Title: Retrieval Functions for USGS and EPA Hydrologic and Water
Quality Data
Diff between dataRetrieval versions 1.4.0 dated 2014-10-13 and 2.0.0 dated 2014-11-13
Description: Collection of functions to help retrieve U.S. Geological Survey
(USGS) and U.S. Environmental Protection Agency (EPA) water quality and
hydrology data from web services. USGS web services are discovered from the
National Water Information Services (NWIS) tools found here:
http://waterservices.usgs.gov/ Both EPA and USGS water quality data are
obtained from the Water Quality Portal found here:
http://www.waterqualitydata.us/portal.jsp
Author: Robert Hirsch [aut],
Laura DeCicco [aut, cre],
David Lorenz [aut]
Maintainer: Laura DeCicco
dataRetrieval-1.4.0/dataRetrieval/R/basicWQPData.R |only
dataRetrieval-1.4.0/dataRetrieval/R/checkStartEndDate.r |only
dataRetrieval-1.4.0/dataRetrieval/R/compressData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/dataOverview.r |only
dataRetrieval-1.4.0/dataRetrieval/R/dateFormatCheck.r |only
dataRetrieval-1.4.0/dataRetrieval/R/formatCheckDate.r |only
dataRetrieval-1.4.0/dataRetrieval/R/formatCheckParameterCd.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getDVData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getDailyDataFromFile.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getDataAvailability.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getDataFromFile.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getMetaData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getNWISData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getNWISSites.R |only
dataRetrieval-1.4.0/dataRetrieval/R/getParameterInfo.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getRDB1Data.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getRawQWData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getSTORETSampleData.R |only
dataRetrieval-1.4.0/dataRetrieval/R/getSampleData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getSampleDataFromFile.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getSiteFileData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/getWQPData.R |only
dataRetrieval-1.4.0/dataRetrieval/R/getWQPSites.R |only
dataRetrieval-1.4.0/dataRetrieval/R/getWaterML1Data.r |only
dataRetrieval-1.4.0/dataRetrieval/R/mergeReport.r |only
dataRetrieval-1.4.0/dataRetrieval/R/padVariable.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateConcentrations.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateDaily.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateDateColumns.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateParameterINFO.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateSampleColumns.r |only
dataRetrieval-1.4.0/dataRetrieval/R/populateSiteINFO.r |only
dataRetrieval-1.4.0/dataRetrieval/R/processQWData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/removeDuplicates.r |only
dataRetrieval-1.4.0/dataRetrieval/R/retrieveNWISData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/retrieveNWISqwData.r |only
dataRetrieval-1.4.0/dataRetrieval/R/retrieveUnitNWISData.r |only
dataRetrieval-1.4.0/dataRetrieval/inst/extdata/ChoptankRiverFlow.txt |only
dataRetrieval-1.4.0/dataRetrieval/inst/extdata/ChoptankRiverNitrate.csv |only
dataRetrieval-1.4.0/dataRetrieval/man/checkStartEndDate.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/compressData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/dataOverview.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/dateFormatCheck.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/formatCheckDate.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/formatCheckParameterCd.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getDailyDataFromFile.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getDataFromFile.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISDaily.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISDataAvailability.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISInfo.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISPcodeInfo.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getNWISSample.Rd |only
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dataRetrieval-1.4.0/dataRetrieval/man/getNWISdvData.Rd |only
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dataRetrieval-1.4.0/dataRetrieval/man/getNWISunitData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getRDB1Data.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getUserDaily.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getUserInfo.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getUserSample.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWQPData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWQPInfo.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWQPSample.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWQPSites.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWQPqwData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/getWaterML1Data.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/mergeReport.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/padVariable.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateConcentrations.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateDaily.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateDateColumns.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateParameterINFO.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateSampleColumns.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/populateSiteINFO.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/processQWData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/readWQPData.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/removeDuplicates.Rd |only
dataRetrieval-1.4.0/dataRetrieval/man/renameColumns.Rd |only
dataRetrieval-2.0.0/dataRetrieval/DESCRIPTION | 31
dataRetrieval-2.0.0/dataRetrieval/MD5 | 161 -
dataRetrieval-2.0.0/dataRetrieval/NAMESPACE | 58
dataRetrieval-2.0.0/dataRetrieval/NEWS | 27
dataRetrieval-2.0.0/dataRetrieval/R/constructNWISURL.r | 217 +-
dataRetrieval-2.0.0/dataRetrieval/R/deprecatedFunctions.R |only
dataRetrieval-2.0.0/dataRetrieval/R/importRDB1.r |only
dataRetrieval-2.0.0/dataRetrieval/R/importWQP.R |only
dataRetrieval-2.0.0/dataRetrieval/R/importWaterML1.r |only
