rout.save | 570 ++++++++++++++++++++++++++++++++++++++- tests/translogCost.Rout.save | 4 56 files changed, 832 insertions(+), 147 deletions(-)
Author: Fadoua Balabdaoui, Kaspar Rufibach, Filippo Santambrogio
Title: Compute least squares estimates of one bounded or two ordered
isotonic regression curves
Description: We consider the problem of estimating two isotonic
regression curves g1* and g2* under the constraint that they
are ordered, i.e. g1* <= g2*. Given two sets of n data points
y_1, ..., y_n and z_1, ..., z_n that are observed at (the same)
deterministic design points x_1, ..., x_n, the estimates are
obtained by minimizing the Least Squares criterion L(a, b) =
sum_{i=1}^n (y_i - a_i)^2 w1(x_i) + sum_{i=1}^n (z_i - b_i)^2
w2(x_i) over the class of pairs of vectors (a, b) such that a
and b are isotonic and a_i <= b_i for all i = 1, ..., n. The
estimates are computed with a projected subgradient algorithm
where the projection is calculated using a PAVA.
Diff between OrdMonReg versions 1.0.0 dated 2009-04-15 and 1.0.1 dated 2009-07-21
CHANGES | 5 +++++ DESCRIPTION | 33 ++++++++++++++++----------------- man/LSfunctional.Rd | 8 ++++---- man/MA.Rd | 2 +- man/boundedAntiMeanTwo.Rd | 31 ++++++++++++++++--------------- man/boundedIsoMean.Rd | 24 +++++++++++++----------- man/bstar_n.Rd | 2 +- man/mechIng.Rd | 7 +++---- man/ordMonReg-package.Rd | 22 +++++++++++----------- 9 files changed, 70 insertions(+), 64 deletions(-)
Author: Jarrod Hadfield
Title: ML and MCMC Methods for Pedigree Reconstruction and Analysis
Description: The primary aim of MasterBayes is to use MCMC techniques
to integrate over uncertainty in pedigree configurations
estimated from molecular markers and phenotypic data. Emphasis
is put on the marginal distribution of parameters that relate
the phenotypic data to the pedigree. All simulation is done in
compiled C++ for efficency.
Diff between MasterBayes versions 2.43 dated 2009-04-14 and 2.44 dated 2009-07-21
MasterBayes-2.43/MasterBayes/inst/doc/Figures/Tutorial-050.pdf |only MasterBayes-2.43/MasterBayes/inst/doc/Figures/Tutorial-model.DSconfig.pdf |only MasterBayes-2.44/MasterBayes/DESCRIPTION | 8 MasterBayes-2.44/MasterBayes/R/ErrorCheck.R | 59 MasterBayes-2.44/MasterBayes/R/MCMCped.R | 21 MasterBayes-2.44/MasterBayes/R/MLE.beta.R | 4 MasterBayes-2.44/MasterBayes/R/MLE.ped.R | 56 MasterBayes-2.44/MasterBayes/R/MLE.popsize.R | 2 MasterBayes-2.44/MasterBayes/R/PedClasses.R | 14 MasterBayes-2.44/MasterBayes/R/autocorrP.R | 2 MasterBayes-2.44/MasterBayes/R/beta.loglik.R | 2 MasterBayes-2.44/MasterBayes/R/extractA.R | 2 MasterBayes-2.44/MasterBayes/R/fillX.G.R | 10 MasterBayes-2.44/MasterBayes/R/genotype.list.R | 4 MasterBayes-2.44/MasterBayes/R/getPost.R | 5 MasterBayes-2.44/MasterBayes/R/getXlist.R | 15 MasterBayes-2.44/MasterBayes/R/getsPandtP.R | 55 MasterBayes-2.44/MasterBayes/R/legalG.R | 13 MasterBayes-2.44/MasterBayes/R/mismatches.R | 2 MasterBayes-2.44/MasterBayes/R/modeG.R | 2 MasterBayes-2.44/MasterBayes/R/modeP.R | 14 MasterBayes-2.44/MasterBayes/R/orderPed.R | 2 MasterBayes-2.44/MasterBayes/R/popsize.loglik.R | 2 MasterBayes-2.44/MasterBayes/R/post.pairs.R | 2 MasterBayes-2.44/MasterBayes/R/reordXlist.R | 2 MasterBayes-2.44/MasterBayes/R/simgenotypes.R | 39 MasterBayes-2.44/MasterBayes/R/simpedigree.R | 2 MasterBayes-2.44/MasterBayes/R/varPed.R | 56 MasterBayes-2.44/MasterBayes/inst/doc/Figures/Tutorial.Rnw | 323 MasterBayes-2.44/MasterBayes/inst/doc/Rplots.pdf |1128191 +++------- MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-006.pdf | 4 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-007.pdf | 4 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-008.pdf | 4 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-009.pdf | 4 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-022.eps | 6043 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-022.pdf | 7050 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-023.eps |only MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-023.pdf |only 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MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-MGped.pdf | 7046 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.DSconfig.eps |10714 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.DSconfig.pdf | 7800 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.INT.cntr.eps |23123 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.INT.cntr.pdf |21065 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.INT.eps |15660 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.INT.pdf |21009 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.ass.mat.approx.eps |only MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.ass.mat.approx.pdf |only MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.ass.mat.eps | 6586 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.ass.mat.pdf | 7036 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.config.eps | 6222 