Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-07-12 1.0-1
2012-09-22 1.0
Title: The ScottKnott Clustering Algorithm
Description: Division of an ANOVA experiment treatment means into
homogeneous distinct groups using the clustering method of
Scott & Knott
Author: Enio Jelihovschi
Maintainer: Ivan Bezerra Allaman
Diff between ScottKnott versions 1.2-0 dated 2012-10-18 and 1.2-4 dated 2013-11-28
ScottKnott-1.2-0/ScottKnott/README |only ScottKnott-1.2-0/ScottKnott/demo/SPE.r |only ScottKnott-1.2-0/ScottKnott/demo/SSPE.r |only ScottKnott-1.2-0/ScottKnott/scripts |only ScottKnott-1.2-4/ScottKnott/ChangeLog | 73 + ScottKnott-1.2-4/ScottKnott/DESCRIPTION | 17 ScottKnott-1.2-4/ScottKnott/INDEX | 36 ScottKnott-1.2-4/ScottKnott/MD5 | 86 + ScottKnott-1.2-4/ScottKnott/NAMESPACE | 20 ScottKnott-1.2-4/ScottKnott/R/MaxValue.R | 228 ++-- ScottKnott-1.2-4/ScottKnott/R/SK.R | 10 ScottKnott-1.2-4/ScottKnott/R/SK.aov.R | 115 +- ScottKnott-1.2-4/ScottKnott/R/SK.aovlist.R | 98 +- ScottKnott-1.2-4/ScottKnott/R/SK.default.R | 84 + ScottKnott-1.2-4/ScottKnott/R/SK.nest.aov.R | 459 ++++++--- ScottKnott-1.2-4/ScottKnott/R/SK.nest.aovlist.R | 523 +++++++---- ScottKnott-1.2-4/ScottKnott/R/SK.nest.default.R | 16 ScottKnott-1.2-4/ScottKnott/R/m.inf.1a.R |only ScottKnott-1.2-4/ScottKnott/R/m.inf.1b.R |only ScottKnott-1.2-4/ScottKnott/R/m.inf.2a.R |only ScottKnott-1.2-4/ScottKnott/R/m.inf.2b.R |only ScottKnott-1.2-4/ScottKnott/R/m.inf.3a.R |only ScottKnott-1.2-4/ScottKnott/R/m.inf.3b.R |only ScottKnott-1.2-4/ScottKnott/R/plot.SK.R | 204 ++-- ScottKnott-1.2-4/ScottKnott/R/summary.SK.R | 70 - ScottKnott-1.2-4/ScottKnott/R/summary.SK.nest.R | 15 ScottKnott-1.2-4/ScottKnott/data/SPET.rda |only ScottKnott-1.2-4/ScottKnott/demo/00Index | 13 ScottKnott-1.2-4/ScottKnott/demo/CRD.R | 12 ScottKnott-1.2-4/ScottKnott/demo/FE.R | 69 - ScottKnott-1.2-4/ScottKnott/demo/LSD.R | 6 ScottKnott-1.2-4/ScottKnott/demo/RCBD.R | 3 ScottKnott-1.2-4/ScottKnott/demo/SPE.R |only ScottKnott-1.2-4/ScottKnott/demo/SPET.R |only ScottKnott-1.2-4/ScottKnott/demo/SSPE.R |only ScottKnott-1.2-4/ScottKnott/inst/CITATION | 44 ScottKnott-1.2-4/ScottKnott/man/CRD1.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/CRD2.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/FE.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/LS.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/MaxValue.Rd | 51 - ScottKnott-1.2-4/ScottKnott/man/RCBD.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/SK.Rd | 66 - ScottKnott-1.2-4/ScottKnott/man/SK.nest.Rd | 49 - ScottKnott-1.2-4/ScottKnott/man/SPE.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/SPET.rd |only ScottKnott-1.2-4/ScottKnott/man/SSPE.Rd | 16 ScottKnott-1.2-4/ScottKnott/man/ScottKnott-package.Rd | 840 +++++++++--------- ScottKnott-1.2-4/ScottKnott/man/m.inf.Rd |only ScottKnott-1.2-4/ScottKnott/man/plot.SK.Rd | 43 ScottKnott-1.2-4/ScottKnott/man/sorghum.Rd | 28 ScottKnott-1.2-4/ScottKnott/man/summary.Rd | 24 52 files changed, 2000 insertions(+), 1414 deletions(-)
Title: Rcpp bindings for NumPy files
Description: This package use the cnpy library written by Carl Rogers to
provide read and write facilities for files created with (or for) the NumPy
extension for Python. Vectors and matrices of numeric types can be read or
written to and from files as well as compressed files. Support for integer
files is available if the package has been built with -std=c++0x or
-std=c++11 which is needed to support 'long long int' types.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel
Diff between RcppCNPy versions 0.2.0 dated 2012-07-31 and 0.2.1 dated 2013-11-28
RcppCNPy-0.2.0/RcppCNPy/inst/cnpy-LICENSE |only RcppCNPy-0.2.1/RcppCNPy/ChangeLog | 34 +++++++ RcppCNPy-0.2.1/RcppCNPy/DESCRIPTION | 24 ++-- RcppCNPy-0.2.1/RcppCNPy/MD5 | 31 +++--- RcppCNPy-0.2.1/RcppCNPy/NAMESPACE | 3 RcppCNPy-0.2.1/RcppCNPy/README.md |only RcppCNPy-0.2.1/RcppCNPy/build |only RcppCNPy-0.2.1/RcppCNPy/inst/NEWS.Rd | 15 +++ RcppCNPy-0.2.1/RcppCNPy/inst/THANKS |only RcppCNPy-0.2.1/RcppCNPy/inst/doc/RcppCNPy-intro.R |only RcppCNPy-0.2.1/RcppCNPy/inst/doc/RcppCNPy-intro.Rnw | 34 +++---- RcppCNPy-0.2.1/RcppCNPy/inst/doc/RcppCNPy-intro.pdf |binary RcppCNPy-0.2.1/RcppCNPy/man/RcppCNPy-package.Rd | 12 -- RcppCNPy-0.2.1/RcppCNPy/src/cnpy.cpp | 92 +++++++++++++------ RcppCNPy-0.2.1/RcppCNPy/src/cnpy.h | 21 +++- RcppCNPy-0.2.1/RcppCNPy/src/cnpyMod.cpp | 10 ++ RcppCNPy-0.2.1/RcppCNPy/tests/loadFiles.R | 16 ++- RcppCNPy-0.2.1/RcppCNPy/tests/loadFiles.Rout.save | 20 ++-- RcppCNPy-0.2.1/RcppCNPy/vignettes/RcppCNPy-intro.Rnw | 34 +++---- 19 files changed, 233 insertions(+), 113 deletions(-)
Title: Sampling Estimates
Description: Functions to estimate from survey data. This package is a user-friendly wrapper of the samplingVarEst package. It considers that the user is more familiar with practical survey data rather than with research on survey sampling (variance estimation). More functionalities are on the way.
