Title: Tools to analyse RFLP data
Diff between RFLPtools versions 1.5 dated 2013-01-04 and 1.6 dated 2014-08-13
Description: RFLPtools provides functions to analyse DNA fragment samples
(i.e. derived from RFLP-analysis) and standalone BLAST report files
(i.e. DNA sequence analysis).
Author: Fabienne Flessa, Alexandra Kehl, Mohammed Aslam Imtiaz, Matthias Kohl
Maintainer: Matthias Kohl
DESCRIPTION | 19 ++++++-----
MD5 | 77 ++++++++++++++++++++++++++++--------------------
NAMESPACE | 8 +++-
NEWS | 16 +++++++++
R/FragMatch.R |only
R/RFLPdist.R | 12 ++++++-
R/RFLPdist2.R | 12 ++++++-
R/RFLPdist2ref.R | 8 ++++
R/germ.R |only
R/simulateRFLPData.R |only
build |only
data/BLASTdata.RData |binary
data/RFLPdata.RData |binary
data/RFLPref.RData |binary
data/newDataGerm.RData |only
data/refDataGerm.RData |only
inst/doc/RFLPtools.R |only
inst/doc/RFLPtools.Rnw | 21 ++++++++-----
inst/doc/RFLPtools.pdf |binary
inst/scripts |only
man/0RFLP-package.Rd | 31 +++++++++++++------
man/BLASTdata.Rd | 4 ++
man/FragMatch.Rd |only
man/RFLPcombine.Rd | 6 +++
man/RFLPdata.Rd | 6 +++
man/RFLPdist.Rd | 10 +++++-
man/RFLPdist2.Rd | 10 ++++--
man/RFLPdist2ref.Rd | 12 ++++++-
man/RFLPlod.Rd | 6 +++
man/RFLPplot.Rd | 8 +++-
man/RFLPqc.Rd | 6 +++
man/RFLPref.Rd | 8 +++-
man/RFLPrefplot.Rd | 8 +++-
man/diffDist.Rd | 6 +++
man/germ.Rd |only
man/linCombDist.Rd | 6 +++
man/newDataGerm.Rd |only
man/nrBands.Rd | 6 +++
man/read.blast.Rd | 4 ++
man/read.rflp.Rd | 6 +++
man/refDataGerm.Rd |only
man/sim2dist.Rd | 6 +++
man/simMatrix.Rd | 6 +++
man/simulateRFLPdata.Rd |only
man/write.hclust.Rd | 6 +++
vignettes/RFLPtools.Rnw | 21 ++++++++-----
46 files changed, 262 insertions(+), 93 deletions(-)
Title: Empirical likelihood ratio for censored/truncated data
Diff between emplik versions 0.9-9-2 dated 2014-03-12 and 0.9-9-5 dated 2014-08-13
Description: empirical likelihood ratio tests for means/quantiles/hazards
from possibly censored and/or truncated data. Now does regression too.
Author: Mai Zhou.(Art Owen for el.test(), Yifan Yang for C part)
Maintainer: Mai Zhou
DESCRIPTION | 10 ++++-----
MD5 | 18 +++++++++--------
NAMESPACE | 4 +--
R/cumsumsurv.R |only
R/el.cen.EM.R | 56 ++++++++++++++++++++++++++++++++++++++++++++----------
R/el.cen.EM2.R | 16 +++++++--------
R/el.test.wt.R | 27 +++++++++++++++++++++++---
R/el.test.wt2.R | 14 ++++++++++++-
README | 3 +-
man/el.test.wt.Rd | 3 +-
src |only
11 files changed, 112 insertions(+), 39 deletions(-)
Title: Programmatic interface to the API serving UC Berkeley's Natural
History Data
Diff between ecoengine versions 1.4 dated 2014-07-23 and 1.5 dated 2014-08-13
Description: The ecoengine (http://ecoengine.berkeley.edu/) provides access to
more than 2 million georeferenced specimen records from the Berkeley
Natural History Museums. http://bnhm.berkeley.edu/
Author: Karthik Ram [aut, cre]
Maintainer: Karthik Ram
ecoengine-1.4/ecoengine/inst/cache/checklist_spiders_645ead0febc929b1e1aeb72cd6d86f45.RData |only
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ecoengine-1.5/ecoengine/DESCRIPTION | 10
ecoengine-1.5/ecoengine/MD5 | 139 +
ecoengine-1.5/ecoengine/NEWS | 9
ecoengine-1.5/ecoengine/R/ee_browse_photos.R | 2
ecoengine-1.5/ecoengine/R/ee_observations.R | 29
ecoengine-1.5/ecoengine/R/ee_sensor_aggregation.R | 3
ecoengine-1.5/ecoengine/README.md | 12
ecoengine-1.5/ecoengine/data/full_sensor_list.rda |binary
ecoengine-1.5/ecoengine/inst/Using_ecoengine.Rmd | 43
ecoengine-1.5/ecoengine/inst/Using_ecoengine.md | 702 +++++-----
ecoengine-1.5/ecoengine/inst/Using_ecoengine.pdf |binary
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ecoengine-1.5/ecoengine/man/ee_observations.Rd | 23
ecoengine-1.5/ecoengine/man/view_photos.Rd | 2
126 files changed, 613 insertions(+), 366 deletions(-)
Title: R Package for Covariate Balancing Propensity Score
Diff between CBPS versions 0.8 dated 2014-03-08 and 0.9 dated 2014-08-13
Description: CBPS is an R package that implements the covariate balancing propensity score proposed by Imai and Ratkovic (2014; JRSSB). The propensity score is estimated such that it maximizes the resulting covariate balance as well as the prediction of treatment assignment. The method, therefore, avoids an iteration between model fitting and balance checking. The package also implements several extensions of the CBPS beyond the cross-sectional, binary treatment setting. The current version implements the CBPS for longitudinal settings so that it can be used in conjunction with marginal structural models (Imai and Ratkovic, 2013a), treatments with three- and four-valued treatment variables, continuous-valued treatments (Fong, Imai, and Ratkovic), and the situation with multiple distinct binary treatments administered simultaneously. In the future it will be extended to other settings including the generalization of experimental and instrumental variable estimates.
