Title: Tools to manage a parametric function that describes phenology
Diff between phenology versions 3.47 dated 2013-06-03 and 3.49 dated 2013-06-23
Description: Functions to fit and test the phenology of species based
on counts.
Author: Marc Girondot
Maintainer: Marc Girondot
DESCRIPTION | 8 ++++----
MD5 | 24 ++++++++++++++++--------
NAMESPACE | 4 ++++
NEWS | 9 +++++++++
R/ChangeCoordinate.R |only
R/ScalePreviousPlot.R |only
R/add_phenology.R | 36 ++++++++++++------------------------
R/phenology-package.R | 4 ++--
R/plot_add.R |only
R/plot_errbar.R |only
R/read_phenology.R | 8 +++++---
man/ChangeCoordinate.Rd |only
man/ScalePreviousPlot.Rd |only
man/add_phenology.Rd | 27 +++++++++++++++------------
man/phenology-package.Rd | 2 +-
man/plot_add.Rd |only
man/plot_errbar.Rd |only
17 files changed, 68 insertions(+), 54 deletions(-)
Title: parallel implementation of the "segment" function of package
"DNAcopy"
Diff between ParDNAcopy versions 1.0 dated 2013-06-21 and 1.1 dated 2013-06-23
Description: parallelized version of the "segment" function from
Bioconductor package "DNAcopy", utilizing multi-core
computation on host CPU
Author: Alex krasnitz, Guoli Sun
Maintainer: Guoli Sun
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
man/parSegment.Rd | 4 +++-
3 files changed, 9 insertions(+), 7 deletions(-)
Title: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation
sequences.
Diff between mhsmm versions 0.4.10 dated 2013-06-13 and 0.4.11 dated 2013-06-23
Description: Parameter estimation and prediction for hidden Markov and
semi-Markov models for data with multiple observation
sequences. Suitable for equidistant time series data, with
multivariate and/or missing data.
Author: Jared O'Connell
Maintainer: Jared O'Connell
mhsmm-0.4.10/mhsmm/vignettes/DHMM1.tex |only
mhsmm-0.4.11/mhsmm/ChangeLog | 4 +++-
mhsmm-0.4.11/mhsmm/DESCRIPTION | 8 ++++----
mhsmm-0.4.11/mhsmm/MD5 | 19 +++++++++----------
mhsmm-0.4.11/mhsmm/R/hmm_functions.R | 4 ++--
mhsmm-0.4.11/mhsmm/R/hsmm_functions.R | 10 ++++------
mhsmm-0.4.11/mhsmm/inst/doc/DHMM2.pdf |binary
mhsmm-0.4.11/mhsmm/man/hsmmfit.Rd | 14 ++++++++++++++
mhsmm-0.4.11/mhsmm/mhsmm-Ex.R | 14 ++++++++++++++
mhsmm-0.4.11/mhsmm/vignettes/fig/dhmm-clsfig1.pdf |binary
mhsmm-0.4.11/mhsmm/vignettes/fig/dhmm-clsfig2.pdf |binary
11 files changed, 50 insertions(+), 23 deletions(-)
Title: Hierarchical Exponential-Family Random Graph Models with Local
Dependence
Diff between hergm versions 1.3-7 dated 2013-05-27 and 1.3-8 dated 2013-06-23
Description: The R package 'hergm' implements Hierarchical
Exponential-Family Random Graph Models (HERGMs), which can be
used to model a wide range of relational data (networks).
'hergm' implements both simulation and Bayesian inference.