dataRetrieval-2.0.0/dataRetrieval/R/importWaterML2.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISdata.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISdv.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISpCode.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISqw.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISsite.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readNWISunit.r |only
dataRetrieval-2.0.0/dataRetrieval/R/readWQPdata.R |only
dataRetrieval-2.0.0/dataRetrieval/R/readWQPqw.r |only
dataRetrieval-2.0.0/dataRetrieval/R/renameColumns.R | 152 +
dataRetrieval-2.0.0/dataRetrieval/R/tabbedDataRetrievals.R | 11
dataRetrieval-2.0.0/dataRetrieval/R/whatNWISdata.r |only
dataRetrieval-2.0.0/dataRetrieval/R/whatNWISsites.R |only
dataRetrieval-2.0.0/dataRetrieval/R/whatWQPsites.R |only
dataRetrieval-2.0.0/dataRetrieval/R/zeroPad.r |only
dataRetrieval-2.0.0/dataRetrieval/README.md | 96 -
dataRetrieval-2.0.0/dataRetrieval/data/parameterCdFile.RData |binary
dataRetrieval-2.0.0/dataRetrieval/inst/doc/dataRetrieval.R | 281 +--
dataRetrieval-2.0.0/dataRetrieval/inst/doc/dataRetrieval.Rnw | 870 +++-------
dataRetrieval-2.0.0/dataRetrieval/inst/doc/dataRetrieval.pdf |binary
dataRetrieval-2.0.0/dataRetrieval/inst/extdata/WaterML2Example.xml | 121 +
dataRetrieval-2.0.0/dataRetrieval/man/constructNWISURL.Rd | 20
dataRetrieval-2.0.0/dataRetrieval/man/constructWQPURL.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/dataRetrieval-package.Rd | 11
dataRetrieval-2.0.0/dataRetrieval/man/importRDB1.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/importWQP.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/importWaterML1.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/importWaterML2.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/parameterCdFile.Rd | 2
dataRetrieval-2.0.0/dataRetrieval/man/readNWISdata.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISdv.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISgwl.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISmeas.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISpCode.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISpeak.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISqw.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISrating.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISsite.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readNWISuv.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readWQPdata.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/readWQPqw.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/renameNWISColumns.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/whatNWISdata.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/whatNWISsites.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/whatWQPsites.Rd |only
dataRetrieval-2.0.0/dataRetrieval/man/zeroPad.Rd |only
dataRetrieval-2.0.0/dataRetrieval/vignettes/Rhelp.png |binary
dataRetrieval-2.0.0/dataRetrieval/vignettes/dataRetrieval-concordance.tex | 17
dataRetrieval-2.0.0/dataRetrieval/vignettes/dataRetrieval.Rnw | 870 +++-------
dataRetrieval-2.0.0/dataRetrieval/vignettes/figure/getNWIStemperaturePlot-1.pdf |only
dataRetrieval-2.0.0/dataRetrieval/vignettes/figure/getNWIStemperaturePlot.pdf |binary
dataRetrieval-2.0.0/dataRetrieval/vignettes/figure/getQWtemperaturePlot-1.pdf |only
dataRetrieval-2.0.0/dataRetrieval/vignettes/figure/getQWtemperaturePlot.pdf |binary
142 files changed, 1269 insertions(+), 1676 deletions(-)
Title: Response Probability Functions
Diff between rpf versions 0.40 dated 2014-10-22 and 0.43 dated 2014-11-13
Description: The purpose of this package is to factor out logic and math common
to Item Factor Analysis fitting, diagnostics, and analysis. It is
envisioned as core support code suitable for more specialized IRT packages
to build upon. Complete access to optimized C functions are made available
with R_RegisterCCallable.
Author: Joshua Pritikin [cre, aut],
Jonathan Weeks [ctb],
Li Cai [ctb],
Carrie Houts [ctb],
Phil Chalmers [ctb]
Maintainer: Joshua Pritikin
DESCRIPTION | 8 +++---
MD5 | 56 +++++++++++++++++++++++-----------------------
R/classes.R | 28 ++++++++++++++++++++++-
R/dataframe.R | 15 ++++++++++++
R/diagnose.R | 21 +++++++++++++++++
R/drm.R | 5 +++-
R/grm.R | 3 ++
R/nrm.R | 4 +++
R/openmx.R | 1
inst/doc/diagnostics.html | 44 ++++++++++++++++++------------------
inst/tests/test-dTheta.R | 4 +--
man/ChenThissen1997.Rd | 7 +++++
man/as.IFAgroup.Rd | 3 ++
man/compressDataFrame.Rd | 4 +++
man/expandDataFrame.Rd | 4 +++
man/logit.Rd | 2 -
man/orderCompletely.Rd | 6 ++++
man/ordinal.gamma.Rd | 5 ++++
man/rpf.1dim.fit.Rd | 13 ++++++++++
man/rpf.dLL.Rd | 8 ++++++
man/rpf.dTheta.Rd | 2 -
man/rpf.drm.Rd | 4 +++
man/rpf.grm.Rd | 4 +++
man/rpf.nrm.Rd | 4 +++
man/rpf.numParam.Rd | 4 +++
man/rpf.numSpec.Rd | 4 +++
man/rpf.paramInfo.Rd | 3 ++
man/rpf.rescale.Rd | 12 +++++++++
man/tabulateRows.Rd | 5 ++++
29 files changed, 223 insertions(+), 60 deletions(-)
Title: A toolbox for writing Sweave or other LaTeX-based papers and
reports
Diff between papeR versions 0.4-0 dated 2013-09-13 and 0.5-0 dated 2014-11-13
Description: A toolbox for writing Sweave or other LaTeX-based reports
Author: Benjamin Hofner
Maintainer: Benjamin Hofner
papeR-0.4-0/papeR/NEWS |only
papeR-0.5-0/papeR/ChangeLog | 397 ++++++++++++++++-------------
papeR-0.5-0/papeR/DESCRIPTION | 11
papeR-0.5-0/papeR/MD5 | 33 +-
papeR-0.5-0/papeR/NAMESPACE | 8
papeR-0.5-0/papeR/R/helpers.R | 4
papeR-0.5-0/papeR/R/plot.R | 93 ++++--
papeR-0.5-0/papeR/R/toLatex.R | 18 -
papeR-0.5-0/papeR/inst |only
papeR-0.5-0/papeR/man/Anova.lme.Rd | 13
papeR-0.5-0/papeR/man/confint.Rd | 4
papeR-0.5-0/papeR/man/labels.data.frame.Rd | 55 +++-
papeR-0.5-0/papeR/man/latex_table_cont.Rd | 63 ++--
papeR-0.5-0/papeR/man/latex_table_fac.Rd | 29 +-
papeR-0.5-0/papeR/man/papeR-package.Rd | 5
papeR-0.5-0/papeR/man/prettify.Rd | 220 ++++++++--------
papeR-0.5-0/papeR/man/toLatex.Rd | 2
papeR-0.5-0/papeR/tests/bugfixes.R |only
papeR-0.5-0/papeR/tests/regtest-prettify.R | 46 +--
19 files changed, 569 insertions(+), 432 deletions(-)
Title: Least-Squares Means
Diff between lsmeans versions 2.12 dated 2014-09-23 and 2.13 dated 2014-11-13
Description: This package provides methods for obtaining least-squares means for various linear models. It can also compute contrasts or linear combinations of these least-squares means, comparisons of slopes, plots, and compact letter displays.