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.config.pdf | 6556 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss.eps | 6726 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss.pdf | 7031 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss2.eps | 6021 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss2.pdf | 7003 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss2US.eps | 5664 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.miss2US.pdf | 6556 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.missTest.eps | 6729 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.missTest.pdf | 7014 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.missUS.eps | 6068 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.missUS.pdf | 6828 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.pedEE2.eps | 6261 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model.pedEE2.pdf | 6560 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model2beta.eps | 6149 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model2beta.pdf | 7062 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model3beta.eps | 5878 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model3beta.pdf | 7057 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model4US.eps | 5641 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model4US.pdf | 6552 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model5.eps |17341 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model5.pdf |20043 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model6US.eps | 6178 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-model6US.pdf | 6544 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-mon1.eps |11137 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-mon1.pdf |13993 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-mon2.eps |19838 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-mon2.pdf |14075 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-ys.eps | 6499 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial-ys.pdf | 7076 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial.Rnw | 618 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial.bbl | 9 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial.blg | 58 MasterBayes-2.44/MasterBayes/inst/doc/Tutorial.pdf |232383 +- MasterBayes-2.44/MasterBayes/inst/doc/Tutorial.tex |only MasterBayes-2.44/MasterBayes/man/GdataPed.Rd | 14 MasterBayes-2.44/MasterBayes/man/MCMCped.Rd | 3 MasterBayes-2.44/MasterBayes/man/MLE.beta.Rd | 5 MasterBayes-2.44/MasterBayes/man/MLE.ped.Rd | 6 MasterBayes-2.44/MasterBayes/man/MLE.popsize.Rd | 3 MasterBayes-2.44/MasterBayes/man/MasterBayes.Rd | 13 MasterBayes-2.44/MasterBayes/man/PdataPed.Rd | 2 MasterBayes-2.44/MasterBayes/man/autocorrP.Rd | 9 MasterBayes-2.44/MasterBayes/man/beta.loglik.Rd | 11 MasterBayes-2.44/MasterBayes/man/extractA.Rd | 5 MasterBayes-2.44/MasterBayes/man/fillX.G.Rd | 18 MasterBayes-2.44/MasterBayes/man/genotype.list.Rd | 10 MasterBayes-2.44/MasterBayes/man/getXlist.Rd | 15 MasterBayes-2.44/MasterBayes/man/legalG.Rd | 14 MasterBayes-2.44/MasterBayes/man/mismatches.Rd | 3 MasterBayes-2.44/MasterBayes/man/modeG.Rd | 3 MasterBayes-2.44/MasterBayes/man/modeP.Rd | 7 MasterBayes-2.44/MasterBayes/man/orderPed.Rd | 3 MasterBayes-2.44/MasterBayes/man/popsize.loglik.Rd | 3 MasterBayes-2.44/MasterBayes/man/post.pairs.Rd | 3 MasterBayes-2.44/MasterBayes/man/priorPed.Rd | 7 MasterBayes-2.44/MasterBayes/man/reordXlist.Rd | 5 MasterBayes-2.44/MasterBayes/man/simgenotypes.Rd | 20 MasterBayes-2.44/MasterBayes/man/simpedigree.Rd | 3 MasterBayes-2.44/MasterBayes/man/startPed.Rd | 22 MasterBayes-2.44/MasterBayes/man/summary.genotypeD.Rd | 2 MasterBayes-2.44/MasterBayes/man/tunePed.Rd | 7 MasterBayes-2.44/MasterBayes/man/varPed.Rd | 5 MasterBayes-2.44/MasterBayes/src/ErrorMat.cc | 63 MasterBayes-2.44/MasterBayes/src/ErrorMat.h | 10 MasterBayes-2.44/MasterBayes/src/LikFunctions.cc | 80 MasterBayes-2.44/MasterBayes/src/LikFunctions.h | 2 MasterBayes-2.44/MasterBayes/src/MCMCped.cc | 58 MasterBayes-2.44/MasterBayes/src/MCMCped.h | 4 MasterBayes-2.44/MasterBayes/src/Read_in_data.cc | 2 MasterBayes-2.44/MasterBayes/src/SampG.cc | 2 MasterBayes-2.44/MasterBayes/src/SampGC.cc |only MasterBayes-2.44/MasterBayes/src/SampGC.h |only MasterBayes-2.44/MasterBayes/src/SampP.cc | 2 MasterBayes-2.44/MasterBayes/src/SampS.cc | 2 MasterBayes-2.44/MasterBayes/src/calcX_G.cc | 12 MasterBayes-2.44/MasterBayes/src/calcX_G.h | 3 MasterBayes-2.44/MasterBayes/src/calcX_GD.cc | 12 MasterBayes-2.44/MasterBayes/src/calcX_GS.cc | 12 MasterBayes-2.44/MasterBayes/src/calcX_Gcervus.cc | 453 MasterBayes-2.44/MasterBayes/src/fillXG.cc | 14 MasterBayes-2.44/MasterBayes/src/legalG.cc | 10 258 files changed, 907997 insertions(+), 1272058 deletions(-)
Author: Campo Elias Pardo
Diff between FactoClass versions 0.7.7 dated 2009-05-06 and 1.0.1 dated 2009-07-21
Title: Combination of Factorial Methods and Cluster Analysis
