Title: Topic models
Description: Provides an interface to the C code for Latent Dirichlet
Allocation (LDA) models and Correlated Topics Models
(CTM) by David M. Blei and co-authors and the C++ code
for fitting LDA models using Gibbs sampling by Xuan-Hieu
Phan and co-authors.
Author: Bettina Grün and Kurt Hornik
Maintainer: Bettina Grün
Diff between topicmodels versions 0.1-3 dated 2011-10-23 and 0.1-4 dated 2011-12-27
DESCRIPTION | 17 +++++++++-------- MD5 | 8 ++++---- NEWS | 5 +++++ inst/NEWS | 5 +++++ inst/doc/topicmodels.pdf |binary 5 files changed, 23 insertions(+), 12 deletions(-)
Title: Inverse Regression for Text Analysis
Description: A suite of tools for text and sentiment mining. This includes the `mnlm' function, for sparse multinomial logistic regression, `pls', a concise partial least squares routine, and the `topics' function, for efficient estimation and dimension selection in latent topic models.
Author: Matt Taddy
Maintainer: Matt Taddy
Diff between textir versions 1.7-2 dated 2011-12-01 and 1.7-3 dated 2011-12-27
ChangeLog | 5 +++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/topics.R | 2 ++ R/tpx.R | 24 ++++++++++++++++++------ src/mnlogit.c | 13 +++++++------ 6 files changed, 41 insertions(+), 21 deletions(-)
Title: Symphony in R
Description: An R interface to the SYMPHONY MILP solver (version 5.4.3).
Author: Reinhard Harter [aut],
Kurt Hornik [aut, cre],
Stefan Theussl [aut]
Maintainer: Kurt Hornik
Diff between Rsymphony versions 0.1-12 dated 2010-10-12 and 0.1-14 dated 2011-12-27
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMessage.cpp | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMessage.hpp | 3 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/CglMixedIntegerRounding.cpp | 26 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/CglMixedIntegerRounding.hpp | 10 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/CglMixedIntegerRoundingTest.cpp | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/Makefile.am | 28 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/Makefile.in | 222 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2.cpp | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2.hpp | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2Test.cpp | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/Makefile.am | 28 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/Makefile.in | 222 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglOddHole/CglOddHole.cpp | 13 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglOddHole/CglOddHole.hpp | 3 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglOddHole/CglOddHoleTest.cpp | 3 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglOddHole/Makefile.am | 28 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglOddHole/Makefile.in | 222 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglParam.cpp | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglParam.hpp | 9 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.cpp | 865 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglPreProcess/CglPreProcess.hpp | 99 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglPreProcess/Makefile.am | 26 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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/addBits.cpp | 307 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/addColumns.cpp | 522 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/addRows.cpp | 535 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/decomp2.cpp | 48 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/decomp3.cpp | 162 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/decompose.cpp | 1002 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/defaults.cpp | 633 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/driver.cpp | 355 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/driver2.cpp | 653 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/driverC.c | 222 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/dualCuts.cpp | 550 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/ekk.cpp | 265 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/ekk_interface.cpp | 473 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/hello.cpp | 93 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/makeDual.cpp | 341 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/minimum.cpp | 35 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/modify.cpp | 137 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/myPdco.cpp | 462 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/myPdco.hpp | 97 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/network.cpp | 342 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/pdco.cpp | 106 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/piece.cpp | 520 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/rowColumn.cpp | 167 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/sprint.cpp | 430 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/sprint2.cpp | 282 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/testBarrier.cpp | 58 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/testBasis.cpp | 176 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/testGub.cpp | 873 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/testGub2.cpp | 757 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/testQP.cpp | 315 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/examples/useVolume.cpp | 457 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/install-sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/ltmain.sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/missing |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/CbcOrClpParam.cpp | 5568 - Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/CbcOrClpParam.hpp | 641 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyBase.cpp | 7244 - Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyBase.hpp | 451 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyDense.cpp | 2832 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyDense.hpp | 282 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyMumps.cpp | 769 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpCholeskyMumps.hpp | 94 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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpConstraintQuadratic.cpp | 427 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpConstraintQuadratic.hpp | 192 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowDantzig.cpp | 225 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowDantzig.hpp | 96 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowPivot.cpp | 43 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowPivot.hpp | 198 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowSteepest.cpp | 1979 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDualRowSteepest.hpp | 235 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDummyMatrix.cpp | 272 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDummyMatrix.hpp | 313 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDynamicExampleMatrix.cpp | 1218 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDynamicExampleMatrix.hpp | 291 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpDynamicMatrix.cpp | 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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpLinearObjective.cpp | 407 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpLinearObjective.hpp | 166 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpLsqr.cpp | 700 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpLsqr.hpp | 111 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpMain.cpp | 6224 - Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpMatrixBase.cpp | 843 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpMatrixBase.hpp | 908 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpMessage.cpp | 279 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpMessage.hpp | 203 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpModel.cpp | 7507 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpModel.hpp | 2212 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNetworkBasis.cpp | 2143 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNetworkBasis.hpp | 230 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNetworkMatrix.cpp | 2173 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNetworkMatrix.hpp | 401 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNode.cpp | 2142 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNode.hpp | 615 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNonLinearCost.cpp | 3590 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpNonLinearCost.hpp | 650 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpObjective.cpp | 55 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpObjective.hpp | 210 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPackedMatrix.cpp |11798 +-- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPackedMatrix.hpp | 1138 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpParameters.hpp | 159 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPdco.cpp | 1608 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPdco.hpp | 100 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPdcoBase.cpp | 38 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPdcoBase.hpp | 137 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPlusMinusOneMatrix.cpp | 3491 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPlusMinusOneMatrix.hpp | 502 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPredictorCorrector.cpp | 7490 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPredictorCorrector.hpp | 112 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPresolve.cpp | 3139 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPresolve.hpp | 431 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnDantzig.cpp | 331 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnDantzig.hpp | 97 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnPivot.cpp | 53 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnPivot.hpp | 245 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnSteepest.cpp | 7383 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalColumnSteepest.hpp | 439 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpPrimalQuadraticDantzig.hpp | 105 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpQuadraticObjective.cpp | 1905 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpQuadraticObjective.hpp | 259 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplex.cpp |21415 ++--- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplex.hpp | 2826 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexDual.cpp |13309 +-- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexDual.hpp | 558 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexNonlinear.cpp | 7858 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexNonlinear.hpp | 172 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexOther.cpp | 7894 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexOther.hpp | 381 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexPrimal.cpp | 6777 - Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSimplexPrimal.hpp | 442 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSolve.cpp | 8821 +- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/ClpSolve.hpp | 652 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Clp_C_Interface.cpp | 1090 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Clp_C_Interface.h | 770 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/IdiSolve.cpp | 2200 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Idiot.cpp | 3672 - Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Idiot.hpp | 427 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Makefile.am | 116 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/Makefile.in | 633 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/MyEventHandler.cpp | 73 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/MyEventHandler.hpp | 56 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/MyMessageHandler.cpp | 195 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/MyMessageHandler.hpp | 108 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Clp/src/OsiClp |only 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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/CutPool/cut_pool.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/DrawGraph/draw_graph.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/DrawGraph/tester.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_branch.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_free.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_genfunc.c | 12 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_heuristics.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_proccomm.c | 8 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_pseudo_branch.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_rowfunc.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_solver.c | 261 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_sp.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_varfunc.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/LP/lp_wrapper.c | 15 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Makefile.am | 250 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Makefile.in | 524 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/main.c | 74 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master.c | 133 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_func.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_io.c | 46 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_prep.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_prep_base.c | 10 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_prep_sr.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/Master/master_wrapper.c | 20 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/OsiSym |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/TreeManager/tm_func.c | 154 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/TreeManager/tm_proccomm.c | 31 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/src/TreeManager/treemanager.c | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/symphony-app.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/symphony-uninstalled.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/symphony.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/test/Makefile.am | 213 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/test/Makefile.in | 615 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/test/OsiSymSolverInterfaceTest.cpp | 882 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/test/unitTestSym.cpp | 284 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/Makefile.am | 22 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/Makefile.in | 163 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/coinblas-uninstalled.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/coinblas.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/config.guess |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/config.sub |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/configure |27551 +++---- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/configure.ac | 35 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/depcomp |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/get.Blas | 2 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/install-sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/ltmain.sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Blas/missing |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/INSTALL.Glpk | 8 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/Makefile.am | 95 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/Makefile.in | 763 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/coinglpk-uninstalled.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/coinglpk.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/config.guess |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/config.h |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/config.sub |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/config_glpk.h.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/configure | 3111 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/configure.ac | 233 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/depcomp |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/get.Glpk | 4 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/glpk.patch | 6 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/install-sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/ltmain.sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Glpk/missing |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/INSTALL.LAPACK | 13 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/Makefile.am | 31 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/Makefile.in | 206 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/coinlapack-uninstalled.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/coinlapack.pc.in |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/config.guess |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/config.sub |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/configure |36513 +++++----- Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/configure.ac | 60 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/depcomp |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/get.Lapack | 14 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/install-sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/ltmain.sh |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/ThirdParty/Lapack/missing |only Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/configure | 2475 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/configure.ac | 53 Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/share/config.site | 4 1059 files changed, 220059 insertions(+), 180143 deletions(-)
Title: Rknots
Description: The Rknots package contains functions for the topological analysis of polymers, with a major focus on proteins.