Author: Russell V. Lenth [aut], Maxime Hervé [ctb]
Maintainer: Russ Lenth
DESCRIPTION | 17 +--
MD5 | 55 +++++------
NAMESPACE | 2
R/glht-support.R | 23 +++-
R/helpers.R | 179 +++++++++++++++++++++++++------------
R/lsm-contr.R | 1
R/lsmeans.R | 98 +++++++++++++-------
R/lsmip.R | 4
R/ordinal-support.R |only
R/plot.lsm.R | 2
R/ref.grid.R | 204 ++++++++++++++++++++++++++++++++-----------
build/vignette.rds |binary
inst/NEWS | 32 ++++++
inst/doc/extending.pdf |binary
inst/doc/extending.rnw | 5 +
inst/doc/lsmeans-changes.pdf |binary
inst/doc/using-lsmeans.R | 176 +++++++++++++++++++++++--------------
inst/doc/using-lsmeans.pdf |binary
inst/doc/using-lsmeans.rnw | 134 +++++++++++++++++++++++++---
man/contrast.Rd | 21 ++--
man/extending.Rd | 30 +++++-
man/lsmeans-package.Rd | 2
man/models.Rd | 30 +++++-
man/pairwise.lsmc.Rd | 2
man/summary.Rd | 46 +++++++++
tests/tests1.Rout.save | 26 ++---
vignettes/extending.rnw | 5 +
vignettes/lsmeans.bib | 10 +-
vignettes/using-lsmeans.rnw | 134 +++++++++++++++++++++++++---
29 files changed, 932 insertions(+), 306 deletions(-)
Title: FastRCS Robust Fit of Multivariable Linear Regression Model
Diff between FastRCS versions 0.0.4 dated 2014-09-08 and 0.0.5 dated 2014-11-13
Description: The FastRCS algorithm of Vakili and Schmitt (2014) for robust fit of the multivariable linear regression model and outliers detection.
Author: Kaveh Vakili [aut, cre]
Maintainer: Kaveh Vakili
FastRCS-0.0.4/FastRCS/man/NumStarts.Rd |only
FastRCS-0.0.5/FastRCS/DESCRIPTION | 12 +-
FastRCS-0.0.5/FastRCS/MD5 | 21 +--
FastRCS-0.0.5/FastRCS/NAMESPACE | 3
FastRCS-0.0.5/FastRCS/R/FastRCS.R | 153 +++++++++++++--------------
FastRCS-0.0.5/FastRCS/man/DontGetKicked.Rd | 29 ++---
FastRCS-0.0.5/FastRCS/man/FastRCS-package.Rd | 1
FastRCS-0.0.5/FastRCS/man/FastRCS.Rd | 75 +++++--------
FastRCS-0.0.5/FastRCS/man/Slump.Rd | 15 +-
FastRCS-0.0.5/FastRCS/man/numStarts.Rd |only
FastRCS-0.0.5/FastRCS/man/plot.FastRCS.Rd |only
FastRCS-0.0.5/FastRCS/man/quanf.Rd | 11 +
FastRCS-0.0.5/FastRCS/src/Makevars.win | 11 -
13 files changed, 163 insertions(+), 168 deletions(-)
Title: FastHCS Robust Algortihm for Principal Component Analysis
Diff between FastHCS versions 0.0.2 dated 2014-07-12 and 0.0.3 dated 2014-11-13
Description: The FastHCS algorithm of Schmitt and Vakili (2014) for high-dimensional, robust PCA modelling and associated outlier detection and diagnostic tools.
Author: Kaveh Vakili [aut, cre]
Maintainer: Kaveh Vakili
FastHCS-0.0.2/FastHCS/man/NumStarts.Rd |only
FastHCS-0.0.2/FastHCS/man/Signflip.Rd |only
FastHCS-0.0.2/FastHCS/man/computdis.Rd |only
FastHCS-0.0.3/FastHCS/DESCRIPTION | 18 +-
FastHCS-0.0.3/FastHCS/MD5 | 31 +--
FastHCS-0.0.3/FastHCS/NAMESPACE | 8
FastHCS-0.0.3/FastHCS/R/FastHCS.R | 156 ++++++++++-------
FastHCS-0.0.3/FastHCS/data/Ionosphere.txt.gz |only
FastHCS-0.0.3/FastHCS/data/datalist | 1
FastHCS-0.0.3/FastHCS/man/DnaAlteration.Rd | 16 -
FastHCS-0.0.3/FastHCS/man/FastHCS-package.Rd | 28 +--
FastHCS-0.0.3/FastHCS/man/FastHCS.Rd | 106 ++++-------
FastHCS-0.0.3/FastHCS/man/Ionosphere.Rd |only
FastHCS-0.0.3/FastHCS/man/MultipleFeatures.Rd | 14 -
FastHCS-0.0.3/FastHCS/man/Tablets.Rd | 14 -
FastHCS-0.0.3/FastHCS/man/compPcaParams.Rd |only
FastHCS-0.0.3/FastHCS/man/numStarts.Rd |only
FastHCS-0.0.3/FastHCS/man/plot.FastHCS.Rd |only
FastHCS-0.0.3/FastHCS/man/signFlip.Rd |only
FastHCS-0.0.3/FastHCS/src/FastHCS.cpp | 233 ++++++++++++++++++++++----
FastHCS-0.0.3/FastHCS/src/Makevars | 9 -
21 files changed, 399 insertions(+), 235 deletions(-)
Title: FastPCS Robust Fit of Multivariate Location and Scatter
Diff between FastPCS versions 0.1.0 dated 2014-09-08 and 0.1.1 dated 2014-11-13
Description: The FastPCS algorithm of Vakili and Schmitt (2014) for robust estimation of multivariate location and scatter and multivariate outliers detection.
Author: Kaveh Vakili [aut, cre]
Maintainer: Kaveh Vakili
FastPCS-0.1.0/FastPCS/man/NumStarts.Rd |only
FastPCS-0.1.1/FastPCS/DESCRIPTION | 12 -
FastPCS-0.1.1/FastPCS/MD5 | 21 +--
FastPCS-0.1.1/FastPCS/NAMESPACE | 3
FastPCS-0.1.1/FastPCS/R/FastPCS.R | 172 +++++++++++++--------------
FastPCS-0.1.1/FastPCS/man/FastPCS-package.Rd | 15 --
FastPCS-0.1.1/FastPCS/man/FastPCS.Rd | 74 ++++-------
FastPCS-0.1.1/FastPCS/man/numStarts.Rd |only
FastPCS-0.1.1/FastPCS/man/plot.FastPCS.Rd |only
FastPCS-0.1.1/FastPCS/man/quanf.Rd | 9 -
FastPCS-0.1.1/FastPCS/src/FastPCS.cpp | 37 ++---
FastPCS-0.1.1/FastPCS/src/Makevars | 1
FastPCS-0.1.1/FastPCS/src/Makevars.win | 11 -
13 files changed, 172 insertions(+), 183 deletions(-)
Title: Tools for Making, Displaying and Spoiling Sudoku Games
Diff between sudokuAlt versions 0.1-3 dated 2014-11-12 and 0.1-4 dated 2014-11-13
Description: Tools for making, retrieving, displaying and solving sudoku games.