Author: Emilio Lopez Escobar
Maintainer: Emilio Lopez Escobar
Diff between samplingEstimates versions 0.1-1 dated 2013-07-24 and 0.1-2 dated 2013-11-28
ChangeLog |only DESCRIPTION | 8 MD5 | 9 - R/Estimate_Total_NHT.r | 266 +++++++++++++++++++------------- data |only man/Estimate_Total_NHT.rd | 380 +++++++++++++++++++++++----------------------- man/Sample1.rd |only 7 files changed, 364 insertions(+), 299 deletions(-)
More information about samplingEstimates at CRAN
Permanent link
Title: Practical Numerical Math Functions
Description:
Functions from numerical analysis and linear algebra, numerical
optimization, differential equations, plus some special functions.
Uses Matlab function names where appropriate to simplify porting.
Author: Hans Werner Borchers
Maintainer: Hans W. Borchers
Diff between pracma versions 1.5.5 dated 2013-09-15 and 1.5.8 dated 2013-11-28
pracma-1.5.5/pracma/R/kmeanspp.R |only pracma-1.5.5/pracma/man/kmeanspp.Rd |only pracma-1.5.8/pracma/DESCRIPTION | 16 +++---- pracma-1.5.8/pracma/MD5 | 24 +++++----- pracma-1.5.8/pracma/NEWS | 26 +++++++++-- pracma-1.5.8/pracma/R/integral.R | 4 - pracma-1.5.8/pracma/R/interp1.R | 77 +++++++++++++++++++++++++++++++++- pracma-1.5.8/pracma/R/odregress.R |only pracma-1.5.8/pracma/R/runstest.R |only pracma-1.5.8/pracma/data/brown72.rda |binary pracma-1.5.8/pracma/data/titanium.rda |binary pracma-1.5.8/pracma/inst/NEWS.Rd | 38 ++++++++++++++-- pracma-1.5.8/pracma/man/arclength.Rd | 9 +++ pracma-1.5.8/pracma/man/interp1.Rd | 25 +++++++++-- pracma-1.5.8/pracma/man/odregress.Rd |only pracma-1.5.8/pracma/man/runstest.Rd |only 16 files changed, 182 insertions(+), 37 deletions(-)
Title: Markov beta and gamma processes for modeling hazard rates
Description: Computes the hazard rate estimate as described by Nieto-Barajas and Walker (2002) and Nieto-Barajas (2003)
Author: Garcia-Bueno, J. A. & Nieto-Barajas, L. E.
Maintainer: Jose Antonio Garcia Bueno
Diff between BGPhazard versions 0.9.1 dated 2013-10-17 and 0.9.2 dated 2013-11-28
DESCRIPTION | 16 +++++++-------- MD5 | 50 +++++++++++++++++++++++------------------------ R/GaMRes.R | 2 - man/BGPhazard-package.Rd | 25 +++++++++++------------ man/BeMRes.Rd | 12 +++++------ man/BeNM.Rd | 2 - man/BePlotDiag.Rd | 4 +-- man/BePloth.Rd | 10 ++++----- man/BePrC.Rd | 2 - man/BePrU.Rd | 2 - man/BeTao.Rd | 2 - man/CGaM.Rd | 4 +-- man/CGaMRes.Rd | 19 ++++++++--------- man/CGaN.Rd | 4 +-- man/CGaPlotDiag.Rd | 15 ++++++-------- man/CGaPloth.Rd | 10 ++++----- man/CGaPrU.Rd | 2 - man/CGaPred.Rd | 23 +++++++++++---------- man/CGaTao.Rd | 2 - man/CLambdaSumm.Rd | 2 - man/CUpdTheta.Rd | 2 - man/Cftheta.Rd | 2 - man/GaMRes.Rd | 20 ++++++++++-------- man/GaPlotDiag.Rd | 13 ++++++------ man/GaPloth.Rd | 7 +++--- man/PlotTheta.Rd | 21 ++++++++++++------- 26 files changed, 140 insertions(+), 133 deletions(-)
Title: data analysis of drug stability for shelf life estimation
Description: data analysis of drug stability (shelf life estimation)
based on ICH Q1E guideline.
Author: Hsin-ya Lee, Yung-jin Lee
Maintainer: Yung-jin Lee
Diff between stab versions 0.1.6 dated 2013-09-23 and 0.1.7 dated 2013-11-28
DESCRIPTION | 8 +-- MD5 | 12 ++-- NEWS | 8 +++ R/MultipleAnalyze.r | 132 +++++++++++++++++++++++++++++----------------------- R/SingleAnalyze.r | 63 +++++++++++++++--------- R/stab.version.r | 2 R/zzz.R | 2 7 files changed, 135 insertions(+), 92 deletions(-)
Title: Fit, Simulate and Diagnose Models for Network Evolution based on
Exponential-Family Random Graph Models
Description: An integrated set of extensions to the `ergm` package to analyze and simulate network evolution based on exponential-family random graph models (ERGM). "tergm" is a part of the "statnet" suite of packages for network analysis.
Author: Pavel N. Krivitsky [aut, cre],
Mark S. Handcock [aut, ths],
David R. Hunter [ctb],
Steven M. Goodreau [ctb, ths],
Martina Morris [ctb, ths],
Nicole Bohme Carnegie [ctb],
Carter T. Butts [ctb],
Ayn Leslie-Cook [ctb],
Skye Bender-deMoll [ctb]
Maintainer: Pavel N. Krivitsky
Diff between tergm versions 3.1-0 dated 2013-04-27 and 3.1.2 dated 2013-11-28
tergm-3.1-0/tergm/examples |only tergm-3.1.2/tergm/DESCRIPTION | 60 +++--- tergm-3.1.2/tergm/MD5 | 75 +++---- tergm-3.1.2/tergm/NAMESPACE | 8 tergm-3.1.2/tergm/R/InitMHP.DynMLE.R | 5 tergm-3.1.2/tergm/R/InitMHP.DynMLE.blockdiag.R | 18 + tergm-3.1.2/tergm/R/control.simulate.stergm.R | 16 + tergm-3.1.2/tergm/R/control.stergm.R | 25 +- tergm-3.1.2/tergm/R/ergm.godfather.R | 8 tergm-3.1.2/tergm/R/simulate.stergm.R | 117 ++++++++---- tergm-3.1.2/tergm/R/stergm.CMLE.R | 15 - tergm-3.1.2/tergm/R/stergm.EGMME.R | 9 tergm-3.1.2/tergm/R/stergm.EGMME.SA.R | 3 tergm-3.1.2/tergm/R/stergm.getMCMCsample.R | 4 tergm-3.1.2/tergm/R/stergm.utils.R | 10 - tergm-3.1.2/tergm/R/zzz.R | 7 tergm-3.1.2/tergm/inst/NEWS.Rd | 103 ++++++++-- tergm-3.1.2/tergm/man/coef.stergm.Rd | 15 - tergm-3.1.2/tergm/man/control.simulate.stergm.Rd | 51 +++-- tergm-3.1.2/tergm/man/control.stergm.Rd | 208 +++++++++++++--------- tergm-3.1.2/tergm/man/simulate.stergm.Rd | 113 ++++++----- tergm-3.1.2/tergm/man/tergm-internal.Rd | 2 tergm-3.1.2/tergm/man/tergm-package.Rd | 9 tergm-3.1.2/tergm/man/tergm.godfather.Rd | 24 +- tergm-3.1.2/tergm/src/DynSA.c | 10 - tergm-3.1.2/tergm/src/DynSA.h | 4 tergm-3.1.2/tergm/src/MCMCDyn.c | 75 +++++-- tergm-3.1.2/tergm/src/MCMCDyn.h | 8 tergm-3.1.2/tergm/src/MHproposals_DynMLE.c | 106 +++++++++-- tergm-3.1.2/tergm/src/MHproposals_DynMLE.h | 1 tergm-3.1.2/tergm/src/MHproposals_DynMLE_block.c | 22 +- tergm-3.1.2/tergm/src/MHproposals_DynMLE_block.h | 2 tergm-3.1.2/tergm/src/MHproposals_DynMoME.c | 18 + tergm-3.1.2/tergm/tests/degree.mean.age.R | 16 - tergm-3.1.2/tergm/tests/dynamic_EGMME.R | 6 tergm-3.1.2/tergm/tests/dynamic_EGMME.simple.R |only tergm-3.1.2/tergm/tests/sim_gf_sum.R | 8 tergm-3.1.2/tergm/tests/simulate_networkDynamic.R |only 38 files changed, 788 insertions(+), 393 deletions(-)
Title: ROI-plugin symphony
Description: This package enhances the R Optimization Infrastructure (ROI) package
with the symphony solver from the COIN-OR suite for solving mixed integer
linear programming (MILP) problems as well as all variants/combinations of LP, IP.
