Title: R binder for the Yhat API
Diff between yhatr versions 0.10.0 dated 2014-06-09 and 0.11.0 dated 2014-06-25
Description: yhatr lets you deploy, maintain, and invoke models via the Yhat
REST API.
Author: Greg Lamp
Maintainer: Greg Lamp
DESCRIPTION | 6 ++--
MD5 | 10 ++++--
NAMESPACE | 1
NEWS | 8 +++++
R/yhatR.R | 63 +++++++++++++++++++++++++++++++++++++++++++-
man/capture.src.Rd |only
man/yhat.deploy.with.scp.Rd |only
7 files changed, 80 insertions(+), 8 deletions(-)
Title: Obtain and Analyze Rainfall Data from the Climate Prediction
Center
Diff between raincpc versions 0.1 dated 2013-11-26 and 0.2 dated 2014-06-25
Description: The Climate Prediction Center's (CPC) global rainfall data, 1979
to present, 0.5 degree (or 50 km) resolution, is one of the few high
quality, long term, observation based, daily rainfall products available
for free. Although raw data is available at CPC's ftp site, obtaining,
processing and visualizing the data is not easy since there are over
12000 files and formats and names of these files have changed over time.
This package provides functionality to download, process and visualize over
35 years of global daily rainfall data from CPC. The vignette demonstrates
the use of this package, including the extraction and display of regional
rainfall data.
Author: Gopi Goteti
Maintainer: Gopi Goteti
DESCRIPTION | 37 ++++++++++--------
LICENSE |only
MD5 | 22 +++++++----
NAMESPACE | 1
NEWS | 31 +++++++++++----
R/cpc_get_rawdata.r | 53 ++++++++++++++++----------
R/cpc_read_rawdata.r | 95 +++++++++++++++++++++++++-----------------------
R/raincpc-package.r |only
build |only
inst |only
man/cpc_get_rawdata.Rd | 33 ++++++++--------
man/cpc_read_rawdata.Rd | 46 +++++++++--------------
man/raincpc.Rd |only
vignettes |only
14 files changed, 176 insertions(+), 142 deletions(-)
Title: Pedigree-based mixed-effects models
Diff between pedigreemm versions 0.3-1 dated 2013-10-02 and 0.3-3 dated 2014-06-25
Description: Fit pedigree-based mixed-effects models.
Author: Douglas Bates and Ana Ines Vazquez,
Maintainer: Ana Ines Vazquez
DESCRIPTION | 18 ++++++------------
MD5 | 16 ++++++++--------
R/AllClass.R | 12 ++++++++++--
R/pedigree.R | 49 ++++++++++++++++++++++++++++++++++++-------------
data/mastitis.rda |binary
data/milk.rda |binary
data/pedCows.rda |binary
data/pedCowsR.rda |binary
data/pedSires.rda |binary
9 files changed, 60 insertions(+), 35 deletions(-)
Title: Study Design and Data Analysis in the presence of error-prone
diagnostic tests and self-reported outcomes
Diff between icensmis versions 1.1 dated 2013-11-02 and 1.2 dated 2014-06-25
Description: We consider studies in which information from error-prone
diagnostic tests or self-reports are gathered sequentially to determine the
occurrence of a silent event. Using a likelihood-based approach
incorporating the proportional hazards assumption, we provide functions to
estimate the survival distribution and covariate effects. We also provide
functions for power and sample size calculations for this setting.