Author: Michael Schweinberger
Maintainer: Michael Schweinberger
DESCRIPTION | 8 ++++----
MD5 | 12 ++++++------
R/hergm.R | 21 ---------------------
R/hergm.mcmc.R | 1 +
R/hergm.postprocess.R | 3 ++-
R/hergm.preprocess.R | 26 ++++++++++++++++++++++++--
R/hergm.set.mcmc.R | 2 +-
7 files changed, 38 insertions(+), 35 deletions(-)
Title: Trends and Unit Roots
Diff between fUnitRoots versions 2160.77 dated 2012-12-10 and 3010.78 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz and many others, see the SOURCE file
Maintainer: Yohan Chalabi
ChangeLog | 6 ++++++
DESCRIPTION | 11 ++++++-----
MD5 | 8 ++++----
R/zzz.R | 27 +++++++++++++--------------
src/Makevars | 1 -
5 files changed, 29 insertions(+), 24 deletions(-)
Title: Regression Based Decision and Prediction
Diff between fRegression versions 2160.77 dated 2012-12-10 and 3010.78 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz (for the Rmetrics port), R core team (for lm()
from R's base and nnet() from nnet package); B.R. Ripley (for
glm() from R's base); S.N. Wood (for gam() from mgcv package);
N.N. (for ppr() from modreg package); M. O' Connors (for
functions from polspline package); and T. Hothorn, A. Zeileis
G. Millo and D. Mitchell (for bgtest(), bptest(), dwtest(),
gqtest(), harvtest(), hmctest(), raintest(), reset() and
resettest() from lmtest package)
Maintainer: Yohan Chalabi
ChangeLog | 7 +++++++
DESCRIPTION | 11 ++++++-----
MD5 | 8 ++++----
R/zzz.R | 29 ++++++++++++++---------------
src/Makevars | 1 -
5 files changed, 31 insertions(+), 25 deletions(-)
Title: Basics of Option Valuation
Diff between fOptions versions 2160.82 dated 2012-11-07 and 3010.83 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz and many others, see the SOURCE file
Maintainer: Yohan Chalabi
ChangeLog | 6 ++++++
DESCRIPTION | 17 +++++++++--------
MD5 | 8 ++++----
R/zzz.R | 36 +++++++++++++++++++++---------------
src/Makevars | 1 -
5 files changed, 40 insertions(+), 28 deletions(-)
Title: Nonlinear and Chaotic Time Series Modelling
Diff between fNonlinear versions 2160.77 dated 2012-12-10 and 3010.78 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz and many others, see the SOURCE file
Maintainer: Yohan Chalabi
ChangeLog | 6 ++++++
DESCRIPTION | 11 ++++++-----
MD5 | 8 ++++----
R/zzz.R | 29 ++++++++++++++---------------
src/Makevars | 1 -
5 files changed, 30 insertions(+), 25 deletions(-)
Title: EBM and Asian Option Valuation
Diff between fAsianOptions versions 3000.78 dated 2013-02-08 and 3010.79 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz and many others, see the SOURCE file
Maintainer: Yohan Chalabi
ChangeLog | 9 +++++++++
DESCRIPTION | 11 ++++++-----
MD5 | 6 +++---
src/Makevars | 1 -
4 files changed, 18 insertions(+), 9 deletions(-)
Title: ARMA Time Series Modelling
Diff between fArma versions 2160.78 dated 2012-09-17 and 3010.79 dated 2013-06-23
Description: Environment for teaching "Financial Engineering and
Computational Finance"
Author: Diethelm Wuertz and many others, see the SOURCE file
Maintainer: Yohan Chalabi
ChangeLog | 11
DESCRIPTION | 17
MD5 | 14
NAMESPACE | 28
R/whittle.R | 1387 ++++++++++++++----------------
R/zzz.R | 31
inst/unitTests/runit.LongRangeModelling.R | 103 +-
src/Makevars | 1
8 files changed, 799 insertions(+), 793 deletions(-)
Title: Cores of Recurrent Events
Diff between CORE versions 1.0 dated 2013-06-21 and 1.1 dated 2013-06-23
Description: given a collection of intervals with integer start and end
positions, find recurrently targeted regions and estimate the
significance of finding. Randomization is implemented by
parallel methods, either using local host machines, or
submitting grid engine jobs.
Author: Alex Krasnitz, Guoli Sun
Maintainer: Guoli Sun
DESCRIPTION | 9 +++++----
MD5 | 10 +++++-----
NAMESPACE | 2 +-
inst/doc/CORE.Rnw | 6 +++---
inst/doc/CORE.pdf |binary
vignettes/CORE.Rnw | 6 +++---
6 files changed, 17 insertions(+), 16 deletions(-)
Title: Tools to deal with fuzzy numbers
Diff between FuzzyNumbers versions 0.02 dated 2012-12-27 and 0.3-1 dated 2013-06-23
Description: The FuzzyNumbers package provides S4 classes and methods
to deal with Fuzzy Numbers: computations of arithmetic
operations, approximation by trapezoidal and piecewise linear
FNs, visualization, etc.