Author: Christian Fong
Maintainer: Christian Fong
CBPS-0.8/CBPS/R/CBMSMFunction.R |only
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CBPS-0.8/CBPS/man/IPW.Rd |only
CBPS-0.8/CBPS/man/MSMdata.Rd |only
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CBPS-0.8/CBPS/man/plot.CBMB.Rd |only
CBPS-0.9/CBPS/ChangeLog | 3
CBPS-0.9/CBPS/DESCRIPTION | 16
CBPS-0.9/CBPS/MD5 | 36
CBPS-0.9/CBPS/NAMESPACE | 12
CBPS-0.9/CBPS/R/BlackwellHelpCode.R |only
CBPS-0.9/CBPS/R/CBMSM.R |only
CBPS-0.9/CBPS/R/CBPSBinary.R | 9
CBPS-0.9/CBPS/R/CBPSContinuous.r |only
CBPS-0.9/CBPS/R/CBPSMain.R | 1237 +++++++++--------------------
CBPS-0.9/CBPS/R/CBPSMultiTreat.r | 1526 ++++++++++++++++++------------------
CBPS-0.9/CBPS/data/Blackwell.tab.gz |only
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CBPS-0.9/CBPS/man/Blackwell.Rd |only
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CBPS-0.9/CBPS/man/CBPS.Rd | 149 ---
CBPS-0.9/CBPS/man/balance.Rd | 36
CBPS-0.9/CBPS/man/plot.CBMSM.Rd | 15
CBPS-0.9/CBPS/man/plot.CBPS.Rd | 8
26 files changed, 1286 insertions(+), 1761 deletions(-)
Title: Probabilistic Population Projection
Diff between bayesPop versions 5.0-0 dated 2014-04-28 and 5.1-5 dated 2014-08-13
Description: The package allows to generate population projections for all countries of the world using several probabilistic components, such as total fertility rate (TFR) and life expectancy.
Author: Hana Sevcikova, Adrian Raftery
Maintainer: Hana Sevcikova
ChangeLog | 10 +
DESCRIPTION | 8 -
MD5 | 25 ++--
R/adjustments.R |only
R/aggregate.R | 43 ++++---
R/get_outputs.R | 175 +++++++++++++++++++++---------
R/plot_functions.R | 76 +++++++++----
R/predict.pop.R | 209 ++++++++++++++++++------------------
man/bayesPop-package.Rd | 4
man/pop.aggregate.Rd | 6 -
man/pop.trajectories.plot.Rd | 2
man/pop.write.projection.summary.Rd | 4
src/projection_functions.c | 7 -
tests/test_functions.R | 8 +
14 files changed, 365 insertions(+), 212 deletions(-)
Title: programmatic interface to the AntWeb
Diff between AntWeb versions 0.6.1 dated 2014-03-12 and 0.7 dated 2014-08-13
Description: A complete programmatic interface to the AntWeb database from the
California Academy of Sciences.
Author: 'Karthik Ram' [aut, cre]
Maintainer: 'Karthik Ram'
DESCRIPTION | 8 +++----
MD5 | 44 +++++++++++++++++++++-------------------
NAMESPACE | 3 ++
NEWS | 6 +++++
R/aw_code.R | 6 +++--
R/aw_coords.R | 2 -
R/aw_data.R | 35 +++++++++++++++++++-------------
R/aw_distinct.R |only
R/aw_images.R | 3 --
R/aw_map.R | 2 -
R/aw_utils.R | 11 +++++++---
README.md | 14 ++++++------
man/AntWeb.Rd | 7 +-----
man/aw_cbind.Rd | 6 ++---
man/aw_code.Rd | 9 ++++----
man/aw_coords.Rd | 10 +++------
man/aw_data.Rd | 50 ++++++++++++++++++++--------------------------
man/aw_data_all.Rd | 8 ++++---
man/aw_distinct.Rd |only
man/aw_images.Rd | 7 ++----
man/aw_map.Rd | 16 +++++---------
man/aw_unique.Rd | 8 ++-----
man/print.antweb.Rd | 5 ++--
tests/testthat/test-all.R | 18 ++++++++++++----
24 files changed, 149 insertions(+), 129 deletions(-)
Title: Regularization paths for regression models with grouped
covariates
Diff between grpreg versions 2.7-0 dated 2014-08-13 and 2.7-1 dated 2014-08-13
Description: Efficient algorithms for fitting the regularization path of
linear or logistic regression models with grouped penalties. This
includes group selection methods such as group lasso, group MCP, and
group SCAD as well as bi-level selection methods such as the group
exponential lasso, the composite MCP, and the group bridge.
Author: Patrick Breheny
Maintainer: Patrick Breheny
DESCRIPTION | 8 -
MD5 | 22 +--
NEWS | 9 +
R/predict.R | 8 +
inst/tests/multitask.R | 320 +++++++++++++++++++++++++------------------------
src/gdfit_binomial.c | 10 -
src/gdfit_gaussian.c | 6
src/gdfit_poisson.c | 10 -
src/lcdfit_binomial.c | 10 -
src/lcdfit_gaussian.c | 6
src/lcdfit_poisson.c | 10 -
src/standardize.c | 3
12 files changed, 230 insertions(+), 192 deletions(-)
Title: Empirical Bayes Estimation and Inference in R
Diff between REBayes versions 0.45 dated 2014-07-14 and 0.48 dated 2014-08-13
Description: Kiefer-Wolfowitz Maximum Likelihood Estimation for Mixtures
Author: Roger Koenker
Maintainer: Roger Koenker
REBayes-0.45/REBayes/inst/README |only
REBayes-0.48/REBayes/DESCRIPTION | 6 +-
REBayes-0.48/REBayes/MD5 | 50 ++++++++++----------
REBayes-0.48/REBayes/R/Bmix.R | 5 +-
REBayes-0.48/REBayes/R/GLmix.R | 80 ++++++++++++++++++--------------
REBayes-0.48/REBayes/R/GVmix.R | 5 +-
REBayes-0.48/REBayes/R/Gompertzmix.R | 4 -
REBayes-0.48/REBayes/R/KWDual.R | 11 +++-
REBayes-0.48/REBayes/R/Pmix.R | 4 -
REBayes-0.48/REBayes/R/TLVmix.R | 5 +-
REBayes-0.48/REBayes/R/WGVmix.R | 5 +-
REBayes-0.48/REBayes/R/WTLVmix.R | 4 -
REBayes-0.48/REBayes/R/Weibullmix.R | 4 -
REBayes-0.48/REBayes/R/medde.R | 7 ++
REBayes-0.48/REBayes/inst/ChangeLog | 9 +++
REBayes-0.48/REBayes/inst/Readme |only
REBayes-0.48/REBayes/man/Bmix.Rd | 4 +
REBayes-0.48/REBayes/man/GLmix.Rd | 6 ++
REBayes-0.48/REBayes/man/GVmix.Rd | 3 -
REBayes-0.48/REBayes/man/Gompertzmix.Rd | 44 ++++-------------
REBayes-0.48/REBayes/man/KWDual.Rd | 15 +++++-
REBayes-0.48/REBayes/man/Pmix.Rd | 3 -
REBayes-0.48/REBayes/man/TLVmix.Rd | 4 +
REBayes-0.48/REBayes/man/WGVmix.Rd | 3 -
REBayes-0.48/REBayes/man/WTLVmix.Rd | 4 +
REBayes-0.48/REBayes/man/Weibullmix.Rd | 39 ++++-----------
REBayes-0.48/REBayes/man/medde.Rd | 5 +-
27 files changed, 177 insertions(+), 152 deletions(-)
Title: Dictionaries for reading microdata surveys from IBGE
Diff between dicionariosIBGE versions 1.5 dated 2012-09-21 and 1.6 dated 2014-08-13
More information about dicionariosIBGE at CRAN
Description: This package contains the dictionaries for reading microdata
from IBGE (Brazilian Institute of Geography and Statistics)
surveys PNAD, PME and POF.
