Title: Spatial Survey Design and Analysis
Description: This group of functions implements algorithms for design and
analysis of probability surveys. The functions are tailored for Generalized
Random Tessellation Stratified survey designs.
Author: Tom Kincaid [aut, cre],
Tony Olsen [aut],
Don Stevens [ctb],
Christian Platt [ctb],
Denis White [ctb],
Richard Remington [ctb]
Maintainer: Tom Kincaid <Kincaid.Tom@epa.gov>
Diff between spsurvey versions 3.1 dated 2015-10-23 and 3.2 dated 2016-08-16
DESCRIPTION | 13 MD5 | 260 ++++----- NAMESPACE | 1 R/AAA.R | 2 R/attisk.est.R | 8 R/attrisk.analysis.R | 9 R/attrisk.var.R | 6 R/cat.analysis.R | 11 R/category.est.R | 8 R/catvar.prop.R | 6 R/catvar.size.R | 6 R/cdf.decon.R | 8 R/cdf.est.R | 8 R/cdf.test.R | 41 + R/cdf.test.prop.R | 19 R/cdf.test.size.prop.R | 5 R/cdfvar.prop.R | 6 R/cdfvar.size.prop.R | 6 R/cdfvar.size.total.R | 6 R/cdfvar.test.R | 6 R/cdfvar.total.R | 6 R/change.analysis.R | 175 +++++- R/change.est.R | 1008 +++++++++++++++++++++++++++++++++---- R/changevar.mean.R | 6 R/changevar.prop.R | 6 R/changevar.size.R | 6 R/cont.analysis.R | 9 R/cont.cdftest.R | 19 R/dcdfvar.prop.R | 6 R/dcdfvar.size.prop.R | 6 R/dcdfvar.size.total.R | 6 R/dcdfvar.total.R | 6 R/examine.R |only R/grts.R | 44 - R/grtsarea.R | 2 R/grtslin.R | 2 R/input.check.R | 27 R/input.format.R | 2 R/irs.R | 44 - R/read.dbf.R | 6 R/read.sas.R | 3 R/relrisk.analysis.R | 9 R/relrisk.est.R | 8 R/relrisk.var.R | 6 R/sp2shape.R | 35 + R/spsurvey.analysis.R | 13 R/total.est.R | 8 R/total.var.R | 6 R/write.dbf.R | 12 build/vignette.rds |binary data/FL_lakes.rda |binary data/IN_streams.rda |binary data/Luck_Ash_streams.rda |binary data/NE_lakes.rda |binary data/NLA_2007.rda |binary data/NRSA_2009.rda |only data/SC_estuaries.rda |binary data/UT_ecoregions.rda |binary data/decon_data.rda |binary inst/CITATION | 10 inst/NEWS.Rd | 55 ++ inst/doc/Area_Analysis.R | 6 inst/doc/Area_Analysis.Rnw | 16 inst/doc/Area_Analysis.pdf |binary inst/doc/Area_Design.Rnw | 2 inst/doc/Area_Design.pdf |binary inst/doc/CDF_Analysis.R | 5 inst/doc/CDF_Analysis.Rnw | 16 inst/doc/CDF_Analysis.pdf |binary inst/doc/CDF_Deconvolution.Rnw | 2 inst/doc/CDF_Deconvolution.pdf |binary inst/doc/CHANGES.pdf |binary inst/doc/Change_Analysis.R |only inst/doc/Change_Analysis.Rnw |only inst/doc/Change_Analysis.pdf |only inst/doc/Finite_Analysis.R | 13 inst/doc/Finite_Analysis.Rnw | 21 inst/doc/Finite_Analysis.pdf |binary inst/doc/Finite_Design.Rnw | 2 inst/doc/Finite_Design.pdf |binary inst/doc/Linear_Analysis.R | 14 inst/doc/Linear_Analysis.Rnw | 23 inst/doc/Linear_Analysis.pdf |binary inst/doc/Linear_Design.Rnw | 2 inst/doc/Linear_Design.pdf |binary inst/doc/README.pdf |binary inst/doc/Risk_Analysis.R | 8 inst/doc/Risk_Analysis.Rnw | 12 inst/doc/Risk_Analysis.pdf |binary inst/doc/UserGuide.pdf |binary man/NRSA_2009.Rd |only man/attrisk.analysis.Rd | 9 man/attrisk.est.Rd | 6 man/cat.analysis.Rd | 9 man/category.est.Rd | 6 man/cdf.decon.Rd | 6 man/cdf.est.Rd | 6 man/cdf.test.Rd | 24 man/change.analysis.Rd | 35 - man/change.est.Rd | 41 - man/cont.analysis.Rd | 9 man/cont.cdftest.Rd | 11 man/examine.Rd |only man/grts.Rd | 36 - man/irs.Rd | 36 - man/read.sas.Rd | 5 man/relrisk.analysis.Rd | 9 man/relrisk.est.Rd | 6 man/sp2shape.Rd | 13 man/spsurvey.analysis.Rd | 9 man/total.est.Rd | 8 src/dbfFileParser.c | 31 - src/grts.c | 48 + src/grtsarea.c | 2 src/grtslin.c | 2 src/insideAreaGridCell.c | 40 + src/insideLinearGridCell.c | 40 + src/irsarea.c | 2 src/irslin.c | 2 src/order.h |only src/pickAreaSamplePoints.c | 27 src/pickGridCells.c | 10 src/pickLinearSamplePoints.c | 24 src/shapeParser.c | 439 ++++------------ vignettes/Area_Analysis.Rnw | 16 vignettes/Area_Design.Rnw | 2 vignettes/CDF_Analysis.Rnw | 16 vignettes/CDF_Deconvolution.Rnw | 2 vignettes/Change_Analysis.Rnw |only vignettes/Change_Analysis_plot.pdf |only vignettes/Finite_Analysis.Rnw | 21 vignettes/Finite_Design.Rnw | 2 vignettes/Linear_Analysis.Rnw | 23 vignettes/Linear_Design.Rnw | 2 vignettes/Risk_Analysis.Rnw | 12 vignettes/spsurvey.bib | 21 136 files changed, 2228 insertions(+), 968 deletions(-)
Title: Bayesian Modeling and Analysis of Spatially Correlated Survival
Data
Description: Provides several Bayesian survival models for spatial/non-spatial survival data: marginal Bayesian Nonparametric models, marginal Bayesian proportional hazards models, generalized accelerated failure time frailty models, and standard semiparametric frailty models within the context of proportional hazards, proportional odds and accelerated failure time.
Author: Haiming Zhou <zhouh@niu.edu> and Tim Hanson <hansont@stat.sc.edu>
Maintainer: Haiming Zhou <zhouh@niu.edu>
Diff between spBayesSurv versions 1.0.3 dated 2015-09-01 and 1.0.4 dated 2016-08-16
spBayesSurv-1.0.3/spBayesSurv/src/spSurv_AFT.cpp |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_AH.cpp |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_MPT_tools.cpp |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_MPT_tools.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_PH.cpp |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_PO.cpp |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_anovaDDP.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_frailtyLDTFP.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_indeptCoxph.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_nonfrailtyLDTFP.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_spCopulaCoxph.h |only spBayesSurv-1.0.3/spBayesSurv/src/spSurv_spCopulaDDP.h |only spBayesSurv-1.0.4/spBayesSurv/DESCRIPTION | 10 spBayesSurv-1.0.4/spBayesSurv/MD5 | 89 spBayesSurv-1.0.4/spBayesSurv/NAMESPACE | 10 spBayesSurv-1.0.4/spBayesSurv/R/SuperSurvRegBayes2.R |only spBayesSurv-1.0.4/spBayesSurv/R/frailtyGAFT.R | 412 ++- spBayesSurv-1.0.4/spBayesSurv/R/survregbayes.R | 1058 ++++------ spBayesSurv-1.0.4/spBayesSurv/R/survregbayes2.R |only spBayesSurv-1.0.4/spBayesSurv/R/wrappers.R | 54 spBayesSurv-1.0.4/spBayesSurv/man/GetCurves.Rd | 2 spBayesSurv-1.0.4/spBayesSurv/man/SuperSurvRegBayes2.Rd |only spBayesSurv-1.0.4/spBayesSurv/man/anovaDDP.Rd | 2 spBayesSurv-1.0.4/spBayesSurv/man/baseline.Rd | 2 spBayesSurv-1.0.4/spBayesSurv/man/frailtyGAFT.Rd | 36 spBayesSurv-1.0.4/spBayesSurv/man/frailtyprior.Rd |only spBayesSurv-1.0.4/spBayesSurv/man/indeptCoxph.Rd | 2 spBayesSurv-1.0.4/spBayesSurv/man/spBayesSurv-package.Rd | 12 spBayesSurv-1.0.4/spBayesSurv/man/spCopulaCoxph.Rd | 4 spBayesSurv-1.0.4/spBayesSurv/man/spCopulaDDP.Rd | 2 spBayesSurv-1.0.4/spBayesSurv/man/survregbayes.Rd | 161 - spBayesSurv-1.0.4/spBayesSurv/man/survregbayes2.Rd |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_AFT_BP.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_AFT_MPT.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_BP_tools.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_BP_tools.h |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_Coxph_tools.cpp | 26 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_Coxph_tools.h | 1 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_DDP_tools.cpp | 25 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_DDP_tools.h | 1 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_LDTFP_tools.cpp | 75 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_LDTFP_tools.h | 5 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_MPT_tools_single.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_MPT_tools_single.h |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_MPT_tools_super.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_MPT_tools_super.h |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_PHPOAFT_BP.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_PH_BP.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_PH_MPT.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_PO_BP.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_PO_MPT.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_anovaDDP.cpp | 9 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_common.cpp | 225 -- spBayesSurv-1.0.4/spBayesSurv/src/spSurv_common.h | 42 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_frailtyLDTFP.cpp | 177 + spBayesSurv-1.0.4/spBayesSurv/src/spSurv_frailty_GRF_LDTFP.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_indeptCoxph.cpp | 15 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_nonfrailtyLDTFP.cpp | 7 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_spCopulaCoxph.cpp | 15 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_spCopulaDDP.cpp | 13 spBayesSurv-1.0.4/spBayesSurv/src/spSurv_spatialtools.cpp |only spBayesSurv-1.0.4/spBayesSurv/src/spSurv_spatialtools.h |only 62 files changed, 1173 insertions(+), 1319 deletions(-)
Title: Statistical Methods for the Randomized Response Technique
Description: Enables researchers to conduct multivariate statistical analyses
of survey data with randomized response technique items from several designs,
including mirrored question, forced question, and unrelated question. This
includes regression with the randomized response as the outcome and logistic
regression with the randomized response item as a predictor. In addition,
tools for conducting power analysis for designing randomized response items
are included. The package implements methods described in Blair, Imai, and Zhou
(2015) ''Design and Analysis of the Randomized Response Technique,'' Journal
of the American Statistical Association
<http://graemeblair.com/papers/randresp.pdf>.