Author: Marek Gagolewski [aut, cre], Jan Caha [ctb]
Maintainer: Marek Gagolewski
FuzzyNumbers-0.02/FuzzyNumbers/LICENSE |only
FuzzyNumbers-0.02/FuzzyNumbers/R/Arithmetic-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/DiscontinuousFuzzyNumber.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/Extract-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/FuzzyNumber.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/PiecewiseLinearFuzzyNumber.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/PowerFuzzyNumber.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/TrapezoidalFuzzyNumber.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/alphaInterval-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/alphacut-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/ambiguity-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/convert-generators.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/core-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/distance-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/evaluate-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/expectedInterval-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/expectedValue-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/integrate.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/invert-generators.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/piecewiseLinearApproximation-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/plot-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/show-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/supp-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/trapezoidalApproximation-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/value-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/weightedExpectedValue-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/R/width-methods.R |only
FuzzyNumbers-0.02/FuzzyNumbers/man/approx.invert.Rd |only
FuzzyNumbers-0.02/FuzzyNumbers/man/convert.alpha.Rd |only
FuzzyNumbers-0.02/FuzzyNumbers/man/convert.side.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/.Rinstignore |only
FuzzyNumbers-0.3-1/FuzzyNumbers/DESCRIPTION | 65 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/MD5 | 156 +++++-----
FuzzyNumbers-0.3-1/FuzzyNumbers/NAMESPACE | 24 -
FuzzyNumbers-0.3-1/FuzzyNumbers/NEWS | 71 ++++
FuzzyNumbers-0.3-1/FuzzyNumbers/R/FuzzyNumbers-package.R | 64 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/R/auxiliary-convert.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/auxiliary-invert.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/class-DiscontinuousFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/class-FuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/class-PiecewiseLinearFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/class-PowerFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/class-TrapezoidalFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-Arithmetic.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-Extract.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-alphaInterval.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-alphacut.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-ambiguity.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-as.FuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-as.PiecewiseLinearFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-as.PowerFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-as.TrapezoidalFuzzyNumber.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-as.character.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-core.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-distance.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-evaluate.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-expectedInterval.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-expectedValue.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-fapply.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-integrate.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-piecewiseLinearApproximation.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-plot.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-show.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-supp.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-trapezoidalApproximation.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-value.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-weightedExpectedValue.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/R/methods-width.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/CITATION | 12
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/doc/FuzzyNumbers-Tutorial.Rnw |only
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/doc/FuzzyNumbers-Tutorial.pdf |binary
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/tests/run_package_test.R |only