Author: Alexandre Rademaker
Maintainer: Alexandre Rademaker
DESCRIPTION | 24 +++++++++++---------
GPL-2 |only
GPL-3 |only
LICENSE.note |only
MD5 | 55 ++++++++++++++++++++++++++---------------------
data/dicPME.rda |binary
data/dicPNAD1983.rda |binary
data/dicPNAD1988.rda |binary
data/dicPNAD1993.rda |binary
data/dicPNAD1995.rda |binary
data/dicPNAD1996.rda |binary
data/dicPNAD1997.rda |binary
data/dicPNAD1998.rda |binary
data/dicPNAD1999.rda |binary
data/dicPNAD2001.rda |binary
data/dicPNAD2002.rda |binary
data/dicPNAD2003.rda |binary
data/dicPNAD2004.rda |binary
data/dicPNAD2005.rda |binary
data/dicPNAD2006.rda |binary
data/dicPNAD2007.rda |binary
data/dicPNAD2008.rda |binary
data/dicPNAD2009.rda |binary
data/dicPNAD2012.rda |only
data/dicPOF1987.1988.rda |binary
data/dicPOF1995.1996.rda |binary
data/dicPOF2002.2003.rda |binary
data/dicPOF2008.2009.rda |binary
man/dicPNAD2012.Rd |only
man/dicdom2012.Rd |only
man/dicpes2012.Rd |only
man/le.pesquisa.Rd | 4 +--
32 files changed, 46 insertions(+), 37 deletions(-)
Permanent link
Title: Tools for Generating, Visualizing, and Analysing Link
Communities in Networks
Diff between linkcomm versions 1.0-10 dated 2014-08-11 and 1.0-11 dated 2014-08-13
Description: Link communities reveal the nested and overlapping structure in networks, and uncover the key nodes that form connections to multiple communities. linkcomm provides a set of tools for generating, visualizing, and analysing link communities in networks of arbitrary size and type. The linkcomm package also includes tools for generating, visualizing, and analysing Overlapping Cluster Generator (OCG) communities.
Author: Alex T. Kalinka
Maintainer: Alex T. Kalinka
DESCRIPTION | 6 +++---
MD5 | 10 +++++-----
NEWS | 7 +++++++
R/linkcomm_misc.R | 19 +++++++++++++++++++
inst/doc/linkcomm.pdf |binary
src/linkcomm_hclust.cpp | 6 +++---
6 files changed, 37 insertions(+), 11 deletions(-)
Title: Bayesian reconstruction of growth velocity
Diff between growthrate versions 1.2 dated 2013-02-11 and 1.3 dated 2014-08-13
Description: A nonparametric empirical Bayes method for recovering
gradients (or growth velocities) from observations of smooth
functions (e.g., growth curves) at isolated time points.
Author: Sara Lopez-Pintado and Ian W. McKeague
Maintainer: Ian W. McKeague
DESCRIPTION | 13 +-
MD5 | 30 +++---
NAMESPACE | 1
R/Khatf.R | 149 ++++++++++++++++-----------------
R/cv.growth.R | 204 +++++++++++++++++++++++-----------------------
R/diffquo.R | 64 +++++++-------
R/growth.R | 90 ++++++++++----------
R/new.growth.R | 74 ++++++++--------
R/posteriordistribcurve.R | 88 +++++++++----------
R/posteriorobs.R | 46 +++++-----
R/priormeanobs.R | 46 +++++-----
man/cv.growth.Rd | 7 -
man/growth.Rd | 10 +-
man/growthrate-package.Rd | 5 -
man/height_data.Rd | 5 -
man/new.growth.Rd | 7 -
16 files changed, 424 insertions(+), 415 deletions(-)
More information about BlandAltmanLeh at CRAN
Permanent link
Title: Regression Estimation and Presentation
Diff between rockchalk versions 1.8.0 dated 2013-07-30 and 1.8.86 dated 2014-08-13
Description: A collection of functions for ease of
presentation and interpretation of regression analysis.
These functions are used to produce the statistics lectures
in http://pj.freefaculty.org/guides. There
are functions to explore the effect (or lack thereof) from
"mean centering," "residual centering", and standardization.
The vignette "rockchalk" offers a fairly comprehensive overview.
The vignette "Rstyle" has advice about coding in R.
See the outreg function for a convenient way to generate
regression models for reports. For nice, easy to use pictures,
see plotSlopes, plotCurves, plotPlane.
The package title "rockchalk" refers to our school motto,
"Rock Chalk Jayhawk, Go K.U.".