This package is an alternative to the earlier sudoku-solver package,
'sudoku'. The present package uses a slightly different algorithm, has a
simpler coding and presents a few more sugar tools, such as plot and print
methods. Solved sudoku games are of some interest in Experimental Design
as examples of Latin Square designs with additional balance constraints.
Author: Bill Venables
Maintainer: Bill Venables
DESCRIPTION | 9 ++++---
MD5 | 22 +++++++++--------
NAMESPACE | 2 +
R/sudokuAlt.R | 65 +++++++++++++++++++++++++++++++++++++++++-----------
man/as.sudoku.Rd | 2 -
man/daysAgo.Rd | 2 -
man/fetchUKGame.Rd | 4 +--
man/makeGame.Rd | 2 -
man/originalGame.Rd |only
man/plot.sudoku.Rd | 2 -
man/seedGame.Rd | 2 -
man/solve.sudoku.Rd |only
man/solveGame.Rd | 8 ++----
13 files changed, 81 insertions(+), 39 deletions(-)
Title: Non-parametric Bayesian Multiple Imputation for Categorical Data
Diff between NPBayesImpute versions 0.3 dated 2014-09-30 and 0.4 dated 2014-11-13
Description: These routines create multiple imputations of missing at random categorical data, with or without structural zeros. Imputations are based on Dirichlet process mixtures of multinomial distributions, which is a non-parametric Bayesian modeling approach that allows for flexible joint modeling.
Author: Quanli Wang, Daniel Manrique-Vallier, Jerome P. Reiter and Jingchen Hu
Maintainer: Quanli Wang
DESCRIPTION | 6 +++---
MD5 | 10 +++++-----
man/CreateModel.Rd | 10 ++++++----
man/GetMCZ.Rd | 6 ++++--
man/NPBayesImput-package.Rd | 4 +++-
man/Rcpp_Lcm-class.Rd | 6 ++++--
6 files changed, 25 insertions(+), 17 deletions(-)
Title: Bayesian spatial survival analysis with parametric proportional
hazards models.
Diff between spatsurv versions 0.9-7 dated 2014-09-12 and 0.9-8 dated 2014-11-13
Description: an R Package for Bayesian Inference with Spatial Survival Models
Author: Benjamin M. Taylor and Barry S. Rowlingson
Maintainer: Benjamin M. Taylor
DESCRIPTION | 6 -
MD5 | 23 ++++--
NAMESPACE | 5 +
NEWS | 9 ++
R/BsplineHaz.R |only
R/nonspatial_log_likelihood_and_derivatives.R | 10 ++
R/postprocessing.R | 89 +++++++++++++++++++++++++-
R/spatsurvMisc.R | 8 +-
R/survspatNS.R |only
man/BsplineHaz.Rd |only
man/baselinehazard.Rd | 4 -
man/inference.control.Rd | 7 +-
man/print.mlspatsurv.Rd |only
man/quantile.mlspatsurv.Rd |only
man/survspatNS.Rd |only
man/vcov.mlspatsurv.Rd |only
16 files changed, 137 insertions(+), 24 deletions(-)
Title: Parametric bootstrap and Kenward-Roger-based methods for mixed
model comparison
Diff between pbkrtest versions 0.4-1 dated 2014-09-11 and 0.4-2 dated 2014-11-13
Description: Test in linear mixed effects models.
Attention is on linear mixed effects models as implemented in the
lme4 package.
The package implements a parametric bootstrap test.
The package implements a Kenward-Roger modification of F-tests.
Author: Ulrich Halekoh
Maintainer: Søren Højsgaard
ChangeLog | 9 -
DESCRIPTION | 16 -
MD5 | 18 +-
NAMESPACE | 12 -
R/KR-vcovAdj.R | 11 -
build/vignette.rds |binary
data/beets.txt.gz |binary
data/budworm.txt.gz |binary
inst/doc/pbkrtest-introduction.R | 304 ++++++++++++++++++-------------------
inst/doc/pbkrtest-introduction.pdf |binary
10 files changed, 183 insertions(+), 187 deletions(-)
Title: Regression Models for Ordinal Data
Diff between ordinal versions 2013.9-30 dated 2013-09-30 and 2014.11-12 dated 2014-11-13
Description: This package implements cumulative link (mixed) models also known
as ordered regression models, proportional odds models, proportional
hazards models for grouped survival times and ordered logit/probit/...
models. Estimation is via maximum likelihood and mixed models are fitted
with the Laplace approximation and adaptive Gauss-Hermite quadrature.
Multiple random effect terms are allowed and they may be nested, crossed or
partially nested/crossed. Restrictions of symmetry and equidistance can be
imposed on the thresholds (cut-points). Standard model methods are
available (summary, anova, drop-methods, step, confint, predict etc.) in
addition to profile methods and slice methods for visualizing the
likelihood function and checking convergence.