Author: Federico Comoglio and Maurizio Rinaldi
Maintainer: Federico Comoglio
Diff between Rknots versions 1.1 dated 2011-09-06 and 1.2 dated 2011-12-27
Rknots-1.1/Rknots/.Rapp.history |only Rknots-1.1/Rknots/R/findKnot.R |only Rknots-1.1/Rknots/man/buildLsw.Rd |only Rknots-1.1/Rknots/man/buildLzero.Rd |only Rknots-1.1/Rknots/man/fileImport.Rd |only Rknots-1.1/Rknots/man/findKnot.Rd |only Rknots-1.1/Rknots/man/findProteinKnot.Rd |only Rknots-1.1/Rknots/man/grm.Rd |only Rknots-1.1/Rknots/man/plotKnotDiagram.Rd |only Rknots-1.1/Rknots/man/singleIntersection.Rd |only Rknots-1.1/Rknots/man/skeinSign.Rd |only Rknots-1.2/Rknots/DESCRIPTION | 23 -- Rknots-1.2/Rknots/MD5 | 93 ++++++------ Rknots-1.2/Rknots/NAMESPACE |only Rknots-1.2/Rknots/R/AlexanderBriggs.R | 80 ++++++++-- Rknots-1.2/Rknots/R/HOMFLYpolynomial.R | 3 Rknots-1.2/Rknots/R/PCAProjection.R | 8 - Rknots-1.2/Rknots/R/auxFunctions.R |only Rknots-1.2/Rknots/R/centroidClosure.R | 15 + Rknots-1.2/Rknots/R/class_def.R |only Rknots-1.2/Rknots/R/fileImport.R | 57 +++++-- Rknots-1.2/Rknots/R/linkingNumber.R | 10 - Rknots-1.2/Rknots/R/makeExamples.R |only Rknots-1.2/Rknots/R/methods.R |only Rknots-1.2/Rknots/R/mva.R | 215 +++++++++++++--------------- Rknots-1.2/Rknots/R/plotKnot3D.R | 8 - Rknots-1.2/Rknots/R/plotKnotDiagram.R | 156 ++++++++++---------- Rknots-1.2/Rknots/R/polyConversion.R | 11 + Rknots-1.2/Rknots/R/skeinIterator.R | 4 Rknots-1.2/Rknots/data/Rolfsen.table.rda |binary Rknots-1.2/Rknots/data/link.table.rda |binary Rknots-1.2/Rknots/inst/doc |only Rknots-1.2/Rknots/man/AlexanderBriggs.Rd | 52 ++---- Rknots-1.2/Rknots/man/HOMFLY2mirror.Rd | 44 +---- Rknots-1.2/Rknots/man/HOMFLYpolynomial.Rd | 55 ++----- Rknots-1.2/Rknots/man/Knot-class.Rd |only Rknots-1.2/Rknots/man/PCAProjection.Rd | 65 ++------ Rknots-1.2/Rknots/man/Rknots-internal.Rd | 47 +----- Rknots-1.2/Rknots/man/Rknots-package.Rd | 39 ++--- Rknots-1.2/Rknots/man/accessors.Rd |only Rknots-1.2/Rknots/man/centroidClosure.Rd | 49 ++---- Rknots-1.2/Rknots/man/closeAndProject.Rd |only Rknots-1.2/Rknots/man/computeInvariant.Rd |only Rknots-1.2/Rknots/man/findGaps.Rd | 65 +++----- Rknots-1.2/Rknots/man/intersectionMatrix.Rd | 53 ++---- Rknots-1.2/Rknots/man/link.table.Rd | 30 +-- Rknots-1.2/Rknots/man/linkingNumber.Rd | 27 --- Rknots-1.2/Rknots/man/loadProtein.Rd |only Rknots-1.2/Rknots/man/mVA.Rd | 68 +++----- Rknots-1.2/Rknots/man/makeExampleKnot.Rd |only Rknots-1.2/Rknots/man/makeExampleProtein.Rd |only Rknots-1.2/Rknots/man/msr.Rd | 53 ++---- Rknots-1.2/Rknots/man/newKnot.Rd |only Rknots-1.2/Rknots/man/plot.Rd |only Rknots-1.2/Rknots/man/plot3D.Rd |only Rknots-1.2/Rknots/man/plotDiagram.Rd |only Rknots-1.2/Rknots/man/plotKnot3D.Rd | 64 ++------ Rknots-1.2/Rknots/man/polyConversion.Rd | 49 ++---- Rknots-1.2/Rknots/man/print.Rd |only Rknots-1.2/Rknots/man/rMatrix.Rd | 40 +---- Rknots-1.2/Rknots/man/reduceStructure.Rd |only Rknots-1.2/Rknots/man/setters.Rd |only Rknots-1.2/Rknots/man/skeinIterator.Rd | 68 ++------ 63 files changed, 700 insertions(+), 851 deletions(-)
Title: Rigorous - NIfTI+ANALYZE+AFNI Input / Output
Description: Functions for the input/output and visualization of
medical imaging data that follow either the ANALYZE, NIfTI or AFNI
formats. This package is part of the Rigorous Analytics bundle.
Author: Brandon Whitcher, Volker Schmid and Andrew Thornton, with
contributions by Karsten Tabelow
Maintainer: Brandon Whitcher
Diff between oro.nifti versions 0.2.8 dated 2011-10-19 and 0.2.9 dated 2011-12-27
DESCRIPTION | 21 ++++---- MD5 | 27 +++++------ R/niftiS4.R | 64 ++++++++++++++++++++------- R/plot.R | 103 +++++++++++++++++++++++++++++++++++++------- R/readS4.R | 20 ++++---- R/remove.R | 16 ++++++ R/writeS4.R | 4 - R/zzz.R | 10 ++-- inst/doc/oro.nifti.pdf |binary man/calmin-methods.Rd |only man/image-methods.Rd | 7 ++ man/orthographic-methods.Rd | 8 ++- man/overlay-methods.Rd | 16 ++++-- man/pixdim-methods.Rd | 4 - man/remove.Rd | 12 ++++- 15 files changed, 227 insertions(+), 85 deletions(-)
Title: Rigorous - DICOM Input / Output
Description: Data input/output functions for data that conform to the
Digital Imaging and Communications in Medicine (DICOM) standard, part
of the Rigorous Analytics bundle.
Author: Brandon Whitcher
Maintainer: Brandon Whitcher
Diff between oro.dicom versions 0.3.1 dated 2011-10-19 and 0.3.3 dated 2011-12-27
oro.dicom-0.3.1/oro.dicom/man/dicomInfo.Rd |only oro.dicom-0.3.1/oro.dicom/man/dicomSeparate.Rd |only oro.dicom-0.3.1/oro.dicom/man/header.Rd |only oro.dicom-0.3.3/oro.dicom/DESCRIPTION | 20 oro.dicom-0.3.3/oro.dicom/MD5 | 41 - oro.dicom-0.3.3/oro.dicom/NAMESPACE | 1 oro.dicom-0.3.3/oro.dicom/R/create.R | 22 oro.dicom-0.3.3/oro.dicom/R/dec2base.R | 12 oro.dicom-0.3.3/oro.dicom/R/dicom.R | 326 +++++----- oro.dicom-0.3.3/oro.dicom/R/header.R | 25 oro.dicom-0.3.3/oro.dicom/R/zzz.R | 39 + oro.dicom-0.3.3/oro.dicom/data/dicom.VR.rda |binary oro.dicom-0.3.3/oro.dicom/data/dicom.dic.rda |binary oro.dicom-0.3.3/oro.dicom/man/create.Rd | 33 - oro.dicom-0.3.3/oro.dicom/man/dicom.Rd | 2 oro.dicom-0.3.3/oro.dicom/man/dicomTable.Rd | 9 oro.dicom-0.3.3/oro.dicom/man/extractHeader.Rd | 7 oro.dicom-0.3.3/oro.dicom/man/header2matrix.Rd | 2 oro.dicom-0.3.3/oro.dicom/man/matchHeader.Rd | 2 oro.dicom-0.3.3/oro.dicom/man/planes.Rd | 4 oro.dicom-0.3.3/oro.dicom/man/readDICOM.Rd |only oro.dicom-0.3.3/oro.dicom/man/readDICOMFile.Rd |only oro.dicom-0.3.3/oro.dicom/man/str2time.Rd | 2 oro.dicom-0.3.3/oro.dicom/tests/Examples/oro.dicom-Ex.Rout.save | 73 +- 24 files changed, 338 insertions(+), 282 deletions(-)
Title: MRI tissue classification.