Author: Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl
Diff between ROI.plugin.symphony versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
DESCRIPTION | 23 ++++++++++++----------- MD5 | 4 ++-- R/plugin.R | 57 ++++++++++++++++++++++++++++++++++++++++----------------- 3 files changed, 54 insertions(+), 30 deletions(-)
More information about ROI.plugin.symphony at CRAN
Permanent link
Title: ROI-plugin quadprog
Description: This package enhances the R Optimization Infrastructure (ROI) package
with the quadprog solver for solving quadratic programming (QP)
problems.
Author: Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl
Diff between ROI.plugin.quadprog versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
DESCRIPTION | 22 ++++++----- MD5 | 8 ++-- NAMESPACE | 2 - R/plugin.R | 118 ++++++++++++++++++++++++++++++++++++++++++------------------ R/zzz.R | 1 5 files changed, 101 insertions(+), 50 deletions(-)
More information about ROI.plugin.quadprog at CRAN
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Title: R Optimization Infrastructure
Description: The R Optimization Infrastructure (ROI) package provides a
sophisticated framework for handling optimization problems in R.
Author: Kurt Hornik [aut],
David Meyer [aut],
Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl
Diff between ROI versions 0.0-7 dated 2011-12-09 and 0.1-0 dated 2013-11-28
ROI-0.0-7/ROI/man/L-sub-constraint.Rd |only ROI-0.0-7/ROI/man/L-sub-objective.Rd |only ROI-0.0-7/ROI/man/Q-sub-constraint.Rd |only ROI-0.0-7/ROI/man/Q-sub-objective.Rd |only ROI-0.0-7/ROI/man/ROI-sub-available-sub-solvers.Rd |only ROI-0.0-7/ROI/man/ROI-sub-installed-sub-solvers.Rd |only ROI-0.0-7/ROI/man/ROI-sub-registered-sub-solvers.Rd |only ROI-0.0-7/ROI/man/ROI-sub-solve.Rd |only ROI-0.0-7/ROI/man/V-sub-bound.Rd |only ROI-0.0-7/ROI/man/as-dot-L-sub-constraint.Rd |only ROI-0.0-7/ROI/man/as-dot-L-sub-objective.Rd |only ROI-0.0-7/ROI/man/as-dot-OP.Rd |only ROI-0.0-7/ROI/man/as-dot-Q-sub-constraint.Rd |only ROI-0.0-7/ROI/man/as-dot-Q-sub-objective.Rd |only ROI-0.0-7/ROI/man/as-dot-constraint.Rd |only ROI-0.0-7/ROI/man/as-dot-objective.Rd |only ROI-0.0-7/ROI/man/bounds-dash-replace.Rd |only ROI-0.0-7/ROI/man/bounds-dot-OP.Rd |only ROI-0.0-7/ROI/man/constraints-dash-replace.Rd |only ROI-0.0-7/ROI/man/constraints-dot-OP.Rd |only ROI-0.0-7/ROI/man/is-dot-L-sub-constraint.Rd |only ROI-0.0-7/ROI/man/is-dot-Q-sub-constraint.Rd |only ROI-0.0-7/ROI/man/length-dot-L-sub-constraint.Rd |only ROI-0.0-7/ROI/man/rbind-dot-L-sub-constraint.Rd |only ROI-0.1-0/ROI/DESCRIPTION | 27 +-- ROI-0.1-0/ROI/MD5 | 86 +++++----- ROI-0.1-0/ROI/NAMESPACE | 165 ++++++++++---------- ROI-0.1-0/ROI/R/OP.R | 39 +++- ROI-0.1-0/ROI/R/bounds.R | 97 ++++++++--- ROI-0.1-0/ROI/R/constraints.R | 87 +++++++--- ROI-0.1-0/ROI/R/gradient.R |only ROI-0.1-0/ROI/R/objective.R | 144 ++++++++++++----- ROI-0.1-0/ROI/R/plugin_nlminb.R |only ROI-0.1-0/ROI/R/roi.R | 4 ROI-0.1-0/ROI/R/solution.R | 2 ROI-0.1-0/ROI/R/types.R | 18 ++ ROI-0.1-0/ROI/R/utilities.R | 4 ROI-0.1-0/ROI/R/zzz.R | 57 ++++-- ROI-0.1-0/ROI/man/F_constraint.Rd |only ROI-0.1-0/ROI/man/F_objective.Rd |only ROI-0.1-0/ROI/man/G.Rd |only ROI-0.1-0/ROI/man/L_constraint.Rd |only ROI-0.1-0/ROI/man/L_objective.Rd |only ROI-0.1-0/ROI/man/OP.Rd | 70 +++++--- ROI-0.1-0/ROI/man/Q_constraint.Rd |only ROI-0.1-0/ROI/man/Q_objective.Rd |only ROI-0.1-0/ROI/man/ROI_available_solvers.Rd |only ROI-0.1-0/ROI/man/ROI_installed_solvers.Rd |only ROI-0.1-0/ROI/man/ROI_registered_solvers.Rd |only ROI-0.1-0/ROI/man/ROI_solve.Rd |only ROI-0.1-0/ROI/man/V_bound.Rd |only ROI-0.1-0/ROI/man/as.F_objective.Rd |only ROI-0.1-0/ROI/man/as.L_constraint.Rd |only ROI-0.1-0/ROI/man/as.L_objective.Rd |only ROI-0.1-0/ROI/man/as.OP.Rd |only ROI-0.1-0/ROI/man/as.Q_constraint.Rd |only ROI-0.1-0/ROI/man/as.Q_objective.Rd |only ROI-0.1-0/ROI/man/as.constraint.Rd |only ROI-0.1-0/ROI/man/as.objective.Rd |only ROI-0.1-0/ROI/man/bounds-replace.Rd |only ROI-0.1-0/ROI/man/bounds.OP.Rd |only ROI-0.1-0/ROI/man/bounds.Rd | 27 ++- ROI-0.1-0/ROI/man/constraints-replace.Rd |only ROI-0.1-0/ROI/man/constraints.OP.Rd |only ROI-0.1-0/ROI/man/constraints.Rd | 27 ++- ROI-0.1-0/ROI/man/is.L_constraint.Rd |only ROI-0.1-0/ROI/man/is.Q_constraint.Rd |only ROI-0.1-0/ROI/man/length.L_constraint.Rd |only ROI-0.1-0/ROI/man/objective.Rd | 29 ++- ROI-0.1-0/ROI/man/rbind.L_constraint.Rd |only ROI-0.1-0/ROI/man/types.Rd | 31 ++- 71 files changed, 596 insertions(+), 318 deletions(-)
Title: ROI-plugin GLPK
Description: This package enhances the R Optimization Infrastructure (ROI) package
with the GLPK solver for solving mixed integer linear programming (MILP)
problems as well as all variants/combinations of LP, IP.
