Title: Topic models
Diff between topicmodels versions 0.1-3 dated 2011-10-23 and 0.1-4 dated 2011-12-27
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
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
Diff between textir versions 1.7-2 dated 2011-12-01 and 1.7-3 dated 2011-12-27
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
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
Diff between Rsymphony versions 0.1-12 dated 2010-10-12 and 0.1-14 dated 2011-12-27
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
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Rsymphony-0.1-12/Rsymphony/src/SYMPHONY/Osi/test/OsiSolverInterfaceTest.cpp |only
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/examples/cgl_data_test.cpp | 6
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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
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding/CglMixedIntegerRoundingTest.cpp | 2
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2.cpp | 2
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglMixedIntegerRounding2/CglMixedIntegerRounding2Test.cpp | 2
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglRedSplit/CglRedSplit.cpp | 54
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglRedSplit/CglRedSplitParam.cpp | 3
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Cgl/src/CglRedSplit/CglRedSplitTest.cpp | 12
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinBuild.cpp | 9
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinDenseFactorization.cpp | 14
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinDenseFactorization.hpp | 6
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinDenseVector.cpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinDenseVector.hpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinDistance.hpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinError.cpp | 3
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinFileIO.cpp | 22
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPackedVectorBase.cpp | 45
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPostsolveMatrix.cpp | 3
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPresolveUseless.cpp | 5
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPresolveUseless.hpp | 3
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPresolveZeros.cpp | 47
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinPresolveZeros.hpp | 3
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSearchTree.cpp | 6
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSearchTree.hpp | 16
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinShallowPackedVector.cpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinShallowPackedVector.hpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSignal.hpp | 3
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSimpFactorization.cpp | 9
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSimpFactorization.hpp | 7
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSmartPtr.hpp | 5
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinSnapshot.cpp | 4
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinStructuredModel.cpp | 3
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinStructuredModel.hpp | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinTime.hpp | 3
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/CoinUtils/src/CoinWarmStartBasis.cpp | 4
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiCpxSolverInterfaceTest.cpp | 927
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiGlpkSolverInterfaceTest.cpp | 1156
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiGrbSolverInterfaceTest.cpp | 934
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiMskSolverInterfaceTest.cpp | 965
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiSpxSolverInterfaceTest.cpp | 863
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiTestSolverInterfaceIO.cpp |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiTestSolverInterfaceTest.cpp |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/OsiXprSolverInterfaceTest.cpp | 1026
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/Osi/test/unitTest.cpp | 637
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/LICENSE | 330
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_cg.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_cg_params.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_common_types.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_const.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_cp.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_cp_params.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_dg.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_dg_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_io.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_lp.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_lp_params.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_macros.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_master_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_messages.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/cnrp_types.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/compute_cost.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/network.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/include/small_graph.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Common/cnrp_macros.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Common/compute_cost.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Common/network.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/CutGen/biconnected.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/CutGen/cnrp_cg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/CutGen/shrink.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/CutGen/tsp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/CutPool/cnrp_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/DrawGraph/cnrp_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/DrawGraph/cnrp_dg_functions.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/DrawGraph/cnrp_dg_network.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/LP/cnrp_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/LP/cnrp_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Master/cnrp_io.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Master/cnrp_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Master/cnrp_master.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Master/cnrp_master_functions.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/CNRP/src/Master/small_graph.c | 2
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/LICENSE | 330
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/MSVisualStudio/v10 |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/Makefile.in | 281
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/include/user.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/CutGen/user_cg.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/CutPool/user_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/DrawGraph/user_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/LP/user_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/LP/user_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/Master/user_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MATCH/src/Master/user_master.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/INSTALL | 169
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/LICENSE | 330
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/MSVisualStudio/v10 |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/Makefile.in | 241
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MCKP/mckp_main.c | 6
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/INSTALL | 225
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/MSVisualStudio/v10 |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/Makefile.in | 280
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/include/mpp.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/CutGen/mpp_cg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/CutPool/mpp_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/DrawGraph/mpp_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/LP/mpp_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/LP/mpp_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/Master/mpp_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MPP/src/Master/mpp_master.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/MSVisualStudio/v10 |only
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/LICENSE | 330
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/MSVisualStudio/v10 |only
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_cg.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_cg_clique.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_cg_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_cg_params.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_common.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_constants.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_lp.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_lp_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_lp_params.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_macros.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_master_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/include/spp_types.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/Common/spp_common.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/CutGen/spp_cg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/CutGen/spp_cg_clique.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/CutGen/spp_cg_functions.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/CutPool/spp_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/DrawGraph/spp_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/LP/spp_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/LP/spp_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/LP/spp_lp_functions.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/Master/spp_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/Master/spp_master.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP+CUTS/src/Master/spp_master_functions.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/INSTALL | 223
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/LICENSE | 330
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/MSVisualStudio/v10 |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/Makefile.in | 288
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp_common.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp_constants.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp_macros.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp_master_functions.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/include/spp_types.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/Common/spp_common.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/CutGen/spp_cg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/CutPool/spp_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/DrawGraph/spp_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/LP/spp_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/LP/spp_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/Master/spp_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/Master/spp_master.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/SPP/src/Master/spp_master_functions.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/INSTALL | 225
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/MSVisualStudio/v10 |only
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Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/include/user.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/CutGen/user_cg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/CutPool/user_cp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/DrawGraph/user_dg.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/LP/user_lp.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/LP/user_lp_branch.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/Master/user_main.c | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/USER/src/Master/user_master.c | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/INSTALL | 228
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/LICENSE | 330
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/MSVisualStudio/v10 |only
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/Makefile.in | 334
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/Makefile.orig | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/compute_cost.h | 4
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/binomial.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/cluster_heur.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/collect_solutions.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/exchange_heur.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/heur_params.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/heur_routines.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/heur_types.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/ins_routines.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/ins_routines2.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/lb_params.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/lb_types.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/lower_bound.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/mst_ins_rout.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/qsort.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/receive_rout.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/route_heur.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/s_path.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/savings.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/savings2.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/savings3.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/start_heurs.h | 2
Rsymphony-0.1-14/Rsymphony/src/SYMPHONY/SYMPHONY/Applications/VRP/include/heurs/sweep.h | 2
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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
Diff between Rknots versions 1.1 dated 2011-09-06 and 1.2 dated 2011-12-27
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
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
Diff between oro.nifti versions 0.2.8 dated 2011-10-19 and 0.2.9 dated 2011-12-27
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
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
Diff between oro.dicom versions 0.3.1 dated 2011-10-19 and 0.3.3 dated 2011-12-27
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
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.