Author: Graeme Blair [aut, cre], Yang-Yang Zhou [aut, cre],
Kosuke Imai [aut, cre], Winston Chou [ctb]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between rr versions 1.3.1 dated 2016-05-14 and 1.4 dated 2016-08-16
ChangeLog | 13 +-- DESCRIPTION | 23 ++--- MD5 | 16 +-- NAMESPACE | 6 + R/rr.R | 218 +++++++++++++++++++++++++++++++++++++++++++++++++-- R/rrBayes.R | 8 + man/predict.rrreg.Rd | 2 man/rrreg.Rd | 20 +++- man/rrreg.bayes.Rd | 5 - 9 files changed, 271 insertions(+), 40 deletions(-)
Title: Algebraic Tools for the Analysis of Multiple Social Networks
Description: Algebraic procedures for the analysis of multiple social networks are delivered with
this package. Among other things, it is possible to create and manipulate multivariate network
data with different formats, and there are effective ways available to treat multiple networks
with routines that combine algebraic systems like the partially ordered semigroup or the
semiring structure together with the relational bundles occurring in different types of
multivariate network data sets. As well an algebraic approach for two-mode networks is made
through Galois derivations between families of the pair of subsets.
Author: Antonio Rivero Ostoic [aut, cre]
Maintainer: Antonio Rivero Ostoic <multiplex@post.com>
Diff between multiplex versions 1.9.3 dated 2016-06-16 and 2.0 dated 2016-08-16
multiplex-1.9.3/multiplex/R/symclos.R |only multiplex-1.9.3/multiplex/R/tclos.R |only multiplex-1.9.3/multiplex/inst/doc/TwoModeNetworks.R |only multiplex-1.9.3/multiplex/man/symclos.Rd |only multiplex-1.9.3/multiplex/man/tclos.Rd |only multiplex-2.0/multiplex/DESCRIPTION | 17 multiplex-2.0/multiplex/MD5 | 90 +-- multiplex-2.0/multiplex/R/bundle.census.R | 428 ++++++++---------- multiplex-2.0/multiplex/R/bundles.R | 102 ++-- multiplex-2.0/multiplex/R/cngr.R | 13 multiplex-2.0/multiplex/R/dhc.R | 3 multiplex-2.0/multiplex/R/iinc.R | 15 multiplex-2.0/multiplex/R/jnt.R | 3 multiplex-2.0/multiplex/R/men.R | 3 multiplex-2.0/multiplex/R/pacnet.R | 13 multiplex-2.0/multiplex/R/rbox.R | 139 +++++ multiplex-2.0/multiplex/R/read.dl.R |only multiplex-2.0/multiplex/R/rel.sys.R | 121 +++-- multiplex-2.0/multiplex/R/semiring.R | 106 ++++ multiplex-2.0/multiplex/R/summaryBundles.R | 17 multiplex-2.0/multiplex/R/swp.R | 7 multiplex-2.0/multiplex/R/transf.R | 87 +-- multiplex-2.0/multiplex/R/transl.R | 7 multiplex-2.0/multiplex/R/zbind.R | 15 multiplex-2.0/multiplex/inst/CHANGELOG | 23 multiplex-2.0/multiplex/inst/doc/TwoModeNetworks.Rnw | 59 -- multiplex-2.0/multiplex/inst/doc/TwoModeNetworks.pdf |binary multiplex-2.0/multiplex/inst/doc/TwoModeNetworks.r |only multiplex-2.0/multiplex/man/bundle.census.Rd | 4 multiplex-2.0/multiplex/man/bundles.Rd | 4 multiplex-2.0/multiplex/man/comps.Rd | 6 multiplex-2.0/multiplex/man/dhc.Rd | 2 multiplex-2.0/multiplex/man/expos.Rd | 2 multiplex-2.0/multiplex/man/galois.Rd | 14 multiplex-2.0/multiplex/man/iinc.Rd | 7 multiplex-2.0/multiplex/man/jnt.Rd | 2 multiplex-2.0/multiplex/man/men.Rd | 2 multiplex-2.0/multiplex/man/multiplex-package.Rd | 24 - multiplex-2.0/multiplex/man/pacnet.Rd | 8 multiplex-2.0/multiplex/man/read.dl.Rd |only multiplex-2.0/multiplex/man/read.gml.Rd | 2 multiplex-2.0/multiplex/man/read.srt.Rd | 2 multiplex-2.0/multiplex/man/rel.sys.Rd | 20 multiplex-2.0/multiplex/man/summaryBundles.Rd | 9 multiplex-2.0/multiplex/man/swp.Rd | 2 multiplex-2.0/multiplex/man/transf.Rd | 24 - multiplex-2.0/multiplex/man/transl.Rd | 2 multiplex-2.0/multiplex/man/write.dl.Rd | 2 multiplex-2.0/multiplex/man/zbind.Rd | 4 multiplex-2.0/multiplex/vignettes/TwoModeNetworks.Rnw | 59 -- 50 files changed, 822 insertions(+), 647 deletions(-)
Title: Generate, Visualise, and Compare Fast and Frugal Decision Trees
Description: Contains several functions that allow users
to create, visualize, and test Fast and Frugal Trees (FFTs). FFts are very simple decision trees for
classifying cases (i.e.; breast cancer patients) into one of two classes (e.g.;
no cancer vs. true cancer) based on a small number of cues (e.g.; test results). FFTs can be preferable to more complex algorithms (such as
logistic regression) because they are easy to communicate and implement, and are
robust against noisy data.
Author: Nathaniel Phillips [aut, cre]
Maintainer: Nathaniel Phillips <Nathaniel.D.Phillips.is@gmail.com>
Diff between FFTrees versions 1.1.1 dated 2016-07-21 and 1.1.3 dated 2016-08-16
FFTrees-1.1.1/FFTrees/R/hello.R |only FFTrees-1.1.1/FFTrees/vignettes/fft_examples.md |only FFTrees-1.1.3/FFTrees/DESCRIPTION | 16 FFTrees-1.1.3/FFTrees/MD5 | 84 ++-- FFTrees-1.1.3/FFTrees/NAMESPACE | 3 FFTrees-1.1.3/FFTrees/R/auc_function.R | 11 FFTrees-1.1.3/FFTrees/R/blood_doc.R | 12 FFTrees-1.1.3/FFTrees/R/breastcancer_doc.R | 22 - FFTrees-1.1.3/FFTrees/R/cartpred_function.R | 53 +- FFTrees-1.1.3/FFTrees/R/classtable_function.R | 16 FFTrees-1.1.3/FFTrees/R/factclean_function.R |only FFTrees-1.1.3/FFTrees/R/fft_function.R | 415 ++++++++++++++--------- FFTrees-1.1.3/FFTrees/R/growffts_function.R | 28 + FFTrees-1.1.3/FFTrees/R/heartdisease_doc.R | 30 - FFTrees-1.1.3/FFTrees/R/lrpred_function.R | 29 + FFTrees-1.1.3/FFTrees/R/plotfft_function.R | 295 ++++++++++------ FFTrees-1.1.3/FFTrees/R/predictfft_function.R | 161 ++++++++ FFTrees-1.1.3/FFTrees/R/printfft_function.R |only FFTrees-1.1.3/FFTrees/R/showcues_function.R |only FFTrees-1.1.3/FFTrees/R/summaryfft_function.R | 2 FFTrees-1.1.3/FFTrees/build/vignette.rds |binary FFTrees-1.1.3/FFTrees/data/heartdisease.RData |binary FFTrees-1.1.3/FFTrees/inst/doc/fft_examples.R | 60 ++- FFTrees-1.1.3/FFTrees/inst/doc/fft_examples.Rmd | 109 ++++-- FFTrees-1.1.3/FFTrees/inst/doc/fft_examples.html | 109 ++++-- FFTrees-1.1.3/FFTrees/inst/doc/fft_function.R | 24 - FFTrees-1.1.3/FFTrees/inst/doc/fft_function.Rmd | 67 ++- FFTrees-1.1.3/FFTrees/inst/doc/fft_function.html | 293 ++++++++-------- FFTrees-1.1.3/FFTrees/inst/doc/fft_overview.R | 6 FFTrees-1.1.3/FFTrees/inst/doc/fft_overview.Rmd | 40 +- FFTrees-1.1.3/FFTrees/inst/doc/fft_overview.html | 90 +--- FFTrees-1.1.3/FFTrees/inst/doc/fft_plot.R | 20 - FFTrees-1.1.3/FFTrees/inst/doc/fft_plot.Rmd | 61 +-- FFTrees-1.1.3/FFTrees/inst/doc/fft_plot.html | 73 ++-- FFTrees-1.1.3/FFTrees/man/blood.Rd | 12 FFTrees-1.1.3/FFTrees/man/breastcancer.Rd | 22 - FFTrees-1.1.3/FFTrees/man/factclean.Rd |only FFTrees-1.1.3/FFTrees/man/fft.Rd | 8 FFTrees-1.1.3/FFTrees/man/heartdisease.Rd | 30 - FFTrees-1.1.3/FFTrees/man/lr.pred.Rd | 3 FFTrees-1.1.3/FFTrees/man/plot.fft.Rd | 4 FFTrees-1.1.3/FFTrees/man/print.fft.Rd |only FFTrees-1.1.3/FFTrees/man/showcues.Rd |only FFTrees-1.1.3/FFTrees/vignettes/fft_examples.Rmd | 109 ++++-- FFTrees-1.1.3/FFTrees/vignettes/fft_function.Rmd | 67 ++- FFTrees-1.1.3/FFTrees/vignettes/fft_overview.Rmd | 40 +- FFTrees-1.1.3/FFTrees/vignettes/fft_plot.Rmd | 61 +-- 47 files changed, 1529 insertions(+), 956 deletions(-)
Title: Coupled-Dipole Approximation for Electromagnetic Scattering by
Three-Dimensional Clusters of Sub-Wavelength Particles
Description: Coupled-dipole simulations for electromagnetic scattering of light by sub-wavelength particles in arbitrary 3-dimensional configurations. Scattering and absorption spectra are simulated by inversion of the interaction matrix, or by an order-of-scattering approximation scheme. High-level functions are provided to simulate spectra with varying angles of incidence, as well as with full angular averaging.