Author: Stefan Theussl [aut, cre]
Maintainer: Stefan Theussl
Diff between ROI.plugin.glpk versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
DESCRIPTION | 23 ++++++++++++----------- MD5 | 4 ++-- R/plugin.R | 16 ++++++++-------- 3 files changed, 22 insertions(+), 21 deletions(-)
More information about ROI.plugin.glpk at CRAN
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Title: Latent position and cluster models for statistical networks
Description: A package to fit and simulate latent position and cluster models for statistical networks.
Author: Pavel N. Krivitsky [aut, cre],
Mark S. Handcock [aut],
Susan M. Shortreed [ctb],
Jeremy Tantrum [ctb],
Peter D. Hoff [ctb]
Maintainer: Pavel N. Krivitsky
Diff between latentnet versions 2.4-5 dated 2013-06-03 and 2.4.6 dated 2013-11-28
DESCRIPTION | 34 +++++++++++++++++++--------------- MD5 | 10 +++++----- NAMESPACE | 2 ++ R/mcmc.diagnostics.ergmm.R | 11 ++++++++--- R/summary.ergmm.R | 4 ++-- data/davis.RData |binary 6 files changed, 36 insertions(+), 25 deletions(-)
Title: User-specified terms for the statnet suite of packages
Description: A template package to demonstrate the use of user-specified statistics for use in "ergm" models as part of the "statnet" suite of packages.
Author: Mark S. Handcock [aut],
David R. Hunter [aut],
Carter T. Butts [aut],
Steven M. Goodreau [aut],
Pavel N. Krivitsky [aut, cre],
Martina Morris [aut]
Maintainer: Pavel N. Krivitsky
Diff between ergm.userterms versions 3.1-0 dated 2013-04-27 and 3.1.1 dated 2013-11-28
ergm.userterms-3.1-0/ergm.userterms/inst/doc/ergmuserterms.R |only ergm.userterms-3.1-0/ergm.userterms/inst/doc/ergmuserterms.Rnw |only ergm.userterms-3.1.1/ergm.userterms/DESCRIPTION | 38 ++++------ ergm.userterms-3.1.1/ergm.userterms/MD5 | 9 +- ergm.userterms-3.1.1/ergm.userterms/NAMESPACE | 2 ergm.userterms-3.1.1/ergm.userterms/inst/doc/ergmuserterms.pdf |binary ergm.userterms-3.1.1/ergm.userterms/inst/doc/index.html |only 7 files changed, 24 insertions(+), 25 deletions(-)
More information about ergm.userterms at CRAN
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Title: Fit, Simulate and Diagnose Exponential-Family Models for
Networks with Count Edges
Description: A set of extensions for the ergm package to fit weighted networks whose edge weights are counts.
Author: Pavel N. Krivitsky [aut, cre],
Mark S. Handcock [ctb],
David R. Hunter [ctb]
Maintainer: Pavel N. Krivitsky
Diff between ergm.count versions 3.1-0 dated 2013-04-27 and 3.1.1 dated 2013-11-28
DESCRIPTION | 25 ++++++++++++------------- MD5 | 8 ++++---- NAMESPACE | 2 +- R/InitWtMHP.R | 4 +++- inst/NEWS.Rd | 44 +++++++++++++++++++++++++++----------------- 5 files changed, 47 insertions(+), 36 deletions(-)
Title: Fit, Simulate and Diagnose Exponential-Family Models for
Networks
Description: An integrated set of tools to analyze and simulate networks based on exponential-family random graph models (ERGM). "ergm" is a part of the "statnet" suite of packages for network analysis.