Description: Multivariate exploration of a data table with factorial
analysis and cluster methods.
DESCRIPTION | 10 +++++-----
R/FactoClass.R | 2 ++
R/centroids.R |only
R/planfac.R | 6 +++---
R/plotFactoClass.R | 8 ++++----
R/stableclus.R |only
R/zzz.R | 8 +-------
man/centroids.Rd |only
man/planfac.Rd | 22 ++++++++++++++--------
man/plotFactoClass.Rd | 4 +++-
man/stableclus.Rd |only
11 files changed, 32 insertions(+), 28 deletions(-)
Author: Andrej-Nikolai Spiess
Diff between qpcR versions 1.1-8 dated 2009-03-27 and 1.2-0 dated 2009-07-21
Title: Modelling and analysis of real-time PCR data
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).
qpcR-1.1-8/qpcR/R/ERBCP.R |only
qpcR-1.1-8/qpcR/R/REST.r |only
qpcR-1.1-8/qpcR/R/calib.R |only
qpcR-1.1-8/qpcR/R/confband.R |only
qpcR-1.1-8/qpcR/R/deriv2.b.R |only
qpcR-1.1-8/qpcR/R/deriv2.l.R |only
qpcR-1.1-8/qpcR/R/drmfit.r |only
qpcR-1.1-8/qpcR/R/expGrowth.R |only
qpcR-1.1-8/qpcR/R/mchoice.R |only
qpcR-1.1-8/qpcR/R/pcrfit.R |only
qpcR-1.1-8/qpcR/R/pcrpred.R |only
qpcR-1.1-8/qpcR/R/ratiocalc.R |only
qpcR-1.1-8/qpcR/R/ratiocalc.modlist.R |only
qpcR-1.1-8/qpcR/R/ratiocalc.pcrbatch.R |only
qpcR-1.1-8/qpcR/R/ratioplot.R |only
qpcR-1.1-8/qpcR/R/repform.R |only
qpcR-1.1-8/qpcR/R/residplot.R |only
qpcR-1.1-8/qpcR/R/studtest.R |only
qpcR-1.1-8/qpcR/R/typeid.R |only
qpcR-1.1-8/qpcR/man/LR.Rd |only
qpcR-1.1-8/qpcR/man/REST.rd |only
qpcR-1.1-8/qpcR/man/confband.Rd |only
qpcR-1.1-8/qpcR/man/drmfit.rd |only
qpcR-1.1-8/qpcR/man/mchoice.Rd |only
qpcR-1.1-8/qpcR/man/pcrpred.Rd |only
qpcR-1.1-8/qpcR/man/ratioplot.Rd |only
qpcR-1.1-8/qpcR/man/repform.Rd |only
qpcR-1.1-8/qpcR/man/residplot.Rd |only
qpcR-1.2-0/qpcR/DESCRIPTION | 10
qpcR-1.2-0/qpcR/NAMESPACE | 45 +++
qpcR-1.2-0/qpcR/R/AICc.R | 10
qpcR-1.2-0/qpcR/R/Cy0.R | 35 +-
qpcR-1.2-0/qpcR/R/LR.r | 3
qpcR-1.2-0/qpcR/R/PRESS.R | 61 ++--
qpcR-1.2-0/qpcR/R/Rsq.R | 7
qpcR-1.2-0/qpcR/R/Rsq.ad.r |only
qpcR-1.2-0/qpcR/R/Rsq.cor.r |only
qpcR-1.2-0/qpcR/R/calib.r |only
qpcR-1.2-0/qpcR/R/calib2.r | 293 +++++++++--------------
qpcR-1.2-0/qpcR/R/curvemean.R | 75 ++---
qpcR-1.2-0/qpcR/R/eff.R | 42 +--
qpcR-1.2-0/qpcR/R/efficiency.R | 220 +++++++++--------
qpcR-1.2-0/qpcR/R/evidence.R | 26 --
qpcR-1.2-0/qpcR/R/expcomp.R | 43 +--
qpcR-1.2-0/qpcR/R/expfit.R | 31 +-
qpcR-1.2-0/qpcR/R/maxRatio.r | 13 -
qpcR-1.2-0/qpcR/R/midpoint.R | 10
qpcR-1.2-0/qpcR/R/modlist.R | 76 +++---
qpcR-1.2-0/qpcR/R/mselect.r |only
qpcR-1.2-0/qpcR/R/outlier.R | 30 +-
qpcR-1.2-0/qpcR/R/pcrGOF.R | 2
qpcR-1.2-0/qpcR/R/pcrbatch.R | 205 ++++++++--------
qpcR-1.2-0/qpcR/R/pcrfit.r |only
qpcR-1.2-0/qpcR/R/pcropt1.R | 92 ++++---
qpcR-1.2-0/qpcR/R/pcropt2.R |only
qpcR-1.2-0/qpcR/R/pcrplot.R | 402 ++------------------------------
qpcR-1.2-0/qpcR/R/pcrpred.r |only
qpcR-1.2-0/qpcR/R/propagate.R | 224 ++++++++++++-----
qpcR-1.2-0/qpcR/R/ratiocalc.r |only
qpcR-1.2-0/qpcR/R/resplot.R |only
qpcR-1.2-0/qpcR/R/rnls.r |only
qpcR-1.2-0/qpcR/R/sliwin.R | 77 +++---
qpcR-1.2-0/qpcR/data/qpcR_functions.rda |only
qpcR-1.2-0/qpcR/man/AICc.Rd | 10
qpcR-1.2-0/qpcR/man/Cy0.rd | 43 +--
qpcR-1.2-0/qpcR/man/LR.rd |only
qpcR-1.2-0/qpcR/man/PRESS.Rd | 43 ---
qpcR-1.2-0/qpcR/man/RMSE.Rd | 12
qpcR-1.2-0/qpcR/man/RSS.Rd | 10
qpcR-1.2-0/qpcR/man/Rsq.Rd | 17 -
qpcR-1.2-0/qpcR/man/Rsq.ad.rd |only
qpcR-1.2-0/qpcR/man/Rsq.cor.rd |only
qpcR-1.2-0/qpcR/man/S27.Rd | 2
qpcR-1.2-0/qpcR/man/akaike.weights.Rd | 12
qpcR-1.2-0/qpcR/man/calib.Rd | 143 ++++++-----
qpcR-1.2-0/qpcR/man/calib2.rd | 100 +++----
qpcR-1.2-0/qpcR/man/curvemean.Rd | 20 -
qpcR-1.2-0/qpcR/man/eff.Rd | 30 +-
qpcR-1.2-0/qpcR/man/efficiency.Rd | 99 ++++---
qpcR-1.2-0/qpcR/man/evidence.Rd | 29 +-
qpcR-1.2-0/qpcR/man/expcomp.Rd | 20 -
qpcR-1.2-0/qpcR/man/expfit.Rd | 46 +--
qpcR-1.2-0/qpcR/man/guescini1.Rd | 11
qpcR-1.2-0/qpcR/man/guescini2.Rd | 17 -
qpcR-1.2-0/qpcR/man/maxRatio.rd | 14 -
qpcR-1.2-0/qpcR/man/midpoint.rd |only
qpcR-1.2-0/qpcR/man/modlist.Rd | 57 ++--
qpcR-1.2-0/qpcR/man/mselect.Rd |only
qpcR-1.2-0/qpcR/man/outlier.rd |only
qpcR-1.2-0/qpcR/man/pcrGOF.Rd | 15 -
qpcR-1.2-0/qpcR/man/pcrbatch.Rd | 40 +--
qpcR-1.2-0/qpcR/man/pcrfit.Rd | 56 ++--
qpcR-1.2-0/qpcR/man/pcrimport.Rd | 13 -
qpcR-1.2-0/qpcR/man/pcropt1.Rd | 42 +--
qpcR-1.2-0/qpcR/man/pcropt2.rd |only
qpcR-1.2-0/qpcR/man/pcrplot.Rd | 95 ++-----
qpcR-1.2-0/qpcR/man/pcrpred.rd |only
qpcR-1.2-0/qpcR/man/propagate.Rd | 199 ++++++++++-----
qpcR-1.2-0/qpcR/man/qpcR_functions.rd |only
qpcR-1.2-0/qpcR/man/ratiocalc.Rd | 243 ++++++++++++-------
qpcR-1.2-0/qpcR/man/reps.Rd | 9
qpcR-1.2-0/qpcR/man/reps2.Rd | 11
qpcR-1.2-0/qpcR/man/reps3.Rd | 10
qpcR-1.2-0/qpcR/man/resVar.Rd | 10
qpcR-1.2-0/qpcR/man/resplot.Rd |only
qpcR-1.2-0/qpcR/man/rutledge.Rd | 6
qpcR-1.2-0/qpcR/man/sliwin.Rd | 20 -
107 files changed, 1711 insertions(+), 1825 deletions(-)
Author: Gaston Sanchez
Diff between plspm versions 0.1-3 dated 2009-05-19 and 0.1-4 dated 2009-07-21
Title: Partial Least Squares data analysis methods
Description: Partial Least Squares (PLS) methods with emphasis on
structural equation models with latent variables.