Author: Rune Haubo Bojesen Christensen [aut, cre]
Maintainer: Rune Haubo Bojesen Christensen
ordinal-2013.9-30/ordinal/man/ordinal3-package.Rd |only
ordinal-2014.11-12/ordinal/DESCRIPTION | 20
ordinal-2014.11-12/ordinal/MD5 | 78
ordinal-2014.11-12/ordinal/NAMESPACE | 6
ordinal-2014.11-12/ordinal/NEWS | 19
ordinal-2014.11-12/ordinal/R/clm.R | 478 -
ordinal-2014.11-12/ordinal/R/clm.Thetamat.R | 81
ordinal-2014.11-12/ordinal/R/clm.fit.R | 36
ordinal-2014.11-12/ordinal/R/clm.fitter.R | 199
ordinal-2014.11-12/ordinal/R/clm.frames.R |only
ordinal-2014.11-12/ordinal/R/clm.methods.R | 49
ordinal-2014.11-12/ordinal/R/clm.predict.R | 312 -
ordinal-2014.11-12/ordinal/R/clm.profile.R | 184
ordinal-2014.11-12/ordinal/R/clm.simple.R | 30
ordinal-2014.11-12/ordinal/R/clm.slice.R | 136
ordinal-2014.11-12/ordinal/R/clm.slice2D.R |only
ordinal-2014.11-12/ordinal/R/clm.start.R | 21
ordinal-2014.11-12/ordinal/R/clm2.R | 2
ordinal-2014.11-12/ordinal/R/clmm.R | 2
ordinal-2014.11-12/ordinal/R/convergence.R | 35
ordinal-2014.11-12/ordinal/R/drop.coef.R | 4
ordinal-2014.11-12/ordinal/R/utils.R | 139
ordinal-2014.11-12/ordinal/build/vignette.rds |binary
ordinal-2014.11-12/ordinal/inst/doc/clm_intro.R | 95
ordinal-2014.11-12/ordinal/inst/doc/clm_intro.Rnw | 4353 +++++++--------
ordinal-2014.11-12/ordinal/inst/doc/clm_intro.pdf |binary
ordinal-2014.11-12/ordinal/inst/doc/clm_tutorial.R | 71
ordinal-2014.11-12/ordinal/inst/doc/clm_tutorial.Rnw | 1617 ++---
ordinal-2014.11-12/ordinal/inst/doc/clm_tutorial.pdf |binary
ordinal-2014.11-12/ordinal/inst/doc/clmm2_tutorial.R | 49
ordinal-2014.11-12/ordinal/inst/doc/clmm2_tutorial.Rnw | 1033 +--
ordinal-2014.11-12/ordinal/inst/doc/clmm2_tutorial.pdf |binary
ordinal-2014.11-12/ordinal/man/ordinal-package.Rd |only
ordinal-2014.11-12/ordinal/man/predict.Rd | 8
ordinal-2014.11-12/ordinal/tests/clm.formula.R | 273
ordinal-2014.11-12/ordinal/tests/test.clm.model.matrix.R |only
ordinal-2014.11-12/ordinal/tests/test.clm.predict.R |only
ordinal-2014.11-12/ordinal/tests/test0weights.R | 6
ordinal-2014.11-12/ordinal/tests/testCLM.R | 15
ordinal-2014.11-12/ordinal/vignettes/clm_intro.Rnw | 4353 +++++++--------
ordinal-2014.11-12/ordinal/vignettes/clm_tutorial.Rnw | 1617 ++---
ordinal-2014.11-12/ordinal/vignettes/clmm2_tutorial.Rnw | 1033 +--
ordinal-2014.11-12/ordinal/vignettes/ordinal.bib | 12
43 files changed, 8268 insertions(+), 8098 deletions(-)
Title: Power and Sample size based on two one-sided t-tests (TOST) for
(bio)equivalence studies
Diff between PowerTOST versions 1.2-02 dated 2014-10-06 and 1.2-03 dated 2014-11-13
Description: Contains functions to calculate power and sample size for
various study designs used for bioequivalence studies.
See function known.designs() for study designs covered.
Moreover the package contains functions for power and sample size
based on 'expected' power in case of uncertain (estimated) variability.
-----
Added are functions for the power and sample size for the ratio of
two means with normally distributed data on the original scale
(based on Fieller's confidence ('fiducial') interval).
-----
Contains further functions for power and sample size calculations based on
non-inferiority t-test. This is not a TOST procedure but eventually useful
if the question of 'non-superiority' must be evaluated.
The power and sample size calculations based on non-inferiority test may
also performed via 'expected' power in case of uncertain (estimated)
variability.
-----
Contains functions power.scABEL() and sampleN.scABEL() to calculate power
and sample size for the BE decision via scaled (widened) BE acceptance
limits based on simulations.
Contains further functions power.RSABE() and sampleN.RSABE() to calculate
power and sample size for the BE decision via reference scaled ABE criterion
according to the FDA procedure based on simulations.
Contains further functions power.NTIDFDA() and sampleN.NTIDFDA() to calculate
power and sample size for the BE decision via the FDA procedure for NTID's
based on simulations.
-----
Contains functions for power analysis of a sample size plan for ABE
(pa.ABE()), scaled ABE (pa.scABE()) and scaled ABE for NTID's (pa.NTIDFDA())
analysing power if deviating from assumptions of the plan.
-----
Contains further functions for power calculations / samplesize estimation
for dose proportionality studies using the Power model.
Author: Detlew Labes [aut, cre],
Helmut Schuetz [aut]
Maintainer: Detlew Labes
DESCRIPTION | 9 +++--
MD5 | 29 +++++++++--------
NAMESPACE | 5 +--
NEWS | 12 ++++++-
R/BIBs.R |only
R/DesignHelpers.R | 4 +-
R/SampleSize.R | 4 ++
R/SampleSize_doseprop.R | 78 +++++++++++++++++++++++++++++++++++-------------
R/helper_dp.R |only
R/power_RSABE.R | 10 ++----
R/power_RSABE_NTID.R | 12 ++-----
R/power_doseprop.R | 53 +++++++++++++++++++-------------
R/power_scABEL.R | 11 ++----
man/bib.CL.Rd |only
man/known.designs.Rd | 13 ++++++--
man/power.dp.Rd | 57 ++++++++++++++++++++++++-----------
man/sampleN.dp.Rd | 73 ++++++++++++++++++++++++++++++--------------
17 files changed, 243 insertions(+), 127 deletions(-)
Title: Multivariate Normal and t Distributions
Diff between mvtnorm versions 1.0-0 dated 2014-07-08 and 1.0-1 dated 2014-11-13
Description: Computes multivariate normal and t probabilities, quantiles,
random deviates and densities.