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/tests/test-convgen.R | 28 -
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/tests/test-fn.R | 16 -
FuzzyNumbers-0.3-1/FuzzyNumbers/inst/tests/test-invert.R | 12
FuzzyNumbers-0.3-1/FuzzyNumbers/man/Arithmetic-methods.Rd | 139 +++++++-
FuzzyNumbers-0.3-1/FuzzyNumbers/man/DiscontinuousFuzzyNumber-class.Rd | 42 +-
FuzzyNumbers-0.3-1/FuzzyNumbers/man/DiscontinuousFuzzyNumber.Rd | 8
FuzzyNumbers-0.3-1/FuzzyNumbers/man/Extract-methods.Rd | 60 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/FuzzyNumber-class.Rd | 72 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/FuzzyNumber.Rd | 26 +
FuzzyNumbers-0.3-1/FuzzyNumbers/man/FuzzyNumbers-package.Rd | 119 ++++---
FuzzyNumbers-0.3-1/FuzzyNumbers/man/PiecewiseLinearFuzzyNumber-class.Rd | 48 ++-
FuzzyNumbers-0.3-1/FuzzyNumbers/man/PiecewiseLinearFuzzyNumber.Rd | 27 +
FuzzyNumbers-0.3-1/FuzzyNumbers/man/PowerFuzzyNumber-class.Rd | 42 ++
FuzzyNumbers-0.3-1/FuzzyNumbers/man/PowerFuzzyNumber.Rd | 10
FuzzyNumbers-0.3-1/FuzzyNumbers/man/TrapezoidalFuzzyNumber-class.Rd | 37 ++
FuzzyNumbers-0.3-1/FuzzyNumbers/man/TrapezoidalFuzzyNumber.Rd | 12
FuzzyNumbers-0.3-1/FuzzyNumbers/man/TriangularFuzzyNumber.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/alphaInterval-methods.Rd | 94 +++---
FuzzyNumbers-0.3-1/FuzzyNumbers/man/alphacut-methods.Rd | 56 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/ambiguity-methods.Rd | 58 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/approxInvert.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/as.FuzzyNumber.Rd | 49 ++-
FuzzyNumbers-0.3-1/FuzzyNumbers/man/as.PiecewiseLinearFuzzyNumber.Rd | 77 ++++
FuzzyNumbers-0.3-1/FuzzyNumbers/man/as.PowerFuzzyNumber.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/as.TrapezoidalFuzzyNumber.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/as.character-methods.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/convertAlpha.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/convertSide.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/core-methods.Rd | 54 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/distance-methods.Rd | 77 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/evaluate-methods.Rd | 48 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/expectedInterval-methods.Rd | 94 +++---
FuzzyNumbers-0.3-1/FuzzyNumbers/man/expectedValue-methods.Rd | 64 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/fapply-methods.Rd |only
FuzzyNumbers-0.3-1/FuzzyNumbers/man/integrateAlpha-methods.Rd | 72 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/integrate_discont_val.Rd | 7
FuzzyNumbers-0.3-1/FuzzyNumbers/man/piecewiseLinearApproximation-methods.Rd | 91 +++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/plot-methods.Rd | 139 ++++++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/show-methods.Rd | 55 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/supp-methods.Rd | 54 +--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/trapezoidalApproximation-methods.Rd | 75 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/value-methods.Rd | 61 ++-
FuzzyNumbers-0.3-1/FuzzyNumbers/man/weightedExpectedValue-methods.Rd | 76 ++--
FuzzyNumbers-0.3-1/FuzzyNumbers/man/width-methods.Rd | 62 +--
116 files changed, 1531 insertions(+), 922 deletions(-)
Title: Coupled dipole approximation in electromagnetic scattering
Diff between cda versions 1.3 dated 2012-11-28 and 1.3.3 dated 2013-06-23
Description: The cda package implements the coupled-dipole
approximation for electromagnetic scattering by sparse
collections of subwavelength particles, with a particular focus
on plasmonic nanoparticles in the visible regime. The
interaction matrix, and the solution of the linear system of
coupled-dipole equations are executed in C++ code for speed;
convenient wrapper functions are provided at the R level to
generate the particle clusters, calculate the extinction,
scattering, and absorption of light by particles with linearly
and circularly polarised light. Functions are also provided to
calculate orientation-averaged circular dichroism, and display
clusters of nanoparticles in three dimensions using OpenGL or
povray.
Author: Baptiste Auguie [aut, cre], LAPACK authors [cph] (copyrights
apply to src/zgels.f)
Maintainer: Baptiste Auguie
cda-1.3.3/cda/DESCRIPTION | 33 +++++++++++++--------------
cda-1.3.3/cda/MD5 | 21 ++++++++---------
cda-1.3.3/cda/NAMESPACE | 2 -
cda-1.3.3/cda/NEWS | 11 +++++++++
cda-1.3.3/cda/R/array_factor.R | 4 +--
cda-1.3.3/cda/inst/COPYRIGHTS |only
cda-1.3.3/cda/inst/doc/CD-theory.R |only
cda-1.3.3/cda/inst/tests/lowlevel.r | 11 ---------
cda-1.3.3/cda/inst/wiki/diffractive_chain2.R |only
cda-1.3.3/cda/inst/wiki/helix_cd.rmd | 2 -
cda-1.3.3/cda/man/array_factor.Rd | 2 -
cda-1.3/cda/LICENCE |only
cda-1.3/cda/R/epsilon.r |only
cda-1.3/cda/man/epsAg.Rd |only
cda-1.3/cda/man/epsAu.Rd |only
15 files changed, 42 insertions(+), 44 deletions(-)