Author: Mark S. Handcock [aut],
David R. Hunter [aut],
Carter T. Butts [aut],
Steven M. Goodreau [aut],
Pavel N. Krivitsky [aut, cre],
Martina Morris [aut]
Maintainer: Pavel N. Krivitsky
Diff between ergm versions 3.1-0 dated 2013-04-25 and 3.1.1 dated 2013-11-28
ergm-3.1-0/ergm/R/autoboot.ergm.R |only ergm-3.1-0/ergm/R/ergm.MCMCse.old.R |only ergm-3.1-0/ergm/inst/doc/ergm.Rnw |only ergm-3.1.1/ergm/DESCRIPTION | 44 +++--- ergm-3.1.1/ergm/MD5 | 93 ++++++------- ergm-3.1.1/ergm/NAMESPACE | 4 ergm-3.1.1/ergm/R/InitConstraint.R | 2 ergm-3.1.1/ergm/R/InitErgmTerm.R | 8 - ergm-3.1.1/ergm/R/check.ErgmTerm.R | 11 + ergm-3.1.1/ergm/R/ergm.Cprepare.R | 2 ergm-3.1.1/ergm/R/ergm.MCMCse.R | 13 + ergm-3.1.1/ergm/R/ergm.MCMCse.lognormal.R | 38 +++-- ergm-3.1.1/ergm/R/ergm.MCMLE.R | 28 ++-- ergm-3.1.1/ergm/R/ergm.R | 12 + ergm-3.1.1/ergm/R/ergm.bounddeg.R | 25 +-- ergm-3.1.1/ergm/R/ergm.bridge.R | 40 ----- ergm-3.1.1/ergm/R/ergm.etamap.R | 162 ++++++++++++------------ ergm-3.1.1/ergm/R/ergm.getMCMCsample.R | 2 ergm-3.1.1/ergm/R/ergm.mple.R | 21 --- ergm-3.1.1/ergm/R/ergm.robmon.R | 10 - ergm-3.1.1/ergm/R/ergm.san.R | 17 +- ergm-3.1.1/ergm/R/ergm.sufftoprob.R | 38 ----- ergm-3.1.1/ergm/R/network.update.R | 1 ergm-3.1.1/ergm/R/parallel.utils.R | 7 - ergm-3.1.1/ergm/R/simulate.ergm.R | 2 ergm-3.1.1/ergm/R/summary.ergm.R | 2 ergm-3.1.1/ergm/inst/CITATION | 3 ergm-3.1.1/ergm/inst/NEWS.Rd | 85 +++++++++--- ergm-3.1.1/ergm/inst/doc/index.html |only ergm-3.1.1/ergm/man/ergm-internal.Rd | 3 ergm-3.1.1/ergm/man/ergm-parallel.Rd | 15 ++ ergm-3.1.1/ergm/man/ergm-terms.Rd | 6 ergm-3.1.1/ergm/man/logLik.ergm.Rd | 26 ++- ergm-3.1.1/ergm/man/simulate.ergm.Rd | 10 - ergm-3.1.1/ergm/src/MCMC.c | 4 ergm-3.1.1/ergm/src/SAN.c | 182 +++++++++++++++++---------- ergm-3.1.1/ergm/src/SAN.h | 10 - ergm-3.1.1/ergm/src/edgelist.c | 33 ++-- ergm-3.1.1/ergm/src/edgetree.h | 2 ergm-3.1.1/ergm/src/wtMCMC.c | 4 ergm-3.1.1/ergm/src/wtSAN.c | 170 +++++++++++++++++-------- ergm-3.1.1/ergm/src/wtSAN.h | 10 - ergm-3.1.1/ergm/tests/examples.R | 22 +-- ergm-3.1.1/ergm/tests/miss_tests.R | 6 ergm-3.1.1/ergm/tests/mple_target.stats.R | 1 ergm-3.1.1/ergm/tests/parallel.R |only ergm-3.1.1/ergm/tests/termTests.bipartite.R | 1 ergm-3.1.1/ergm/tests/termTests.directed.R | 1 ergm-3.1.1/ergm/tests/termTests.flexible.R | 1 ergm-3.1.1/ergm/tests/termTests.undirected.R | 2 50 files changed, 663 insertions(+), 516 deletions(-)
Title: Common R Scripts and Utilities Used by the Statnet Project
Software
Description: This package contains non-statistical utilities used by the software developed by the Statnet Project. They may also be of use to others.
Author: Pavel N. Krivitsky [aut, cre]
Maintainer: Pavel N. Krivitsky
Diff between statnet.common versions 3.1-0 dated 2013-03-06 and 3.1.1 dated 2013-11-28
DESCRIPTION | 16 +++++++--------- LICENSE | 12 ++++++------ MD5 | 34 +++++++++++++++++----------------- R/cite.utilities.R | 9 +++++++++ R/control.utilities.R | 9 +++++++++ R/misc.utilities.R | 17 ++++++++++++++--- R/startup.utilities.R | 12 +++++++++++- R/string.utilities.R | 9 +++++++++ man/NVL.Rd | 9 +++++++++ man/check.control.class.Rd | 9 +++++++++ man/compress.data.frame.Rd | 9 +++++++++ man/opttest.Rd | 30 ++++++++++++++++++++++++------ man/paste.and.Rd | 9 +++++++++ man/print.control.list.Rd | 9 +++++++++ man/set.control.class.Rd | 9 +++++++++ man/sort.data.frame.Rd | 9 +++++++++ man/statnet.cite.Rd | 9 +++++++++ man/statnetStartupMessage.Rd | 9 +++++++++ 18 files changed, 187 insertions(+), 42 deletions(-)
More information about statnet.common at CRAN
Permanent link
Title: Simulation and Analysis of Random Fields
Description: Simulation of Gaussian and extreme value random fields;
conditional simulation; kriging
Author: Martin Schlather [aut, cre], Peter Menck [aut], Richard Singleton [ctb], Ben Pfaff [ctb], R Core Team [ctb]
Maintainer: Martin Schlather
Diff between RandomFields versions 2.0.66 dated 2013-02-10 and 2.0.71 dated 2013-11-28
RandomFields-2.0.66/RandomFields/Copyright |only RandomFields-2.0.66/RandomFields/src/includeMarkov.h |only RandomFields-2.0.66/RandomFields/src/includeMarkov.h.in |only RandomFields-2.0.66/RandomFields/tests |only RandomFields-2.0.71/RandomFields/DESCRIPTION | 10 RandomFields-2.0.71/RandomFields/MD5 | 50 RandomFields-2.0.71/RandomFields/configure | 4939 +++++----------- RandomFields-2.0.71/RandomFields/configure.ac | 85 RandomFields-2.0.71/RandomFields/configure.win |only RandomFields-2.0.71/RandomFields/man/Covariance.Rd | 2 RandomFields-2.0.71/RandomFields/man/papers.Rd | 4 RandomFields-2.0.71/RandomFields/man/weather.Rd | 4 RandomFields-2.0.71/RandomFields/src/InternalCov.cc | 3 RandomFields-2.0.71/RandomFields/src/MLE.cc | 3 RandomFields-2.0.71/RandomFields/src/RF.h | 1 RandomFields-2.0.71/RandomFields/src/empvario.cc | 2 RandomFields-2.0.71/RandomFields/src/getNset.cc | 4 RandomFields-2.0.71/RandomFields/src/initNerror.cc | 2 RandomFields-2.0.71/RandomFields/src/markov.cc | 273 RandomFields-2.0.71/RandomFields/src/simu.cc | 4 RandomFields-2.0.71/RandomFields/src/userinterfaces.cc | 3 21 files changed, 1850 insertions(+), 3539 deletions(-)
Title: Phylogenetic analysis in R
Description: Phylogenetic analysis in R (Estimation of phylogenetic
trees and networks using Maximum Likelihood, Maximum Parsimony,
Distance methods & Hadamard conjugation)
Author: Klaus Schliep, Emmanuel Paradis
Maintainer: Klaus Schliep
Diff between phangorn versions 1.99-1 dated 2013-08-21 and 1.99-5 dated 2013-11-28