Author: Xiangdong Gu and Raji Balasubramanian
Maintainer: Xiangdong Gu
icensmis-1.1/icensmis/man/icensmis-package.Rd |only
icensmis-1.2/icensmis/DESCRIPTION | 19 -
icensmis-1.2/icensmis/MD5 | 34 +-
icensmis-1.2/icensmis/NAMESPACE | 10
icensmis-1.2/icensmis/R/HighDimCR.R |only
icensmis-1.2/icensmis/R/RcppExports.R |only
icensmis-1.2/icensmis/R/datasim.R | 286 ++++++++++++++-----
icensmis-1.2/icensmis/R/icmis.R | 389 +++++++++++++++++---------
icensmis-1.2/icensmis/R/icpower.R | 175 +++++++----
icensmis-1.2/icensmis/R/icpower.val.R | 51 +++
icensmis-1.2/icensmis/R/icpowerpf.R | 44 ++
icensmis-1.2/icensmis/man/datasim.Rd | 163 ++++++----
icensmis-1.2/icensmis/man/icmis.Rd | 164 ++++++----
icensmis-1.2/icensmis/man/icpower.Rd | 164 +++++-----
icensmis-1.2/icensmis/man/icpower.val.Rd | 113 +++----
icensmis-1.2/icensmis/man/icpowerpf.Rd | 82 ++---
icensmis-1.2/icensmis/src |only
17 files changed, 1112 insertions(+), 582 deletions(-)
Title: dgmb Simulating data for PLS structural models
Diff between dgmb versions 1.0 dated 2012-04-16 and 1.1 dated 2014-06-25
Description: Random data generation for PLS structural models.
Author: Alba Martinez-Ruiz
Maintainer: Claudia Martinez-Araneda
DESCRIPTION | 19
MD5 | 24
NAMESPACE | 1
R/ToProcess.R | 2
R/ViewHelp.R | 2
R/dgmbGui.R | 12
inst/docs/dgmb-manual.pdf | 5720 +++++++++++++++++++++++-----------------------
man/IntPar.Rd | 10
man/ToProcess.Rd | 34
man/ViewHelp.Rd | 3
man/ViewParameters.Rd | 57
man/dgmb-package.Rd | 13
man/dgmbGui.Rd | 2
13 files changed, 3016 insertions(+), 2883 deletions(-)
Title: General Solvers for Initial Value Problems of Ordinary
Differential Equations (ODE), Partial Differential Equations
(PDE), Differential Algebraic Equations (DAE), and Delay
Differential Equations (DDE)
Diff between deSolve versions 1.10-8 dated 2013-09-18 and 1.10-9 dated 2014-06-25
Description: Functions that solve initial value problems of a system
of first-order ordinary differential equations (ODE), of
partial differential equations (PDE), of differential
algebraic equations (DAE), and of delay differential
equations. The functions provide an interface to the FORTRAN
functions lsoda, lsodar, lsode, lsodes of the ODEPACK
collection, to the FORTRAN functions dvode and daspk and a
C-implementation of solvers of the Runge-Kutta family with
fixed or variable time steps. The package contains routines
designed for solving ODEs resulting from 1-D, 2-D and 3-D
partial differential equations (PDE) that have been converted
to ODEs by numerical differencing.
Author: Karline Soetaert [aut],
Thomas Petzoldt [aut, cre],
R. Woodrow Setzer [aut],
odepack authors [cph]
Maintainer: Thomas Petzoldt
deSolve-1.10-8/deSolve/inst/doc/examples/dynload |only
deSolve-1.10-8/deSolve/inst/doc/examples/dynload-dede |only
deSolve-1.10-9/deSolve/DESCRIPTION | 25 +--
deSolve-1.10-9/deSolve/MD5 | 107 ++++++++------
deSolve-1.10-9/deSolve/NEWS | 6
deSolve-1.10-9/deSolve/R/Utilities.R | 5
deSolve-1.10-9/deSolve/R/checkevents.R | 4
deSolve-1.10-9/deSolve/build/vignette.rds |binary
deSolve-1.10-9/deSolve/data/ccl4data.rda |binary
deSolve-1.10-9/deSolve/inst/doc/compiledCode.R |only
deSolve-1.10-9/deSolve/inst/doc/compiledCode.Rnw |only
deSolve-1.10-9/deSolve/inst/doc/compiledCode.pdf |binary
deSolve-1.10-9/deSolve/inst/doc/deSolve.R |only
deSolve-1.10-9/deSolve/inst/doc/deSolve.Rnw |only
deSolve-1.10-9/deSolve/inst/doc/deSolve.pdf |binary
deSolve-1.10-9/deSolve/inst/doc/dynload |only
deSolve-1.10-9/deSolve/inst/doc/dynload-dede |only
deSolve-1.10-9/deSolve/inst/doc/examples/Arenstorf.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Daphnia_event.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Nand.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Pollution.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Schelde_DSA.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Schelde_FKA.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Schelde_FNA.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Schelde_OSA.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/Schelde_pars.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/ballode.R |only
deSolve-1.10-9/deSolve/inst/doc/examples/examples_paper.R |only
deSolve-1.10-9/deSolve/man/deSolve.Rd | 101 ++++++-------
deSolve-1.10-9/deSolve/src/lags.c | 6
30 files changed, 143 insertions(+), 111 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-06-24 0.89.5
Title: Permutations and Mallows distributions
Diff between PerMallows versions 1.0 dated 2014-06-23 and 1.1 dated 2014-06-25
Description: This package includes functions to work with the Mallows, Generalized Mallows and Weighted Mallows models. The considered distances are Kendall's $\tau$, Cayley, Hamming and Ulam and it includes functions for making inference, sampling and learning such distributions, some of which are novel in the literature. As a by-product, PerMallows also includes operations for permutations, paying special attention in those related with the Kendall's-$\tau$, Cayley, Ulam and Hamming distances and the random generation of permutations.