Description: Various methods for MRI tissue classification.
Author: Dai Feng and Luke Tierney
Maintainer: Dai Feng
Diff between mritc versions 0.3-4 dated 2011-10-24 and 0.3-5 dated 2011-12-27
ChangeLog | 17 ++++++++++++++--- DESCRIPTION | 11 ++++++----- MD5 | 8 ++++---- R/mritc.icm.R | 1 + man/mritc.Rd | 12 +++++++++--- 5 files changed, 34 insertions(+), 15 deletions(-)
Title: Model-free estimation of a psychometric function
Description: Local linear estimation of psychometric functions. Provides functions for nonparametric estimation of a psychometric function and for estimation of a derived threshold and slope, and their standard deviations and confidence intervals
Author: Ivan Marin-Franch
Maintainer: Kamila Zychaluk
Diff between modelfree versions 1.0 dated 2010-10-20 and 1.0-2 dated 2011-12-27
DESCRIPTION | 29 -- MD5 |only R/bandwidth_bootstrap.R | 326 +++++++++++++------------- R/bandwidth_cross_validation.R | 368 +++++++++++++++--------------- R/bandwidth_optimal.R | 244 +++++++++---------- R/bandwidth_plugin.R | 350 ++++++++++++++-------------- R/binom_g.R | 141 +++++------ R/binom_gl.R | 129 +++++----- R/binom_l.R | 143 +++++------ R/binom_lims.R | 190 +++++++-------- R/binomfit_lims.R | 90 +++---- R/bootstrap_ci_sl.R | 224 +++++++++--------- R/bootstrap_ci_th.R | 208 ++++++++-------- R/bootstrap_sd_sl.R | 200 ++++++++-------- R/bootstrap_sd_th.R | 186 +++++++-------- R/locglmfit.R | 466 +++++++++++++++++++------------------- data/01_Miranda.rda |binary data/02_Levi.rda |binary data/03_Carcagno.rda |binary data/04_Xie.rda |binary data/05_Schofield.rda |binary data/06_Nascimento.rda |binary data/07_Baker.rda |binary man/bandwidth_bootstrap.Rd | 70 ++--- man/bandwidth_cross_validation.Rd | 68 ++--- man/bandwidth_optimal.Rd | 60 ++-- man/bandwidth_plugin.Rd | 56 ++-- man/binom_g.Rd | 54 ++-- man/binom_gl.Rd | 44 +-- man/binom_l.Rd | 52 ++-- man/binom_lims.Rd | 56 ++-- man/binom_revweib.Rd | 60 ++-- man/binom_weib.Rd | 62 ++--- man/binomfit_lims.Rd | 53 ++-- man/bootstrap_ci_sl.Rd | 68 ++--- man/bootstrap_ci_th.Rd | 68 ++--- man/bootstrap_sd_sl.Rd | 66 ++--- man/bootstrap_sd_th.Rd | 66 ++--- man/comploglog_link.Rd | 60 ++-- man/comploglog_link_private.Rd | 60 ++-- man/deviance2.Rd | 48 +-- man/locglmfit.Rd | 80 +++--- man/locglmfit_private.Rd | 80 +++--- man/locglmfit_sparse_private.Rd | 82 +++--- man/logit_link.Rd | 62 ++--- man/logit_link_private.Rd | 62 ++--- man/loglog_link.Rd | 60 ++-- man/loglog_link_private.Rd | 60 ++-- man/probit_link.Rd | 62 ++--- man/probit_link_private.Rd | 62 ++--- man/revweibull_link.Rd | 60 ++-- man/revweibull_link_private.Rd | 60 ++-- man/threshold_slope.Rd | 56 ++-- man/weibull_link.Rd | 60 ++-- man/weibull_link_private.Rd | 60 ++-- 55 files changed, 2632 insertions(+), 2639 deletions(-)
Title: From BIOlogical Sequences to MultiDimensional Scaling
Description: Bios2mds is primarily dedicated to the analysis of
biological sequences by metric MultiDimensional Scaling with
projection of supplementary data. It contains functions for
reading multiple sequence alignment files, calculating distance
matrices, performing metric multidimensional scaling and
visualizing results.
Author: Julien Pele with Jean-Michel Becu, Herve Abdi, and Marie
Chabbert
Maintainer: Marie Chabbert
Diff between bios2mds versions 1.1 dated 2011-07-23 and 1.2 dated 2011-12-27
bios2mds-1.1/bios2mds/R/read.fasta.R |only bios2mds-1.1/bios2mds/R/read.msf.R |only bios2mds-1.1/bios2mds/R/write.fasta.r |only bios2mds-1.1/bios2mds/man/read.fasta.Rd |only bios2mds-1.1/bios2mds/man/read.msf.Rd |only bios2mds-1.1/bios2mds/man/write.fasta.Rd |only bios2mds-1.2/bios2mds/ChangeLog | 34 bios2mds-1.2/bios2mds/DESCRIPTION | 10 bios2mds-1.2/bios2mds/MD5 |only bios2mds-1.2/bios2mds/NAMESPACE | 5 bios2mds-1.2/bios2mds/R/col.group.R | 20 bios2mds-1.2/bios2mds/R/dif.R | 2 bios2mds-1.2/bios2mds/R/export.fasta.R |only bios2mds-1.2/bios2mds/R/import.fasta.R |only bios2mds-1.2/bios2mds/R/import.msf.R |only bios2mds-1.2/bios2mds/R/kmeans.run.R | 2 bios2mds-1.2/bios2mds/R/mat.dif.R | 89 bios2mds-1.2/bios2mds/R/mat.dis.R | 107 bios2mds-1.2/bios2mds/R/mmds.2D.multi.R |only bios2mds-1.2/bios2mds/R/mmds.2D.plot.R | 57 bios2mds-1.2/bios2mds/R/mmds.3D.plot.R | 48 bios2mds-1.2/bios2mds/R/mmds.R | 90 bios2mds-1.2/bios2mds/R/mmds.plot.R | 13 bios2mds-1.2/bios2mds/R/mmds.project.R |only bios2mds-1.2/bios2mds/R/random.msa.R | 13 bios2mds-1.2/bios2mds/R/write.mmds.pdb.R | 56 bios2mds-1.2/bios2mds/data/datalist |only bios2mds-1.2/bios2mds/data/gpcr.rda |binary bios2mds-1.2/bios2mds/data/sub.mat.rda |binary bios2mds-1.2/bios2mds/inst/csv/drome_gpcr_group.csv | 10 bios2mds-1.2/bios2mds/inst/csv/human_gpcr_group.csv | 24 bios2mds-1.2/bios2mds/inst/doc/bios2mds.pdf |binary bios2mds-1.2/bios2mds/inst/msa/drome_gpcr.fa | 590 +- bios2mds-1.2/bios2mds/inst/msa/drome_gpcr.msf | 848 ++-- bios2mds-1.2/bios2mds/inst/msa/human_gpcr.fa | 2830 +++++++------- bios2mds-1.2/bios2mds/inst/msa/human_gpcr.msf | 3964 ++++++++++---------- bios2mds-1.2/bios2mds/man/bios2mds-package.Rd | 38 bios2mds-1.2/bios2mds/man/col.group.Rd | 13 bios2mds-1.2/bios2mds/man/dif.Rd | 2 bios2mds-1.2/bios2mds/man/dis.Rd | 7 bios2mds-1.2/bios2mds/man/export.fasta.Rd |only bios2mds-1.2/bios2mds/man/extract.cluster.Rd | 6 bios2mds-1.2/bios2mds/man/gpcr.Rd | 23 bios2mds-1.2/bios2mds/man/import.fasta.Rd |only bios2mds-1.2/bios2mds/man/import.msf.Rd |only bios2mds-1.2/bios2mds/man/kmeans.run.Rd | 6 bios2mds-1.2/bios2mds/man/mat.dif.Rd | 22 bios2mds-1.2/bios2mds/man/mat.dis.Rd | 33 bios2mds-1.2/bios2mds/man/mmds.2D.multi.Rd |only bios2mds-1.2/bios2mds/man/mmds.2D.plot.Rd | 52 bios2mds-1.2/bios2mds/man/mmds.3D.plot.Rd | 21 bios2mds-1.2/bios2mds/man/mmds.Rd | 79 bios2mds-1.2/bios2mds/man/mmds.plot.Rd | 8 bios2mds-1.2/bios2mds/man/mmds.project.Rd |only bios2mds-1.2/bios2mds/man/random.msa.Rd | 11 bios2mds-1.2/bios2mds/man/sil.score.Rd | 2 bios2mds-1.2/bios2mds/man/sub.mat.Rd | 21 bios2mds-1.2/bios2mds/man/write.mmds.pdb.Rd | 7 58 files changed, 4613 insertions(+), 4550 deletions(-)
Title: Unsupervised and Supervised methods of Propensity Score
Adjustment for Bias
Description: Unsupervised methods: Define Local Treatment Differences (LTDs) and Local Average
Outcomes (LAOs) within Clusters of well-matched patients and display their distributions across
Clusters. This form of Nonparametric Preprocessing of observational data is also called Local
Control because it uses post-hoc blocking to implement nested ANOVA (treatment within cluster.)