phangorn-1.99-1/phangorn/R/dist.p.r |only phangorn-1.99-1/phangorn/README |only phangorn-1.99-1/phangorn/TODO |only phangorn-1.99-1/phangorn/inst/doc/Ancestral.R |only phangorn-1.99-1/phangorn/inst/doc/Ancestral.Rnw |only phangorn-1.99-1/phangorn/inst/doc/Trees.R |only phangorn-1.99-1/phangorn/inst/doc/Trees.Rnw |only phangorn-1.99-1/phangorn/inst/doc/phangorn-specials.R |only phangorn-1.99-1/phangorn/inst/doc/phangorn-specials.Rnw |only phangorn-1.99-1/phangorn/src/dist.h |only phangorn-1.99-1/phangorn/src/fitch.h |only phangorn-1.99-1/phangorn/src/ml.h |only phangorn-1.99-1/phangorn/src/phangorn.h |only phangorn-1.99-1/phangorn/src/sankoff.h |only phangorn-1.99-5/phangorn/DESCRIPTION | 14 phangorn-1.99-5/phangorn/MD5 | 49 phangorn-1.99-5/phangorn/NAMESPACE | 3 phangorn-1.99-5/phangorn/NEWS | 34 phangorn-1.99-5/phangorn/R/dist.p.R |only phangorn-1.99-5/phangorn/R/fitch.R | 166 -- phangorn-1.99-5/phangorn/R/parsimony.R | 93 - phangorn-1.99-5/phangorn/R/phylo.R | 979 +++++++++++----- phangorn-1.99-5/phangorn/R/sankoff.R | 19 phangorn-1.99-5/phangorn/R/treeManipulation.R | 84 + phangorn-1.99-5/phangorn/inst/README |only phangorn-1.99-5/phangorn/man/nni.Rd | 7 phangorn-1.99-5/phangorn/man/pml.Rd | 5 phangorn-1.99-5/phangorn/man/pml.fit.Rd |only phangorn-1.99-5/phangorn/man/treedist.Rd | 67 - phangorn-1.99-5/phangorn/src/fitch.c | 353 ++--- phangorn-1.99-5/phangorn/src/init.c | 178 ++ phangorn-1.99-5/phangorn/src/ml.c | 289 +--- phangorn-1.99-5/phangorn/src/phangorn.c | 440 +------ phangorn-1.99-5/phangorn/src/sankoff.c | 44 34 files changed, 1406 insertions(+), 1418 deletions(-)
Title: Node Harvest for regression and classification
Description: Node harvest is a simple interpretable tree-like estimator for high-dimensional regression and classification. A few nodes are selected from an initially large ensemble of nodes, each associated with a positive weight. New observations can fall into one or several nodes and predictions are the weighted average response across all these groups. The package offers visualization of the estimator. Predictions can return the nodes a new observation fell into, along with the mean response of training observations in each node, offering a simple explanation of the prediction.
Author: Nicolai Meinshausen
Maintainer: Nicolai Meinshausen
Diff between nodeHarvest versions 0.5 dated 2010-03-25 and 0.6 dated 2013-11-28
DESCRIPTION | 29 ++++++++++------------------- MD5 |only NAMESPACE | 3 +++ R/drawtext.R | 2 +- R/getI.R | 2 +- R/nodeHarvest.R | 2 +- R/plot.nodeHarvest.R | 2 +- R/predict.nodeHarvest.R | 6 ++++-- 8 files changed, 21 insertions(+), 25 deletions(-)
Title: doBy - Groupwise summary statistics, LSmeans, general linear
contrasts, various utilities
Description: doBy originally contained facilities to 'do something' to data where data is partitioned 'by' some variables
which define groupings of data - hence the name doBy. doBy contains a
variety of utilities including:
1) Facilities for groupwise computations of summary statistics and
other facilities for working with grouped data.
2) LSmeans (least-squares means), general linear contrasts.
3) Miscellaneous other utilities.
Author: S�ren H�jsgaard
Maintainer: S�ren H�jsgaard
Diff between doBy versions 4.5-9 dated 2013-09-22 and 4.5-10 dated 2013-11-28
doBy-4.5-10/doBy/ChangeLog | 61 +++--- doBy-4.5-10/doBy/DESCRIPTION | 29 +-- doBy-4.5-10/doBy/MD5 | 68 +++---- doBy-4.5-10/doBy/NAMESPACE | 19 + doBy-4.5-10/doBy/R/LSmeans.R |only doBy-4.5-10/doBy/R/esticon.R | 73 ++++--- doBy-4.5-10/doBy/R/linest.R | 308 +++++++++++++++++--------------- doBy-4.5-10/doBy/R/linestGet.R |only doBy-4.5-10/doBy/R/linestMatrix.R |only doBy-4.5-10/doBy/build/vignette.rds |binary doBy-4.5-10/doBy/data/NIRmilk.rda |binary doBy-4.5-10/doBy/data/beets.txt.gz |binary doBy-4.5-10/doBy/data/carcass.txt.gz |only doBy-4.5-10/doBy/data/carcassall.txt.gz |only doBy-4.5-10/doBy/data/codstom.rda |binary doBy-4.5-10/doBy/data/dietox.rda |binary doBy-4.5-10/doBy/data/milkman.rda |only doBy-4.5-10/doBy/inst/doc/LSmeans.R |only doBy-4.5-10/doBy/inst/doc/LSmeans.Rnw |only doBy-4.5-10/doBy/inst/doc/LSmeans.pdf |only doBy-4.5-10/doBy/inst/doc/doBy.R | 85 ++------ doBy-4.5-10/doBy/inst/doc/doBy.Rnw | 151 +++------------ doBy-4.5-10/doBy/inst/doc/doBy.pdf |binary doBy-4.5-10/doBy/man/LSmeans.Rd |only doBy-4.5-10/doBy/man/doBy-internal.Rd | 53 ++--- doBy-4.5-10/doBy/man/doBy.Rd | 20 +- doBy-4.5-10/doBy/man/linest.Rd | 93 +++++---- doBy-4.5-10/doBy/vignettes/LSmeans.Rnw |only doBy-4.5-10/doBy/vignettes/doBy.Rnw | 151 +++------------ doBy-4.5-10/doBy/vignettes/doBy.bib |only doBy-4.5-9/doBy/R/contrastAux.R |only doBy-4.5-9/doBy/R/esticoncoxph.R |only doBy-4.5-9/doBy/R/linMeans-obsolete.R |only doBy-4.5-9/doBy/R/popMatrix.R |only doBy-4.5-9/doBy/R/popMeans.R |only doBy-4.5-9/doBy/data/NIRmilk.csv.xz |only doBy-4.5-9/doBy/data/carcass.txt.bz2 |only doBy-4.5-9/doBy/data/carcassall.txt.bz2 |only doBy-4.5-9/doBy/data/dietox.txt.bz2 |only doBy-4.5-9/doBy/data/milkman.RData |only doBy-4.5-9/doBy/inst/doc/popMeans.R |only doBy-4.5-9/doBy/inst/doc/popMeans.Rnw |only doBy-4.5-9/doBy/inst/doc/popMeans.pdf |only doBy-4.5-9/doBy/man/popMeans.Rd |only doBy-4.5-9/doBy/vignettes/figures |only doBy-4.5-9/doBy/vignettes/popMeans.Rnw |only 46 files changed, 474 insertions(+), 637 deletions(-)
Title: Generalization of the convex hull of a sample of points in the
plane
Description: This package computes the alpha-shape and alpha-convex
hull of a given sample of points in the plane. The concepts of
alpha-shape and alpha-convex hull generalize the definition of
the convex hull of a finite set of points. The programming is
based on the duality between the Voronoi diagram and Delaunay
triangulation. The package also includes a function that
returns the Delaunay mesh of a given sample of points and its
dual Voronoi diagram in one single object.