DESCRIPTION | 12 +-
R/GQI.R |only
R/it.reb.R |only
R/local.models.R |only
R/locals.test.R |only
R/nipals.R | 17 +--
R/plot.plsca.R | 2
R/plot.plspm.groups.R | 3
R/pls.boot.R |only
R/pls.efects.R | 5
R/pls.gof.R |only
R/pls.loads.R | 17 +--
R/pls.paths.R | 6 -
R/pls.unidim.R |only
R/pls.weights.R | 41 ++++---
R/plsca.R | 9 -
R/plspm.R | 241 ++++++++++++----------------------------------
R/plspm.groups.R | 142 ++++++++++++---------------
R/plsr1.R | 6 -
R/plsreg1.R | 9 -
R/plsreg2.R | 7 -
R/print.local.models.R |only
R/print.plspm.R | 7 -
R/print.plspm.groups.R | 6 -
R/print.rebus.R |only
R/print.rebus.test.R |only
R/print.summary.plspm.R | 14 +-
R/rebus.pls.R |only
R/rebus.test.R |only
R/res.clus.R |only
R/summary.plspm.R | 16 +--
data/mobile.rda |only
data/sim.data.rda |only
man/arizona.Rd | 2
man/it.reb.Rd |only
man/local.models.Rd |only
man/mobile.Rd |only
man/plot.plspm.groups.Rd | 6 -
man/plot.plsreg1.Rd | 2
man/plot.plsreg2.Rd | 2
man/plspm-internal.Rd | 5
man/plspm-package.Rd | 12 +-
man/plspm.Rd | 12 +-
man/plspm.groups.Rd | 11 --
man/plsreg1.Rd | 2
man/plsreg2.Rd | 2
man/print.local.models.Rd |only
man/print.plspm.groups.Rd | 2
man/print.plsreg2.Rd | 2
man/print.rebus.Rd |only
man/print.rebus.test.Rd |only
man/rebus.pls.Rd |only
man/rebus.test.Rd |only
man/res.clus.Rd |only
man/sim.data.Rd |only
55 files changed, 261 insertions(+), 359 deletions(-)
Author: Klaus Schliep
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Diff between phangorn versions 0.0-5 dated 2009-01-22 and 0.99-2 dated 2009-07-21
phangorn-0.0-5/phangorn/Changes |only phangorn-0.99-2/phangorn/ChangeLog |only phangorn-0.99-2/phangorn/DESCRIPTION | 28 phangorn-0.99-2/phangorn/NAMESPACE | 74 - phangorn-0.99-2/phangorn/R/phylo.R | 1383 ++++++++++++++++---------- phangorn-0.99-2/phangorn/R/sysdata.rda |only phangorn-0.99-2/phangorn/inst |only phangorn-0.99-2/phangorn/man/NJ.Rd | 2 phangorn-0.99-2/phangorn/man/SH.test.Rd |only phangorn-0.99-2/phangorn/man/allTrees.Rd | 3 phangorn-0.99-2/phangorn/man/bootstrap.pml.Rd |only phangorn-0.99-2/phangorn/man/designTree.Rd | 1 phangorn-0.99-2/phangorn/man/parsimony.Rd | 9 phangorn-0.99-2/phangorn/man/phyDat.Rd | 20 phangorn-0.99-2/phangorn/man/pmlCluster.Rd | 12 phangorn-0.99-2/phangorn/man/read.aa.Rd | 2 phangorn-0.99-2/phangorn/man/simSeq.Rd |only phangorn-0.99-2/phangorn/man/splitsNetwork.Rd | 6 phangorn-0.99-2/phangorn/man/treedist.Rd | 9 phangorn-0.99-2/phangorn/man/upgma.Rd | 2 phangorn-0.99-2/phangorn/src/init.c | 2 phangorn-0.99-2/phangorn/src/phangorn.c | 238 +++- phangorn-0.99-2/phangorn/src/phangorn.h | 5 23 files changed, 1155 insertions(+), 641 deletions(-)
Author: Kimihiro Noguchi
Diff between lawstat versions 2.2 dated 2007-11-14 and 2.3 dated 2009-07-21
Title: An R package for biostatistics, public policy, and law
Description: An R software package on statistical tests widely utilized
in biostatistics, public policy and law. Along with the well
known tests for equality of means and variances, randomness,
measures of relative variability etc, the package contains new
robust tests of symmetry, omnibus and directional tests of
normality, and their graphical counterparts such as Robust QQ
plot; a robust trend tests for variances etc. All implemented
tests and methods are illustrated by simulations and real-life
examples from legal statistics, economics, and biostatistics.
DESCRIPTION | 43 +-
R/bartels.test.R | 2
R/brunner.munzel.test.R | 3
R/cd.R | 3
R/cmh.test.R | 8
R/gini.index.R | 3
R/j.maad.R | 2
R/laplace.test.R |only
R/levene.test.R | 488 ++++++++++++++++++++++++++++--
R/lnested.test.R |only
R/lorenz.curve.R | 3
R/ltrend.test.R | 677 ++++++++++++++++++++++++++++++++++++++----
R/mma.test.R |only
R/neuhauser.hothorn.test.R |only
R/nig.parameter.R |only
R/rjb.test.R | 5
R/rlm.test.R |only
R/robust.mmm.test.R |only
R/rqq.R | 5
R/runs.test.R | 2
R/sj.test.R | 2
R/symmetry.test.R | 5
man/bartels.test.Rd | 6
man/brunner.munzel.test.Rd | 1
man/cd.Rd | 2
man/cmh.test.Rd | 13
man/gini.index.Rd | 4
man/laplace.test.Rd |only
man/levene.test.Rd | 95 ++++-
man/lnested.test.Rd |only
man/lorenz.curve.Rd | 1
man/ltrend.test.Rd | 110 +++++-
man/michigan.Rd | 2
man/mma.test.Rd |only
man/neuhauser.hothorn.test.Rd |only
man/nig.parameter.Rd |only
man/rjb.test.Rd | 6
man/rlm.test.Rd |only
man/robust.mmm.test.Rd |only
man/sj.test.Rd | 6
man/zuni.Rd | 2
41 files changed, 1311 insertions(+), 188 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.tr versions 2.0-0 dated 2009-04-03 and 3.0-0 dated 2009-07-21
Title: Generating and fitting truncated (gamlss.family) distributions
Description: This is an add on package to GAMLSS. The purpose of this
package is to allow users to defined truncated distributions in
GAMLSS models. The main function gen.trun() generates truncated
version of an existing GAMLSS family distribution.
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.nl versions 2.0-0 dated 2009-04-03 and 3.0-0 dated 2009-07-21
Title: Fitting non linear parametric GAMLSS models
Description: This is an add on package to GAMLSS. It allows one extra
method for fitting GAMLSS models. The main function nlgamlss()
can fit any parametric (up to four parameter) GAMLSS
distribution.
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.mx versions 2.0-0 dated 2009-04-03 and 3.0-0 dated 2009-07-21
Title: A GAMLSS add on package for fitting mixture distributions
Description: The main purpose of this package is to allow fitting of
mixture distributions with GAMLSS models.
DESCRIPTION | 8 ++++----
R/gamlssMX-10-11-07.R | 18 ++++++++++++++++--
2 files changed, 20 insertions(+), 6 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.dist versions 2.0-0 dated 2009-04-03 and 3.0-0 dated 2009-07-21
Title: Distributions to be used for GAMLSS modelling.
Description: This package contains the distributions for GAMLSS
modelling.