Supervised methods: Estimate and Validate Propensity Scores and use them to either sub-group
or smooth observed patient outcomes over the common support of alternative treatment cohorts.
Author: Bob Obenchain
Maintainer: Bob Obenchain
Diff between USPS versions 1.2-0 dated 2009-02-15 and 1.2-1 dated 2011-12-27
USPS-1.2-0/USPS/inst/USPSinR.pdf |only USPS-1.2-1/USPS/DESCRIPTION | 35 ++++++++++++++++++++--------------- USPS-1.2-1/USPS/MD5 |only USPS-1.2-1/USPS/data/lindner.rda |binary USPS-1.2-1/USPS/inst/doc |only USPS-1.2-1/USPS/man/SPSbalan.Rd | 4 ++-- USPS-1.2-1/USPS/man/SPSloess.Rd | 4 ++-- USPS-1.2-1/USPS/man/SPSlogit.Rd | 4 ++-- USPS-1.2-1/USPS/man/SPSnbins.Rd | 6 +++--- USPS-1.2-1/USPS/man/SPSoutco.Rd | 4 ++-- USPS-1.2-1/USPS/man/SPSsmoot.Rd | 4 ++-- USPS-1.2-1/USPS/man/UPSaccum.Rd | 2 +- USPS-1.2-1/USPS/man/UPSaltdd.Rd | 2 +- USPS-1.2-1/USPS/man/UPSgraph.Rd | 2 +- USPS-1.2-1/USPS/man/UPShclus.Rd | 4 ++-- USPS-1.2-1/USPS/man/UPSivadj.Rd | 4 ++-- USPS-1.2-1/USPS/man/UPSnnltd.Rd | 4 ++-- USPS-1.2-1/USPS/man/USPS-package.Rd | 17 +++++++++-------- 18 files changed, 51 insertions(+), 45 deletions(-)
Title: ecological drift under the UNTB
Description: A collection of utilities for biodiversity data.
Includes the simulation of ecological drift under Hubbell's Unified
Neutral Theory of Biodiversity, and the calculation of various
diagnostics such as Preston curves. Now includes functionality
provided by Francois Munoz and Andrea Manica.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between untb versions 1.6-8 dated 2011-08-11 and 1.6-9 dated 2011-12-27
untb-1.6-8/untb/inst/doc/a_logkda.Rdata |only untb-1.6-8/untb/inst/doc/dat.Rdata |only untb-1.6-8/untb/inst/doc/rn.Rdata |only untb-1.6-8/untb/inst/doc/synthetic_spp.Rdata |only untb-1.6-8/untb/inst/doc/untb.bib |only untb-1.6-9/untb/DESCRIPTION | 16 ++--- untb-1.6-9/untb/MD5 | 73 ++++++++++++++------------- untb-1.6-9/untb/R/sysdata.rda |binary untb-1.6-9/untb/R/untb.R | 23 ++++---- untb-1.6-9/untb/data/butterflies.rda |binary untb-1.6-9/untb/data/caruso.rda |binary untb-1.6-9/untb/data/copepod.rda |binary untb-1.6-9/untb/data/ghats.rda |binary untb-1.6-9/untb/data/ostracod.rda |binary untb-1.6-9/untb/data/sahfos.rda |binary untb-1.6-9/untb/data/saunders.rda |binary untb-1.6-9/untb/data/spitale.rda |only untb-1.6-9/untb/inst/doc/untbpaper.Rnw | 13 ++-- untb-1.6-9/untb/inst/doc/untbpaper.pdf |binary untb-1.6-9/untb/man/bci.Rd | 6 +- untb-1.6-9/untb/man/census.Rd | 19 ++++--- untb-1.6-9/untb/man/count.Rd | 25 ++++++--- untb-1.6-9/untb/man/etienne.Rd | 2 untb-1.6-9/untb/man/logkda.Rd | 2 untb-1.6-9/untb/man/no.of.ind.Rd | 48 +++++++++-------- untb-1.6-9/untb/man/phi.Rd | 7 ++ untb-1.6-9/untb/man/plot.count.Rd | 10 ++- untb-1.6-9/untb/man/plus.Rd | 16 +++++ untb-1.6-9/untb/man/preston.Rd | 4 - untb-1.6-9/untb/man/print.preston.Rd | 2 untb-1.6-9/untb/man/sahfos.Rd | 6 +- untb-1.6-9/untb/man/saunders.Rd | 6 -- untb-1.6-9/untb/man/simpson.Rd | 2 untb-1.6-9/untb/man/spitale.Rd |only untb-1.6-9/untb/man/theta.prob.Rd | 20 ++----- untb-1.6-9/untb/man/vallade.Rd | 2 untb-1.6-9/untb/man/volkov.Rd | 4 - untb-1.6-9/untb/man/zsm.Rd | 4 - untb-1.6-9/untb/vignettes |only 39 files changed, 178 insertions(+), 132 deletions(-)
Title: Truncated Multivariate Normal and Student t Distribution
Description: Random number generation for the truncated multivariate normal and Student t distribution.
Computes probabilities, quantiles and densities,
including one-dimensional and bivariate marginal densities. Computes first and second moments (i.e. mean and covariance matrix) for the double-truncated multinormal case.
Author: Stefan Wilhelm
Maintainer: Stefan Wilhelm
Diff between tmvtnorm versions 1.3-1 dated 2011-12-02 and 1.4-1 dated 2011-12-27
DESCRIPTION | 10 +- MD5 | 17 ++-- NAMESPACE | 1 NEWS | 7 + R/rtmvnorm.R | 62 ++++++++++++++- R/tmvnorm-estimation.R | 16 +++ man/rtmvnorm.Rd | 45 ++++++++++- release-notes.txt | 7 + src/linked_list.f90 |only src/rtmvnormgibbs.f90 | 197 +++++++++++++++++++++++++++++++++++++++++++++++++ 10 files changed, 339 insertions(+), 23 deletions(-)
Title: Synthetic Control Group Method for Comparative Case Studies
Description: Implements the synthetic control group method for comparative case studies
developed in Abadie and Gardeazabal (2003) and Abadie, Diamond, and Hainmueller (2010).
The synthetic control method allows for effect estimation in settings where a
single unit (a state, country, firm, etc.) is exposed to an event or intervention.
It provides a data-driven procedure to construct synthetic control units based on a weighted
combination of comparison units that approximates the characteristics of
the unit that is exposed to the intervention. A combination of comparison units
often provides a better comparison for the unit exposed to the intervention than
any comparison unit alone.
Author: Jens Hainmueller
Maintainer: Jens Hainmueller
Diff between Synth versions 1.1-1 dated 2011-09-28 and 1.1-2 dated 2011-12-27
DESCRIPTION | 32 ++++++++++++++------------------ MD5 | 4 ++-- R/zzz.R | 7 ++++--- 3 files changed, 20 insertions(+), 23 deletions(-)
Title: Species Identity and Evolution in R
Description: A package for the analysis of species limits and DNA barcoding data
Author: Samuel Brown, Rupert Collins, Stephane Boyer, Marie-Caroline Lefort, Jagoba Malumbres-Olarte, Cor Vink, Rob Cruickshank
Maintainer: Samuel Brown
Diff between spider versions 1.1-0 dated 2011-11-12 and 1.1-1 dated 2011-12-27
DESCRIPTION | 10 +++++----- MD5 | 15 ++++++++------- NEWS |only R/tiporder.R | 4 ++-- data/anoteropsis.rda |binary data/dolomedes.rda |binary inst/CITATION | 2 +- man/spider-package.Rd | 4 ++-- man/tiporder.Rd | 6 ++++-- 9 files changed, 22 insertions(+), 19 deletions(-)
Title: Maximum Likelihood Shrinkage via Generalized Ridge or Least
Angle Regression
Description: Identify and display TRACEs for a specified shrinkage path and determine
the extent of shrinkage most likely, under normal distribution theory, to produce an
optimal reduction in MSE Risk in estimates of regression (beta) coefficients.