Author: Ekhine Irurozki
Maintainer: Ekhine Irurozki
DESCRIPTION | 6 +++---
MD5 | 14 +++++++-------
NAMESPACE | 2 ++
R/PerMallows.R | 6 +++---
src/Cayley.h | 2 +-
src/Generic.cpp | 1 +
src/Lap.h | 1 +
src/Newton_raphson.cpp | 8 ++++----
8 files changed, 22 insertions(+), 18 deletions(-)
Title: Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R
Diff between MBmca versions 0.0.3-2 dated 2014-04-25 and 0.0.3-3 dated 2014-06-25
Description: The MBmca package provides data sets and lightweight utilities for nucleic acid melting curve analysis and presentation on microbead surfaces.
Author: Stefan Roediger
Maintainer: Stefan Roediger
CHANGELOG | 27 ++-
DESCRIPTION | 10 -
MD5 | 26 +--
R/MFIerror.R | 112 +++++++++-----
R/diffQ.R | 390 ++++++++++++++++++++++++++++-----------------------
R/diffQ2.R | 164 +++++++++++----------
R/mcaPeaks.R | 97 ++++++------
R/mcaSmoother.R | 165 ++++++++++-----------
man/MBmca-package.Rd | 6
man/MFIerror.Rd | 10 -
man/diffQ.Rd | 45 ++++-
man/diffQ2.Rd | 26 ++-
man/mcaPeaks.Rd | 2
man/mcaSmoother.Rd | 36 +++-
14 files changed, 641 insertions(+), 475 deletions(-)
Title: An R package for changepoint analysis
Diff between changepoint versions 1.1.3 dated 2014-06-13 and 1.1.5 dated 2014-06-25
Description: Implements various mainstream and specialised changepoint methods for finding single and multiple changepoints within data. Many popular non-parametric and frequentist methods are included. The cpt.mean, cpt.var, cpt.meanvar functions should be your first point of call.
Author: Rebecca Killick [aut, cre],
Idris Eckley [aut],
Kaylea Haynes [aut],
Paul Fearnhead [ctb]
Maintainer: Rebecca Killick
DESCRIPTION | 12 ++++++------
MD5 | 8 ++++----
NEWS | 6 ++++++
inst/CITATION | 4 ++--
man/changepoint-package.Rd | 4 ++--
5 files changed, 20 insertions(+), 14 deletions(-)
Title: R interface to many species occurrence data sources
Diff between spocc versions 0.1.2 dated 2014-05-02 and 0.1.4 dated 2014-06-25
Description: A programmatic interface to many species occurrence data sources,
including GBIF, USGS's BISON, iNaturalist, Berkeley Ecoinformatics Engine
eBird, AntWeb, and more as they sources become easily available.