gamlss.dist-2.0-0/gamlss.dist/data |only
gamlss.dist-2.0-0/gamlss.dist/man/CD4.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/LGAclaims.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/alveolar.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/computer.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/glass.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/lice.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/margolin.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/parzen.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/species.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/stylo.Rd |only
gamlss.dist-2.0-0/gamlss.dist/man/tensile.Rd |only
gamlss.dist-2.0-0/gamlss.dist/tests/checkDist.R |only
gamlss.dist-3.0-0/gamlss.dist/DESCRIPTION | 18 ++---
gamlss.dist-3.0-0/gamlss.dist/NAMESPACE | 50 +++++++++++----
gamlss.dist-3.0-0/gamlss.dist/R/BB.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BCCG.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BCPE.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BCT.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BE.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BEINF.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BEo.R |only
gamlss.dist-3.0-0/gamlss.dist/R/BI.R |only
gamlss.dist-3.0-0/gamlss.dist/R/DELAPORT.R | 16 ++--
gamlss.dist-3.0-0/gamlss.dist/R/GA.R |only
gamlss.dist-3.0-0/gamlss.dist/R/GIG.R | 8 +-
gamlss.dist-3.0-0/gamlss.dist/R/GU.R |only
gamlss.dist-3.0-0/gamlss.dist/R/IG.R |only
gamlss.dist-3.0-0/gamlss.dist/R/JSU.R |only
gamlss.dist-3.0-0/gamlss.dist/R/JSUo.R |only
gamlss.dist-3.0-0/gamlss.dist/R/LNO.R |only
gamlss.dist-3.0-0/gamlss.dist/R/Logistic.R |only
gamlss.dist-3.0-0/gamlss.dist/R/NBI.R |only
gamlss.dist-3.0-0/gamlss.dist/R/NBII.R |only
gamlss.dist-3.0-0/gamlss.dist/R/NET.R |only
gamlss.dist-3.0-0/gamlss.dist/R/NO.r |only
gamlss.dist-3.0-0/gamlss.dist/R/PE.R |only
gamlss.dist-3.0-0/gamlss.dist/R/PE2.R |only
gamlss.dist-3.0-0/gamlss.dist/R/PIG.R |only
gamlss.dist-3.0-0/gamlss.dist/R/RG.R |only
gamlss.dist-3.0-0/gamlss.dist/R/SEP.R |only
gamlss.dist-3.0-0/gamlss.dist/R/SI.R |only
gamlss.dist-3.0-0/gamlss.dist/R/SICHEL.R | 10 +--
gamlss.dist-3.0-0/gamlss.dist/R/ST1.R | 4 -
gamlss.dist-3.0-0/gamlss.dist/R/TF.R |only
gamlss.dist-3.0-0/gamlss.dist/R/WEI.R |only
gamlss.dist-3.0-0/gamlss.dist/R/WEI2.R |only
gamlss.dist-3.0-0/gamlss.dist/R/ZAGA.R |only
gamlss.dist-3.0-0/gamlss.dist/R/ZAIG.R |only
gamlss.dist-3.0-0/gamlss.dist/R/ZIP.R |only
gamlss.dist-3.0-0/gamlss.dist/R/checkBCPE.R |only
gamlss.dist-3.0-0/gamlss.dist/R/gamlss-family.R |only
gamlss.dist-3.0-0/gamlss.dist/R/logNO.R |only
gamlss.dist-3.0-0/gamlss.dist/R/make-link-gamlss-new.R |only
gamlss.dist-3.0-0/gamlss.dist/R/po.r |only
gamlss.dist-3.0-0/gamlss.dist/man/BB.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BCCG.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BCPE.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BCt.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BE.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BEINF.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/BEOI.Rd | 17 ++---
gamlss.dist-3.0-0/gamlss.dist/man/BEZI.Rd | 19 +++--
gamlss.dist-3.0-0/gamlss.dist/man/BI.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/DEL.Rd | 7 +-
gamlss.dist-3.0-0/gamlss.dist/man/EGB2.Rd | 5 -
gamlss.dist-3.0-0/gamlss.dist/man/EXP.Rd | 7 +-
gamlss.dist-3.0-0/gamlss.dist/man/GA.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/GB1.Rd | 3
gamlss.dist-3.0-0/gamlss.dist/man/GB2.Rd | 6 -
gamlss.dist-3.0-0/gamlss.dist/man/GG.Rd | 10 +--
gamlss.dist-3.0-0/gamlss.dist/man/GIG.Rd | 4 -
gamlss.dist-3.0-0/gamlss.dist/man/GT.Rd | 6 -
gamlss.dist-3.0-0/gamlss.dist/man/GU.rd |only
gamlss.dist-3.0-0/gamlss.dist/man/IG.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/JSU.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/JSUoriginal.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/LNO.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/LOGISTIC.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NBI.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NBII.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NET.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NO.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NO2.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/NOF.Rd | 23 +++---
gamlss.dist-3.0-0/gamlss.dist/man/PE.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/PIG.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/PO.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/RG.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/RGE.Rd | 6 -
gamlss.dist-3.0-0/gamlss.dist/man/SEP.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/SEP1.Rd | 18 ++---
gamlss.dist-3.0-0/gamlss.dist/man/SHASH.Rd | 6 +
gamlss.dist-3.0-0/gamlss.dist/man/SI.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/SICHEL.Rd | 5 -
gamlss.dist-3.0-0/gamlss.dist/man/ST1.Rd | 16 ++--
gamlss.dist-3.0-0/gamlss.dist/man/TF.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/WEI.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/WEI2.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/WEI3.Rd | 5 -
gamlss.dist-3.0-0/gamlss.dist/man/ZAGA.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/ZAIG.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/ZIP.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/ZIP2.Rd | 11 +--
gamlss.dist-3.0-0/gamlss.dist/man/checklink.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/exGAUS.Rd | 10 +--
gamlss.dist-3.0-0/gamlss.dist/man/gamlss.dist.package.Rd | 6 -
gamlss.dist-3.0-0/gamlss.dist/man/gamlss.family.Rd |only
gamlss.dist-3.0-0/gamlss.dist/man/make.link.gamlss.Rd |only
gamlss.dist-3.0-0/gamlss.dist/src/tofy.f |only
gamlss.dist-3.0-0/gamlss.dist/src/tofys.f |only
111 files changed, 171 insertions(+), 125 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss.cens versions 2.0.0 dated 2009-04-03 and 3.0.0 dated 2009-07-21
Title: Fitting an interval response variable using gamlss.family
distributions
Description: This is an add on package to GAMLSS. The purpose of this
package is to allow users to fit interval response variables in
GAMLSS models. The main function gen.cens() generates a
censored version of an existing GAMLSS family distribution.
DESCRIPTION | 8 ++++----
1 file changed, 4 insertions(+), 4 deletions(-)
Author: Mikis Stasinopoulos
Diff between gamlss versions 2.0-0 dated 2009-04-03 and 3.0-0 dated 2009-07-21
Title: Generalized Additive Models for Location Scale and Shape.
Description: The library for fitting GAMLSS models.