Author: Beatriz Pateiro-Lopez, Alberto Rodriguez-Casal.
Maintainer: Beatriz Pateiro-Lopez
Diff between alphahull versions 0.2-1 dated 2011-10-23 and 1.0 dated 2013-11-28
alphahull-0.2-1/alphahull/inst/doc/biblioJSS.bib |only alphahull-0.2-1/alphahull/inst/doc/jss.bst |only alphahull-0.2-1/alphahull/inst/doc/jss.cls |only alphahull-1.0/alphahull/DESCRIPTION | 12 - alphahull-1.0/alphahull/LICENSE | 48 +++--- alphahull-1.0/alphahull/MD5 | 67 ++++---- alphahull-1.0/alphahull/R/ahull.R | 2 alphahull-1.0/alphahull/R/areaahull.R | 41 +++++ alphahull-1.0/alphahull/R/ashape.R | 2 alphahull-1.0/alphahull/R/complement.R | 18 +- alphahull-1.0/alphahull/R/delvor.R | 6 alphahull-1.0/alphahull/R/dummycoor.R | 4 alphahull-1.0/alphahull/R/koch.R | 10 - alphahull-1.0/alphahull/R/rkoch.R | 2 alphahull-1.0/alphahull/build |only alphahull-1.0/alphahull/inst/doc/alphahull.R |only alphahull-1.0/alphahull/inst/doc/alphahull.pdf |binary alphahull-1.0/alphahull/inst/doc/alphahull.rnw | 15 - alphahull-1.0/alphahull/man/ahull.Rd | 2 alphahull-1.0/alphahull/man/alphahull-package.Rd | 4 alphahull-1.0/alphahull/man/anglesArc.Rd | 3 alphahull-1.0/alphahull/man/arc.Rd | 2 alphahull-1.0/alphahull/man/areaahull.Rd | 3 alphahull-1.0/alphahull/man/ashape.Rd | 2 alphahull-1.0/alphahull/man/complement.Rd | 2 alphahull-1.0/alphahull/man/delvor.Rd | 2 alphahull-1.0/alphahull/man/inahull.Rd | 2 alphahull-1.0/alphahull/man/koch.Rd | 2 alphahull-1.0/alphahull/man/lengthahull.Rd | 2 alphahull-1.0/alphahull/man/plot.ahull.Rd | 5 alphahull-1.0/alphahull/man/plot.ashape.Rd | 2 alphahull-1.0/alphahull/man/plot.delvor.Rd | 2 alphahull-1.0/alphahull/man/rkoch.Rd | 2 alphahull-1.0/alphahull/man/rotation.Rd | 2 alphahull-1.0/alphahull/man/tricircum.Rd | 2 alphahull-1.0/alphahull/src/tripack.f | 177 ----------------------- alphahull-1.0/alphahull/vignettes |only 37 files changed, 174 insertions(+), 271 deletions(-)
Title: SBML Integration in Package sybil
Description: SBML (Systems Biology Markup Language) integration in sybil
Author: Gabriel Gelius-Dietrich [aut, cre],
Deya Alzoubi [ctb]
Maintainer: Gabriel Gelius-Dietrich
Diff between sybilSBML versions 2.0.6 dated 2013-10-26 and 2.0.7 dated 2013-11-28
DESCRIPTION | 8 ++++---- MD5 | 11 ++++++----- configure | 18 +++++++++--------- configure.ac | 2 +- inst/CITATION |only inst/NEWS.Rd | 8 ++++++++ inst/doc/sybilSBML.pdf |binary 7 files changed, 28 insertions(+), 19 deletions(-)
Title: sybil - Efficient Constrained Based Modelling in R
Description: The package sybil is a Systems Biology Library for R, implementing algorithms for constraint based analyses of metabolic networks (e.g. flux-balance analysis (FBA), minimization of metabolic adjustment (MOMA), regulatory on/off minimization (ROOM), robustness analysis and flux variability analysis).
Author: Gabriel Gelius-Dietrich [aut, cre],
C. Jonathan Fritzemeier [ctb],
Rajen Piernikarczyk [ctb],
Marc Andre Daxer [ctb],
Benjamin Braasch [ctb],
Abdelmoneim Desouki [ctb]
Maintainer: Gabriel Gelius-Dietrich
Diff between sybil versions 1.2.4 dated 2013-09-08 and 1.2.5 dated 2013-11-28
DESCRIPTION | 10 ++++++---- MD5 | 16 +++++++++------- R/modelorgClass.R | 3 +++ R/optObj_cplexAPIClass.R | 3 +-- build |only inst/CITATION |only inst/NEWS.Rd | 11 +++++++++++ inst/doc/sybil.pdf |binary man/addReact.Rd | 2 +- man/optimizeProb-methods.Rd | 4 +++- 10 files changed, 34 insertions(+), 15 deletions(-)
Title: Respondent-Driven Sampling
Description: This package provides functionality for carrying out estimation
with data collected using Respondent-Driven Sampling. This includes
Heckathorn's RDS-I and RDS-II estimators as well as Gile's Sequential
Sampler estimator.