Author: Scott Chamberlain [aut, cre],
Karthik Ram [aut],
Ted Hart [aut]
Maintainer: Scott Chamberlain
spocc-0.1.2/spocc/tests/testthat.R |only
spocc-0.1.4/spocc/DESCRIPTION | 9
spocc-0.1.4/spocc/MD5 | 73 ++---
spocc-0.1.4/spocc/NAMESPACE | 2
spocc-0.1.4/spocc/NEWS | 10
spocc-0.1.4/spocc/R/handle_sp.R |only
spocc-0.1.4/spocc/R/occ.r | 272 ++++++++++++++++------
spocc-0.1.4/spocc/man/basemaps.Rd | 2
spocc-0.1.4/spocc/man/bbox2wkt.Rd | 2
spocc-0.1.4/spocc/man/clean_spocc.Rd | 2
spocc-0.1.4/spocc/man/fixnames.Rd | 2
spocc-0.1.4/spocc/man/get_colors.Rd | 2
spocc-0.1.4/spocc/man/get_palette.Rd | 2
spocc-0.1.4/spocc/man/handle_sp.Rd |only
spocc-0.1.4/spocc/man/mapggplot.Rd | 2
spocc-0.1.4/spocc/man/mapgist.Rd | 2
spocc-0.1.4/spocc/man/mapleaflet.Rd | 2
spocc-0.1.4/spocc/man/occ.Rd | 49 +++
spocc-0.1.4/spocc/man/occ2df.Rd | 2
spocc-0.1.4/spocc/man/occ2sp.Rd | 2
spocc-0.1.4/spocc/man/occ_options.Rd | 2
spocc-0.1.4/spocc/man/occ_to_sp.Rd | 2
spocc-0.1.4/spocc/man/occdat.Rd | 2
spocc-0.1.4/spocc/man/palettes.Rd | 2
spocc-0.1.4/spocc/man/spocc_blanktheme.Rd | 2
spocc-0.1.4/spocc/man/spocc_capwords.Rd | 2
spocc-0.1.4/spocc/man/spocc_colClasses.Rd | 2
spocc-0.1.4/spocc/man/spocc_commas_to_periods.Rd | 2
spocc-0.1.4/spocc/man/spocc_create_gist.Rd | 2
spocc-0.1.4/spocc/man/spocc_gbifxmlToDataFrame.Rd | 2
spocc-0.1.4/spocc/man/spocc_get_credentials.Rd | 2
spocc-0.1.4/spocc/man/spocc_gist.Rd | 2
spocc-0.1.4/spocc/man/spocc_parseresults.Rd | 2
spocc-0.1.4/spocc/man/spocc_rcharts_togeojson.Rd | 2
spocc-0.1.4/spocc/man/spocc_stylegeojson.Rd | 2
spocc-0.1.4/spocc/man/spocc_togeojson.Rd | 2
spocc-0.1.4/spocc/man/wkt_vis.Rd | 2
spocc-0.1.4/spocc/tests/testthat/test-ggmap.R | 4
spocc-0.1.4/spocc/tests/testthat/test-occ.R | 76 +++---
39 files changed, 371 insertions(+), 180 deletions(-)
Title: Antitrust Library
Diff between antitrust versions 0.93 dated 2014-03-07 and 0.94 dated 2014-06-25
Description: A collection of tools for antitrust practitioners, including the ability to calibrate different consumer demand systems and simulate the effects mergers under different competitive regimes.
Author: Charles Taragin and Michael Sandfort
Maintainer: Charles Taragin
antitrust-0.93/antitrust/vignettes/antitrust-concordance.tex |only
antitrust-0.93/antitrust/vignettes/antitrust.tex |only
antitrust-0.94/antitrust/DESCRIPTION | 8
antitrust-0.94/antitrust/MD5 | 35 +-
antitrust-0.94/antitrust/R/Bertrand.R | 52 +--
antitrust-0.94/antitrust/R/aids.R | 81 ++++-
antitrust-0.94/antitrust/R/linear.R | 93 ++++--
antitrust-0.94/antitrust/R/logitALM.R | 8
antitrust-0.94/antitrust/R/loglin.R | 2
antitrust-0.94/antitrust/R/pcaids.R | 58 +++-
antitrust-0.94/antitrust/R/pcaidsNests.R | 2
antitrust-0.94/antitrust/R/upp.R | 29 --
antitrust-0.94/antitrust/inst/doc/manual.Rnw | 154 ++++-------
antitrust-0.94/antitrust/inst/doc/manual.pdf |binary
antitrust-0.94/antitrust/man/antitrust-package.Rd | 4
antitrust-0.94/antitrust/man/cmcr.bertrand.Rd | 3
antitrust-0.94/antitrust/man/linear.Rd | 19 -
antitrust-0.94/antitrust/man/other-methods.Rd | 6
antitrust-0.94/antitrust/vignettes/manual.Rnw | 154 ++++-------
antitrust-0.94/antitrust/vignettes/manual.idx |only
20 files changed, 363 insertions(+), 345 deletions(-)
Title: Inference, aggregation and visualization for top-k ranked lists
Diff between TopKLists versions 1.0.1 dated 2014-05-02 and 1.0.2 dated 2014-06-25
Description: For multiple ranked input lists (full or partial) representing the same set of N objects, the package TopKLists offers (1) statistical inference on the lengths of informative top-k lists, (2) stochastic aggregation of full or partial lists, and (3) graphical tools for the statistical exploration of input lists, and for the visualization of aggregation results.