Author: Baptiste Auguie [aut, cre]
Maintainer: Baptiste Auguie <baptiste.auguie@gmail.com>
Diff between cda versions 1.5.1 dated 2014-01-19 and 2.0.0 dated 2016-08-16
cda-1.5.1/cda/NEWS |only cda-1.5.1/cda/R/array_factor.R |only cda-1.5.1/cda/R/cd.r |only cda-1.5.1/cda/R/dispersion.r |only cda-1.5.1/cda/R/positions.R |only cda-1.5.1/cda/R/standalone.r |only cda-1.5.1/cda/R/zzz.r |only cda-1.5.1/cda/build |only cda-1.5.1/cda/demo/averaging_method.R |only cda-1.5.1/cda/demo/basic.R |only cda-1.5.1/cda/demo/clusters.R |only cda-1.5.1/cda/demo/diffractive_chain.R |only cda-1.5.1/cda/demo/dimer_cd.R |only cda-1.5.1/cda/demo/dimer_linear.R |only cda-1.5.1/cda/demo/helix_cd.R |only cda-1.5.1/cda/demo/multiple_incidence.R |only cda-1.5.1/cda/inst/CITATION |only cda-1.5.1/cda/inst/COPYRIGHTS |only cda-1.5.1/cda/inst/doc |only cda-1.5.1/cda/inst/povray/template-helix-ell.pov |only cda-1.5.1/cda/inst/povray/template-helix.pov |only cda-1.5.1/cda/inst/tests/run-all.r |only cda-1.5.1/cda/inst/tests/test-cda.r |only cda-1.5.1/cda/inst/tests/test-chirality.r |only cda-1.5.1/cda/inst/tests/test-intermediate.r |only cda-1.5.1/cda/inst/tests/test-invariance.r |only cda-1.5.1/cda/inst/tests/test-utils.r |only cda-1.5.1/cda/inst/tmp |only cda-1.5.1/cda/inst/wiki |only cda-1.5.1/cda/man/La.Rd |only cda-1.5.1/cda/man/array.Rd |only cda-1.5.1/cda/man/cd.Rd |only cda-1.5.1/cda/man/cda.Rd |only cda-1.5.1/cda/man/circular_dichroism_spectrum.Rd |only cda-1.5.1/cda/man/cluster_dimer_end.Rd |only cda-1.5.1/cda/man/curve_povray.Rd |only cda-1.5.1/cda/man/dispersion.Rd |only cda-1.5.1/cda/man/dispersion_spectrum.Rd |only cda-1.5.1/cda/man/inverse_polarizability.Rd |only cda-1.5.1/cda/man/particles_povray.Rd |only cda-1.5.1/cda/man/polarizability_ellipsoid.Rd |only cda-1.5.1/cda/man/rgl_annotate.Rd |only cda-1.5.1/cda/src/cd.cpp |only cda-1.5.1/cda/src/cd.h |only cda-1.5.1/cda/src/internals.cpp |only cda-1.5.1/cda/src/internals.h |only cda-1.5.1/cda/src/zgels.f |only cda-1.5.1/cda/vignettes |only cda-2.0.0/cda/DESCRIPTION | 39 -- cda-2.0.0/cda/MD5 | 193 ++++++------- cda-2.0.0/cda/NAMESPACE | 42 +- cda-2.0.0/cda/R/RcppExports.R |only cda-2.0.0/cda/R/array.R |only cda-2.0.0/cda/R/cda-package.r | 100 ------ cda-2.0.0/cda/R/clusters.R |only cda-2.0.0/cda/R/polarizability.R | 242 ++++++++++------ cda-2.0.0/cda/R/povray.r | 103 ++----- cda-2.0.0/cda/R/quadrature.r |only cda-2.0.0/cda/R/rgl.r | 83 +++-- cda-2.0.0/cda/R/sample.R |only cda-2.0.0/cda/R/spectrum_functions.r |only cda-2.0.0/cda/R/utils.r |only cda-2.0.0/cda/README.md | 10 cda-2.0.0/cda/demo/00Index | 18 - cda-2.0.0/cda/demo/averaging.r |only cda-2.0.0/cda/demo/clusters.r |only cda-2.0.0/cda/demo/diffractive.r |only cda-2.0.0/cda/demo/dimer_cd.r |only cda-2.0.0/cda/demo/dimer_dye.r |only cda-2.0.0/cda/demo/dimer_linear.r |only cda-2.0.0/cda/demo/dispersion.r |only cda-2.0.0/cda/demo/helix_cd.r |only cda-2.0.0/cda/demo/low_level.r |only cda-2.0.0/cda/demo/method.r |only cda-2.0.0/cda/demo/quadrature.R |only cda-2.0.0/cda/demo/shell.r |only cda-2.0.0/cda/inst/CONTRIBUTING.md |only cda-2.0.0/cda/inst/NEWS.md |only cda-2.0.0/cda/inst/povray/axes.pov | 16 - cda-2.0.0/cda/inst/povray/euler.pov | 28 - cda-2.0.0/cda/inst/povray/template-dimer.pov | 19 - cda-2.0.0/cda/inst/povray/template-shell.pov |only cda-2.0.0/cda/inst/standalone.r |only cda-2.0.0/cda/inst/tests/testthat |only cda-2.0.0/cda/inst/tests/testthat.r |only cda-2.0.0/cda/man/G0.Rd | 34 +- cda-2.0.0/cda/man/alpha_bare.Rd |only cda-2.0.0/cda/man/alpha_dye.Rd |only cda-2.0.0/cda/man/alpha_ellipsoid.Rd |only cda-2.0.0/cda/man/alpha_kuwata.Rd | 22 - cda-2.0.0/cda/man/array_factor.Rd | 13 cda-2.0.0/cda/man/cda-package.Rd | 46 --- cda-2.0.0/cda/man/cluster_array.Rd |only cda-2.0.0/cda/man/cluster_ball.Rd |only cda-2.0.0/cda/man/cluster_chain.Rd | 26 - cda-2.0.0/cda/man/cluster_dimer.Rd | 35 +- cda-2.0.0/cda/man/cluster_helix.Rd | 45 +-- cda-2.0.0/cda/man/cluster_shell.Rd |only cda-2.0.0/cda/man/cluster_single.Rd |only cda-2.0.0/cda/man/depolarisation.Rd |only cda-2.0.0/cda/man/dye_coverage.Rd |only cda-2.0.0/cda/man/equal_angles.Rd | 25 - cda-2.0.0/cda/man/equal_sizes.Rd | 23 - cda-2.0.0/cda/man/gfun.Rd |only cda-2.0.0/cda/man/helix.Rd | 42 -- cda-2.0.0/cda/man/quadrature_sphere.Rd |only cda-2.0.0/cda/man/rgl.ellipsoid.Rd | 29 + cda-2.0.0/cda/man/rgl.ellipsoids.Rd | 20 - cda-2.0.0/cda/man/sample_random.Rd |only cda-2.0.0/cda/man/spectrum_dispersion.Rd |only cda-2.0.0/cda/man/spectrum_oa.Rd |only cda-2.0.0/cda/man/spheroid_ar.Rd |only cda-2.0.0/cda/man/visualise.Rd |only cda-2.0.0/cda/src/Makevars | 3 cda-2.0.0/cda/src/RcppExports.cpp |only cda-2.0.0/cda/src/array.cpp | 46 +-- cda-2.0.0/cda/src/array.h | 8 cda-2.0.0/cda/src/averaging.cpp |only cda-2.0.0/cda/src/averaging.h |only cda-2.0.0/cda/src/cda.cpp | 337 +++++++++-------------- cda-2.0.0/cda/src/cda.h | 33 -- cda-2.0.0/cda/src/cdaglobal.cpp |only cda-2.0.0/cda/src/cdaglobal.h |only cda-2.0.0/cda/src/cg.cpp |only cda-2.0.0/cda/src/cg.h |only cda-2.0.0/cda/src/cross_sections.cpp |only cda-2.0.0/cda/src/cross_sections.h |only cda-2.0.0/cda/src/dispersion.cpp | 252 ++++++++++------- cda-2.0.0/cda/src/dispersion.h | 22 - cda-2.0.0/cda/src/incident.cpp |only cda-2.0.0/cda/src/incident.h |only cda-2.0.0/cda/src/iterative.cpp |only cda-2.0.0/cda/src/iterative.h |only cda-2.0.0/cda/src/sample.cpp |only cda-2.0.0/cda/src/utils.cpp | 91 +++--- cda-2.0.0/cda/src/utils.h | 11 136 files changed, 992 insertions(+), 1064 deletions(-)
Title: Process the Apache Web Server Access Log Files
Description: Provides a function to process Apache Log Common or Combined files. The main
functionality is to extract data from log files to data frames.
Author: Diogo Silveira Mendonca
Maintainer: Diogo Silveira Mendonca <diogosmendonca@gmail.com>
Diff between ApacheLogProcessor versions 0.1.5 dated 2015-06-10 and 0.1.6 dated 2016-08-16
ApacheLogProcessor-0.1.5/ApacheLogProcessor/inst/examples/apache_example.txt |only ApacheLogProcessor-0.1.5/ApacheLogProcessor/man/apache_example.Rd |only ApacheLogProcessor-0.1.5/ApacheLogProcessor/man/read.apache.log.combined.Rd |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/DESCRIPTION | 19 ApacheLogProcessor-0.1.6/ApacheLogProcessor/LICENSE |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/MD5 | 16 ApacheLogProcessor-0.1.6/ApacheLogProcessor/NAMESPACE | 13 ApacheLogProcessor-0.1.6/ApacheLogProcessor/R/ApacheLogProcessor.R | 400 +++++----- ApacheLogProcessor-0.1.6/ApacheLogProcessor/README.md |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/inst/examples/access_log_combined.txt |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/inst/examples/access_log_common.txt |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/man/access_log_combined.Rd |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/man/access_log_common.Rd |only ApacheLogProcessor-0.1.6/ApacheLogProcessor/man/read.apache.log.Rd |only 14 files changed, 240 insertions(+), 208 deletions(-)
More information about ApacheLogProcessor at CRAN
Permanent link
Title: Similarity Regression Functions
Description: Functions for performing Bayesian `similarity regression',
specialised for modelling the association between a HPO-encoded phenotype
and binary genotype. A `no association' model is compared with one in which
the log odds of having a rare genotype is linked to the semantic similarity
between patient phenotype and a latent characteristic phenotype. The method
estimates the probability of an association together with an HPO-coded phenotype
characteristic of the disease.