Author: Paul E. Johnson
Maintainer: Paul E. Johnson
DESCRIPTION | 37 -
MD5 | 186 ++---
NAMESPACE | 42 -
R/centralValues.R | 32
R/genCorrelatedData.R | 45 -
R/meanCenter.R | 35 -
R/outreg.R | 1357 +++++++++++++++++++++++++++++++--------
R/plotCurves.R | 39 -
R/plotPlane.R | 2
R/plotSlopes.R | 57 +
R/predictOMatic.R | 460 ++++++++-----
R/residualCenter.R | 9
R/rockchalk-package.R | 1
R/summarize.R | 71 +-
R/testSlopes.R | 4
R/utils.R | 68 +
build |only
data/cheating.RData |binary
data/religioncrime.RData |binary
inst/ChangeLog | 188 +++++
inst/NEWS | 9
inst/doc/Rchaeology.Rnw | 2
inst/doc/Rchaeology.pdf |binary
inst/doc/Rstyle.Rnw | 2
inst/doc/Rstyle.pdf |binary
inst/doc/rockchalk.R | 55 -
inst/doc/rockchalk.Rnw | 100 +-
inst/doc/rockchalk.pdf |binary
inst/examples/plotCurves-ex.R | 4
inst/examples/predictOMatic-ex.R | 10
inst/examples/testSlopes-ex.R | 1
man/addLines.Rd | 26
man/centerNumerics.Rd | 59 -
man/centralValues.Rd | 18
man/cheating.Rd | 128 ++-
man/checkIntFormat.Rd |only
man/checkPosDef.Rd | 17
man/combineLevels.Rd | 54 -
man/cutByQuantile.Rd | 28
man/cutBySD.Rd | 20
man/cutByTable.Rd | 24
man/focalVals.Rd | 50 -
man/formatVC.Rd |only
man/genCorrelatedData.Rd | 51 -
man/genCorrelatedData2.Rd | 184 ++---
man/getAuxRsq.Rd | 12
man/getDeltaRsquare.Rd | 20
man/getFocal.Rd | 24
man/getFocal.default.Rd | 36 -
man/getFocal.factor.Rd | 45 -
man/getPartialCor.Rd | 85 +-
man/getVIF.Rd | 12
man/lazyCor.Rd | 31
man/lazyCov.Rd | 37 -
man/lmAuxiliary.Rd | 13
man/magRange.Rd | 31
man/makeSymmetric.Rd | 38 -
man/makeVec.Rd | 18
man/mcDiagnose.Rd | 13
man/mcGraph1.Rd | 33
man/mcGraph2.Rd | 44 -
man/mcGraph3.Rd | 39 -
man/meanCenter.Rd | 188 ++---
man/model.data.Rd | 187 -----
man/model.data.default.Rd |only
man/mvrnorm.Rd | 98 +-
man/newdata.Rd | 152 ++--
man/outreg.Rd | 387 ++++++-----
man/outreg0.Rd | 284 +++-----
man/outreg2HTML.Rd | 28
man/padW0.Rd |only
man/perspEmpty.Rd | 59 -
man/plot.testSlopes.Rd |only
man/plotCurves.Rd | 178 ++---
man/plotFancy.Rd | 49 -
man/plotPlane.Rd | 197 ++---
man/plotSeq.Rd | 34
man/plotSlopes.Rd | 238 +++---
man/predictCI.Rd | 86 +-
man/predictOMatic.Rd | 246 +++----
man/print.factorSummaries.Rd | 31
man/religioncrime.Rd | 14
man/residualCenter.Rd | 77 +-
man/rockchalk-package.Rd | 69 -
man/standardize.Rd | 24
man/summarize.Rd | 30
man/summarizeFactors.Rd | 122 +--
man/summarizeNumerics.Rd | 52 -
man/summary.factor.Rd | 23
man/testSlopes.Rd | 128 +--
man/vech2Corr.Rd | 35 -
man/vech2mat.Rd | 38 -
vignettes/Rchaeology.Rnw | 2
vignettes/Rstyle.Rnw | 2
vignettes/rockchalk.Rnw | 100 +-
vignettes/rockchalk.bib | 453 ++++++++-----
vignettes/rockchalk.lyx | 239 ++----
97 files changed, 4444 insertions(+), 3412 deletions(-)
Title: R Package for Causal Mediation Analysis
Diff between mediation versions 4.4 dated 2013-12-08 and 4.4.1 dated 2014-08-13
Description: mediation is a publicly available R package that allows both parametric and nonparametric causal mediation analysis. It implements the methods and suggestions in Imai, Keele and Yamamoto (2010), Imai, Keele and Tingley (2010), Imai, Tingley and Yamamoto (2013), Imai and Yamamoto (2013) and Yamamoto (2013). In addition to the estimation of causal mediation effects, the software also allows researchers to conduct sensitivity analysis for certain parametric models.
Author: Dustin Tingley
Maintainer: Teppei Yamamoto
mediation-4.4.1/mediation/ChangeLog | 1
mediation-4.4.1/mediation/DESCRIPTION | 8
mediation-4.4.1/mediation/MD5 | 68 -
mediation-4.4.1/mediation/R/mediate.R | 69 -
mediation-4.4.1/mediation/R/medsens.R | 136 +-
mediation-4.4.1/mediation/build/vignette.rds |binary
mediation-4.4.1/mediation/inst/CITATION | 94 -
mediation-4.4.1/mediation/inst/doc/mediation-old.pdf |binary
mediation-4.4.1/mediation/inst/doc/mediation.R | 170 +-
mediation-4.4.1/mediation/inst/doc/mediation.Rnw | 1032 +++++++++++-----
mediation-4.4.1/mediation/inst/doc/mediation.pdf |binary
mediation-4.4.1/mediation/man/ivmediate.Rd | 2
mediation-4.4.1/mediation/man/mediate.Rd | 14
mediation-4.4.1/mediation/man/mediate.ced.Rd | 1
mediation-4.4.1/mediation/man/mediate.pd.Rd | 1
mediation-4.4.1/mediation/man/mediate.ped.Rd | 2
mediation-4.4.1/mediation/man/mediate.sed.Rd | 2
mediation-4.4.1/mediation/man/medsens.Rd | 27
mediation-4.4.1/mediation/man/multimed.Rd | 1
mediation-4.4.1/mediation/man/plot.ivmediate.Rd | 2
mediation-4.4.1/mediation/man/plot.mediate.Rd | 5
mediation-4.4.1/mediation/man/plot.mediate.mer.Rd | 3
mediation-4.4.1/mediation/man/plot.medsens.Rd | 5
mediation-4.4.1/mediation/man/plot.multimed.Rd | 1
mediation-4.4.1/mediation/man/summary.ivmediate.Rd | 2
mediation-4.4.1/mediation/man/summary.mediate.Rd | 2
mediation-4.4.1/mediation/man/summary.mediate.design.Rd | 2
mediation-4.4.1/mediation/man/summary.mediate.mer.Rd | 2
mediation-4.4.1/mediation/man/summary.medsens.Rd | 2
mediation-4.4.1/mediation/man/summary.multimed.Rd | 1
mediation-4.4.1/mediation/man/test.TMint.Rd | 5
mediation-4.4.1/mediation/man/test.modmed.Rd | 5
mediation-4.4.1/mediation/vignettes/mediation.Rnw | 1032 +++++++++++-----
mediation-4.4.1/mediation/vignettes/mediationR2.bib | 110 +
mediation-4.4.1/mediation/vignettes/v59i05.bib |only
mediation-4.4/mediation/vignettes/mediation.bib |only
36 files changed, 2003 insertions(+), 804 deletions(-)
Title: Likelihood Estimation of Admixture in Parents From Offspring
Genotypes
Diff between LEAPFrOG versions 1.0.6 dated 2012-08-01 and 1.0.7 dated 2014-08-13
Description: Contains LEAPFrOG Gradient Optimisation and Expectation Maximisation functions for inferring parental admixture proportions from an offspring with SNP genotypes.