Author: Michael G. Schimek, Medical University of Graz, Graz, Austria; Eva Budinska, Masaryk University, Brno, Czech Republic; Jie Ding, Harvard University, Cambridge, Massachusetts, USA; Karl G. Kugler, Helmholtz Centre Munich, Neuherberg, Germany; Vendula Svendova, Medical University of Graz, Graz, Austria; Shili Lin, The Ohio State University, Columbus, Ohio, USA.
Maintainer: Michael G. Schimek
DESCRIPTION | 13 +---
MD5 | 29 ++++-----
NEWS |only
R/TopKGraphics.R | 2
R/TopKInference.R | 8 +-
data/TopKGUISampleInput.rda |binary
data/TopKSpaceSampleInput.rda |binary
data/breast.rda |binary
inst/doc/TopKLists.R | 94 +++++++++---------------------
inst/doc/TopKLists.Rnw | 2
inst/doc/TopKLists.pdf |binary
man/TopKListsGUI.Rd | 2
vignettes/TopKLists.Rnw | 2
vignettes/TopKListsGUI-2-Results.png |binary
vignettes/TopKListsGUI-2-SummaryTable.png |binary
vignettes/TopKListsGUI-2-Venn.png |binary
16 files changed, 58 insertions(+), 94 deletions(-)
More information about SocialMediaMineR at CRAN
Permanent link
Title: Tools for nonlinear regression diagnostics
Diff between nlstools versions 0.0-15 dated 2013-09-13 and 1.0-0 dated 2014-06-25
Description: Several tools for assessing the quality of fit of a
gaussian nonlinear model are provided.
Author: Florent Baty
Maintainer: Florent Baty
nlstools-0.0-15/nlstools/R/competitionmodels.R |only
nlstools-0.0-15/nlstools/R/growthmodels.R |only
nlstools-0.0-15/nlstools/R/secondary.R |only
nlstools-0.0-15/nlstools/R/survivalmodels.R |only
nlstools-0.0-15/nlstools/build |only
nlstools-0.0-15/nlstools/data/competition1.rda |only
nlstools-0.0-15/nlstools/data/competition2.rda |only
nlstools-0.0-15/nlstools/data/growthcurve1.rda |only
nlstools-0.0-15/nlstools/data/growthcurve2.rda |only
nlstools-0.0-15/nlstools/data/growthcurve3.rda |only
nlstools-0.0-15/nlstools/data/growthcurve4.rda |only
nlstools-0.0-15/nlstools/data/ross.rda |only
nlstools-0.0-15/nlstools/data/survivalcurve1.rda |only
nlstools-0.0-15/nlstools/data/survivalcurve2.rda |only
nlstools-0.0-15/nlstools/data/survivalcurve3.rda |only
nlstools-0.0-15/nlstools/inst/doc |only
nlstools-0.0-15/nlstools/man/competitioncurve.Rd |only
nlstools-0.0-15/nlstools/man/competitionmodels.Rd |only
nlstools-0.0-15/nlstools/man/growthcurve.Rd |only
nlstools-0.0-15/nlstools/man/growthmodels.Rd |only
nlstools-0.0-15/nlstools/man/ross.Rd |only
nlstools-0.0-15/nlstools/man/secondary.Rd |only
nlstools-0.0-15/nlstools/man/survivalcurve.Rd |only
nlstools-0.0-15/nlstools/man/survivalmodels.Rd |only
nlstools-0.0-15/nlstools/vignettes |only
nlstools-1.0-0/nlstools/ChangeLog | 4
nlstools-1.0-0/nlstools/DESCRIPTION | 14 -
nlstools-1.0-0/nlstools/MD5 | 59 ++------