Author: Daniel Greene
Maintainer: Daniel Greene <dg333@cam.ac.uk>
Diff between SimReg versions 1.4 dated 2016-03-06 and 2.1 dated 2016-08-16
SimReg-1.4/SimReg/inst/doc/SimReg-Indroduction.R |only SimReg-1.4/SimReg/inst/doc/SimReg-Indroduction.Rmd |only SimReg-1.4/SimReg/inst/doc/SimReg-Indroduction.html |only SimReg-1.4/SimReg/man/term_pair_marginals_plot.Rd |only SimReg-1.4/SimReg/src/RcppExports.cpp |only SimReg-1.4/SimReg/src/RcppExports.h |only SimReg-1.4/SimReg/vignettes/SimReg-Indroduction.Rmd |only SimReg-2.1/SimReg/DESCRIPTION | 12 - SimReg-2.1/SimReg/MD5 | 69 +++++------ SimReg-2.1/SimReg/NAMESPACE | 16 -- SimReg-2.1/SimReg/R/functions.R | 12 - SimReg-2.1/SimReg/R/generics.R | 35 +---- SimReg-2.1/SimReg/R/multiSimReg.R | 70 +++++------ SimReg-2.1/SimReg/R/plots.R | 90 -------------- SimReg-2.1/SimReg/R/simReg.R | 33 ++--- SimReg-2.1/SimReg/build/vignette.rds |binary SimReg-2.1/SimReg/inst/doc/SimReg-Introduction.R |only SimReg-2.1/SimReg/inst/doc/SimReg-Introduction.Rmd |only SimReg-2.1/SimReg/inst/doc/SimReg-Introduction.html |only SimReg-2.1/SimReg/inst/doc/SimReg-Priors.R | 6 SimReg-2.1/SimReg/inst/doc/SimReg-Priors.Rmd | 10 - SimReg-2.1/SimReg/inst/doc/SimReg-Priors.html | 94 ++++++--------- SimReg-2.1/SimReg/man/P_y_given_x.Rd | 2 SimReg-2.1/SimReg/man/SimReg-package.Rd | 4 SimReg-2.1/SimReg/man/log_odds_trace.Rd | 2 SimReg-2.1/SimReg/man/multi_sim_reg.Rd | 25 +--- SimReg-2.1/SimReg/man/s.Rd | 2 SimReg-2.1/SimReg/man/sim_reg.Rd | 39 +++--- SimReg-2.1/SimReg/man/sim_reg_mc.Rd | 5 SimReg-2.1/SimReg/src/Chain.cpp | 121 +++++++++++++++++++- SimReg-2.1/SimReg/src/Chain.h | 15 ++ SimReg-2.1/SimReg/src/Interface.cpp |only SimReg-2.1/SimReg/src/Interface.h |only SimReg-2.1/SimReg/src/Similarity.cpp | 74 +++++++++--- SimReg-2.1/SimReg/src/Similarity.h | 32 +++-- SimReg-2.1/SimReg/src/State.cpp | 31 +++-- SimReg-2.1/SimReg/src/State.h | 1 SimReg-2.1/SimReg/src/Update.cpp | 50 +++----- SimReg-2.1/SimReg/src/Utils.cpp | 20 +++ SimReg-2.1/SimReg/src/Utils.h | 6 SimReg-2.1/SimReg/vignettes/SimReg-Introduction.Rmd |only SimReg-2.1/SimReg/vignettes/SimReg-Priors.Rmd | 10 - 42 files changed, 470 insertions(+), 416 deletions(-)
Title: Subgroup Identification Based on Differential Effect Search
Description: Provides function to apply "Subgroup Identification based on Differential Effect Search" (SIDES) method proposed by Lipkovich et al. (2011) <doi:10.1002/sim.4289>.
Author: Marie-Karelle Riviere
Maintainer: Marie-Karelle Riviere <eldamjh@gmail.com>
Diff between SIDES versions 1.3 dated 2016-07-26 and 1.4 dated 2016-08-16
DESCRIPTION | 10 +++++----- MD5 | 10 +++++----- NAMESPACE | 1 + R/SIDES_MAIN.R | 4 +++- R/TEST_STAT_PVAL.R | 5 +++++ man/SIDES-package.Rd | 50 +++++++++++++++++++++++++------------------------- 6 files changed, 44 insertions(+), 36 deletions(-)
Title: Structural Equation Models
Description: Functions for fitting general linear structural
equation models (with observed and latent variables) using the RAM approach,
and for fitting structural equations in observed-variable models by two-stage least squares.
Author: John Fox [aut, cre],
Zhenghua Nie [aut],
Jarrett Byrnes [aut],
Michael Culbertson [ctb],
Saikat DebRoy [ctb],
Michael Friendly [ctb],
Benjamin Goodrich [ctb],
Richard H. Jones [ctb],
Adam Kramer [ctb],
Georges Monette [ctb],
R-Core [ctb]
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between sem versions 3.1-7 dated 2016-04-06 and 3.1-8 dated 2016-08-16
DESCRIPTION | 16 ++-- MD5 | 14 +-- NEWS | 222 ++++++++++++++++++++++++++++---------------------------- data/Bollen.rda |binary data/CNES.rda |binary data/Tests.rda |binary man/bootSem.Rd | 3 src/Makevars | 11 +- 8 files changed, 138 insertions(+), 128 deletions(-)
Title: Graphical User Interface for Package sdcMicro
Description: A point and click graphical user interface based on top of the
'sdcMicro' package to create anonymized data set. The graphical user
interface provides full reproducibility of any result via the script menu
in the GUI.
Author: Alexander Kowarik, Matthias Templ, Bernhard Meindl, Francois Fonteneau
Maintainer: Alexander Kowarik <alexander.kowarik@statistik.gv.at>
Diff between sdcMicroGUI versions 1.2.0 dated 2015-05-06 and 1.3.0 dated 2016-08-16
DESCRIPTION | 12 MD5 | 16 - NAMESPACE | 5 R/sdcGUI.r | 642 ++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/doc/gui_tutorial.R | 6 inst/doc/gui_tutorial.pdf |binary inst/doc/gui_tutorial.rnw | 18 - vignettes/gui_tutorial.rnw | 18 - 9 files changed, 365 insertions(+), 352 deletions(-)
Title: Transcription Factor Binding Site Identification Tool
Description: Identifies and scores possible Transcription Factor
Binding Sites and allows for FDR analysis and pruning. It supports
splitting of sequences based on size or a specified GFF, grouping
by G+C content, and specification of Markov model order. The heavy
lifting is done in C while all results are made available via R.
Author: Nicholas Peterson, Andre Martins, Melissa Hubisz, and Adam
Siepel
Maintainer: Melissa Hubisz <mjhubisz@cornell.edu>
Diff between rtfbs versions 0.3.4 dated 2015-02-09 and 0.3.5 dated 2016-08-16
ChangeLog | 2 DESCRIPTION | 17 +- LICENSE | 6 MD5 | 112 ++++++++-------- NAMESPACE | 5 configure | 7 - configure.ac | 7 - inst/doc/vignette.pdf |binary man/as.pointer.ms.Rd | 2 man/build.mm.Rd | 2 man/calc.fdr.Rd | 6 man/concat.ms.Rd | 2 man/from.pointer.ms.Rd | 6 man/gcContent.ms.Rd | 2 man/groupByGC.ms.Rd | 2 man/is.pointer.ms.Rd | 2 man/label.matrix.Rd | 6 man/length.ms.Rd | 2 man/lengths.ms.Rd | 2 man/makeFdrPlot.Rd | 6 man/ms.Rd | 6 man/names.ms.Rd | 2 man/offsets.ms.Rd | 4 man/open-brace.ms.Rd | 2 man/output.sites.Rd | 6 man/print.ms.Rd | 7 - man/read.mm.Rd | 2 man/read.ms.Rd | 6 man/read.pwm.Rd | 4 man/rtfbs-package.Rd | 19 +- man/score.ms.Rd | 6 man/sequences.ms.Rd | 2 man/simulate.ms.Rd | 6 man/split.ms.Rd | 6 man/summary.ms.Rd | 6 man/write.mm.Rd | 2 man/write.ms.Rd | 2 src/Makevars.in | 104 +++++++------- src/Makevars.win | 104 +++++++------- src/eigen.c | 38 ++--- src/fit_column.c | 14 -- src/fit_feature.c | 4 src/gff.c | 341 ++++++++++++++++++++++++++----------------------- src/gff.h | 152 +++++++++++---------- src/lists.h | 3 src/maf.c | 12 - src/maf_block.c | 10 + src/misc.c | 2 src/misc.h | 11 + src/phast_cons.c | 298 +++++++++++++++++++++--------------------- src/phylo_fit.c | 264 ++++++++++++++++++------------------- src/rph_gff.c | 50 +++---- src/rph_init.c | 4 src/rph_trees.c | 38 ++--- src/sufficient_stats.c | 8 - src/tree_likelihoods.c | 250 +++++++++++++++++------------------ src/trees.c | 224 ++++++++++++++++---------------- 57 files changed, 1132 insertions(+), 1083 deletions(-)
Title: Rank Estimation for Linear Models
Description: R estimation and inference for linear models. Estimation
is for general scores and a library of commonly used score
functions is included.
Author: John Kloke, Joseph McKean
Maintainer: John Kloke <kloke@biostat.wisc.edu>
Diff between Rfit versions 0.22.0 dated 2015-08-26 and 0.23.0 dated 2016-08-16
DESCRIPTION | 10 +++--- MD5 | 30 ++++++++++---------- NAMESPACE | 4 +- R/drop.test.R | 10 ++++-- R/jaeckel.R | 2 - R/print.summary.rfit.R | 6 ++++ R/rfit.default.R | 6 ++-- R/rstudent.rfit.R | 3 +- R/summary.rfit.R | 17 ++++++++--- R/taustar.R | 70 +++++++++-------------------------------------- R/wald.test.overall.r |only README.md | 17 +++++++++++ man/jaeckel.Rd | 2 - man/rfit.Rd | 2 - man/summary.rfit.Rd | 13 ++++++-- man/taustar.Rd | 24 ++-------------- man/wald.test.overall.Rd |only 17 files changed, 99 insertions(+), 117 deletions(-)
Title: Parallel Programming Tools for 'Rcpp'
Description: High level functions for parallel programming with 'Rcpp'.