Author: Alan Genz [aut],
Frank Bretz [aut],
Tetsuhisa Miwa [aut],
Xuefei Mi [aut],
Friedrich Leisch [ctb],
Fabian Scheipl [ctb],
Bjoern Bornkamp [ctb],
Martin Maechler [ctb],
Torsten Hothorn [aut, cre]
Maintainer: Torsten Hothorn
DESCRIPTION | 9 +-
MD5 | 16 +--
build/vignette.rds |binary
inst/NEWS | 37 +++++---
inst/doc/MVT_Rnews.pdf |binary
src/mvt.f | 117 +--------------------------
src/randomF77.c | 5 -
tests/bugfix-tests.R | 176 ++++++++++++++++++++++++++++++++++++++++++
tests/bugfix-tests.Rout.save | 180 ++++++++++++++++++++++++++++++++++++++++++-
9 files changed, 401 insertions(+), 139 deletions(-)
Title: A Replacement and Extension of the optim() Function
Diff between optimx versions 2014.5.4 dated 2014-05-05 and 2013.8.7 dated 2014-11-13
Description: Provides a replacement and extension of the optim()
function to unify and streamline optimization capabilities in R
for smooth, possibly box constrained functions of several or
many parameters. This is the CRAN version of the package.
Author: John C Nash [aut, cre], Ravi Varadhan [aut], Gabor Grothendieck [ctb]
Maintainer: John C Nash
DESCRIPTION | 28 ++++++++---------
MD5 | 18 +++++------
NAMESPACE | 15 ++++++++-
NEWS | 21 ++++++-------
R/optimx.R | 9 +++--
R/optimx.check.R | 7 +---
R/optimx.run.R | 87 +++++++++++++++++++++++++++----------------------------
R/optimx.setup.R | 28 ++++++-----------
inst/CITATION | 57 +++++++++++++++++++++++-------------
man/optimx.Rd | 4 ++
10 files changed, 152 insertions(+), 122 deletions(-)
Title: Hierarchical Climate Regionalization
Diff between HiClimR versions 1.1.4 dated 2014-09-02 and 1.1.5 dated 2014-11-13
Description: HiClimR package modifies and improves hierarchical clustering in R ('hclust' function in 'stats'
library), for climate regionalization. It adds a new clustering method (called, regional linkage)
to the set of available methods together with several features including regridding, coarsening
spatial resolution, geographic masking, data thresholds, detrending and standardization data
preprocessing, faster correlation function, hybrid hierarchical clustering, and cluster validation.
It is applicable to any correlation-based clustering.
Author: Hamada S. Badr [aut, cre], Benjamin F. Zaitchik [aut], Amin K. Dezfuli [aut]
Maintainer: Hamada S. Badr
Changelog | 7 ++++++-
DESCRIPTION | 31 ++++++++++++-------------------
MD5 | 22 +++++++++++-----------
R/HiClimR.R | 14 +++++---------
R/coarseR.R | 3 ++-
R/fastCor.R | 3 ++-
R/geogMask.R | 3 ++-
R/grid2D.R | 3 ++-
R/minSigCor.R | 3 ++-
R/validClimR.R | 3 ++-
inst/CITATION | 9 ++++-----
src/HiClimR.f90 | 21 ++++++++-------------
12 files changed, 58 insertions(+), 64 deletions(-)
Title: Geostatistics using SpatialPoints and rasters
Diff between geostatsp versions 1.1.0 dated 2014-10-02 and 1.1.5 dated 2014-11-13
Description: This package provides to geostatistical modelling facilities using raster and SpatialPoints objects. Non-Gaussian models are fit using INLA, obtainable from http://www.r-inla.org.
Author: Patrick Brown
Maintainer: Patrick Brown
geostatsp-1.1.0/geostatsp/R/logLikGradient.R |only
geostatsp-1.1.5/geostatsp/DESCRIPTION | 13
geostatsp-1.1.5/geostatsp/MD5 | 65 +--
geostatsp-1.1.5/geostatsp/NAMESPACE | 2
geostatsp-1.1.5/geostatsp/R/0gm.R | 23 -
geostatsp-1.1.5/geostatsp/R/RFsimulate.R | 4
geostatsp-1.1.5/geostatsp/R/conditionalGmrf.R | 159 ++++++---
geostatsp-1.1.5/geostatsp/R/glgm.R | 51 +-
geostatsp-1.1.5/geostatsp/R/krige.R | 133 ++++---
geostatsp-1.1.5/geostatsp/R/lgcp.R | 16
geostatsp-1.1.5/geostatsp/R/lgm.R | 401 +++++++++++------------
geostatsp-1.1.5/geostatsp/R/lgm.Raster.R | 33 -
geostatsp-1.1.5/geostatsp/R/loglikGmrf.R | 190 ++++++++--
geostatsp-1.1.5/geostatsp/R/maternGmrfPrec.R | 3
geostatsp-1.1.5/geostatsp/R/simLgcp.R | 93 +++--
geostatsp-1.1.5/geostatsp/R/spatialRoc.R |only
geostatsp-1.1.5/geostatsp/data/gambiaUTM.RData |binary
geostatsp-1.1.5/geostatsp/data/loaloa.RData |binary
geostatsp-1.1.5/geostatsp/data/murder.RData |binary
geostatsp-1.1.5/geostatsp/data/nn32.RData |binary
geostatsp-1.1.5/geostatsp/data/rongelapUTM.RData |binary
geostatsp-1.1.5/geostatsp/data/swissRain.RData |binary
geostatsp-1.1.5/geostatsp/data/swissRainR.RData |binary
geostatsp-1.1.5/geostatsp/data/torontoPop.RData |binary
geostatsp-1.1.5/geostatsp/data/wheat.RData |binary
geostatsp-1.1.5/geostatsp/man/conditionalGmrf.Rd |only
geostatsp-1.1.5/geostatsp/man/glgm.Rd | 20 -
geostatsp-1.1.5/geostatsp/man/krige.Rd | 1
geostatsp-1.1.5/geostatsp/man/lgm.Rd | 14
geostatsp-1.1.5/geostatsp/man/likfitLgm.Rd | 7
geostatsp-1.1.5/geostatsp/man/matern.Rd | 9
geostatsp-1.1.5/geostatsp/man/simLgcp.Rd | 13
geostatsp-1.1.5/geostatsp/man/spatialRoc.Rd |only
geostatsp-1.1.5/geostatsp/tests/glgm.R | 18 +
geostatsp-1.1.5/geostatsp/tests/lgmRaster.R | 98 +++++
geostatsp-1.1.5/geostatsp/tests/simLgcp.R |only
36 files changed, 863 insertions(+), 503 deletions(-)
Title: Entropy Partitioning to Measure Diversity
Diff between entropart versions 1.2.0 dated 2014-05-17 and 1.2.1 dated 2014-11-13
Description: Measurement and partitioning of diversity, based on Tsallis entropy.