Author: Daniel JM Crouch & Michael E Weale
Maintainer: Daniel JM Crouch
LEAPFrOG-1.0.6/LEAPFrOG/LEAPFrOG.zip |only
LEAPFrOG-1.0.7/LEAPFrOG/COPYING | 11 -
LEAPFrOG-1.0.7/LEAPFrOG/DESCRIPTION | 15 +-
LEAPFrOG-1.0.7/LEAPFrOG/MD5 | 21 +--
LEAPFrOG-1.0.7/LEAPFrOG/NAMESPACE | 2
LEAPFrOG-1.0.7/LEAPFrOG/R/LEAPFrOG.R | 15 --
LEAPFrOG-1.0.7/LEAPFrOG/man/BEAPFrOG.Rd | 35 -----
LEAPFrOG-1.0.7/LEAPFrOG/man/LEAPFrOG-package.Rd | 34 -----
LEAPFrOG-1.0.7/LEAPFrOG/man/LEAPFrOG.Rd | 36 ------
LEAPFrOG-1.0.7/LEAPFrOG/man/LEAPFrOG_EM.Rd | 31 -----
LEAPFrOG-1.0.7/LEAPFrOG/man/LEAPFrOG_plot.Rd | 32 -----
LEAPFrOG-1.0.7/LEAPFrOG/man/constrOptim2.Rd | 143 +-----------------------
12 files changed, 37 insertions(+), 338 deletions(-)
Title: Leveraging Learning to Automatically Manage Algorithms
Diff between llama versions 0.7 dated 2014-07-22 and 0.7.1 dated 2014-08-13
Description: Provides functionality to train and evaluate algorithm selection models for portfolios.
Author: Lars Kotthoff [aut,cre],
Bernd Bischl [aut],
Barry Hurley [ctb],
Talal Rahwan [ctb]
Maintainer: Lars Kotthoff
DESCRIPTION | 8 -
MD5 | 33 +++--
NEWS | 6 +
R/analysis.R | 5
R/misclassificationPenalties.R | 9 +
R/parscores.R | 9 +
R/successes.R | 11 +
inst/java/ShapleyValue.jar |binary
inst/manual/llama.pdf |binary
java/shapleyComputation/CoalitionValueCalculator.class |only
java/shapleyComputation/CoalitionValueCalculator.java | 96 +----------------
java/shapleyComputation/Combinations.class |only
java/shapleyComputation/ShapleyComputation.class |only
java/shapleyComputation/ShapleyComputation.java | 52 ++-------
man/analysis.Rd | 6 -
tests/testthat/test.analysis.R | 13 +-
tests/testthat/test.misclassificationPenalties.R | 11 +
tests/testthat/test.parscores.R | 11 +
tests/testthat/test.successes.R | 11 +
19 files changed, 117 insertions(+), 164 deletions(-)
Title: Estimation, simulation and visualization of Hierarchical
Archimedean Copulae (HAC)
Diff between HAC versions 1.0-0 dated 2014-06-10 and 1.0-1 dated 2014-08-13
Description: Package provides the estimation of the structure and the parameters, sampling methods and structural plots of Hierarchical Archimedean Copulae (HAC).
Author: Ostap Okhrin
Maintainer: Alexander Ristig
DESCRIPTION | 8 -
MD5 | 32 ++--
NAMESPACE | 10 +
R/cdf.r | 36 ++++-
R/constructor.r | 62 ++++++++-
R/estimate.r | 65 +++++----
R/pdf.r | 26 +--
R/tree2str.r | 5
build/vignette.rds |binary
inst/ChangeLog | 13 +
inst/doc/HAC.R | 332 ++++++++++++++++++++++++-------------------------
inst/doc/HAC.Rnw | 30 ++--
inst/doc/HAC.pdf |binary
man/estimate.copula.Rd | 4
man/hac.Rd | 7 -
vignettes/HAC.Rnw | 30 ++--
vignettes/ref.bib | 7 +
17 files changed, 389 insertions(+), 278 deletions(-)
Title: An R implementation of dynamic simulations of autoregressive
relationships
Diff between dynsim versions 0.2.4 dated 2014-03-29 and 1.0 dated 2014-08-13
Description: An R implementation of dynamic simulations of autoregressive
relationships
Author: Christopher Gandrud, Guy D Whitten, and Laron K Williams
Maintainer: Christopher Gandrud
DESCRIPTION | 11 +
MD5 | 22 +--
NAMESPACE | 7 -
NEWS | 29 ++++
R/dynsim.R | 280 ++++++++++++++++++++++++++--------------------
R/dynsimGG.R | 335 ++++++++++++++++++++++++++++++--------------------------
R/grunfeld.R | 5
R/utils.R | 184 +++++++++++++++---------------
README.md | 34 +++--
man/dynsim.Rd | 154 ++++++++++++-------------
man/dynsimGG.Rd | 97 +++++++---------
man/grunfeld.Rd | 5
12 files changed, 626 insertions(+), 537 deletions(-)
Title: R tools for making it easier to combine and clean data sets.
Diff between DataCombine versions 0.1.26 dated 2014-05-06 and 0.2.2 dated 2014-08-13
Description: R tools for combining and cleaning data sets, including filling in
missing observations with data from another data frame and creating
lag/lead variables.
Author: Christopher Gandrud
Maintainer: Christopher Gandrud
DESCRIPTION | 8 -
MD5 | 51 ++++----
NAMESPACE | 4
NEWS | 47 +++++--
R/FillIn.R | 10 -
R/MoveFront.R | 85 +++++++------
R/slide.R | 331 ++++++++++++++++++++++++++++++++++++++++-------------
README.md | 11 +
man/CountSpell.Rd |only
man/DropNA.Rd | 2
man/FillIn.Rd | 2
man/FindReplace.Rd | 2
man/InsertRow.Rd | 2
man/MoveFront.Rd | 18 ++
man/NaVar.Rd | 2
man/PercChange.Rd | 2
man/SpreadDummy.Rd | 27 +++-
man/StartEnd.Rd | 29 +++-
man/TimeFill.Rd | 2
man/VarDrop.Rd | 2
man/dMerge.Rd | 2
man/grepl.sub.Rd | 2
man/rmExcept.Rd | 2
man/shift.Rd | 21 ++-
man/shiftMA.Rd | 2
man/slide.Rd | 2
man/slideMA.Rd | 46 +++++--
27 files changed, 497 insertions(+), 217 deletions(-)
Title: Functions for a variety of stylometric analyses
Diff between stylo versions 0.5.6 dated 2014-05-21 and 0.5.7 dated 2014-08-13
Description: A number of functions, supplemented by GUI, to perform various
analyses in the field of computational stylistics, authorship
attribution, etc.