For example, the 'parallelFor()' function can be used to convert the work of
a standard serial "for" loop into a parallel one and the 'parallelReduce()'
function can be used for accumulating aggregate or other values.
Author: JJ Allaire [aut],
Romain Francois [aut, cph],
Kevin Ushey [aut, cre],
Gregory Vandenbrouck [aut],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/),
RStudio [cph],
Intel [aut, cph] (Intel TBB library,
https://www.threadingbuildingblocks.org/),
Microsoft [cph]
Maintainer: Kevin Ushey <kevin@rstudio.com>
Diff between RcppParallel versions 4.3.19 dated 2016-05-04 and 4.3.20 dated 2016-08-16
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- inst/include/tbb/tbb_config.h | 2 +- src/Makevars | 1 + src/tbb/include/tbb/tbb_config.h | 2 +- 5 files changed, 10 insertions(+), 9 deletions(-)
Title: R Commander Plug-in for the 'survival' Package
Description: An R Commander plug-in for the survival
package, with dialogs for Cox models, parametric survival regression models,
estimation of survival curves, and testing for differences in survival
curves, along with data-management facilities and a variety of tests,
diagnostics and graphs.
Author: John Fox
Maintainer: John Fox <jfox@mcmaster.ca>
Diff between RcmdrPlugin.survival versions 1.1-0 dated 2016-04-06 and 1.1-1 dated 2016-08-16
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS | 4 ++++ data/Dialysis.rda |binary data/Rossi.rda |binary inst/po/ru/LC_MESSAGES/R-RcmdrPlugin.survival.mo |binary man/RcmdrPlugin.survival-package.Rd | 4 ++-- 7 files changed, 18 insertions(+), 14 deletions(-)
More information about RcmdrPlugin.survival at CRAN
Permanent link
Title: Analise multivariada (brazilian portuguese)
Description: Pacote para analise multivariada, que possui funcoes que executam analise de correspondencia simples (CA) e multipla (MCA), analise de componentes principais (PCA), analise de correlacao canonica (CCA), analise fatorial (FA), escalonamento multidimensional (MDS), analise de cluster hierarquico e nao hierarquico, regressao linear, analise de multiplos fatores (MFA) para dados quantitativos, qualitativos, de frequencia (MFACT) e dados mistos. Tambem possui outras funcoes uteis para a analise multivariada.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MVar.pt versions 1.9.3 dated 2016-07-26 and 1.9.4 dated 2016-08-16
DESCRIPTION | 8 +++--- MD5 | 10 +++---- NAMESPACE | 1 R/Plot.Regressao.R | 63 +++++++++++++++++++++++++++++-------------------- R/Regressao.R | 16 ++++++------ man/MVar.pt-package.Rd | 4 +-- 6 files changed, 58 insertions(+), 44 deletions(-)
Title: R Client for GESIS Data Catalogue (DBK)
Description: Provides programmatic access to the GESIS - Leibniz-Institute for
the Social Sciences Data Catalogue/Datenbestandkatalog (DBK), which
maintains a large repository of data sets related to the social sciences.
Author: Eric Persson [aut, cre]
Maintainer: Eric Persson <expersso5@gmail.com>
Diff between gesis versions 0.1 dated 2015-11-30 and 0.2 dated 2016-08-16
gesis-0.1/gesis/man/browse_codebook.Rd |only gesis-0.1/gesis/man/login_gesis.Rd |only gesis-0.1/gesis/man/setup_gesis.Rd |only gesis-0.2/gesis/DESCRIPTION | 13 - gesis-0.2/gesis/MD5 | 29 +- gesis-0.2/gesis/NAMESPACE | 16 - gesis-0.2/gesis/NEWS.md |only gesis-0.2/gesis/R/gesis.R | 382 ++++++++++++++----------------- gesis-0.2/gesis/build/vignette.rds |binary gesis-0.2/gesis/inst/doc/gesis.R | 77 +++--- gesis-0.2/gesis/inst/doc/gesis.Rmd | 229 ++++++------------ gesis-0.2/gesis/inst/doc/gesis.html | 276 ++++++++++------------ gesis-0.2/gesis/man/download_codebook.Rd |only gesis-0.2/gesis/man/download_dataset.Rd | 96 +++---- gesis-0.2/gesis/man/get_datasets.Rd |only gesis-0.2/gesis/man/get_study_groups.Rd |only gesis-0.2/gesis/man/login.Rd |only gesis-0.2/gesis/tests |only gesis-0.2/gesis/vignettes/gesis.Rmd | 229 ++++++------------ 19 files changed, 590 insertions(+), 757 deletions(-)
Title: Various R Functions from the Kostas Lab
Description: A collection of R functions of common use in
the Kostas Lab for microbial ecology.
Author: Luis M. Rodriguez-R [aut, cre]
Maintainer: Luis M. Rodriguez-R <lmrodriguezr@gmail.com>
Diff between enveomics.R versions 1.1.0 dated 2016-05-14 and 1.1.1 dated 2016-08-16
DESCRIPTION | 6 ++--- MD5 | 9 ++++--- NAMESPACE | 7 ++++- R/recplot2.R | 43 ++++++++++++++++++++++++++++++++++++ README.md | 1 man/enve.recplot2.extractWindows.Rd |only 6 files changed, 57 insertions(+), 9 deletions(-)
Title: Routines for Performing Empirical Calibration of Observational
Study Estimates
Description: Routines for performing empirical calibration of observational
study estimates. By using a set of negative control hypotheses we can
estimate the empirical null distribution of a particular observational
study setup. This empirical null distribution can be used to compute a
calibrated p-value, which reflects the probability of observing an
estimated effect size when the null hypothesis is true taking both random
and systematic error into account.
Author: Martijn Schuemie, Marc Suchard
Maintainer: Martijn Schuemie <schuemie@ohdsi.org>
Diff between EmpiricalCalibration versions 1.1.0 dated 2016-02-15 and 1.2.0 dated 2016-08-16
EmpiricalCalibration-1.1.0/EmpiricalCalibration/R/TempDataFetch.R |only EmpiricalCalibration-1.1.0/EmpiricalCalibration/man/plotCoverage.Rd |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/DESCRIPTION | 10 EmpiricalCalibration-1.2.0/EmpiricalCalibration/MD5 | 32 EmpiricalCalibration-1.2.0/EmpiricalCalibration/NAMESPACE | 3 EmpiricalCalibration-1.2.0/EmpiricalCalibration/NEWS |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/R/ConfidenceIntervalCalibration.R | 75 + EmpiricalCalibration-1.2.0/EmpiricalCalibration/R/EmpiricalCalibration.R | 1 EmpiricalCalibration-1.2.0/EmpiricalCalibration/R/Plots.R | 400 +++++++--- EmpiricalCalibration-1.2.0/EmpiricalCalibration/R/Simulation.R | 45 - EmpiricalCalibration-1.2.0/EmpiricalCalibration/README.md | 12 EmpiricalCalibration-1.2.0/EmpiricalCalibration/build/vignette.rds |binary EmpiricalCalibration-1.2.0/EmpiricalCalibration/inst/doc/EmpiricalCalibrationVignette.Rmd | 2 EmpiricalCalibration-1.2.0/EmpiricalCalibration/inst/doc/EmpiricalCalibrationVignette.pdf |binary EmpiricalCalibration-1.2.0/EmpiricalCalibration/man/calibrateConfidenceInterval.Rd | 4 EmpiricalCalibration-1.2.0/EmpiricalCalibration/man/plotCalibration.Rd | 5 EmpiricalCalibration-1.2.0/EmpiricalCalibration/man/plotCalibrationEffect.Rd | 6 EmpiricalCalibration-1.2.0/EmpiricalCalibration/man/plotCiCalibration.Rd |only EmpiricalCalibration-1.2.0/EmpiricalCalibration/vignettes/EmpiricalCalibrationVignette.Rmd | 2 19 files changed, 371 insertions(+), 226 deletions(-)
More information about EmpiricalCalibration at CRAN
Permanent link
Title: Inference and Analysis for Jump Generalized Quadratic Diffusions
Description: Tools for performing inference and analysis on a class of quadratic jump diffusion processes.
Author: Etienne A.D. Pienaar [aut, cre],
Melvin M. Varughese [ctb]
Maintainer: Etienne A.D. Pienaar <etiennead@gmail.com>
Diff between DiffusionRjgqd versions 0.1.0 dated 2016-01-24 and 0.1.1 dated 2016-08-16
DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/desktop.ini |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/desktop.ini |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-10.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-11.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-12.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-13.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-14.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-15.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-16.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-17.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-18.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-19.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-20.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-21.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-22.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-23.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-24.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-25.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-26.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-27.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-28.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-29.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-30.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-31.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-32.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-33.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-34.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-35.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-36.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-37.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-38.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-39.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-40.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-41.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-42.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-43.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-44.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-45.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-46.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-47.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-48.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-49.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-5.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-50.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-51.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-52.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-53.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-54.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-55.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-56.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-57.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-58.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-59.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-6.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-60.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-61.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-62.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-63.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-64.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-65.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-66.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-67.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-68.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-69.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-7.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-70.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-71.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-72.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-73.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-74.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-75.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-8.png |only DiffusionRjgqd-0.1.0/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-9.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/DESCRIPTION | 6 DiffusionRjgqd-0.1.1/DiffusionRjgqd/MD5 | 237 DiffusionRjgqd-0.1.1/DiffusionRjgqd/NAMESPACE | 2 DiffusionRjgqd-0.1.1/DiffusionRjgqd/NEWS.md | 14 DiffusionRjgqd-0.1.1/DiffusionRjgqd/R/BiJGQD.mcmc.R | 51 DiffusionRjgqd-0.1.1/DiffusionRjgqd/R/JGQD.density.R | 299 - DiffusionRjgqd-0.1.1/DiffusionRjgqd/R/JGQD.estimates.R | 9 DiffusionRjgqd-0.1.1/DiffusionRjgqd/R/JGQD.mcmc.R | 2483 +++++---- DiffusionRjgqd-0.1.1/DiffusionRjgqd/R/JGQD.plot.R | 39 DiffusionRjgqd-0.1.1/DiffusionRjgqd/README.md | 33 DiffusionRjgqd-0.1.1/DiffusionRjgqd/build/vignette.rds |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/data/JSDEsim1.txt | 504 - DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/CITATION | 5 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/DiffusionRjgqd_Paper.pdf |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/DiffusionRjgqd_RepMaterials.html | 2593 +++++++--- DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_1_Introduction.R | 10 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_1_Introduction.Rmd | 63 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_1_Introduction.html | 138 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_2_Transition_Densities.R | 10 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_2_Transition_Densities.Rmd | 58 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_2_Transition_Densities.html | 145 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_3_Bivariate_Diffusions.Rmd | 34 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_3_Bivariate_Diffusions.html | 103 DiffusionRjgqd-0.1.1/DiffusionRjgqd/inst/doc/Part_4_Likelihood_Inference.html | 562 +- DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/BiJGQD.density.Rd | 51 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/BiJGQD.mcmc.Rd | 6 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/JGQD.density.Rd | 95 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/JGQD.estimates.Rd | 4 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/JGQD.mcmc.Rd | 7 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/JGQD.plot.Rd | 3 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/JSDEsim1.Rd | 7 DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/BivJumpDiff4.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/JSDEsim1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/ScalarEqn3.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/ScalarEqn4.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/ScalarEqn5.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/ScalarEqn6.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/ScalarEqn7.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/man/figures/jumptable.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-3.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-4.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-5.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-1-6.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-3.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-2-4.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-3.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-4.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-5.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-3-6.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-10.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-11.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-12.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-3.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-4.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-5.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-6.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-7.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-8.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-4-9.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-3.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-4.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-5.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-6.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-7.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-5-8.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-1.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-2.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-3.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-4.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-5.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-6.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-7.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/DiffusionRjgqd_RepMaterials_files/figure-html/unnamed-chunk-6-8.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_1_Introduction.Rmd | 63 DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_2_Transition_Densities.Rmd | 58 DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_3_Bivariate_Diffusions.Rmd | 34 DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig1.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig10.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig11.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig12.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig13.png |only DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig2.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig3.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig5.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig6.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig7.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig8.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/Part_4_Likelihood_Inference_files/figure-html/fig9.png |binary DiffusionRjgqd-0.1.1/DiffusionRjgqd/vignettes/bibliography.bib |only 172 files changed, 4836 insertions(+), 2890 deletions(-)
More information about DiffusionRjgqd at CRAN
Permanent link
Title: Inference and Analysis for Diffusion Processes via Data
Imputation and Method of Lines
Description: Tools for performing inference and analysis using a data-imputation scheme and the method of lines.