Diff between mritc versions 0.3-4 dated 2011-10-24 and 0.3-5 dated 2011-12-27
Description: Various methods for MRI tissue classification.
Author: Dai Feng and Luke Tierney
Maintainer: Dai Feng
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
Diff between modelfree versions 1.0 dated 2010-10-20 and 1.0-2 dated 2011-12-27
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
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
Diff between bios2mds versions 1.1 dated 2011-07-23 and 1.2 dated 2011-12-27
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
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
Diff between USPS versions 1.2-0 dated 2009-02-15 and 1.2-1 dated 2011-12-27
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
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
Diff between untb versions 1.6-8 dated 2011-08-11 and 1.6-9 dated 2011-12-27
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
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
Diff between tmvtnorm versions 1.3-1 dated 2011-12-02 and 1.4-1 dated 2011-12-27
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
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
Diff between Synth versions 1.1-1 dated 2011-09-28 and 1.1-2 dated 2011-12-27
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
DESCRIPTION | 32 ++++++++++++++------------------
MD5 | 4 ++--
R/zzz.R | 7 ++++---
3 files changed, 20 insertions(+), 23 deletions(-)
Title: Species Identity and Evolution in R
Diff between spider versions 1.1-0 dated 2011-11-12 and 1.1-1 dated 2011-12-27
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
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
Diff between RXshrink versions 1.0-6 dated 2010-10-01 and 1.0-7 dated 2011-12-27
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
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
Diff between RQDA versions 0.2-1 dated 2011-09-11 and 0.2-2 dated 2011-12-27
Description: R package for Qualitative Data Analysis. Current version only supports plain text.
Author: HUANG Ronggui
Maintainer: HUANG Ronggui
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
Diff between RHmm versions 1.5.0 dated 2011-05-21 and 1.5.5 dated 2011-12-27
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
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
Diff between Rcpp versions 0.9.8 dated 2011-12-22 and 0.9.9 dated 2011-12-27
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
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
Diff between Rcmdr versions 1.7-3 dated 2011-11-20 and 1.8-1 dated 2011-12-27
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
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
Diff between pedigree versions 1.3.1 dated 2010-06-21 and 1.3.2 dated 2011-12-27
Description: Pedigree related functions
Author: Albart Coster
Maintainer:
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
Diff between pcaPP versions 1.9-44 dated 2011-09-13 and 1.9-45 dated 2011-12-27
Description: Robust PCA by Projection Pursuit
Author: Peter Filzmoser, Heinrich Fritz, Klaudius Kalcher
Maintainer: Heinrich Fritz
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
Diff between partitions versions 1.9-10 dated 2011-08-11 and 1.9-12 dated 2011-12-27
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
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
Diff between onion versions 1.2-3 dated 2009-10-15 and 1.2-4 dated 2011-12-27
Description:
A collection of routines to manipulate and visualize quaternions and
octonions.
Author: Robin K. S. Hankin
Maintainer: Robin K. S. Hankin
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
Diff between magic versions 1.4-6 dated 2009-10-16 and 1.5-1 dated 2011-12-27
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
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)
Diff between KRLS versions 0.1 dated 2011-09-30 and 0.2 dated 2011-12-27
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
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
Diff between ICEinfer versions 0.2-0 dated 2009-02-15 and 1.0-0 dated 2011-12-27
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
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
Diff between hyperdirichlet versions 1.4-5 dated 2011-03-27 and 1.4-6 dated 2011-12-27
More information about hyperdirichlet at CRAN
Description: A suite of routines for the hyperdirichlet distribution
Author: Robin K.S. Hankin
Maintainer:
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(-)
Permanent link
Title: A multiplatform GUI for drawing customizable graphs in R
Diff between GrapheR versions 1.9-70 dated 2011-12-23 and 1.9-71 dated 2011-12-27
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 Hervé
Maintainer: Maxime Hervé
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
Diff between emulator versions 1.2-8 dated 2011-08-11 and 1.2-9 dated 2011-12-27
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
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
Diff between elliptic versions 1.2-8 dated 2011-08-12 and 1.2-9 dated 2011-12-27
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
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
Diff between ebal versions 0.1-1 dated 2011-07-27 and 0.1-2 dated 2011-12-27
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
COPYING |only
DESCRIPTION | 19 +++++--------------
MD5 |only
NAMESPACE |only
R/zzz.r | 8 ++++----
5 files changed, 9 insertions(+), 18 deletions(-)
Title: Algorithms for Quantitative Pedology
Diff between aqp versions 0.99-8.56 dated 2011-12-19 and 0.99-9 dated 2011-12-27
Description: A collection of algorithms related to modeling of soil resources, soil classification, soil profile aggregation, and visualization.
Author: Dylan Beaudette
Maintainer: Dylan Beaudette
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(-)