Author: Bob Obenchain
Maintainer: Bob Obenchain
Diff between RXshrink versions 1.0-6 dated 2010-10-01 and 1.0-7 dated 2011-12-27
RXshrink-1.0-6/RXshrink/inst/doc/shrink.R |only RXshrink-1.0-6/RXshrink/inst/doc/shrink0.pdf |only RXshrink-1.0-7/RXshrink/DESCRIPTION | 18 +++++++++--------- RXshrink-1.0-7/RXshrink/MD5 |only RXshrink-1.0-7/RXshrink/data/haldport.rda |binary RXshrink-1.0-7/RXshrink/data/longley2.rda |binary RXshrink-1.0-7/RXshrink/data/mpg.rda |binary RXshrink-1.0-7/RXshrink/inst/doc/shrink.Rnw | 7 +------ RXshrink-1.0-7/RXshrink/inst/doc/shrink.pdf |binary RXshrink-1.0-7/RXshrink/man/RXlarlso.Rd | 2 +- RXshrink-1.0-7/RXshrink/man/RXridge.Rd | 2 +- RXshrink-1.0-7/RXshrink/man/RXshrink-package.Rd | 6 +++--- RXshrink-1.0-7/RXshrink/man/RXuclars.Rd | 2 +- 13 files changed, 16 insertions(+), 21 deletions(-)
Title: R-based Qualitative Data Analysis
Description: R package for Qualitative Data Analysis. Current version only supports plain text.
Author: HUANG Ronggui
Maintainer: HUANG Ronggui
Diff between RQDA versions 0.2-1 dated 2011-09-11 and 0.2-2 dated 2011-12-27
DESCRIPTION | 12 ++--- MD5 | 62 ++++++++++++++------------- NAMESPACE | 9 ++-- R/Attributes.R | 81 ++++++++++++++++++++++++------------ R/Boolean.R | 10 ++-- R/CaseButton.R | 43 ++++++++++++++----- R/CaseFun.R | 20 ++++---- R/CodeCatButton.R | 26 +++++------ R/CodesFun.R | 105 ++++++++++++++++++++++++++++------------------ R/Coding_Buttons.R | 110 +++++++++++++++++++++++++++++++++---------------- R/FileButton.R | 35 +++++++++------ R/FileCatButton.R | 17 ++++--- R/FilesFun.R | 80 +++++++++++++++++++---------------- R/Journal.R | 11 ++-- R/ProjectButton.R | 10 +++- R/ProjectFun.R | 63 ++++++++++++++++------------ R/RemoteDataBase.R |only R/Setting.R | 2 R/autoCoding.R | 45 ++++++++++++++++++++ R/deletion.R | 24 +++++----- R/exports.R |only R/merger.R | 60 +++++++++++++++++++++++--- R/relation.R | 25 ++++++++++- R/root_gui.R | 31 ++++++++----- R/sysdata.rda |binary R/utils.R | 49 ++++++++------------- R/zzz.R | 18 +++++++- inst/ChangeLog | 97 +++++++++++++++++++++++++++++++++++++++++++ inst/NEWS | 10 ++++ man/GetAttr.Rd | 26 +++++------ man/RQDA-package.Rd | 7 +-- man/RQDATables.rd | 8 ++- man/codingBySearch.Rd |only man/exportCodedFile.Rd |only 34 files changed, 740 insertions(+), 356 deletions(-)
Title: Hidden Markov Models simulations and estimations
Description: Discrete, univariate or multivariate gaussian, mixture of
univariate or multivariate gaussian HMM functions for
simulation and estimation.
Author: Ollivier TARAMASCO, Sebastian Bauer
Maintainer: Ollivier TARAMASCO
Diff between RHmm versions 1.5.0 dated 2011-05-21 and 1.5.5 dated 2011-12-27
RHmm-1.5.0/RHmm/src/logprob.cpp |only RHmm-1.5.0/RHmm/src/logprob.h |only RHmm-1.5.5/RHmm/DESCRIPTION | 12 RHmm-1.5.5/RHmm/MD5 |only RHmm-1.5.5/RHmm/NAMESPACE | 1 RHmm-1.5.5/RHmm/R/RHmm-HyperNew.R | 472 ++++++++++++++++++++---- RHmm-1.5.5/RHmm/R/RHmm-internals.R | 18 RHmm-1.5.5/RHmm/R/RHmm.R | 350 +++++++++-------- RHmm-1.5.5/RHmm/README | 8 RHmm-1.5.5/RHmm/data/data_mixture.rda |binary RHmm-1.5.5/RHmm/data/n1d_3s.RData |binary RHmm-1.5.5/RHmm/data/n3d_2s.RData |binary RHmm-1.5.5/RHmm/data/weather.rda |binary RHmm-1.5.5/RHmm/man/HMMFit.rd | 42 +- RHmm-1.5.5/RHmm/man/HMMGraphicDiag.rd | 14 RHmm-1.5.5/RHmm/man/HMMPlotSerie.rd | 12 RHmm-1.5.5/RHmm/man/HMMSet.rd | 12 RHmm-1.5.5/RHmm/man/HMMSim.rd | 6 RHmm-1.5.5/RHmm/man/asymptoticCovMat.rd | 12 RHmm-1.5.5/RHmm/man/asymptoticIterSimCovMat.rd |only RHmm-1.5.5/RHmm/man/asymptoticSimCovMat.rd | 25 - RHmm-1.5.5/RHmm/man/distributionSet.rd | 58 +- RHmm-1.5.5/RHmm/man/forwardBackward.rd | 48 +- RHmm-1.5.5/RHmm/man/obs_n1d_3s.rd | 12 RHmm-1.5.5/RHmm/man/obs_n3d_2s.rd | 6 RHmm-1.5.5/RHmm/man/viterbi.rd | 12 RHmm-1.5.5/RHmm/src/Debogage.h | 2 RHmm-1.5.5/RHmm/src/ExitError.h |only RHmm-1.5.5/RHmm/src/Hmm.h | 2 RHmm-1.5.5/RHmm/src/Kmeans.cpp | 2 RHmm-1.5.5/RHmm/src/Kmeans.h | 2 RHmm-1.5.5/RHmm/src/LogProb.cpp |only RHmm-1.5.5/RHmm/src/LogProb.h |only RHmm-1.5.5/RHmm/src/Main.cpp | 162 ++++---- RHmm-1.5.5/RHmm/src/MultivariateNormalUtil.cpp | 2 RHmm-1.5.5/RHmm/src/MultivariateNormalUtil.h | 2 RHmm-1.5.5/RHmm/src/OTMathUtil.h | 2 RHmm-1.5.5/RHmm/src/REquivalents.h | 2 RHmm-1.5.5/RHmm/src/RHmm.cpp | 105 ++--- RHmm-1.5.5/RHmm/src/RHmm.h | 2 RHmm-1.5.5/RHmm/src/SamplesUtil.cpp | 2 RHmm-1.5.5/RHmm/src/SamplesUtil.h | 2 RHmm-1.5.5/RHmm/src/StdAfxRHmm.cpp | 2 RHmm-1.5.5/RHmm/src/StdAfxRHmm.h | 4 RHmm-1.5.5/RHmm/src/cBaumWelch.cpp | 6 RHmm-1.5.5/RHmm/src/cBaumWelch.h | 2 RHmm-1.5.5/RHmm/src/cBaumWelchInParam.cpp | 2 RHmm-1.5.5/RHmm/src/cBaumWelchInParam.h | 2 RHmm-1.5.5/RHmm/src/cCyclicVector.h | 2 RHmm-1.5.5/RHmm/src/cDMatrix.cpp | 18 RHmm-1.5.5/RHmm/src/cDMatrix.h | 2 RHmm-1.5.5/RHmm/src/cDVector.cpp | 12 RHmm-1.5.5/RHmm/src/cDVector.h | 5 RHmm-1.5.5/RHmm/src/cDiscrete.cpp | 5 RHmm-1.5.5/RHmm/src/cDiscrete.h | 17 RHmm-1.5.5/RHmm/src/cDistribution.h | 5 RHmm-1.5.5/RHmm/src/cHmm.cpp | 9 RHmm-1.5.5/RHmm/src/cHmm.h | 3 RHmm-1.5.5/RHmm/src/cHmmFit.cpp | 468 ++++++++++++----------- RHmm-1.5.5/RHmm/src/cHmmFit.h | 3 RHmm-1.5.5/RHmm/src/cInParam.cpp | 2 RHmm-1.5.5/RHmm/src/cInParam.h | 4 RHmm-1.5.5/RHmm/src/cLogBaumWelch.cpp | 7 RHmm-1.5.5/RHmm/src/cLogBaumWelch.h | 4 RHmm-1.5.5/RHmm/src/cMixtMultivariateNormal.cpp | 2 RHmm-1.5.5/RHmm/src/cMixtMultivariateNormal.h | 17 RHmm-1.5.5/RHmm/src/cMixtUnivariateNormal.cpp | 2 RHmm-1.5.5/RHmm/src/cMixtUnivariateNormal.h | 17 RHmm-1.5.5/RHmm/src/cMultivariateNormal.cpp | 2 RHmm-1.5.5/RHmm/src/cMultivariateNormal.h | 15 RHmm-1.5.5/RHmm/src/cOTError.cpp | 8 RHmm-1.5.5/RHmm/src/cOTError.h | 4 RHmm-1.5.5/RHmm/src/cRUtils.cpp | 3 RHmm-1.5.5/RHmm/src/cRUtils.h | 9 RHmm-1.5.5/RHmm/src/cRandomGenerator.h | 2 RHmm-1.5.5/RHmm/src/cUnivariateNormal.cpp | 2 RHmm-1.5.5/RHmm/src/cUnivariateNormal.h | 17 RHmm-1.5.5/RHmm/src/cViterbi.cpp | 2 RHmm-1.5.5/RHmm/src/cViterbi.h | 2 79 files changed, 1226 insertions(+), 871 deletions(-)
Title: Seamless R and C++ Integration
Description: The Rcpp package provides a C++ library which facilitates the
integration of R and C++.