Author: Etienne A.D. Pienaar [aut, cre],
Melvin M. Varughese [ctb]
Maintainer: Etienne A.D. Pienaar <etiennead@gmail.com>
Diff between DiffusionRimp versions 0.1.0 dated 2016-06-13 and 0.1.1 dated 2016-08-16
DESCRIPTION | 6 - MD5 | 36 +++--- NEWS.md | 4 R/BiMOL.density.R | 4 R/BiMOL.passage.R | 26 +++-- R/MOL.passage.R | 4 inst/CITATION | 3 inst/doc/Part_2_Transition_Densities.R | 32 +++++- inst/doc/Part_2_Transition_Densities.Rmd | 73 +++++++++++--- inst/doc/Part_2_Transition_Densities.html | 82 +++++++++++---- inst/doc/Part_3_First_Passage_Times.R | 124 +++++++++++++++++++---- inst/doc/Part_3_First_Passage_Times.Rmd | 155 +++++++++++++++++++++++++---- inst/doc/Part_3_First_Passage_Times.html | 156 +++++++++++++++++++++++++----- man/BiMOL.density.Rd | 2 man/BiMOL.passage.Rd | 16 +-- man/MOL.passage.Rd | 14 +- vignettes/Part_2_Transition_Densities.Rmd | 73 +++++++++++--- vignettes/Part_3_First_Passage_Times.Rmd | 155 +++++++++++++++++++++++++---- vignettes/bibliography.bib | 31 +++++ 19 files changed, 814 insertions(+), 182 deletions(-)
Title: Discrete Global Grids for R
Description: Spatial analyses involving binning require that every bin have the same area, but this is impossible using a rectangular grid laid over the Earth or over any projection of the Earth. Discrete global grids use hexagons, triangles, and diamonds to overcome this issue, overlaying the Earth with equally-sized bins. This package provides utilities for working with discrete global grids, along with utilities to aid in plotting such data.
Author: Richard Barnes [aut, cre], Kevin Sahr [ctb], Gerald Evenden [ctb], Angus Johnson [ctb], Frank Warmerdam [ctb]
Maintainer: Richard Barnes <rbarnes@umn.edu>
Diff between dggridR versions 0.1.8 dated 2016-07-27 and 0.1.10 dated 2016-08-16
DESCRIPTION | 10 +++++----- MD5 | 28 +++++++++++++++------------- NEWS | 16 ++++++++++++++++ R/dggridR.R | 23 +++++++++++------------ inst/doc/dggridR.R | 3 +-- inst/doc/dggridR.Rmd | 3 +-- inst/doc/dggridR.html | 15 +++++++-------- man/dgconstruct.Rd | 2 +- man/dgsetres.Rd | 2 +- src/apps/dggrid/table.cpp | 13 +++++-------- src/lib/dglib/lib/DgDVec2D.cpp | 27 +++++++++++++++------------ src/lib/dglib/lib/DgEllipsoidRF.cpp | 6 +++--- src/lib/dglib/lib/DgProjFuller.cpp | 10 +++++----- src/lib/dglib/lib/DgProjISEA.cpp | 12 ++++++++---- tests |only 15 files changed, 94 insertions(+), 76 deletions(-)
Title: Quantile Regression for Random Variables on the Unit Interval
Description: Employs a two-parameter family of
distributions for modelling random variables on the (0, 1) interval by
applying the cumulative distribution function (cdf) of one parent
distribution to the quantile function of another.
Author: Yiyun Shou [aut, cre],
Michael Smithson [aut]
Maintainer: Yiyun Shou <yiyun.shou@anu.edu.au>
Diff between cdfquantreg versions 1.0.4 dated 2016-04-05 and 1.0.5 dated 2016-08-16
DESCRIPTION | 9 +++-- MD5 | 14 ++++----- NAMESPACE | 1 NEWS | 6 +++ R/cdfquantreg.R | 25 +++++++--------- R/qrMethod.R | 79 ++++++++++++++++++++++++++++++++++++++++++++++++++- build/vignette.rds |binary man/summary.cdfqr.Rd | 10 +++++- 8 files changed, 117 insertions(+), 27 deletions(-)
Title: Séries Temporelles Avec R
Description: Functions, data sets and exercises solutions for the book 'Séries Temporelles Avec R' (Yves Aragon, edp sciences, 2016). For all chapters, a vignette is available with some additional material and exercises solutions.
Author: Yves Aragon
Maintainer: Thibault Laurent <Thibault.Laurent@univ-tlse1.fr>
Diff between caschrono versions 1.4 dated 2014-03-21 and 2.0 dated 2016-08-16
DESCRIPTION | 19 ++-- MD5 | 125 ++++++++++++++--------------- NAMESPACE | 4 R/acf2y.R | 31 +++---- R/armaselect.r | 75 ++++++++--------- R/t_stat.r | 16 +-- build/vignette.rds |binary data/champa.ts.rda |binary data/csdl.RData |binary data/essil.RData |binary data/indbourse.RData |binary data/khct.rda |binary data/lait.rda |binary data/m30.rda |binary data/popfr.rda |binary data/trafmensu.rda |binary inst/CITATION |only inst/doc/Anx1.Rnw | 2 inst/doc/Anx1.pdf |binary inst/doc/Anx10.R | 37 ++++---- inst/doc/Anx10.Rnw | 37 ++++---- inst/doc/Anx10.pdf |binary inst/doc/Anx12.R | 202 ++++++++++++++++++++++++----------------------- inst/doc/Anx12.Rnw | 158 +++++++++++++++++++----------------- inst/doc/Anx12.pdf |binary inst/doc/Anx2.R | 12 +- inst/doc/Anx2.Rnw | 14 +-- inst/doc/Anx2.pdf |binary inst/doc/Anx3.R | 26 +++--- inst/doc/Anx3.Rnw | 18 ++-- inst/doc/Anx3.pdf |binary inst/doc/Anx4.R | 149 +++++++++++++++++----------------- inst/doc/Anx4.Rnw | 121 ++++++++++++++-------------- inst/doc/Anx4.pdf |binary inst/doc/Anx5.R | 184 +++++++++++++++++++++--------------------- inst/doc/Anx5.Rnw | 158 ++++++++++++++++++------------------ inst/doc/Anx5.pdf |binary inst/doc/Anx6.R | 53 +++++------- inst/doc/Anx6.Rnw | 51 +++++------ inst/doc/Anx6.pdf |binary inst/doc/Anx7.R | 30 +++--- inst/doc/Anx7.Rnw | 32 +++---- inst/doc/Anx7.pdf |binary inst/doc/Anx9.R | 22 ++--- inst/doc/Anx9.Rnw | 24 ++--- inst/doc/Anx9.pdf |binary man/Box.test.2.rd | 6 - man/acf2y.rd | 2 man/armaselect.rd | 10 +- man/caschrono-package.Rd | 12 +- man/champa.ts.Rd | 6 - man/cor.arma.rd | 6 - man/csdl.rd | 6 + man/essil.rd | 8 + man/t_stat.rd | 4 vignettes/Anx10.Rnw | 33 +++---- vignettes/Anx12.Rnw | 154 +++++++++++++++++++---------------- vignettes/Anx2.Rnw | 12 +- vignettes/Anx3.Rnw | 14 +-- vignettes/Anx4.Rnw | 111 +++++++++++++------------ vignettes/Anx5.Rnw | 154 +++++++++++++++++------------------ vignettes/Anx6.Rnw | 49 +++++------ vignettes/Anx7.Rnw | 30 +++--- vignettes/Anx9.Rnw | 22 ++--- 64 files changed, 1142 insertions(+), 1097 deletions(-)
Title: Wrapper Algorithm for All Relevant Feature Selection
Description: An all relevant feature selection wrapper algorithm.
It finds relevant features by comparing original attributes'
importance with importance achievable at random, estimated
using their permuted copies.