Author: Mark S. Handcock [aut, cre],
Krista J. Gile [aut],
Ian E. Fellows [aut],
W. Whipple Neely [aut]
Maintainer: Mark S. Handcock
Diff between RDS versions 0.01 dated 2009-04-22 and 0.5 dated 2013-11-28
RDS-0.01/RDS/R/RDS.R |only RDS-0.01/RDS/data/simulated.RData |only RDS-0.01/RDS/man/RDS-package.Rd |only RDS-0.01/RDS/man/RDS.I.DS.estimates.Rd |only RDS-0.01/RDS/man/simulated.Rd |only RDS-0.5/RDS/DESCRIPTION | 45 ++++-- RDS-0.5/RDS/MD5 |only RDS-0.5/RDS/NAMESPACE | 52 ++++++- RDS-0.5/RDS/R/RDS.compare.proportions.R |only RDS-0.5/RDS/R/bootstrap-intervals.R |only RDS-0.5/RDS/R/data-export.R |only RDS-0.5/RDS/R/data-import.R |only RDS-0.5/RDS/R/differential-activity.R |only RDS-0.5/RDS/R/estimate-plots.R |only RDS-0.5/RDS/R/estimate-utils.R |only RDS-0.5/RDS/R/gile-bootstrap.R |only RDS-0.5/RDS/R/gile-ss-util.R |only RDS-0.5/RDS/R/homophily.R |only RDS-0.5/RDS/R/rds-I.R |only RDS-0.5/RDS/R/rds-II.R |only RDS-0.5/RDS/R/rds-doc.R |only RDS-0.5/RDS/R/rds-ss.R |only RDS-0.5/RDS/R/rds.data.frame-plots.R |only RDS-0.5/RDS/R/rds.data.frame-utils.R |only RDS-0.5/RDS/R/rds.data.frame.R |only RDS-0.5/RDS/R/rds.estimates.local.R |only RDS-0.5/RDS/R/rds.interval.estimate.R |only RDS-0.5/RDS/R/rds.weighted.estimate-class.R |only RDS-0.5/RDS/R/salganik-bootstrap.R |only RDS-0.5/RDS/R/utils.R |only RDS-0.5/RDS/R/weights.R |only RDS-0.5/RDS/data/faux.RData |only RDS-0.5/RDS/data/fauxmadrona.RData |only RDS-0.5/RDS/data/fauxsycamore.RData |only RDS-0.5/RDS/inst |only RDS-0.5/RDS/man/RDS.I.estimates.Rd | 105 ++++++++++----- RDS-0.5/RDS/man/RDS.II.estimates.Rd | 110 +++++++++++----- RDS-0.5/RDS/man/RDS.Rd |only RDS-0.5/RDS/man/RDS.SS.estimates.Rd |only RDS-0.5/RDS/man/RDS.bootstrap.intervals.Rd |only RDS-0.5/RDS/man/RDS.compare.proportions.Rd |only RDS-0.5/RDS/man/as.char.Rd |only RDS-0.5/RDS/man/as.rds.data.frame.Rd |only RDS-0.5/RDS/man/assert.valid.rds.data.frame.Rd |only RDS-0.5/RDS/man/bottleneck.plot.Rd |only RDS-0.5/RDS/man/compute.weights.Rd |only RDS-0.5/RDS/man/convergence.plot.Rd |only RDS-0.5/RDS/man/count.transitions.Rd |only RDS-0.5/RDS/man/cumulative.estimate.Rd |only RDS-0.5/RDS/man/differential.activity.estimates.Rd |only RDS-0.5/RDS/man/extract-methods.Rd |only RDS-0.5/RDS/man/faux.Rd |only RDS-0.5/RDS/man/fauxmadrona.Rd |only RDS-0.5/RDS/man/fauxsycamore.Rd |only RDS-0.5/RDS/man/get.h.hat.Rd |only RDS-0.5/RDS/man/get.id.Rd |only RDS-0.5/RDS/man/get.net.size.Rd |only RDS-0.5/RDS/man/get.population.size.Rd |only RDS-0.5/RDS/man/get.rid.Rd |only RDS-0.5/RDS/man/get.seed.id.Rd |only RDS-0.5/RDS/man/get.seed.rid.Rd |only RDS-0.5/RDS/man/get.stationary.distribution.Rd |only RDS-0.5/RDS/man/get.wave.Rd |only RDS-0.5/RDS/man/gile.ss.weights.Rd |only RDS-0.5/RDS/man/homophily.estimates.Rd |only RDS-0.5/RDS/man/indexing-methods.Rd |only RDS-0.5/RDS/man/is.rds.data.frame.Rd |only RDS-0.5/RDS/man/plot.rds.data.frame.Rd |only RDS-0.5/RDS/man/print.differential.activity.estimate.Rd |only RDS-0.5/RDS/man/print.pvalue.table.Rd |only RDS-0.5/RDS/man/print.rds.data.frame.Rd |only RDS-0.5/RDS/man/print.rds.interval.estimate.Rd |only RDS-0.5/RDS/man/rds.I.weights.Rd |only RDS-0.5/RDS/man/rds.interval.estimate.Rd |only RDS-0.5/RDS/man/read.rdsat.Rd |only RDS-0.5/RDS/man/read.rdsobj.Rd |only RDS-0.5/RDS/man/reingold.tilford.plot.Rd |only RDS-0.5/RDS/man/rid.from.coupons.Rd |only RDS-0.5/RDS/man/show.rds.data.frame.Rd |only RDS-0.5/RDS/man/transition.counts.to.Markov.mle.Rd |only RDS-0.5/RDS/man/vh.weights.Rd |only RDS-0.5/RDS/man/write.graphviz.Rd |only RDS-0.5/RDS/man/write.netdraw.Rd |only RDS-0.5/RDS/man/write.rdsobj.Rd |only RDS-0.5/RDS/src |only RDS-0.5/RDS/tests |only 86 files changed, 232 insertions(+), 80 deletions(-)
Title: Exact max-type Cochran-Armitage trend test(CATT)
Description: Perform exact MAX3 or MAX2 test for one-locus genetic
association analysis and trend test for dominant, recessive and
additive models. It can also calculate approximated p-value
with the normal approximation method.
Author: Jianan Tian
Maintainer: Chenliang Xu
Diff between MaXact versions 0.1 dated 2009-11-03 and 0.2 dated 2013-11-28
DESCRIPTION | 9 +- MD5 |only R/maxact.test.R | 4 - man/maxact.Rd | 60 +++++++-------- src/c.cpp | 6 - src/maxact.cpp | 221 ++++++++++++++++++++++++++++++++++++++++++-------------- src/maxact.h | 24 +++++- src/range.h | 2 src/util.h | 7 + 9 files changed, 236 insertions(+), 97 deletions(-)
Title: Data sets for package ``LMERConvenienceFunctions''
Description: This package contains (1) event-related brain potential data recorded from 10 participants at electrodes Fz, Cz, Pz, and Oz (0--300 ms) in the context of Antoine Tremblay's PhD thesis (Tremblay, 2009); (2) ERP amplitudes at electrode Fz restricted to the 100 to 175 millisecond time window; and (3) plotting data generated from a linear mixed-effects model.
Author: Antoine Tremblay, Department of Psychology, Dalhousie University
Maintainer: Antoine Tremblay
Diff between LCFdata versions 1.0 dated 2011-12-13 and 2.0 dated 2013-11-28
DESCRIPTION | 13 +++++++------ MD5 | 4 ++-- man/LCFdata-package.Rd | 6 +++--- 3 files changed, 12 insertions(+), 11 deletions(-)
Title: Models and tests for departure from Hardy-Weinberg equilibrium
and independence between loci.
Description: Fits models for genotypic disequilibria, as described in
Huttley and Wilson (2000), Weir (1996) and Weir and Wilson (1986).
Contrast terms are available that account for first order interactions
between loci.
Also implements, for a single locus in a single population, a conditional
exact test for Hardy-Weinberg equilibrium
Author: John Maindonald, with \code{hwexact()} from Randall Johnson.
Maintainer: John Maindonald
Diff between hwde versions 0.63 dated 2013-03-22 and 0.64 dated 2013-11-28
DESCRIPTION | 22 +++++++++++----------- MD5 | 10 ++++++---- build |only data/IndianIrish.RData |binary data/mendelABC.RData |binary inst/doc/hwde.R |only man/hwde.Rd | 4 +++- 7 files changed, 20 insertions(+), 16 deletions(-)