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 "Rcpp-introduction" vignette provides a good
entry point to Rcpp.
Conversion from C++ to R and back is driven by the templates Rcpp::wrap
and Rcpp::as which are highly flexible and extensible, as documented
in the "Rcpp-extending" vignette.
Rcpp also provides Rcpp modules, a framework that allows exposing
C++ functions and classes to the R level. The "Rcpp-modules" vignette
details the current set of features of Rcpp-modules.
Rcpp includes a concept called Rcpp sugar that brings many R functions
into C++. Sugar takes advantage of lazy evaluation and expression templates
to achieve great performance while exposing a syntax that is much nicer
to use than the equivalent low-level loop code. The "Rcpp-sugar" vignette
gives an overview of the feature.
Several examples are included, and more than 750 unit tests in over 330 unit
test functions provide additional usage examples.
An earlier version of Rcpp, containing what we now call the 'classic Rcpp
API' was written during 2005 and 2006 by Dominick Samperi. This code has
been factored out of Rcpp into the package RcppClassic, and it is still
available for code relying on the older interface. New development, however,
should use the Rcpp package instead.
Author: Dirk Eddelbuettel and Romain Francois,
with contributions by Douglas Bates and John Chambers
Maintainer: Dirk Eddelbuettel and Romain Francois
Diff between Rcpp versions 0.9.8 dated 2011-12-22 and 0.9.9 dated 2011-12-27
Rcpp-0.9.8/Rcpp/inst/include/Rcpp/int64 |only Rcpp-0.9.8/Rcpp/inst/include/Rcpp/traits/or.h |only Rcpp-0.9.8/Rcpp/inst/unitTests/runit.int64.R |only Rcpp-0.9.8/Rcpp/src/int64_lite.cpp |only Rcpp-0.9.9/Rcpp/ChangeLog | 29 Rcpp-0.9.9/Rcpp/DESCRIPTION | 10 Rcpp-0.9.9/Rcpp/MD5 | 72 Rcpp-0.9.9/Rcpp/inst/NEWS | 11 Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-FAQ.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-FAQ/Rcpp-FAQ.Rnw | 41 Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-extending.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-introduction.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-modules.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-modules/Rcpp-modules.Rnw | 39 Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-package.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-quickref.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-sugar.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/Rcpp-unitTests.pdf |binary Rcpp-0.9.9/Rcpp/inst/doc/unitTests-results/Rcpp-unitTests.html | 20 Rcpp-0.9.9/Rcpp/inst/doc/unitTests-results/Rcpp-unitTests.txt | 64 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/as.h | 26 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/config.h | 2 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/internal/export.h | 94 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/internal/wrap.h | 40 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/module/Module_generated_Pointer_CppMethod.h | 2712 ---------- Rcpp-0.9.9/Rcpp/inst/include/Rcpp/module/Module_generated_Pointer_method.h | 594 -- Rcpp-0.9.9/Rcpp/inst/include/Rcpp/traits/r_sexptype_traits.h | 18 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/traits/r_type_traits.h | 39 Rcpp-0.9.9/Rcpp/inst/include/Rcpp/traits/wrap_type_traits.h | 30 Rcpp-0.9.9/Rcpp/inst/include/RcppCommon.h | 27 Rcpp-0.9.9/Rcpp/inst/unitTests/runTests.R | 23 Rcpp-0.9.9/Rcpp/inst/unitTests/runit.Module.client.package.R | 61 Rcpp-0.9.9/Rcpp/inst/unitTests/runit.XPTr.R | 24 Rcpp-0.9.9/Rcpp/inst/unitTests/runit.client.package.R | 42 Rcpp-0.9.9/Rcpp/inst/unitTests/runit.macros.R | 10 Rcpp-0.9.9/Rcpp/inst/unitTests/testRcppModule/src/stdVector.cpp | 14 36 files changed, 383 insertions(+), 3659 deletions(-)
Title: R Commander
Description:
A platform-independent basic-statistics GUI (graphical user interface) for R, based on the tcltk package.
Author: John Fox [aut, cre],
Liviu Andronic [ctb],
Michael Ash [ctb],
Milan Bouchet-Valat [ctb],
Theophilius Boye [ctb],
Stefano Calza [ctb],
Andy Chang [ctb],
Philippe Grosjean [ctb],
Richard Heiberger [ctb],
Kosar Karimi Pour [ctb],
G. Jay Kerns [ctb],
Renaud Lancelot [ctb],
Matthieu Lesnoff [ctb],
Uwe Ligges [ctb],
Samir Messad [ctb],
Martin Maechler [ctb],
Robert Muenchen [ctb],
Duncan Murdoch [ctb],
Erich Neuwirth [ctb],
Dan Putler [ctb],
Brian Ripley [ctb],
Miroslav Ristic [ctb],
Peter Wolf [ctb]
Maintainer: John Fox
Diff between Rcmdr versions 1.7-3 dated 2011-11-20 and 1.8-1 dated 2011-12-27
DESCRIPTION | 60 MD5 | 70 NEWS |only R/cluster.R | 1117 ++++--- R/commander.R | 8 R/data-menu.R | 582 +++ R/file-menu.R | 6 R/graphs-menu.R | 3692 +++++++++++++++++-------- R/model-menu.R | 1678 +++++++---- R/startup.R | 2 R/statistics-dimensional-menu.R | 659 +++- R/statistics-means-menu.R | 8 R/statistics-models-menu.R | 973 +++--- R/statistics-nonparametric-menu.R | 472 ++- R/statistics-proportions-menu.R | 197 - R/statistics-summaries-menu.R | 468 ++- R/statistics-tables-menu.R | 302 +- R/statistics-variances-menu.R | 369 +- R/utilities.R | 111 inst/CHANGES | 12 inst/doc/Getting-Started-with-the-Rcmdr-ja.pdf |binary inst/etc/Rcmdr-menus.txt | 5 inst/po/es/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/it/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/ja/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/ro/LC_MESSAGES/R-Rcmdr.mo |binary inst/po/ru/LC_MESSAGES/R-Rcmdr.mo |binary man/CFA.Rd |only man/Commander.Rd | 4 man/Rcmdr-package.Rd | 4 man/Rcmdr.Utilities.Rd | 7 po/R-Rcmdr.pot | 70 po/R-es.po | 1267 ++++---- po/R-it.po | 132 po/R-ja.po | 158 - po/R-ro.po | 140 po/R-ru.po | 134 37 files changed, 8694 insertions(+), 4013 deletions(-)
Title: Pedigree functions
Description: Pedigree related functions
Author: Albart Coster
Maintainer:
Diff between pedigree versions 1.3.1 dated 2010-06-21 and 1.3.2 dated 2011-12-27
DESCRIPTION | 10 ++--- MD5 |only R/blup.R | 21 +++++----- R/gblup.R | 107 +++++++++++++++++++++++++++---------------------------- man/blup.Rd | 6 ++- src/Pedigree.cpp | 22 ++++++----- 6 files changed, 86 insertions(+), 80 deletions(-)
Title: Robust PCA by Projection Pursuit
Description: Robust PCA by Projection Pursuit
Author: Peter Filzmoser, Heinrich Fritz, Klaudius Kalcher
Maintainer: Heinrich Fritz
Diff between pcaPP versions 1.9-44 dated 2011-09-13 and 1.9-45 dated 2011-12-27