Author: Maciej Eder, Jan Rybicki, Mike Kestemont
Maintainer: Maciej Eder
DESCRIPTION | 8
MD5 | 80 +
NAMESPACE | 3
NEWS | 41
R/assign.plot.colors.R | 2
R/classify.R | 299 ++++--
R/culling.R |only
R/define.plot.area.R | 2
R/delete.markup.R | 2
R/delete.stop.words.R |only
R/draw.polygons.R |only
R/gui.classify.R | 9
R/gui.oppose.R |only
R/gui.stylo.R | 9
R/load.corpus.and.parse.R | 2
R/make.samples.R | 39
R/make.table.of.frequencies.R | 12
R/oppose.R | 1707 +++++++++++++++------------------------
R/print.stylo.data.R | 8
R/rolling.delta.R | 6
R/stylo.R | 114 +-
R/stylo.default.settings.R | 59 +
R/stylo.pronouns.R | 16
R/txt.to.words.R | 20
R/zeta.chisquare.R |only
R/zeta.craig.R |only
R/zeta.eder.R |only
man/classify.Rd | 20
man/culling.Rd |only
man/delete.markup.Rd | 2
man/delete.stop.words.Rd |only
man/gui.classify.Rd | 4
man/gui.oppose.Rd |only
man/gui.stylo.Rd | 2
man/load.corpus.and.parse.Rd | 18
man/make.ngrams.Rd | 17
man/make.samples.Rd | 37
man/make.table.of.frequencies.Rd | 43
man/oppose.Rd | 63 +
man/rolling.delta.Rd | 10
man/stylo.Rd | 20
man/stylo.default.settings.Rd | 15
man/stylo.pronouns.Rd | 2
man/txt.to.features.Rd | 2
man/txt.to.words.Rd | 34
man/txt.to.words.ext.Rd | 18
46 files changed, 1368 insertions(+), 1377 deletions(-)
Title: External jars required for package ReporteRs
Diff between ReporteRsjars versions 0.0.1 dated 2014-03-03 and 0.0.2 dated 2014-08-13
Description: External jars required for package ReporteRs. ReporteRs is an
R package for creating Microsoft Word document (>=2007), Microsoft
Powerpoint document (>=2007) and HTML documents from R.
Author: David Gohel [aut, cre],
Jason Harrop [ctb, cph] (docx4j java library),
Apache Software Foundation [ctb, cph] (Apache Commons java libraries
and log4j),
SLF4J [ctb, cph] (Simple Logging Facade for Java)
Maintainer: David Gohel
DESCRIPTION | 22 +++++++++++++++++-----
MD5 | 7 +++++--
inst/COPYRIGHTS | 29 +++++++++++++++++++----------
inst/java/commons-codec-1.3.jar |only
inst/java/sanselan-0.97-incubator.jar |only
java |only
6 files changed, 41 insertions(+), 17 deletions(-)
Title: Microsoft Word, Microsoft Powerpoint and HTML documents
generation from R
Diff between ReporteRs versions 0.5.5 dated 2014-06-06 and 0.6.0 dated 2014-08-13
Description: An R package for creating Microsoft Word document (>=2007),
Microsoft Powerpoint document (>=2007) and HTML documents from R. There are
several features to let you format and present R outputs ; e.g. Editable
Vector Graphics, functions for complex tables reporting, reuse of corporate
template document (*.docx and *.pptx). You can use the package as a tool
for fast reporting and as a tool for reporting automation. The package does
not require any installation of Microsoft product to be able to write
Microsoft files (docx and pptx).
Author: David Gohel [aut, cre],
Bootstrap [ctb, cph] (Bootstrap development team),
jQuery [ctb, cph] (The jQuery Foundation),
Dmitry Baranovskiy [ctb, cph] (raphael and g.raphael javascript
libraries)
Maintainer: David Gohel
ReporteRs-0.5.5/ReporteRs/R/FlexTableTools.R |only
ReporteRs-0.5.5/ReporteRs/R/Paragraph.R |only
ReporteRs-0.5.5/ReporteRs/R/ParagraphSection.R |only
ReporteRs-0.5.5/ReporteRs/demo |only
ReporteRs-0.5.5/ReporteRs/inst/bootstrap/css/html4r.css |only
ReporteRs-0.5.5/ReporteRs/inst/java/ReporteRs-0.5.jar |only
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ReporteRs-0.6.0/ReporteRs/MD5 | 401
ReporteRs-0.6.0/ReporteRs/NAMESPACE | 22
ReporteRs-0.6.0/ReporteRs/NEWS | 61
ReporteRs-0.6.0/ReporteRs/R/00_AllGeneric.R | 184
ReporteRs-0.6.0/ReporteRs/R/01_tools.R | 321
ReporteRs-0.6.0/ReporteRs/R/FlexCell.R | 15
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ReporteRs-0.6.0/ReporteRs/R/FlexTableUpdateTools.R |only
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ReporteRs-0.6.0/ReporteRs/R/ReporteRs.R | 45
ReporteRs-0.6.0/ReporteRs/R/Section.R |only
ReporteRs-0.6.0/ReporteRs/R/add.plot.interactivity.R | 7
ReporteRs-0.6.0/ReporteRs/R/addDate.pptx.R | 12
ReporteRs-0.6.0/ReporteRs/R/addFlexTable.docx.R | 6
ReporteRs-0.6.0/ReporteRs/R/addFlexTable.html.R | 11
ReporteRs-0.6.0/ReporteRs/R/addFooter.pptx.R | 13
ReporteRs-0.6.0/ReporteRs/R/addImage.docx.R | 46
ReporteRs-0.6.0/ReporteRs/R/addImage.html.R | 26
ReporteRs-0.6.0/ReporteRs/R/addImage.pptx.R | 32
ReporteRs-0.6.0/ReporteRs/R/addPage.html.R | 15
ReporteRs-0.6.0/ReporteRs/R/addPageBreak.docx.R | 6
ReporteRs-0.6.0/ReporteRs/R/addPageNumber.pptx.R | 24
ReporteRs-0.6.0/ReporteRs/R/addParagraph.docx.R | 64
ReporteRs-0.6.0/ReporteRs/R/addParagraph.html.R | 67
ReporteRs-0.6.0/ReporteRs/R/addParagraph.pptx.R | 65
ReporteRs-0.6.0/ReporteRs/R/addPlot.docx.R | 76
ReporteRs-0.6.0/ReporteRs/R/addPlot.html.R | 39
ReporteRs-0.6.0/ReporteRs/R/addPlot.pptx.R | 45
ReporteRs-0.6.0/ReporteRs/R/addRScript.docx.R | 130
ReporteRs-0.6.0/ReporteRs/R/addRScript.html.R | 106
ReporteRs-0.6.0/ReporteRs/R/addRScript.pptx.R | 105