gamlss-2.0-0/gamlss/R/BB.R |only
gamlss-2.0-0/gamlss/R/BCCG.R |only
gamlss-2.0-0/gamlss/R/BCPE.R |only
gamlss-2.0-0/gamlss/R/BCT.R |only
gamlss-2.0-0/gamlss/R/BE.R |only
gamlss-2.0-0/gamlss/R/BEINF.R |only
gamlss-2.0-0/gamlss/R/BEo.R |only
gamlss-2.0-0/gamlss/R/BI.R |only
gamlss-2.0-0/gamlss/R/GA.R |only
gamlss-2.0-0/gamlss/R/GU.R |only
gamlss-2.0-0/gamlss/R/IG.R |only
gamlss-2.0-0/gamlss/R/JSU.R |only
gamlss-2.0-0/gamlss/R/JSUo.R |only
gamlss-2.0-0/gamlss/R/LNO.R |only
gamlss-2.0-0/gamlss/R/Logistic.R |only
gamlss-2.0-0/gamlss/R/NBI.R |only
gamlss-2.0-0/gamlss/R/NBII.R |only
gamlss-2.0-0/gamlss/R/NET.R |only
gamlss-2.0-0/gamlss/R/NO.r |only
gamlss-2.0-0/gamlss/R/PE.R |only
gamlss-2.0-0/gamlss/R/PE2.R |only
gamlss-2.0-0/gamlss/R/PIG.R |only
gamlss-2.0-0/gamlss/R/RG.R |only
gamlss-2.0-0/gamlss/R/SEP.R |only
gamlss-2.0-0/gamlss/R/SI.R |only
gamlss-2.0-0/gamlss/R/TF.R |only
gamlss-2.0-0/gamlss/R/WEI.R |only
gamlss-2.0-0/gamlss/R/WEI2.R |only
gamlss-2.0-0/gamlss/R/ZAIG.R |only
gamlss-2.0-0/gamlss/R/ZIP.R |only
gamlss-2.0-0/gamlss/R/checkBCPE.R |only
gamlss-2.0-0/gamlss/R/logNO.R |only
gamlss-2.0-0/gamlss/R/make-link-gamlss-new.R |only
gamlss-2.0-0/gamlss/R/po.r |only
gamlss-2.0-0/gamlss/R/predict-gamlss.R |only
gamlss-2.0-0/gamlss/data |only
gamlss-2.0-0/gamlss/man/BB.Rd |only
gamlss-2.0-0/gamlss/man/BCCG.Rd |only
gamlss-2.0-0/gamlss/man/BCPE.Rd |only
gamlss-2.0-0/gamlss/man/BCt.Rd |only
gamlss-2.0-0/gamlss/man/BE.Rd |only
gamlss-2.0-0/gamlss/man/BEINF.Rd |only
gamlss-2.0-0/gamlss/man/BI.Rd |only
gamlss-2.0-0/gamlss/man/GA.Rd |only
gamlss-2.0-0/gamlss/man/GU.rd |only
gamlss-2.0-0/gamlss/man/IG.Rd |only
gamlss-2.0-0/gamlss/man/JSU.Rd |only
gamlss-2.0-0/gamlss/man/JSUoriginal.Rd |only
gamlss-2.0-0/gamlss/man/LNO.Rd |only
gamlss-2.0-0/gamlss/man/LOGISTIC.Rd |only
gamlss-2.0-0/gamlss/man/Mums.Rd |only
gamlss-2.0-0/gamlss/man/NBI.Rd |only
gamlss-2.0-0/gamlss/man/NBII.Rd |only
gamlss-2.0-0/gamlss/man/NET.Rd |only
gamlss-2.0-0/gamlss/man/NO.Rd |only
gamlss-2.0-0/gamlss/man/NO2.Rd |only
gamlss-2.0-0/gamlss/man/PE.Rd |only
gamlss-2.0-0/gamlss/man/PIG.Rd |only
gamlss-2.0-0/gamlss/man/PO.Rd |only
gamlss-2.0-0/gamlss/man/RG.Rd |only
gamlss-2.0-0/gamlss/man/SEP.Rd |only
gamlss-2.0-0/gamlss/man/SI.Rd |only
gamlss-2.0-0/gamlss/man/TF.Rd |only
gamlss-2.0-0/gamlss/man/WEI.Rd |only
gamlss-2.0-0/gamlss/man/WEI2.Rd |only
gamlss-2.0-0/gamlss/man/ZAIG.Rd |only
gamlss-2.0-0/gamlss/man/ZIP.Rd |only
gamlss-2.0-0/gamlss/man/abdom.Rd |only
gamlss-2.0-0/gamlss/man/aep.Rd |only
gamlss-2.0-0/gamlss/man/aids.Rd |only
gamlss-2.0-0/gamlss/man/bd.Rd |only
gamlss-2.0-0/gamlss/man/checklink.Rd |only
gamlss-2.0-0/gamlss/man/fabric.Rd |only
gamlss-2.0-0/gamlss/man/gamlss.family.Rd |only
gamlss-2.0-0/gamlss/man/hodges.Rd |only
gamlss-2.0-0/gamlss/man/make.link.gamlss.Rd |only
gamlss-2.0-0/gamlss/man/rent.Rd |only
gamlss-2.0-0/gamlss/man/usair.Rd |only
gamlss-2.0-0/gamlss/src |only
gamlss-3.0-0/gamlss/DESCRIPTION | 13 +-
gamlss-3.0-0/gamlss/NAMESPACE | 43 -------
gamlss-3.0-0/gamlss/R/add.r | 5
gamlss-3.0-0/gamlss/R/centile-pred.R | 8 -
gamlss-3.0-0/gamlss/R/cs.R | 2
gamlss-3.0-0/gamlss/R/cy.R | 4
gamlss-3.0-0/gamlss/R/extra.R | 160 ---------------------------
gamlss-3.0-0/gamlss/R/gamlss.R | 40 +++---
gamlss-3.0-0/gamlss/R/pb.R | 4
gamlss-3.0-0/gamlss/R/predict.gamlss.R |only
gamlss-3.0-0/gamlss/R/term-plot.R | 1
gamlss-3.0-0/gamlss/inst/CITATION |only
gamlss-3.0-0/gamlss/inst/doc/NEWS.txt | 17 ++
gamlss-3.0-0/gamlss/man/VGD.Rd | 4
gamlss-3.0-0/gamlss/man/bfp.Rd | 2
gamlss-3.0-0/gamlss/man/cs.Rd | 4
gamlss-3.0-0/gamlss/man/deviance.gamlss.Rd | 2
gamlss-3.0-0/gamlss/man/gamlss.Rd | 10 -
gamlss-3.0-0/gamlss/man/gamlss.package.Rd | 2
gamlss-3.0-0/gamlss/man/histDist.Rd | 2
gamlss-3.0-0/gamlss/man/pdf.plot.Rd | 10 -
gamlss-3.0-0/gamlss/man/ps.Rd | 4
101 files changed, 87 insertions(+), 250 deletions(-)
Author: Hsin-ya Lee
Diff between bear versions 2.3.1 dated 2009-04-14 and 2.4.0 dated 2009-07-21
Title: Average bioequivalence and bioavailability data analysis tool
Description: An average bioequivalence (ABE) and bioavailability data
analysis tool including sample size estimation,
noncompartmental analysis (NCA), ANOVA (lm) for a standard
RT/TR 2x2x2 crossover design and linear mixed effect model (lme
of nlme) for a 2-treatment, 2-sequence, with 2 periods or more
(i.e. 2x2x3/2x2x4) replicate design or a 2-treatment,
2-sequence, and 1-period parallel ABE study (2x2x1).