DESCRIPTION | 6 +- MD5 | 37 +++++++------ R/PCAgrid.R | 15 +++-- R/PCAproj.R | 16 +++++- R/ScaleAdv.R | 3 - R/pcaPP-internal.R | 13 ++++ R/vignette.matlab.R | 117 +------------------------------------------- inst/doc/matlab.example.txt |only inst/doc/matlab.pdf |binary man/ScaleAdv.Rd | 1 matlab/sPCAgrid.m | 43 +++++++++------- src/PCAgrid.cpp | 33 ++++++++++-- src/PCAgrid.h | 3 + src/PCAproj.cpp | 29 +++++++++- src/PCAproj.h | 2 src/pcaPP.cpp | 12 ++++ src/pcaPP.h | 7 ++ src/smat.base.h | 8 +++ src/smat.elop.h | 1 src/smat.matop.h | 17 ++++++ 20 files changed, 193 insertions(+), 170 deletions(-)
Title: Additive partitions of integers
Description: Additive partitions of integers. Enumerates the
partitions, unequal partitions, and restricted partitions of an
integer; the three corresponding partition functions are also
given. Set partitions are now included.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between partitions versions 1.9-10 dated 2011-08-11 and 1.9-12 dated 2011-12-27
partitions-1.9-10/partitions/inst/doc/algorithm.pdf |only partitions-1.9-10/partitions/inst/doc/algorithm.svg |only partitions-1.9-10/partitions/inst/doc/answers.Rdata |only partitions-1.9-10/partitions/inst/doc/blocks.pdf |only partitions-1.9-10/partitions/inst/doc/blocks.svg |only partitions-1.9-10/partitions/inst/doc/partitions.bib |only partitions-1.9-10/partitions/inst/doc/strand.pdf |only partitions-1.9-10/partitions/inst/doc/strand.svg |only partitions-1.9-12/partitions/DESCRIPTION | 12 ++-- partitions-1.9-12/partitions/MD5 | 37 +++++++------- partitions-1.9-12/partitions/R/partitions.R | 13 ++++ partitions-1.9-12/partitions/inst/doc/partitionspaper.Rnw | 10 +-- partitions-1.9-12/partitions/inst/doc/partitionspaper.pdf |binary partitions-1.9-12/partitions/inst/doc/scrabble.Rnw | 10 +-- partitions-1.9-12/partitions/inst/doc/scrabble.pdf |binary partitions-1.9-12/partitions/inst/doc/setpartitions.Rnw | 9 +-- partitions-1.9-12/partitions/inst/doc/setpartitions.pdf |binary partitions-1.9-12/partitions/man/parts.Rd | 2 partitions-1.9-12/partitions/vignettes |only 19 files changed, 56 insertions(+), 37 deletions(-)
Title: octonions and quaternions
Description:
A collection of routines to manipulate and visualize quaternions and
octonions.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between onion versions 1.2-3 dated 2009-10-15 and 1.2-4 dated 2011-12-27
onion-1.2-3/onion/inst/doc/onionpaper.bib |only onion-1.2-4/onion/DESCRIPTION | 12 +++++++----- onion-1.2-4/onion/MD5 |only onion-1.2-4/onion/data/bunny.rda |binary onion-1.2-4/onion/inst/doc/onionpaper.pdf |binary onion-1.2-4/onion/man/Ops.onion.Rd | 2 +- onion-1.2-4/onion/vignettes |only 7 files changed, 8 insertions(+), 6 deletions(-)
Title: create and investigate magic squares
Description: a collection of efficient, vectorized algorithms for the
creation and investigation of magic squares and hypercubes, including
a variety of functions for the manipulation and analysis of
arbitrarily dimensioned arrays. The package includes methods for
creating normal magic squares of any order greater than 2. The
ultimate intention is for the package to be a computerized embodiment
all magic square knowledge, including direct numerical verification
of properties of magic squares (such as recent results on the
determinant of odd-ordered semimagic squares). Some antimagic
functionality is included. The package also
serves as a rebuttal to the often-heard comment "I thought R
was just for statistics".
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between magic versions 1.4-6 dated 2009-10-16 and 1.5-1 dated 2011-12-27
magic-1.4-6/magic/R/aaa.R |only magic-1.4-6/magic/inst/doc/magic.bib |only magic-1.5-1/magic/DESCRIPTION | 28 +- magic-1.5-1/magic/MD5 |only magic-1.5-1/magic/NAMESPACE |only magic-1.5-1/magic/R/magic.R | 298 ++++++++++++++++++++--------- magic-1.5-1/magic/data/Frankenstein.rda |binary magic-1.5-1/magic/data/Ollerenshaw.rda |binary magic-1.5-1/magic/data/cube2.rda |binary magic-1.5-1/magic/data/hendricks.rda |binary magic-1.5-1/magic/data/magiccubes.rda |binary magic-1.5-1/magic/data/perfectcube5.rda |binary magic-1.5-1/magic/data/perfectcube6.rda |binary magic-1.5-1/magic/inst/doc/magicpaper.pdf |binary magic-1.5-1/magic/man/allsubhypercubes.Rd | 2 magic-1.5-1/magic/man/as.standard.Rd | 46 +++- magic-1.5-1/magic/man/cilleruelo.Rd |only magic-1.5-1/magic/man/is.magic.Rd | 19 + magic-1.5-1/magic/man/is.magichypercube.Rd | 27 ++ magic-1.5-1/magic/man/magic.constant.Rd | 10 magic-1.5-1/magic/man/magic.product.Rd | 3 magic-1.5-1/magic/man/nqueens.Rd |only magic-1.5-1/magic/man/sam.Rd | 11 - magic-1.5-1/magic/tests/aaa.R | 26 ++ magic-1.5-1/magic/vignettes |only 25 files changed, 337 insertions(+), 133 deletions(-)
Title: Kernel-based Regularized Least Squares (KRLS)
Description: Package implements Kernel-based Regularized Least Squares (KRLS), a machine learning method that can be used to fit multidimensional functions for regression and classification problems without relying on linearity or additivity assumptions. This package is currently in alpha phase (feedback is appreciated).
Author: Jens Hainmueller (MIT) Chad Hazlett (MIT)
Maintainer: Jens Hainmueller
Diff between KRLS versions 0.1 dated 2011-09-30 and 0.2 dated 2011-12-27
DESCRIPTION | 15 +++++---------- MD5 | 8 ++++---- R/krls.R | 4 ++-- R/predict.krls.R | 6 +++--- R/zzz.r | 4 ++-- 5 files changed, 16 insertions(+), 21 deletions(-)
Title: Incremental Cost-Effectiveness (ICE) Statistical Inference from
Two Unbiased Samples
Description: Given two unbiased samples of patient level data on cost and effectiveness
for a pair of treatments, make head-to-head treatment comparisons by (i) generating the
bivariate bootstrap resampling distribution of ICE uncertainty for a specified value of
the shadow price of health, lambda, (ii) form the wedge-shaped ICE confidence region with
specified confidence fraction within [0.50, 0.99] that is equivariant with respect to
changes in lambda, (iii) color the bootstrap outcomes within the above confidence wedge
with economic preferences from an ICE map with specified values of lambda, beta and gamma
parameters, (iv) display VAGR and ALICE acceptability curves, and (v) illustrate variation
in ICE preferences by displaying potentially non-linear indifference(iso-preference) curves
from an ICE map with specified values of lambda, beta and gamma or eta parameters.