ReporteRs-0.6.0/ReporteRs/R/addSlide.pptx.R | 10
ReporteRs-0.6.0/ReporteRs/R/addSubtitle.pptx.R | 6
ReporteRs-0.6.0/ReporteRs/R/addTOC.docx.R | 17
ReporteRs-0.6.0/ReporteRs/R/addTable.docx.R | 57
ReporteRs-0.6.0/ReporteRs/R/addTable.html.R | 65
ReporteRs-0.6.0/ReporteRs/R/addTable.pptx.R | 63
ReporteRs-0.6.0/ReporteRs/R/addTitle.docx.R | 17
ReporteRs-0.6.0/ReporteRs/R/addTitle.html.R | 17
ReporteRs-0.6.0/ReporteRs/R/addTitle.pptx.R | 6
ReporteRs-0.6.0/ReporteRs/R/borderProperties.R | 80
ReporteRs-0.6.0/ReporteRs/R/cellProperties.R | 281
ReporteRs-0.6.0/ReporteRs/R/deleteBookmark.R | 4
ReporteRs-0.6.0/ReporteRs/R/docx.R | 29
ReporteRs-0.6.0/ReporteRs/R/drawingML.R | 29
ReporteRs-0.6.0/ReporteRs/R/html.R | 8
ReporteRs-0.6.0/ReporteRs/R/java_description.R | 46
ReporteRs-0.6.0/ReporteRs/R/parProperties.R | 2
ReporteRs-0.6.0/ReporteRs/R/pot.R | 45
ReporteRs-0.6.0/ReporteRs/R/pptx.R | 8
ReporteRs-0.6.0/ReporteRs/R/print.docx.R | 6
ReporteRs-0.6.0/ReporteRs/R/print.html.R | 6
ReporteRs-0.6.0/ReporteRs/R/print.pptx.R | 6
ReporteRs-0.6.0/ReporteRs/R/textProperties.R | 2
ReporteRs-0.6.0/ReporteRs/R/themes.tableProperties.R | 30
ReporteRs-0.6.0/ReporteRs/R/toc.options.R |only
ReporteRs-0.6.0/ReporteRs/R/writeDoc.docx.R | 4
ReporteRs-0.6.0/ReporteRs/R/writeDoc.html.R | 4
ReporteRs-0.6.0/ReporteRs/R/writeDoc.pptx.R | 4
ReporteRs-0.6.0/ReporteRs/inst/COPYRIGHTS | 243
ReporteRs-0.6.0/ReporteRs/inst/Rmd |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.css | 434
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.css.map |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap-theme.min.css | 10
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap.css |only
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ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/bootstrap.min.css | 6481 ----------
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/css/docs.min.css |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/fonts/glyphicons-halflings-regular.eot |binary
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/fonts/glyphicons-halflings-regular.svg | 94
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/fonts/glyphicons-halflings-regular.ttf |binary
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/fonts/glyphicons-halflings-regular.woff |binary
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/bootstrap.min.js | 9
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ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/html5shiv.min.js |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/ie-emulation-modes-warning.js |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/ie10-viewport-bug-workaround.js |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/ie8-responsive-file-warning.js |only
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/jquery.min.js | 10
ReporteRs-0.6.0/ReporteRs/inst/bootstrap/js/respond.min.js |only
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ReporteRs-0.6.0/ReporteRs/man/FlexTable-alter.Rd | 85
ReporteRs-0.6.0/ReporteRs/man/FlexTable.Rd | 81
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ReporteRs-0.6.0/ReporteRs/man/ReporteRs-package.Rd | 3
ReporteRs-0.6.0/ReporteRs/man/add.plot.interactivity.Rd | 2
ReporteRs-0.6.0/ReporteRs/man/addColumnBreak.Rd |only
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ReporteRs-0.6.0/ReporteRs/man/addDate.Rd | 2
ReporteRs-0.6.0/ReporteRs/man/addDate.pptx.Rd | 2
ReporteRs-0.6.0/ReporteRs/man/addFlexTable.docx.Rd | 8
ReporteRs-0.6.0/ReporteRs/man/addFlexTable.html.Rd | 13
ReporteRs-0.6.0/ReporteRs/man/addFooter.pptx.Rd | 2
ReporteRs-0.6.0/ReporteRs/man/addFooterRow.Rd | 5
ReporteRs-0.6.0/ReporteRs/man/addImage.docx.Rd | 25
ReporteRs-0.6.0/ReporteRs/man/addImage.html.Rd | 8
ReporteRs-0.6.0/ReporteRs/man/addImage.pptx.Rd | 8
ReporteRs-0.6.0/ReporteRs/man/addPage.html.Rd | 10
ReporteRs-0.6.0/ReporteRs/man/addPageBreak.docx.Rd | 8
ReporteRs-0.6.0/ReporteRs/man/addPageNumber.pptx.Rd | 7
ReporteRs-0.6.0/ReporteRs/man/addParagraph.Rd | 12
ReporteRs-0.6.0/ReporteRs/man/addParagraph.docx.Rd | 25
ReporteRs-0.6.0/ReporteRs/man/addParagraph.html.Rd | 24
ReporteRs-0.6.0/ReporteRs/man/addParagraph.pptx.Rd | 11
ReporteRs-0.6.0/ReporteRs/man/addPlot.Rd | 4
ReporteRs-0.6.0/ReporteRs/man/addPlot.docx.Rd | 20
ReporteRs-0.6.0/ReporteRs/man/addPlot.html.Rd | 12
ReporteRs-0.6.0/ReporteRs/man/addPlot.pptx.Rd | 13
ReporteRs-0.6.0/ReporteRs/man/addPostCommand.Rd |only
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ReporteRs-0.6.0/ReporteRs/man/addRScript.docx.Rd | 94
ReporteRs-0.6.0/ReporteRs/man/addRScript.html.Rd | 74
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ReporteRs-0.6.0/ReporteRs/man/addSubtitle.pptx.Rd | 6
ReporteRs-0.6.0/ReporteRs/man/addTOC.docx.Rd | 9
ReporteRs-0.6.0/ReporteRs/man/addTable.Rd | 9
ReporteRs-0.6.0/ReporteRs/man/addTable.docx.Rd | 18
ReporteRs-0.6.0/ReporteRs/man/addTable.html.Rd | 17
ReporteRs-0.6.0/ReporteRs/man/addTable.pptx.Rd | 10