Author: Eric Marcon, Bruno Herault
Maintainer: Eric Marcon
entropart-1.2.0/entropart/man/plot.PhyloValue.Rd |only
entropart-1.2.0/entropart/vignettes/entropart-DivPartPlot.pdf |only
entropart-1.2.1/entropart/DESCRIPTION | 10
entropart-1.2.1/entropart/MD5 | 72 -
entropart-1.2.1/entropart/NEWS | 29
entropart-1.2.1/entropart/R/AllenH.R | 2
entropart-1.2.1/entropart/R/ChaoPD.R | 6
entropart-1.2.1/entropart/R/CheckentropartArguments.R | 3
entropart-1.2.1/entropart/R/Dqz.R | 6
entropart-1.2.1/entropart/R/Hqz.R | 6
entropart-1.2.1/entropart/R/HqzBeta.R | 14
entropart-1.2.1/entropart/R/PhyloApply.R | 4
entropart-1.2.1/entropart/R/Preprocess.MC.R | 5
entropart-1.2.1/entropart/R/bcHqz.R | 6
entropart-1.2.1/entropart/R/bcRao.R |only
entropart-1.2.1/entropart/R/bcShannon.R | 6
entropart-1.2.1/entropart/R/bcShannonBeta.R | 29
entropart-1.2.1/entropart/R/bcSimpson.R | 2
entropart-1.2.1/entropart/R/bcTsallis.R | 6
entropart-1.2.1/entropart/R/is.PhyloValue.R |only
entropart-1.2.1/entropart/R/plot.DivPart.R | 2
entropart-1.2.1/entropart/R/summary.DivEst.R | 4
entropart-1.2.1/entropart/R/summary.DivPart.R | 4
entropart-1.2.1/entropart/R/summary.PhyloValue.R |only
entropart-1.2.1/entropart/build/vignette.rds |binary
entropart-1.2.1/entropart/inst/doc/entropart.R | 140 ++-
entropart-1.2.1/entropart/inst/doc/entropart.Rnw | 390 +++++++---
entropart-1.2.1/entropart/inst/doc/entropart.pdf |binary
entropart-1.2.1/entropart/man/DivPart.Rd | 4
entropart-1.2.1/entropart/man/MetaCommunity.Rd | 5
entropart-1.2.1/entropart/man/Originality.Species.Rd | 11
entropart-1.2.1/entropart/man/PhyloValue.Rd |only
entropart-1.2.1/entropart/man/Rao.Rd | 17
entropart-1.2.1/entropart/man/ShannonBeta.Rd | 8
entropart-1.2.1/entropart/man/Simpson.Rd | 5
entropart-1.2.1/entropart/man/entropart-package.Rd | 8
entropart-1.2.1/entropart/vignettes/entropart-MCPlot.pdf |binary
entropart-1.2.1/entropart/vignettes/entropart-lnq.pdf |binary
entropart-1.2.1/entropart/vignettes/entropart.Rnw | 390 +++++++---
entropart-1.2.1/entropart/vignettes/entropart.bib | 89 ++
40 files changed, 989 insertions(+), 294 deletions(-)
Title: doBy - Groupwise summary statistics, LSmeans, general linear
contrasts, various utilities
Diff between doBy versions 4.5-11 dated 2014-09-09 and 4.5-12 dated 2014-11-13
Description: doBy originally contained facilities to 'do' something to data stratified 'by' some variables. doBy contains a
variety of utilities including:
1) Facilities for groupwise computations of summary statistics and
other facilities for working with grouped data.
2) LSmeans (least-squares means), general linear contrasts.
3) Miscellaneous other utilities.
Author: Søren Højsgaard
Maintainer: Søren Højsgaard
doBy-4.5-11/doBy/R/LD50.R |only
doBy-4.5-12/doBy/ChangeLog | 18 +++++
doBy-4.5-12/doBy/DESCRIPTION | 10 +--
doBy-4.5-12/doBy/MD5 | 27 ++++----
doBy-4.5-12/doBy/R/BY-summaryBy2.R | 20 +++---
doBy-4.5-12/doBy/R/linest.R | 92 +++++++++++++++---------------
doBy-4.5-12/doBy/R/timeSinceEvent.R | 58 +++++++++---------
doBy-4.5-12/doBy/build/vignette.rds |binary
doBy-4.5-12/doBy/data/breastcancer.rda |only
doBy-4.5-12/doBy/data/crimeRate.txt.gz |only
doBy-4.5-12/doBy/data/datalist | 2
doBy-4.5-12/doBy/inst/doc/LSmeans.pdf |binary
doBy-4.5-12/doBy/inst/doc/doBy.pdf |binary
doBy-4.5-12/doBy/man/DATA-breastcancer.Rd |only
doBy-4.5-12/doBy/man/DATA-crimeRate.Rd |only
doBy-4.5-12/doBy/man/doBy-internal.Rd | 2
doBy-4.5-12/doBy/man/linest.Rd | 36 +----------
17 files changed, 133 insertions(+), 132 deletions(-)
Title: Calculate observed and expected disease incidence counts from a
case file and population data.
Diff between diseasemapping versions 1.1.0 dated 2014-10-06 and 1.1.2 dated 2014-11-13
More information about diseasemapping at CRAN
Description: Tools for calculating rates and Standardized Incidence Ratios from case and population data. The BYM model is fit using INLA, obtainable from http://www.r-inla.org.
Author: Patrick Brown
Maintainer: Patrick Brown
DESCRIPTION | 12 ++++++------
MD5 | 8 ++++----
NAMESPACE | 2 +-
R/bym.R | 31 ++++++++++++-------------------
man/bym.Rd | 4 +++-
5 files changed, 26 insertions(+), 31 deletions(-)
Permanent link
Title: Discrete Bayesian Additive Regression Trees Sampler
Diff between dbarts versions 0.8-4 dated 2014-11-11 and 0.8-5 dated 2014-11-13
Description: Fits Bayesian additive regression trees (BART) while allowing the updating of predictors or response so that BART can be incorporated as a conditional model in a Gibbs/MH sampler. Also serves as a drop-in replacement for package BayesTree.