Author: Bob Obenchain
Maintainer: Bob Obenchain
Diff between ICEinfer versions 0.2-0 dated 2009-02-15 and 1.0-0 dated 2011-12-27
ICEinfer-0.2-0/ICEinfer/inst/ICEinR.pdf |only ICEinfer-1.0-0/ICEinfer/DESCRIPTION | 44 +++++++++++++----------- ICEinfer-1.0-0/ICEinfer/MD5 |only ICEinfer-1.0-0/ICEinfer/inst/doc |only ICEinfer-1.0-0/ICEinfer/man/ICEalice.Rd | 2 - ICEinfer-1.0-0/ICEinfer/man/ICEcolor.Rd | 2 - ICEinfer-1.0-0/ICEinfer/man/ICEepmap.Rd | 2 - ICEinfer-1.0-0/ICEinfer/man/ICEinfer-package.Rd | 7 ++- ICEinfer-1.0-0/ICEinfer/man/ICEscale.Rd | 4 +- ICEinfer-1.0-0/ICEinfer/man/ICEuncrt.Rd | 2 - ICEinfer-1.0-0/ICEinfer/man/ICEwedge.Rd | 2 - ICEinfer-1.0-0/ICEinfer/man/dpunc.Rd | 4 +- ICEinfer-1.0-0/ICEinfer/man/dpwdg.Rd | 4 +- ICEinfer-1.0-0/ICEinfer/man/dulxparx.Rd | 4 +- ICEinfer-1.0-0/ICEinfer/man/fluoxpin.Rd | 4 +- ICEinfer-1.0-0/ICEinfer/man/fluoxtca.Rd | 4 +- 16 files changed, 45 insertions(+), 40 deletions(-)
Title: A generalization of the Dirichlet distribution
Description: A suite of routines for the hyperdirichlet distribution
Author: Robin K.S. Hankin
Maintainer:
Diff between hyperdirichlet versions 1.4-5 dated 2011-03-27 and 1.4-6 dated 2011-12-27
hyperdirichlet-1.4-5/hyperdirichlet/inst/doc/hyperdirichlet.bib |only hyperdirichlet-1.4-5/hyperdirichlet/inst/doc/precalc.Rdata |only hyperdirichlet-1.4-5/hyperdirichlet/inst/doc/vig.Rdata |only hyperdirichlet-1.4-6/hyperdirichlet/DESCRIPTION | 6 +-- hyperdirichlet-1.4-6/hyperdirichlet/MD5 |only hyperdirichlet-1.4-6/hyperdirichlet/R/hyperdirichlet.R | 17 +++++++-- hyperdirichlet-1.4-6/hyperdirichlet/inst/doc/correspondence.pdf |binary hyperdirichlet-1.4-6/hyperdirichlet/inst/doc/hyperdirichlet.pdf |binary hyperdirichlet-1.4-6/hyperdirichlet/man/dhyperdirichlet.Rd | 16 ++++++++ hyperdirichlet-1.4-6/hyperdirichlet/man/triplot.Rd | 18 ++++++++-- hyperdirichlet-1.4-6/hyperdirichlet/vignettes |only 11 files changed, 49 insertions(+), 8 deletions(-)
More information about hyperdirichlet at CRAN
Permanent link
Title: A multiplatform GUI for drawing customizable graphs in R
Description: GrapheR is a multiplatform user interface for drawing highly customizable graphs in R. It aims to be a valuable help to quickly draw publishable graphs without any knowledge of R commands. Six kinds of graph are available: histogram, box-and-whisker plot, bar plot, pie chart, curve and scatter plot.
Author: Maxime Herv�
Maintainer: Maxime Herv�
Diff between GrapheR versions 1.9-70 dated 2011-12-23 and 1.9-71 dated 2011-12-27
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/code.ask.R | 2 +- R/zzzz.R | 2 +- man/GrapheR-package.Rd | 4 ++-- 5 files changed, 12 insertions(+), 12 deletions(-)
Title: Bayesian emulation of computer programs
Description:
This package allows one to estimate the output of a computer program,
as a function of the input parameters, without actually running it.
The computer program is assumed to be a Gaussian process, whose
parameters are estimated using Bayesian techniqes that give a PDF of
expected program output. This PDF is conditional on a ``training set''
of runs, each consisting of a point in parameter space and the model
output at that point. The emphasis is on complex codes that take
weeks or months to run, and that have a large number of undetermined
input parameters; many climate prediction models fall into this
class. The emulator essentially determines Bayesian a-postiori
estimates of the PDF of the output of a model, conditioned on results
from previous runs and a user-specified prior linear model. A
working example is given in the help page for function `interpolant()',
which should be the first point of reference.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between emulator versions 1.2-8 dated 2011-08-11 and 1.2-9 dated 2011-12-27
DESCRIPTION | 37 ++++++++++++++++++------------------- MD5 | 14 +++++++------- R/emulator.R | 46 +++++++++++++++++++++++----------------------- data/expert.estimates.rda |binary data/results.table.rda |binary data/toy.rda |binary inst/doc/emulex.Rnw | 8 +++----- inst/doc/emulex.pdf |binary 8 files changed, 51 insertions(+), 54 deletions(-)
Title: elliptic functions
Description:
A suite of elliptic and related functions including Weierstrass and
Jacobi forms. Also includes various tools for manipulating and
visualizing complex functions.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
Diff between elliptic versions 1.2-8 dated 2011-08-12 and 1.2-9 dated 2011-12-27
DESCRIPTION | 13 +++++++------ MD5 | 7 ++++--- NAMESPACE |only inst/doc/ellipticpaper.Rnw | 14 +++++++++----- inst/doc/ellipticpaper.pdf |binary 5 files changed, 20 insertions(+), 14 deletions(-)
Title: Entropy reweighting to create balanced samples
Description: Package implements entropy balancing, a data preprocessing procedure that allows users to reweight a dataset such that the covariate distributions in the reweighted data satisfy a set of user specified moment conditions. This can be useful to create balanced samples in observational studies with a binary treatment where the control group data can be reweighted to match the covariate moments in the treatment group. Entropy balancing can also be used to reweight a survey sample to known characteristics from a target population. This package is currently in alpha phase (feedback is appreciated).
Author: Jens Hainmueller
Maintainer: Jens Hainmueller
Diff between ebal versions 0.1-1 dated 2011-07-27 and 0.1-2 dated 2011-12-27
COPYING |only DESCRIPTION | 19 +++++-------------- MD5 |only NAMESPACE |only R/zzz.r | 8 ++++---- 5 files changed, 9 insertions(+), 18 deletions(-)
Title: Algorithms for Quantitative Pedology
Description: A collection of algorithms related to modeling of soil resources, soil classification, soil profile aggregation, and visualization.
Author: Dylan Beaudette
Maintainer: Dylan Beaudette
Diff between aqp versions 0.99-8.56 dated 2011-12-19 and 0.99-9 dated 2011-12-27
aqp-0.99-8.56/aqp/man/SPC-slice_slab_aggregate.Rd |only aqp-0.99-8.56/aqp/man/soil.slot.multiple-methods.Rd |only aqp-0.99-9/aqp/DESCRIPTION | 10 aqp-0.99-9/aqp/MD5 | 59 - aqp-0.99-9/aqp/NEWS | 13 aqp-0.99-9/aqp/R/NASIS_functions.R |only aqp-0.99-9/aqp/R/SoilProfileCollection-coercion.R | 16 aqp-0.99-9/aqp/R/SoilProfileCollection-methods.R | 2 aqp-0.99-9/aqp/R/SoilProfileCollection-slice-methods.R | 156 +-- aqp-0.99-9/aqp/R/munsell2rgb.R | 2 aqp-0.99-9/aqp/R/pedonPC_functions.R | 3 aqp-0.99-9/aqp/R/setters.R | 9 aqp-0.99-9/aqp/R/soil_slotting.R | 24 aqp-0.99-9/aqp/TODO | 14 aqp-0.99-9/aqp/data/sp1.rda |binary aqp-0.99-9/aqp/data/sp2.rda |binary aqp-0.99-9/aqp/data/sp3.rda |binary aqp-0.99-9/aqp/demo/aqp.R | 2 aqp-0.99-9/aqp/inst/doc/aqp-intro.Rnw | 2 aqp-0.99-9/aqp/inst/doc/aqp-intro.pdf |binary aqp-0.99-9/aqp/inst/doc/aqp-vignette.pdf |binary aqp-0.99-9/aqp/man/SPC-slab-methods.Rd |only aqp-0.99-9/aqp/man/SPC-slice-methods.Rd |only aqp-0.99-9/aqp/man/SoilProfileCollection-class.Rd | 2 aqp-0.99-9/aqp/man/ca630.Rd | 20 aqp-0.99-9/aqp/man/munsell.Rd | 8 aqp-0.99-9/aqp/man/munsell2rgb.Rd | 10 aqp-0.99-9/aqp/man/panel.depth_function.Rd | 2 aqp-0.99-9/aqp/man/random_profile.Rd | 2 aqp-0.99-9/aqp/man/soil.slot.Rd | 674 ++++++++--------- aqp-0.99-9/aqp/man/sp1.Rd | 16 aqp-0.99-9/aqp/man/sp3.Rd | 2 aqp-0.99-9/aqp/man/test_hz_logic.Rd | 23 33 files changed, 534 insertions(+), 537 deletions(-)