ReporteRs-0.6.0/ReporteRs/man/addTitle.docx.Rd | 11
ReporteRs-0.6.0/ReporteRs/man/addTitle.html.Rd | 11
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ReporteRs-0.6.0/ReporteRs/man/chprop.cellProperties.Rd | 86
ReporteRs-0.6.0/ReporteRs/man/deleteBookmark.Rd | 2
ReporteRs-0.6.0/ReporteRs/man/deleteBookmarkNextContent.Rd | 2
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ReporteRs-0.6.0/ReporteRs/man/docx.Rd | 37
ReporteRs-0.6.0/ReporteRs/man/get.default.tableProperties.Rd | 3
ReporteRs-0.6.0/ReporteRs/man/get.greenheader.tableProperties.Rd | 3
ReporteRs-0.6.0/ReporteRs/man/get.light.tableProperties.Rd | 3
ReporteRs-0.6.0/ReporteRs/man/html.Rd | 12
ReporteRs-0.6.0/ReporteRs/man/pot-add.Rd | 5
ReporteRs-0.6.0/ReporteRs/man/pot.Rd | 6
ReporteRs-0.6.0/ReporteRs/man/pptx.Rd | 14
ReporteRs-0.6.0/ReporteRs/man/print.docx.Rd | 7
ReporteRs-0.6.0/ReporteRs/man/print.html.Rd | 7
ReporteRs-0.6.0/ReporteRs/man/print.pptx.Rd | 7
ReporteRs-0.6.0/ReporteRs/man/raphael.html.Rd | 6
ReporteRs-0.6.0/ReporteRs/man/setFlexTableBorders.Rd | 12
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ReporteRs-0.6.0/ReporteRs/man/writeDoc.docx.Rd | 6
ReporteRs-0.6.0/ReporteRs/man/writeDoc.html.Rd | 6
ReporteRs-0.6.0/ReporteRs/man/writeDoc.pptx.Rd | 4
ReporteRs-0.6.0/ReporteRs/src/DOCX.cpp | 85
ReporteRs-0.6.0/ReporteRs/src/DOCX.h | 5
ReporteRs-0.6.0/ReporteRs/src/PPTX.cpp | 107
ReporteRs-0.6.0/ReporteRs/src/PPTX.h | 6
ReporteRs-0.6.0/ReporteRs/src/RAPHAEL.cpp | 82
ReporteRs-0.6.0/ReporteRs/src/RAPHAEL.h | 5
ReporteRs-0.6.0/ReporteRs/src/colors.cpp | 5
ReporteRs-0.6.0/ReporteRs/src/colors.h | 5
ReporteRs-0.6.0/ReporteRs/src/common.cpp | 158
ReporteRs-0.6.0/ReporteRs/src/common.h | 7
ReporteRs-0.6.0/ReporteRs/src/datastruct.h | 7
ReporteRs-0.6.0/ReporteRs/src/dml_utils.cpp | 22
ReporteRs-0.6.0/ReporteRs/src/dml_utils.h | 6
ReporteRs-0.6.0/ReporteRs/src/raphael_utils.cpp | 4
ReporteRs-0.6.0/ReporteRs/src/raphael_utils.h | 5
ReporteRs-0.6.0/ReporteRs/src/utils.cpp | 42
ReporteRs-0.6.0/ReporteRs/src/utils.h | 7
185 files changed, 2530 insertions(+), 9851 deletions(-)
Title: Hidden Markov Models
Diff between HiddenMarkov versions 1.7-0 dated 2012-04-14 and 1.8-0 dated 2014-08-13
Description: Contains functions for the analysis of Discrete Time Hidden Markov Models, Markov Modulated GLMs and the Markov Modulated Poisson Process. It includes functions for simulation, parameter estimation, and the Viterbi algorithm. See the topic "HiddenMarkov" for an introduction to the package, and "Change Log" for a list of recent changes. The algorithms are based of those of Walter Zucchini.
Author: David Harte
Maintainer: David Harte
DESCRIPTION | 23 +++++++++--------------
MD5 | 14 +++++++-------
NAMESPACE | 4 ++--
R/BaumWelch.mmglmlong1.R | 16 ++++++++--------
inst/doc/index.html | 17 +++++++++++++----
man/BaumWelch.Rd | 18 +++++++++---------
man/Changes.Rd | 2 ++
man/mmglm.Rd | 10 +++++-----
8 files changed, 55 insertions(+), 49 deletions(-)
Title: Regularization paths for regression models with grouped
covariates
Diff between grpreg versions 2.6-0 dated 2014-03-21 and 2.7-0 dated 2014-08-13
Description: Efficient algorithms for fitting the regularization path of
linear or logistic regression models with grouped penalties. This
includes group selection methods such as group lasso, group MCP, and
group SCAD as well as bi-level selection methods such as the group
exponential lasso, the composite MCP, and the group bridge.
Author: Patrick Breheny
Maintainer: Patrick Breheny
grpreg-2.6-0/grpreg/src/binomial-gd.c |only
grpreg-2.6-0/grpreg/src/binomial-lcd.c |only
grpreg-2.6-0/grpreg/src/gaussian-gd.c |only
grpreg-2.6-0/grpreg/src/gaussian-lcd.c |only
grpreg-2.7-0/grpreg/DESCRIPTION | 8 +-
grpreg-2.7-0/grpreg/MD5 | 46 ++++++++-------
grpreg-2.7-0/grpreg/NEWS | 7 ++
grpreg-2.7-0/grpreg/R/cv.grpreg.R | 22 +++----
grpreg-2.7-0/grpreg/R/gBridge.R | 23 +++++--
grpreg-2.7-0/grpreg/R/grpreg.R | 54 +++++++++++-------
grpreg-2.7-0/grpreg/R/logLik.R | 7 ++
grpreg-2.7-0/grpreg/R/loss.R | 9 ++-
grpreg-2.7-0/grpreg/R/plot.cv.R | 3 -
grpreg-2.7-0/grpreg/R/predict.R | 28 +++++++--
grpreg-2.7-0/grpreg/R/setupLambda.R | 5 +
grpreg-2.7-0/grpreg/R/summary.cv.grpreg.R | 5 +
grpreg-2.7-0/grpreg/inst/tests/agreement.R | 51 ++++++++++-------
grpreg-2.7-0/grpreg/inst/tests/basic-functionality.R | 33 ++++++++++-
grpreg-2.7-0/grpreg/inst/tests/extra-features.R | 48 +++++++++++++++-
grpreg-2.7-0/grpreg/man/gBridge.Rd | 8 +-
grpreg-2.7-0/grpreg/man/grpreg.Rd | 11 ++-
grpreg-2.7-0/grpreg/src/gdfit_binomial.c |only
grpreg-2.7-0/grpreg/src/gdfit_gaussian.c |only
grpreg-2.7-0/grpreg/src/gdfit_poisson.c |only
grpreg-2.7-0/grpreg/src/grpreg.c | 56 +++++++++++++------
grpreg-2.7-0/grpreg/src/lcdfit_binomial.c |only
grpreg-2.7-0/grpreg/src/lcdfit_gaussian.c |only
grpreg-2.7-0/grpreg/src/lcdfit_poisson.c |only
grpreg-2.7-0/grpreg/tests/test-all.R | 14 ++--
29 files changed, 307 insertions(+), 131 deletions(-)