Author: Miron B. Kursa [aut, cre],
Witold R. Rudnicki [aut]
Maintainer: Miron B. Kursa <M.Kursa@icm.edu.pl>
Diff between Boruta versions 5.0.0 dated 2015-09-13 and 5.1.0 dated 2016-08-16
DESCRIPTION | 28 ++++++++++++++------------- MD5 | 32 +++++++++++++++---------------- NAMESPACE | 2 - R/Boruta.R | 23 +++++++++++----------- R/importance.R | 44 +++++++++++++++++++++++++++++++++---------- R/tools.R | 35 ++++++++++++++++------------------ inst/NEWS | 11 +++++++++- man/Boruta.Rd | 18 ++++++++--------- man/TentativeRoughFix.Rd | 9 ++------ man/attStats.Rd | 4 +-- man/getImpFerns.Rd | 2 - man/getImpLegacyRf.Rd | 2 - man/getImpRf.Rd | 2 - man/getSelectedAttributes.Rd | 4 +-- man/plot.Boruta.Rd | 6 ++--- man/plotImpHistory.Rd | 4 +-- man/print.Boruta.Rd | 4 +-- 17 files changed, 131 insertions(+), 99 deletions(-)
Title: Admixture Graph Manipulation and Fitting
Description: Implements tools for building and visualising admixture graphs
and for extracting equations from them. These equations can be compared to f-
statistics obtained from data to test the consistency of a graph against data --
for example by comparing the sign of f_4-statistics with the signs predicted by
the graph -- and graph parameters (edge lengths and admixture proportions) can
be fitted to observed statistics.
Author: Thomas Mailund [cre, aut],
Kalle Leppala [aut],
Svend Nielsen [aut]
Maintainer: Thomas Mailund <mailund@birc.au.dk>
Diff between admixturegraph versions 1.0.0 dated 2016-06-13 and 1.0.1 dated 2016-08-16
admixturegraph-1.0.0/admixturegraph/man/admixture_graph-package.Rd |only admixturegraph-1.0.0/admixturegraph/man/admixturegraph.Rd |only admixturegraph-1.0.0/admixturegraph/man/contour_plot.Rd |only admixturegraph-1.0.0/admixturegraph/man/one_dimensional_plot.Rd |only admixturegraph-1.0.1/admixturegraph/DESCRIPTION | 20 admixturegraph-1.0.1/admixturegraph/MD5 | 234 +- admixturegraph-1.0.1/admixturegraph/NAMESPACE | 161 - admixturegraph-1.0.1/admixturegraph/R/admixture_graph.R | 4 admixturegraph-1.0.1/admixturegraph/R/agraph.R | 152 + admixturegraph-1.0.1/admixturegraph/R/fitted_plotting.R | 179 +- admixturegraph-1.0.1/admixturegraph/R/fitting.R | 10 admixturegraph-1.0.1/admixturegraph/R/plot.R | 848 +++++----- admixturegraph-1.0.1/admixturegraph/R/propose.R | 10 admixturegraph-1.0.1/admixturegraph/inst/doc/admixturegraph.R | 24 admixturegraph-1.0.1/admixturegraph/inst/doc/admixturegraph.Rmd | 26 admixturegraph-1.0.1/admixturegraph/inst/doc/admixturegraph.html | 56 admixturegraph-1.0.1/admixturegraph/man/add_a_leaf.Rd | 143 - admixturegraph-1.0.1/admixturegraph/man/add_an_admixture.Rd | 251 +- admixturegraph-1.0.1/admixturegraph/man/add_an_admixture2.Rd | 104 - admixturegraph-1.0.1/admixturegraph/man/add_graph_f4.Rd | 56 admixturegraph-1.0.1/admixturegraph/man/add_graph_f4_sign.Rd | 60 admixturegraph-1.0.1/admixturegraph/man/admix_props.Rd | 42 admixturegraph-1.0.1/admixturegraph/man/admixture_edge.Rd | 43 admixturegraph-1.0.1/admixturegraph/man/admixture_proportions.Rd | 30 admixturegraph-1.0.1/admixturegraph/man/admixturegraph-package.Rd |only admixturegraph-1.0.1/admixturegraph/man/agraph.Rd | 110 - admixturegraph-1.0.1/admixturegraph/man/agraph_children.Rd | 48 admixturegraph-1.0.1/admixturegraph/man/agraph_parents.Rd | 48 admixturegraph-1.0.1/admixturegraph/man/agraph_weights.Rd | 48 admixturegraph-1.0.1/admixturegraph/man/all_path_overlaps.Rd | 42 admixturegraph-1.0.1/admixturegraph/man/all_paths.Rd | 44 admixturegraph-1.0.1/admixturegraph/man/bears.Rd | 52 admixturegraph-1.0.1/admixturegraph/man/build_edge_optimisation_matrix.Rd | 60 admixturegraph-1.0.1/admixturegraph/man/burn_in.Rd | 34 admixturegraph-1.0.1/admixturegraph/man/calculate_concentration.Rd | 54 admixturegraph-1.0.1/admixturegraph/man/canonise_expression.Rd | 52 admixturegraph-1.0.1/admixturegraph/man/coef.agraph_fit.Rd | 42 admixturegraph-1.0.1/admixturegraph/man/cost_function.Rd | 82 admixturegraph-1.0.1/admixturegraph/man/edge.Rd | 34 admixturegraph-1.0.1/admixturegraph/man/edge_optimisation_function.Rd | 88 - admixturegraph-1.0.1/admixturegraph/man/eight_leaves_trees.Rd | 112 - admixturegraph-1.0.1/admixturegraph/man/evaluate_f4.Rd | 56 admixturegraph-1.0.1/admixturegraph/man/examine_edge_optimisation_matrix.Rd | 64 admixturegraph-1.0.1/admixturegraph/man/extract_admixture_proportion_parameters.Rd |only admixturegraph-1.0.1/admixturegraph/man/extract_graph_parameters.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/extract_trees.Rd |only admixturegraph-1.0.1/admixturegraph/man/f2.Rd | 46 admixturegraph-1.0.1/admixturegraph/man/f3.Rd | 50 admixturegraph-1.0.1/admixturegraph/man/f4.Rd | 54 admixturegraph-1.0.1/admixturegraph/man/f4stats.Rd | 38 admixturegraph-1.0.1/admixturegraph/man/fast_fit.Rd | 223 +- admixturegraph-1.0.1/admixturegraph/man/fast_plot.Rd | 96 - admixturegraph-1.0.1/admixturegraph/man/filter_on_leaves.Rd | 44 admixturegraph-1.0.1/admixturegraph/man/fit_graph.Rd | 259 +-- admixturegraph-1.0.1/admixturegraph/man/fit_permutations_and_graphs.Rd | 135 - admixturegraph-1.0.1/admixturegraph/man/fitted.agraph_fit.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/five_leaves_graphs.Rd | 137 - admixturegraph-1.0.1/admixturegraph/man/format_path.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/four_leaves_graphs.Rd | 216 -- admixturegraph-1.0.1/admixturegraph/man/get_graph_f4_sign.Rd | 54 admixturegraph-1.0.1/admixturegraph/man/graph_environment.Rd | 56 admixturegraph-1.0.1/admixturegraph/man/is_negative.Rd | 32 admixturegraph-1.0.1/admixturegraph/man/is_positive.Rd | 32 admixturegraph-1.0.1/admixturegraph/man/is_unknown.Rd | 32 admixturegraph-1.0.1/admixturegraph/man/is_zero.Rd | 32 admixturegraph-1.0.1/admixturegraph/man/log_likelihood.Rd | 92 - admixturegraph-1.0.1/admixturegraph/man/log_sum_of_logs.Rd | 46 admixturegraph-1.0.1/admixturegraph/man/make_an_outgroup.Rd | 123 - admixturegraph-1.0.1/admixturegraph/man/make_mcmc_model.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/make_permutations.Rd | 101 - admixturegraph-1.0.1/admixturegraph/man/model_bayes_factor_n.Rd | 64 admixturegraph-1.0.1/admixturegraph/man/model_likelihood.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/model_likelihood_n.Rd | 58 admixturegraph-1.0.1/admixturegraph/man/mynonneg.Rd | 72 admixturegraph-1.0.1/admixturegraph/man/no_admixture_events.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/no_admixture_events.agraph.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/no_admixture_events.agraph_fit.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/no_admixture_events.agraph_fit_list.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/no_poor_fits.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/no_poor_fits.agraph_fit.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/no_poor_fits.agraph_fit_list.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/overlaps_sign.Rd | 32 admixturegraph-1.0.1/admixturegraph/man/parent_edges.Rd | 30 admixturegraph-1.0.1/admixturegraph/man/path_overlap.Rd | 42 admixturegraph-1.0.1/admixturegraph/man/plot.agraph.Rd | 267 +-- admixturegraph-1.0.1/admixturegraph/man/plot.agraph_fit.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/plot.f4stats.Rd | 38 admixturegraph-1.0.1/admixturegraph/man/plot_fit_1.Rd |only admixturegraph-1.0.1/admixturegraph/man/plot_fit_2.Rd |only admixturegraph-1.0.1/admixturegraph/man/poor_fits.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/poor_fits.agraph_fit.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/poor_fits.agraph_fit_list.Rd | 40 admixturegraph-1.0.1/admixturegraph/man/print.agraph_fit.Rd | 46 admixturegraph-1.0.1/admixturegraph/man/project_to_population.Rd | 46 admixturegraph-1.0.1/admixturegraph/man/residuals.agraph_fit.Rd | 42 admixturegraph-1.0.1/admixturegraph/man/run_metropolis_hasting.Rd | 92 - admixturegraph-1.0.1/admixturegraph/man/seven_leaves_trees.Rd | 109 - admixturegraph-1.0.1/admixturegraph/man/sf2.Rd | 46 admixturegraph-1.0.1/admixturegraph/man/sf3.Rd | 50 admixturegraph-1.0.1/admixturegraph/man/sf4.Rd | 54 admixturegraph-1.0.1/admixturegraph/man/six_leaves_graphs.Rd | 176 -- admixturegraph-1.0.1/admixturegraph/man/split_population.Rd | 30 admixturegraph-1.0.1/admixturegraph/man/split_population.agraph_fit.Rd | 30 admixturegraph-1.0.1/admixturegraph/man/split_population.data.frame.Rd | 30 admixturegraph-1.0.1/admixturegraph/man/sum_of_squared_errors.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/sum_of_squared_errors.agraph_fit.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/sum_of_squared_errors.agraph_fit_list.Rd | 36 admixturegraph-1.0.1/admixturegraph/man/summary.agraph_fit.Rd | 66 admixturegraph-1.0.1/admixturegraph/man/thinning.Rd | 34 admixturegraph-1.0.1/admixturegraph/tests/testthat/test_plots.R |only admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph.Rmd | 26 admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/bears_graph-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/new_admixtures-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/new_leaves-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/new_root-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-1-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-11-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-12-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-3-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-4-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-5-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-6-1.png |binary admixturegraph-1.0.1/admixturegraph/vignettes/admixturegraph_files/figure-html/unnamed-chunk-7-1.png |binary 123 files changed, 3879 insertions(+), 3754 deletions(-)
More information about admixturegraph at CRAN
Permanent link
Title: Training of Neural Networks
Description: Training of neural networks using backpropagation,
resilient backpropagation with (Riedmiller, 1994) or without
weight backtracking (Riedmiller and Braun, 1993) or the
modified globally convergent version by Anastasiadis et al.