DESCRIPTION | 10
R/ARS.r | 329 +++++++--
R/BANOVA.r | 500 +++++++++++++-
R/BANOVAanalyze.r | 102 ++
R/BANOVAcsv.r | 315 +++++++-
R/BANOVAdata.r | 250 +++++--
R/BANOVAmenu.r | 19
R/BANOVAoutput.r | 86 ++
R/BANOVAplot.r | 119 ++-
R/Multiple1menu.r |only
R/MultipleAIC_BANOVA.r |only
R/MultipleAICdemo.r |only
R/MultipleAICoutput.r |only
R/MultipleARS.BANOVA.r |only
R/MultipleARS.r |only
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R/MultipleARSoutput.r |only
R/MultipleBANOVA.r |only
R/MultipleBANOVAanalyze.r |only
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R/MultipledemoBANOVA.r |only
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R/Multipledemomenu1.r |only
R/Multiplego.r |only
R/Multiplemenu.r | 44 +
R/Multiplentertitle.demo.r |only
R/Multiplentertitle.r |only
R/Multipleplotsingle.para.r |only
R/Multipleplotsingle.r |only
R/Multiplestat1menu.r |only
R/Multiplestatmenu.r | 40 +
R/NCA.BANOVAanalyze.r | 127 +++
R/NCA.BANOVAcsv.r | 125 +++
R/NCA.BANOVAdata.r | 60 +
R/NCA.BANOVAmenu.r | 31
R/NCA.r | 287 +++++++-
R/NCAanalyze.r | 204 +++++
R/NCAcsv.r | 146 +++-
R/NCAdata.r | 60 +
R/NCAmenu.r | 54 +
R/NCAoutput.r | 1229 ++++++++++++++++++++++++++---------
R/NCAplot.r | 382 ++++++++--
R/NCAsave.r | 16
R/NCAselect.r | 162 +++-
R/NCAselectsave.BANOVA.r | 3
R/NCAselectsave.r | 70 +
R/RepMIX.r | 174 ++++
R/RepMIXanalyze.r | 44 +
R/RepMIXmenu.r | 19
R/RepMIXoutput.r | 37 -
R/RepNCA.MIXmenu.r | 23
R/Singlego.r |only
R/TTT.r | 312 +++++++-
R/TTTAIC.r | 277 ++++++-
R/TTTARS.r | 330 ++++++++-
R/aic.r | 260 ++++++-
R/demoBANOVA.r | 58 +
R/demomenu.r | 220 +++++-
R/demomenu1.r | 196 +++++
R/description_Multipledrugcode.r |only
R/description_drugcode.r | 18
R/description_plot.r | 5
R/description_size.r | 4
R/description_version.r | 5
R/entertitle.demo.r | 2
R/entertitle.r | 71 +-
R/go.r | 27
R/plotsingle.para.r | 113 ++-
R/plotsingle.r | 69 +
R/stat1menu.r |only
R/statmenu.r | 40 +
R/zzz.R | 6
data/MultipleParadata.r |only
data/Multipledata.r |only
data/TotalSingledata.r | 2
man/AIC_BANOVA.rd | 2
man/AICdemo.rd | 2
man/AICoutput.rd | 2
man/ARS.BANOVA.rd | 4
man/ARS.rd | 2
man/ARSdemo.BANOVA.rd | 2
man/ARSdemo.rd | 4
man/ARSoutput.rd | 4
man/BANOVA.rd | 2
man/BANOVAanalyze.rd | 2
man/BANOVAcsv.rd | 2
man/BANOVAdata.rd | 2
man/BANOVAmenu.rd | 2
man/BANOVAoutput.rd | 2
man/BANOVAplot.rd | 2
man/Multiple1menu.rd |only
man/MultipleAIC_BANOVA.rd |only
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man/Multiplemenu.rd | 2
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man/NCA.BANOVA.rd | 2
man/NCA.BANOVAanalyze.rd | 2
man/NCA.BANOVAcsv.rd | 2
man/NCA.BANOVAdata.rd | 2
man/NCA.BANOVAmenu.rd | 2
man/NCA.rd | 2
man/NCAanalyze.rd | 2
man/NCAcsv.rd | 2
man/NCAdata.rd | 2
man/NCAdemo.BANOVA.rd | 2
man/NCAdemo.rd | 2
man/NCAmenu.rd | 2
man/NCAoutput.rd | 2
man/NCAplot.rd | 2
man/NCAsave.rd | 2
man/NCAselect.BANOVA.rd | 2
man/NCAselect.rd | 2
man/NCAselectdemo.BANOVA.rd | 2
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man/NCAselectsave.BANOVA.rd | 2
man/NCAselectsave.rd | 2
man/ParaAIC.MIX.rd | 2
man/ParaAIC.rd | 2
man/ParaAICdemo.rd | 2
man/ParaAICoutput.rd | 2
man/ParaARS.MIX.rd | 2
man/ParaARS.rd | 2
man/ParaARSdemo.rd | 2
man/ParaARSoutput.rd | 2
man/ParaMIX.rd | 2
man/ParaMIXanalyze.rd | 2
man/ParaMIXcsv.rd | 2
man/ParaMIXdata.rd | 2
man/ParaMIXmenu.rd | 2
man/ParaMIXoutput.rd | 2
man/ParaNCA.MIX.rd | 2
man/ParaNCA.MIXanalyze.rd | 2
man/ParaNCA.MIXcsv.rd | 2
man/ParaNCA.MIXdata.rd | 2
man/ParaNCA.MIXmenu.rd | 2
man/ParaNCA.rd | 2
man/ParaNCAanalyze.rd | 4
man/ParaNCAcsv.rd | 2
man/ParaNCAdata.rd | 2
man/ParaNCAdemo.MIX.rd | 2
man/ParaNCAdemo.rd | 2
man/ParaNCAoutput.rd | 2
man/ParaNCAplot.rd | 2
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man/ParaNCAselectdemo.MIX.rd | 2
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man/ParaNCAselectsave.MIX.rd | 2
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man/ParaTTTARSdemo.rd | 2
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man/ParaTTTdemo.rd | 2
man/ParaTTToutput.rd | 2
man/Paradata.rd | 2
man/ParademoMIX.rd | 2
man/Parademomenu.rd | 2
man/Parademomenu1.rd | 2
man/Paralleldata.rd | 2
man/Paramenu.rd | 4
man/RepAIC.MIX.rd | 2
man/RepAICdemo.rd | 2
man/RepAICoutput.rd | 2
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man/RepARSdemo.rd | 2
man/RepARSoutput.rd | 2
man/RepMIX.rd | 2
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man/RepTTTdemo.rd | 2
man/RepTTToutput.rd | 2
man/Repaic.rd | 2
man/RepdemoMIX.rd | 2
man/Repdemomenu.rd | 2
man/Repdemomenu1.rd | 2
man/Replicateddata.rd | 2
man/Repmenu.rd | 2
man/Singlego.rd |only
man/TTT.BANOVA.rd | 2
man/TTT.rd | 2
man/TTTAIC.BANOVA.rd | 2
man/TTTAIC.rd | 2
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man/TTTAICoutput.rd | 2
man/TTTARS.BANOVA.rd | 2
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man/TTTdemo.BANOVA.rd | 2
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man/TotalSingledata.rd | 2
man/aic.rd | 2
man/bye.rd | 2
man/demoBANOVA.rd | 2
man/demomenu.rd | 2
man/demomenu1.rd | 2
man/demopara.rd | 2
man/demosize.rd | 2
man/description_AIC.rd | 2
man/description_ARS.rd | 2
man/description_BANOVA.rd | 2
man/description_Multipledrugcode.rd |only
man/description_NCA.rd | 2
man/description_NCAcsv.rd | 2
man/description_NCAinput.rd | 2
man/description_ParaMIX.rd | 2
man/description_ParaNCAcsv.rd | 2
man/description_ParaNCAinput.rd | 2