nlstools-1.0-0/nlstools/NAMESPACE | 160 ++++++++++++----------
nlstools-1.0-0/nlstools/R/nlsBoot.R | 20 +-
nlstools-1.0-0/nlstools/R/nlsContourRSS.R | 6
nlstools-1.0-0/nlstools/R/nlsJack.R | 12 -
nlstools-1.0-0/nlstools/R/nlstools.R | 2
nlstools-1.0-0/nlstools/R/onAttach.R |only
nlstools-1.0-0/nlstools/inst/CITATION | 24 +--
nlstools-1.0-0/nlstools/inst/NEWS | 146 ++++++++++----------
nlstools-1.0-0/nlstools/man/nlsBoot.Rd | 141 +++++++++----------
nlstools-1.0-0/nlstools/man/nlsConfRegions.Rd | 136 +++++++++---------
nlstools-1.0-0/nlstools/man/nlsContourRSS.Rd | 12 -
nlstools-1.0-0/nlstools/man/nlsJack.Rd | 24 +--
nlstools-1.0-0/nlstools/man/nlsResiduals.Rd | 18 +-
nlstools-1.0-0/nlstools/man/nlstools-defunct.Rd |only
nlstools-1.0-0/nlstools/man/nlstools.Rd | 22 +--
43 files changed, 415 insertions(+), 385 deletions(-)
Title: Applied Latent Semantic Analysis (LSA) functions
Diff between LSAfun versions 0.2 dated 2014-04-30 and 0.3 dated 2014-06-25
Description: This package provides functions that allow for convenient working
with Latent Semantic Analysis. For actually building an LSA space, use the
package 'lsa'.
Author: Fritz Guenther [aut, cre]
Maintainer: Fritz Guenther
ChangeLog |only
DESCRIPTION | 6 +++---
MD5 | 13 ++++++++-----
NAMESPACE | 1 +
R/breakdown.r | 11 ++++++++---
R/plot_neighbours.r | 37 +++++++++++++++++++++++++++++++------
R/plot_wordlist.r |only
man/plot_neighbours.Rd | 31 +++++++++++++++++--------------
man/plot_wordlist.Rd |only
9 files changed, 68 insertions(+), 31 deletions(-)
Title: Integration of R, Java, and Scala
Diff between jvmr versions 1.0.4 dated 2013-07-16 and 2.11.1.1 dated 2014-06-25
Description: Cross-platform, self-contained, and bi-directional interface between R and Scala, Java, and other JVM-based languages.
Author: David B. Dahl
Maintainer: David B. Dahl
jvmr-1.0.4/jvmr/inst/COPYRIGHTS |only
jvmr-2.11.1.1/jvmr/DESCRIPTION | 10 -
jvmr-2.11.1.1/jvmr/LICENSE |only
jvmr-2.11.1.1/jvmr/MD5 | 19 +-
jvmr-2.11.1.1/jvmr/NEWS | 6
jvmr-2.11.1.1/jvmr/R/main.R | 72 ++++++----
jvmr-2.11.1.1/jvmr/R/version.R | 2
jvmr-2.11.1.1/jvmr/inst/COPYRIGHT |only
jvmr-2.11.1.1/jvmr/inst/srcjvmr/scala/org/ddahl/jvmr/Package.scala | 2
jvmr-2.11.1.1/jvmr/inst/srcjvmr/scala/org/ddahl/jvmr/RInScala.scala | 32 ++--
jvmr-2.11.1.1/jvmr/inst/srcjvmr/scala/org/ddahl/jvmr/impl/RScalaInterpreter.scala | 19 --
jvmr-2.11.1.1/jvmr/man/interpret.rd | 3
12 files changed, 94 insertions(+), 71 deletions(-)
Title: Bayesian spatial survival analysis with parametric proportional
hazards models.
Diff between spatsurv versions 0.9-3 dated 2014-06-16 and 0.9-5 dated 2014-06-25
Description: Survival analysis with parametric proportional hazards models where
the events have been geo-located.
