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
Diff between ScottKnott versions 1.2-0 dated 2012-10-18 and 1.2-4 dated 2013-11-28
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
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
Diff between RcppCNPy versions 0.2.0 dated 2012-07-31 and 0.2.1 dated 2013-11-28
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
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
Diff between samplingEstimates versions 0.1-1 dated 2013-07-24 and 0.1-2 dated 2013-11-28
More information about samplingEstimates at CRAN
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
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(-)
Permanent link
Title: Practical Numerical Math Functions
Diff between pracma versions 1.5.5 dated 2013-09-15 and 1.5.8 dated 2013-11-28
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
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
Diff between BGPhazard versions 0.9.1 dated 2013-10-17 and 0.9.2 dated 2013-11-28
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
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
Diff between stab versions 0.1.6 dated 2013-09-23 and 0.1.7 dated 2013-11-28
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
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
Diff between tergm versions 3.1-0 dated 2013-04-27 and 3.1.2 dated 2013-11-28
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
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
Diff between ROI.plugin.symphony versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
More information about ROI.plugin.symphony at CRAN
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
DESCRIPTION | 23 ++++++++++++-----------
MD5 | 4 ++--
R/plugin.R | 57 ++++++++++++++++++++++++++++++++++++++++-----------------
3 files changed, 54 insertions(+), 30 deletions(-)
Permanent link
Title: ROI-plugin quadprog
Diff between ROI.plugin.quadprog versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
More information about ROI.plugin.quadprog at CRAN
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
DESCRIPTION | 22 ++++++-----
MD5 | 8 ++--
NAMESPACE | 2 -
R/plugin.R | 118 ++++++++++++++++++++++++++++++++++++++++++------------------
R/zzz.R | 1
5 files changed, 101 insertions(+), 50 deletions(-)
Permanent link
Title: R Optimization Infrastructure
Diff between ROI versions 0.0-7 dated 2011-12-09 and 0.1-0 dated 2013-11-28
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
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
Diff between ROI.plugin.glpk versions 0.0-1 dated 2011-10-06 and 0.0-2 dated 2013-11-28
More information about ROI.plugin.glpk at CRAN
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
DESCRIPTION | 23 ++++++++++++-----------
MD5 | 4 ++--
R/plugin.R | 16 ++++++++--------
3 files changed, 22 insertions(+), 21 deletions(-)
Permanent link
Title: Latent position and cluster models for statistical networks
Diff between latentnet versions 2.4-5 dated 2013-06-03 and 2.4.6 dated 2013-11-28
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
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
Diff between ergm.userterms versions 3.1-0 dated 2013-04-27 and 3.1.1 dated 2013-11-28
More information about ergm.userterms at CRAN
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
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(-)
Permanent link
Title: Fit, Simulate and Diagnose Exponential-Family Models for
Networks with Count Edges
Diff between ergm.count versions 3.1-0 dated 2013-04-27 and 3.1.1 dated 2013-11-28
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
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
Diff between ergm versions 3.1-0 dated 2013-04-25 and 3.1.1 dated 2013-11-28
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
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
Diff between statnet.common versions 3.1-0 dated 2013-03-06 and 3.1.1 dated 2013-11-28
More information about statnet.common at CRAN
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
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(-)
Permanent link
Title: Simulation and Analysis of Random Fields
Diff between RandomFields versions 2.0.66 dated 2013-02-10 and 2.0.71 dated 2013-11-28
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
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
Diff between phangorn versions 1.99-1 dated 2013-08-21 and 1.99-5 dated 2013-11-28
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
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
Diff between nodeHarvest versions 0.5 dated 2010-03-25 and 0.6 dated 2013-11-28
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
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
Diff between doBy versions 4.5-9 dated 2013-09-22 and 4.5-10 dated 2013-11-28
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: Søren Højsgaard
Maintainer: Søren Højsgaard
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
Diff between alphahull versions 0.2-1 dated 2011-10-23 and 1.0 dated 2013-11-28
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
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
Diff between sybilSBML versions 2.0.6 dated 2013-10-26 and 2.0.7 dated 2013-11-28
Description: SBML (Systems Biology Markup Language) integration in sybil
Author: Gabriel Gelius-Dietrich [aut, cre],
Deya Alzoubi [ctb]
Maintainer: Gabriel Gelius-Dietrich
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
Diff between sybil versions 1.2.4 dated 2013-09-08 and 1.2.5 dated 2013-11-28
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
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
Diff between RDS versions 0.01 dated 2009-04-22 and 0.5 dated 2013-11-28
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
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
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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
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86 files changed, 232 insertions(+), 80 deletions(-)
Title: Exact max-type Cochran-Armitage trend test(CATT)
Diff between MaXact versions 0.1 dated 2009-11-03 and 0.2 dated 2013-11-28
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
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''
Diff between LCFdata versions 1.0 dated 2011-12-13 and 2.0 dated 2013-11-28
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
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.
Diff between hwde versions 0.63 dated 2013-03-22 and 0.64 dated 2013-11-28
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
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(-)