(2005). The package allows flexible settings through
custom-choice of error and activation function. Furthermore,
the calculation of generalized weights (Intrator O & Intrator
N, 1993) is implemented.
Author: Stefan Fritsch [aut], Frauke Guenther [aut, cre], Marc Suling [ctb], Sebastian M. Mueller [ctb]
Maintainer: Frauke Guenther <guenther@leibniz-bips.de>
Diff between neuralnet versions 1.32 dated 2012-09-20 and 1.33 dated 2016-08-16
neuralnet-1.32/neuralnet/neuralnet.tar |only neuralnet-1.33/neuralnet/DESCRIPTION | 38 +++++++------ neuralnet-1.33/neuralnet/MD5 | 31 +++++----- neuralnet-1.33/neuralnet/NAMESPACE | 9 ++- neuralnet-1.33/neuralnet/R/compute.r | 1 neuralnet-1.33/neuralnet/R/confidence.interval.r | 7 +- neuralnet-1.33/neuralnet/R/gwplot.r | 15 ++--- neuralnet-1.33/neuralnet/R/neuralnet.r | 27 +++++---- neuralnet-1.33/neuralnet/R/plot.nn.r | 57 ++++++++++---------- neuralnet-1.33/neuralnet/R/prediction.r | 1 neuralnet-1.33/neuralnet/man/compute.Rd | 2 neuralnet-1.33/neuralnet/man/confidence.interval.Rd | 2 neuralnet-1.33/neuralnet/man/gwplot.Rd | 2 neuralnet-1.33/neuralnet/man/neuralnet-package.Rd | 11 +-- neuralnet-1.33/neuralnet/man/neuralnet.Rd | 2 neuralnet-1.33/neuralnet/man/plot.nn.Rd | 2 neuralnet-1.33/neuralnet/man/prediction.Rd | 2 17 files changed, 112 insertions(+), 97 deletions(-)
Title: Graphical Model Stability and Variable Selection Procedures
Description: Model stability and variable inclusion plots [Mueller and Welsh
(2010, <doi:10.1111/j.1751-5823.2010.00108.x>); Murray, Heritier and Mueller
(2013, <doi:10.1002/sim.5855>)] as well as the adaptive fence [Jiang et al.
(2008, <doi:10.1214/07-AOS517>); Jiang et al.
(2009, <doi:10.1016/j.spl.2008.10.014>)] for linear and generalised linear models.
Author: Garth Tarr [aut, cre],
Samuel Mueller [aut],
Alan Welsh [aut]
Maintainer: Garth Tarr <garth.tarr@gmail.com>
Diff between mplot versions 0.7.7 dated 2015-11-18 and 0.7.8 dated 2016-08-16
DESCRIPTION | 11 MD5 | 28 - NEWS | 22 + R/af.R | 552 +++++++++++++++++-------- R/bglmnet.R | 180 +++++--- R/glmfence.R | 2 R/mplot.R | 43 +- R/vis.R | 1116 ++++++++++++++++++++++++++++++++++++---------------- README.md | 2 man/af.Rd | 12 man/bglmnet.Rd | 4 man/plot.af.Rd | 61 ++ man/plot.bglmnet.Rd | 26 - man/plot.vis.Rd | 58 +- man/vis.Rd | 12 15 files changed, 1467 insertions(+), 662 deletions(-)
Title: Large, Sparse Optimal Matching with Refined Covariate Balance
Description: Tools for large, sparse optimal matching of treated units
and control units in observational studies. Provisions are
made for refined covariate balance constraints, which include
fine and near-fine balance as special cases. Matches are
optimal in the sense that they are computed as solutions to
network optimization problems rather than greedy algorithms.
Author: Samuel D. Pimentel
Maintainer: Samuel D. Pimentel <spi@wharton.upenn.edu>
Diff between rcbalance versions 1.8.2 dated 2016-02-11 and 1.8.3 dated 2016-08-16
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 6 +++--- R/rcbalance.R | 5 +++-- 4 files changed, 11 insertions(+), 10 deletions(-)
Title: Penalized Generalized Estimating Equations in High-Dimension
Description: Fits penalized generalized estimating equations to longitudinal data with high-dimensional covariates.
Author: Gul Inan (Visiting scholar, University of Minnesota), Jianhui Zhou (Associate Professor, University of Virginia) and Lan Wang (Professor, University of Minnesota)
Maintainer: Gul Inan <inanx002@umn.edu>
Diff between PGEE versions 1.3 dated 2016-07-30 and 1.4 dated 2016-08-16
DESCRIPTION | 8 ++-- MD5 | 22 +++++------ NAMESPACE | 2 - R/CVfit.R | 10 +++-- R/MGEE.R | 26 +++++++------ R/PGEE.R | 36 ++++++++++-------- R/S_H_E_M.R | 12 +++--- R/S_H_M.R | 12 +++--- man/CVfit.Rd | 4 +- man/MGEE.Rd | 6 +-- man/PGEE.Rd | 111 ++++++++++++++++++++++++++++----------------------------- man/yeastG1.Rd | 69 +++++++++++++++++------------------ 12 files changed, 165 insertions(+), 153 deletions(-)
Title: Statistical Methods for the Item Count Technique and List
Experiment
Description: Allows researchers to conduct multivariate
statistical analyses of survey data with list experiments. This
survey methodology is also known as the item count technique or
the unmatched count technique and is an alternative to the commonly
used randomized response method. The package implements the methods
developed by Imai (2011), Blair and Imai (2012), Blair,
Imai, and Lyall (2013), Imai, Park, and Greene (2014),
and Aronow, Coppock, Crawford, and Green (2015).
This includes a Bayesian MCMC implementation of regression
for the standard and multiple sensitive item list experiment
designs and a random effects setup, a Bayesian MCMC hierarchical
regression model with up to three hierarchical groups, the
combined list experiment and endorsement experiment regression
model, a joint model of the list experiment that enables
the analysis of the list experiment as a predictor in
outcome regression models, and a method for combining list
experiments with direct questions. In addition, the package
implements the statistical test that is designed to detect
certain failures of list experiments, and a placebo test
for the list experiment using data from direct questions.
Author: Graeme Blair [aut, cre], Kosuke Imai [aut, cre], Bethany Park [ctb],
Alexander Coppock [ctb], Winston Chou [ctb]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between list versions 8.1 dated 2016-07-27 and 8.2 dated 2016-08-16
ChangeLog | 4 +++- DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- build/vignette.rds |binary inst/doc/combined-list.html | 4 ++-- 5 files changed, 13 insertions(+), 11 deletions(-)
Title: Interface for the 'Box.com API'
Description: An R interface for the remote file hosting service 'Box'
(<https://www.box.com/>). In addition to uploading and downloading files,
this package includes functions which mirror base R operations for local
files, (e.g. box_load(), box_save(), box_read(), box_setwd(), etc.), as well
as 'git' style functions for entire directories (e.g. box_fetch(),
box_push()).
Author: Brendan Rocks [aut, cre]
Maintainer: Brendan Rocks <foss@brendanrocks.com>
Diff between boxr versions 0.3.2 dated 2016-01-31 and 0.3.3 dated 2016-08-16
DESCRIPTION | 25 ++--- MD5 | 84 +++++++++--------- NEWS.md | 2 R/boxr__internal_dir_comparison.R | 2 R/boxr__internal_misc.R | 19 +++- R/boxr__internal_package_homepage.R | 2 R/boxr__internal_update_upload.R | 2 R/boxr__internal_verb_exit.R | 160 ++++++++++++++++++------------------ R/boxr_add_description.R | 2 R/boxr_auth.R | 6 - R/boxr_delete_restore.R | 2 R/boxr_dir_verbs.R | 6 - R/boxr_file_versions.R | 30 +++++- R/boxr_misc.R | 17 ++- R/boxr_read.R | 2 R/boxr_s3_classes.R | 116 ++++++++++++++------------ R/boxr_save_load.R | 2 R/boxr_search.R | 2 R/boxr_source.R | 2 R/boxr_upload_download.R | 2 R/boxr_write.R | 2 build/vignette.rds |binary inst/doc/boxr.html | 35 ++++--- man/box_add_description.Rd | 2 man/box_auth.Rd | 4 man/box_auth_on_attach.Rd | 2 man/box_delete_file.Rd | 2 man/box_dir_create.Rd | 2 man/box_dir_diff.Rd | 2 man/box_dl.Rd | 2 man/box_fetch.Rd | 2 man/box_ls.Rd | 2 man/box_previous_versions.Rd | 2 man/box_read.Rd | 2 man/box_save.Rd | 2 man/box_search.Rd | 2 man/box_setwd.Rd | 2 man/box_source.Rd | 2 man/box_upload_new.Rd | 2 man/box_write.Rd | 2 man/boxr-package.Rd | 2 man/boxr_S3_classes.Rd | 2 man/boxr_options.Rd | 2 43 files changed, 315 insertions(+), 249 deletions(-)
Title: Bootstrapped Differences of Time Series
Description: Analyze differences among time series curves with p-value adjustment for multiple comparisons introduced in Oleson et al (2015) <DOI:10.1177/0962280215607411>.
Author: Michael Seedorff, Jacob Oleson, Grant Brown, Joseph Cavanaugh, and Bob McMurray
Maintainer: Michael Seedorff <michael-seedorff@uiowa.edu>
Diff between bdots versions 0.1.7 dated 2016-02-23 and 0.1.9 dated 2016-08-16
DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++----------- NAMESPACE | 3 ++- R/doubleGaussBoot.r | 9 +++++++-- R/logisticBoot.r | 1 - R/printFits.r |only R/writeCSV.r | 47 +++++++++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/bdots.R | 16 +++++++++++----- inst/doc/bdots.Rnw | 7 +++++++ inst/doc/bdots.pdf |binary man/printFits.Rd |only man/writeCSV.Rd | 8 +++++--- vignettes/bdots.Rnw | 7 +++++++ 14 files changed, 93 insertions(+), 37 deletions(-)