Author: Benjamin M. Taylor and Barry S. Rowlingson
Maintainer: Benjamin M. Taylor
spatsurv-0.9-3/spatsurv/man/basehaz.exp.Rd |only
spatsurv-0.9-3/spatsurv/man/basehaz.weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/density_exp.Rd |only
spatsurv-0.9-3/spatsurv/man/density_weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/densityquantile_exp.Rd |only
spatsurv-0.9-3/spatsurv/man/densityquantile_weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/estimateY.exp.Rd |only
spatsurv-0.9-3/spatsurv/man/estimateY.weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/hazard_exp.Rd |only
spatsurv-0.9-3/spatsurv/man/hazard_weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/logposterior.exp.Rd |only
spatsurv-0.9-3/spatsurv/man/logposterior.exp.gridded.Rd |only
spatsurv-0.9-3/spatsurv/man/logposterior.gamma.Rd |only
spatsurv-0.9-3/spatsurv/man/logposterior.weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/logposterior.weibull.gridded.Rd |only
spatsurv-0.9-3/spatsurv/man/proposalvariance.exp.Rd |only
spatsurv-0.9-3/spatsurv/man/proposalvariance.exp.gridded.Rd |only
spatsurv-0.9-3/spatsurv/man/proposalvariance.weibull.Rd |only
spatsurv-0.9-3/spatsurv/man/proposalvariance.weibull.gridded.Rd |only
spatsurv-0.9-3/spatsurv/man/survival_exp.Rd |only
spatsurv-0.9-3/spatsurv/man/survival_weibull.Rd |only
spatsurv-0.9-5/spatsurv/DESCRIPTION | 6
spatsurv-0.9-5/spatsurv/MD5 | 217 +++--
spatsurv-0.9-5/spatsurv/NAMESPACE | 47 -
spatsurv-0.9-5/spatsurv/NEWS | 10
spatsurv-0.9-5/spatsurv/R/calibratemcmc.R | 304 ++++++--
spatsurv-0.9-5/spatsurv/R/exponential.R | 358 +++------
spatsurv-0.9-5/spatsurv/R/likelihoodsPosteriorsPriors.R | 283 -------
spatsurv-0.9-5/spatsurv/R/loglikelihoods_and_derivatives.R |only
spatsurv-0.9-5/spatsurv/R/loglikelihoods_and_derivatives_gridded.R |only
spatsurv-0.9-5/spatsurv/R/postprocessing.R | 228 +-----
spatsurv-0.9-5/spatsurv/R/spatsurvMisc.R | 51 +
spatsurv-0.9-5/spatsurv/R/survspat.R | 71 +
spatsurv-0.9-5/spatsurv/R/weibull.R | 368 +++-------
spatsurv-0.9-5/spatsurv/man/EvalCov.Rd | 7
spatsurv-0.9-5/spatsurv/man/ExponentialCovFct.Rd | 4
spatsurv-0.9-5/spatsurv/man/FFTgrid.Rd | 13
spatsurv-0.9-5/spatsurv/man/GammafromY.Rd | 11
spatsurv-0.9-5/spatsurv/man/QuadApprox.Rd | 22
spatsurv-0.9-5/spatsurv/man/SpikedExponentialCovFct.Rd | 5
spatsurv-0.9-5/spatsurv/man/YfromGamma.Rd | 11
spatsurv-0.9-5/spatsurv/man/basehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/basehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/baselinehazard.Rd | 11
spatsurv-0.9-5/spatsurv/man/betapriorGauss.Rd | 7
spatsurv-0.9-5/spatsurv/man/checkSurvivalData.Rd | 11
spatsurv-0.9-5/spatsurv/man/circulant.Rd | 5
spatsurv-0.9-5/spatsurv/man/circulant.matrix.Rd | 14
spatsurv-0.9-5/spatsurv/man/circulant.numeric.Rd | 5
spatsurv-0.9-5/spatsurv/man/circulantij.Rd | 9
spatsurv-0.9-5/spatsurv/man/covmodel.Rd | 11