Author: Hugh Chipman
Maintainer: Vincent Dorie
DESCRIPTION | 8 ++---
MD5 | 36 +++++++++++-----------
R/A_class.R | 2 -
R/dbarts.R | 46 +++++++++++------------------
R/utility.R | 9 +++++
README.md | 4 +-
configure | 18 +++++------
configure.ac | 2 -
src/R_interface.cpp | 43 +++++++++++++++++----------
src/config.hpp.win | 4 +-
src/dbarts/bartFit.cpp | 7 +++-
src/dbarts/config.hpp.win | 4 +-
src/external/config.h.win | 4 +-
src/external/linearAlgebra.c | 2 -
src/external/randomBase.c | 19 +++++++++--
tests/testthat/test-02-dbartsModelArgs.R | 2 -
tests/testthat/test-03-dbartsControl.R | 2 -
tests/testthat/test-06-dbartsSampler.R | 2 +
tests/testthat/test-07-bartMultithreaded.R | 4 +-
19 files changed, 125 insertions(+), 93 deletions(-)
Title: Bayesian Projection of Life Expectancy
Diff between bayesLife versions 2.1-1 dated 2014-06-02 and 2.1-2 dated 2014-11-13
Description: Making probabilistic projections of life expectancy for all countries of the world, using a Bayesian hierarchical model.
Author: Hana Sevcikova, Adrian Raftery; original WinBugs code written by Jennifer Chunn
Maintainer: Hana Sevcikova
ChangeLog | 6 ++++++
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
R/get_outputs.R | 1 +
R/run_mcmc.R | 8 ++++----
man/bayesLife-package.Rd | 4 ++--
tests/run_tests.R | 3 ++-
tests/test_functions.R | 20 +++++++++++++++++++-
8 files changed, 45 insertions(+), 19 deletions(-)
Title: Algorithms for Quantitative Pedology
Diff between aqp versions 1.7 dated 2014-05-02 and 1.7-7 dated 2014-11-13
Description: A collection of algorithms related to modeling of soil resources, soil classification, soil profile aggregation, and visualization.
Author: Dylan Beaudette
Maintainer: Dylan Beaudette
aqp-1.7-7/aqp/DESCRIPTION | 17 ++--
aqp-1.7-7/aqp/MD5 | 63 ++++++++---------
aqp-1.7-7/aqp/NAMESPACE | 13 ++-
aqp-1.7-7/aqp/NEWS | 10 ++
aqp-1.7-7/aqp/R/SoilProfileCollection-coercion.R | 2
aqp-1.7-7/aqp/R/SoilProfileCollection-methods.R | 14 ++-
aqp-1.7-7/aqp/R/SoilProfileCollection-spatial.R | 84 +++++++++++------------
aqp-1.7-7/aqp/R/evalGenHz.R |only
aqp-1.7-7/aqp/R/generalize.hz.R | 5 -
aqp-1.7-7/aqp/R/get.ml.hz.R | 46 +++++++++---
aqp-1.7-7/aqp/R/munsell2rgb.R | 43 +++++++----
aqp-1.7-7/aqp/R/profile_plot.R | 11 +--
aqp-1.7-7/aqp/R/slab.R | 6 +
aqp-1.7-7/aqp/R/texture-low-rv-high.R | 19 ++++-
aqp-1.7-7/aqp/data/amarillo.rda |binary
aqp-1.7-7/aqp/data/ca630.rda |binary
aqp-1.7-7/aqp/data/munsell.rda |binary
aqp-1.7-7/aqp/data/rruff.sample.rda |binary
aqp-1.7-7/aqp/data/sp1.rda |binary
aqp-1.7-7/aqp/data/sp2.rda |binary
aqp-1.7-7/aqp/data/sp3.rda |binary
aqp-1.7-7/aqp/data/sp4.rda |binary
aqp-1.7-7/aqp/data/sp5.rda |binary
aqp-1.7-7/aqp/man/SPC-plotting.Rd | 5 +
aqp-1.7-7/aqp/man/SPC-slab-methods.Rd | 4 -
aqp-1.7-7/aqp/man/addBracket.Rd | 4 -
aqp-1.7-7/aqp/man/evalGenHZ.Rd |only
aqp-1.7-7/aqp/man/generalize.hz.Rd | 6 -
aqp-1.7-7/aqp/man/get.ml.hz.Rd | 11 +--
aqp-1.7-7/aqp/man/munsell.Rd | 68 +++++++++---------
aqp-1.7-7/aqp/man/munsell2rgb.Rd | 22 +++++-
aqp-1.7-7/aqp/man/random_profile.Rd | 52 +++++---------
aqp-1.7-7/aqp/man/subsetProfiles-methods.Rd | 2
aqp-1.7/aqp/man/SPC-spatial-methods.Rd |only
34 files changed, 293 insertions(+), 214 deletions(-)
Title: Accelerated Failure Time Model with Generalized Estimating
Equations
Diff between aftgee versions 0.4-3 dated 2014-04-13 and 1.0-0 dated 2014-11-13
Description: This package features both rank-based estimates and least
square estimates to the Accelerated Failure Time (AFT) model.
For rank-based estimation, it provides approaches that include
the computationally efficient Gehan's weight and the general's
weight such as the logrank weight.
For the least square estimation, the estimating equation is
solved with Generalized Estimating Equations (GEE).
Moreover, in multivariate cases, the dependence working
correlation structure can be specified in GEE's setting.
Author: Sy Han (Steven) Chiou, Sangwook Kang, Jun Yan
Maintainer: Sy Han (Steven) Chiou
ChangeLog | 48 ++-------------------------------------------
DESCRIPTION | 10 ++++-----
MD5 | 15 +++++++-------
NAMESPACE | 2 -
inst |only
man/aftgee-package.Rd | 53 ++++++++++++++++++++++++++++++++++----------------
man/aftgee.Rd | 19 ++++++++---------
man/aftsrr.Rd | 37 +++++++++++++++++++++++-----------
src/aftgee.c | 8 +++----
9 files changed, 92 insertions(+), 100 deletions(-)