man/description_RepMIX.rd | 2
man/description_RepNCAcsv.rd | 2
man/description_RepNCAinput.rd | 2
man/description_Repdrugcode.rd | 2
man/description_TOST1_lnAUC0INF.rd | 2
man/description_TOST1_lnAUC0t.rd | 2
man/description_TOST1_lnCmax.rd | 2
man/description_TOST_lnAUC0INF.rd | 2
man/description_TOST_lnAUC0t.rd | 2
man/description_TOST_lnCmax.rd | 2
man/description_TTT.rd | 2
man/description_TTTAIC.rd | 2
man/description_TTTARS.rd | 2
man/description_drug.rd | 2
man/description_drugcode.rd | 2
man/description_import.rd | 2
man/description_load.rd | 2
man/description_plot.rd | 2
man/description_size.rd | 2
man/description_size_para.rd | 2
man/description_version.rd | 2
man/entertitle.demo.rd | 2
man/entertitle.rd | 2
man/go.rd | 8
man/logdata.rd | 2
man/plotsingle.para.rd | 2
man/plotsingle.rd | 2
man/plotsingle.rep.rd | 2
man/prdcount.rd | 2
man/sizemenu.rd | 2
man/stat1menu.rd |only
man/statmenu.rd | 2
man/xtick.rd | 2
man/ytick.rd | 5
480 files changed, 6373 insertions(+), 1136 deletions(-)
Author: Emmanuel Paradis, Ben Bolker, Julien Claude, Hoa Sien Cuong,
Richard Desper, Benoit Durand, Julien Dutheil, Olivier Gascuel,
Gangolf Jobb, Christoph Heibl, Daniel Lawson, Vincent Lefort,
Pierre Legendre, Jim Lemon, Yvonnick Noel, Johan Nylander,
Rainer Opgen-Rhein, Korbinian Strimmer, Damien de Vienne
Title: Analyses of Phylogenetics and Evolution
Description: ape provides functions for reading, writing, plotting, and
manipulating phylogenetic trees, analyses of comparative data
in a phylogenetic framework, analyses of diversification and
macroevolution, computing distances from allelic and nucleotide
data, reading nucleotide sequences, and several tools such as
Mantel's test, computation of minimum spanning tree, the
population parameter theta based on various approaches,
nucleotide diversity, generalized skyline plots, estimation of
absolute evolutionary rates and clock-like trees using mean
path lengths, non-parametric rate smoothing and penalized
likelihood. Phylogeny estimation can be done with the NJ,
BIONJ, and ME methods.
Diff between ape versions 2.3-1 dated 2009-06-24 and 2.3-2 dated 2009-07-21
ChangeLog | 24 ++++ DESCRIPTION | 8 - R/all.equal.phylo.R | 34 +++-- R/chronopl.R | 39 +++--- R/dist.topo.R | 16 +- R/drop.tip.R | 4 R/nj.R | 16 +- R/root.R | 25 ++-- R/vcv.phylo.R | 3 Thanks | 4 inst/doc/MoranI.pdf |binary src/nj.c | 309 ++++++++++++++++++++++------------------------------ 12 files changed, 241 insertions(+), 241 deletions(-)
Author: Patrick T. Brandt
Diff between MSBVAR versions 0.3.2 dated 2008-10-12 and 0.4.0 dated 2009-07-21
Title: Markov-Switching, Bayesian, Vector Autoregression Models
Description: Provides methods for estimating frequentist and Bayesian
Vector Autoregression (VAR) models. Functions for reduced form
and structural VAR models are also available. Includes methods
for the generating posterior inferences for VAR forecasts,
impulse responses (using likelihood-based error bands), and
forecast error decompositions. Also includes utility functions
for plotting forecasts and impulse responses, and generating
draws from Wishart and singular multivariate normal densities.
Current version includes some limited functionality to build
models with Markov switching.
DESCRIPTION | 33 ++++++++++++++++++---------------
INDEX | 21 +++++++++++++++++++++
LICENSE | 6 +++---
NAMESPACE | 28 +++++++++++++++++++++++++---
R/BHLK.filter.R |only
R/SS.R |only
R/bingen.R |only
R/dirichlet.R |only
R/gibbs.msbsvar.R |only
R/gibbs.msbvar.R |only
R/hregime.SS.R |only
R/mc.irf.R | 6 +++---
R/mcmc.szbsvar.R | 2 +-
R/msbsvar.R |only
R/msbvar.R |only
R/szbsvar.R | 4 ++--
R/szbvar.R | 10 ++++++----
R/zzz.R | 15 +++++++++------
README | 39 ++++++++++++++++++++++++++++-----------
man/A02mcmc.Rd | 9 +++++----
man/BCFdata.Rd | 8 ++++++--
man/BHLK.filter.Rd |only
man/SZ.prior.evaluation.Rd | 5 +++--
man/dfev.Rd | 4 ++--
man/forecast.Rd | 31 +++++++++++++++++++++----------
man/gibbs.A0.Rd | 13 +++++++------
man/gibbs.msbsvar.Rd |only
man/gibbs.msbvar.Rd |only
man/hc.forecast.Rd | 7 +++++--
man/irf.Rd | 2 +-
man/irf.msbvar.Rd |only
man/list.print.Rd |only
man/mc.irf.Rd | 14 +++++++++-----
man/mean.SS.Rd |only
man/msbsvar.Rd |only
man/msbvar.Rd |only
man/plot.forecast.Rd | 12 +++++++-----
man/plot.mc.irf.Rd | 4 ++--
man/posterior.fit.Rd | 7 ++++---
man/rdirichlet.Rd |only
man/summary.Rd | 2 +-
man/szbsvar.Rd | 37 +++++++++++++++++++++----------------
man/szbvar.Rd | 8 ++++----
src/MSBVARcpp.h | 37 +++++++++++++++++++++++++------------
src/MSBVARfun.cpp | 40 ++++++++++++++++++++++++----------------
src/Makevars | 8 +++++++-
src/SS.cpp |only
src/SS.h |only
src/init.cpp | 28 ++++++----------------------
src/solution.cpp | 2 +-
src/switchingfunctions.cpp |only
51 files changed, 277 insertions(+), 165 deletions(-)
Author: Hai Liu
Diff between COZIGAM versions 2.0-1 dated 2009-02-25 and 2.0-2 dated 2009-07-21
Title: Constrained and Unconstrained Zero-Inflated Generalized Additive
Models with Model Selection Criterion
Description: Constrained and Unconstrained Zero-Inflated Generalized
Additive Models (ZIGAM) fitting with associated model plotting,
prediction and selection.
DESCRIPTION | 21 +++++++++++++--------
R/cozigam.R | 32 +++++++++++++++++++-------------
man/COZIGAM-package.rd |only
man/alaska.rd | 10 ++++++----
man/eggdata.rd | 17 +++++++++--------
5 files changed, 47 insertions(+), 33 deletions(-)