spatsurv-0.9-5/spatsurv/man/cumbasehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/cumbasehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/density_PP.Rd |only
spatsurv-0.9-5/spatsurv/man/densityquantile.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/densityquantile.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/densityquantile_PP.Rd |only
spatsurv-0.9-5/spatsurv/man/derivlogindepGaussianprior.Rd | 14
spatsurv-0.9-5/spatsurv/man/estimateY.Rd |only
spatsurv-0.9-5/spatsurv/man/etapriorGauss.Rd | 7
spatsurv-0.9-5/spatsurv/man/exp_ltar.Rd | 16
spatsurv-0.9-5/spatsurv/man/fixedpars.Rd | 6
spatsurv-0.9-5/spatsurv/man/fixmatrix.Rd | 3
spatsurv-0.9-5/spatsurv/man/frailtylag1.Rd | 12
spatsurv-0.9-5/spatsurv/man/gensens.Rd | 15
spatsurv-0.9-5/spatsurv/man/getcov.Rd | 14
spatsurv-0.9-5/spatsurv/man/getleneta.Rd | 3
spatsurv-0.9-5/spatsurv/man/getomegatrans.Rd | 9
spatsurv-0.9-5/spatsurv/man/getparranges.Rd | 7
spatsurv-0.9-5/spatsurv/man/getsurvdata.Rd | 6
spatsurv-0.9-5/spatsurv/man/gradbasehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/gradbasehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/gradcumbasehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/gradcumbasehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/grid2spdf.Rd | 11
spatsurv-0.9-5/spatsurv/man/grid2spix.Rd | 11
spatsurv-0.9-5/spatsurv/man/grid2spts.Rd | 11
spatsurv-0.9-5/spatsurv/man/gridY.Rd | 5
spatsurv-0.9-5/spatsurv/man/hasNext.Rd | 3
spatsurv-0.9-5/spatsurv/man/hasNext.iter.Rd | 7
spatsurv-0.9-5/spatsurv/man/hazard_PP.Rd |only
spatsurv-0.9-5/spatsurv/man/hazardpars.Rd | 6
spatsurv-0.9-5/spatsurv/man/hessbasehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/hessbasehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/hesscumbasehazard.exp.Rd |only
spatsurv-0.9-5/spatsurv/man/hesscumbasehazard.weibull.Rd |only
spatsurv-0.9-5/spatsurv/man/inference.control.Rd | 11
spatsurv-0.9-5/spatsurv/man/invtransformestimates.exp.Rd | 10
spatsurv-0.9-5/spatsurv/man/invtransformestimates.weibull.Rd | 11
spatsurv-0.9-5/spatsurv/man/is.burnin.Rd | 6
spatsurv-0.9-5/spatsurv/man/is.retain.Rd | 3
spatsurv-0.9-5/spatsurv/man/iteration.Rd | 6
spatsurv-0.9-5/spatsurv/man/labelomegamatrix.Rd | 5
spatsurv-0.9-5/spatsurv/man/logPosterior.Rd |only
spatsurv-0.9-5/spatsurv/man/logPosterior_gridded.Rd |only
spatsurv-0.9-5/spatsurv/man/logindepGaussianprior.Rd | 16
spatsurv-0.9-5/spatsurv/man/logindepnormalprior.Rd | 18
spatsurv-0.9-5/spatsurv/man/logposterior_exponential_nospat.Rd | 21
spatsurv-0.9-5/spatsurv/man/loop.mcmc.Rd | 5
spatsurv-0.9-5/spatsurv/man/mcmcLoop.Rd | 13
spatsurv-0.9-5/spatsurv/man/mcmcPriors.Rd | 15
spatsurv-0.9-5/spatsurv/man/mcmcProgressNone.Rd | 3
spatsurv-0.9-5/spatsurv/man/mcmcProgressPrint.Rd | 3
spatsurv-0.9-5/spatsurv/man/mcmcProgressTextBar.Rd | 3
spatsurv-0.9-5/spatsurv/man/mcmcpars.Rd | 15
spatsurv-0.9-5/spatsurv/man/nextStep.Rd | 3
spatsurv-0.9-5/spatsurv/man/omegapriorGauss.Rd | 7
spatsurv-0.9-5/spatsurv/man/plotsurv.Rd | 39 -
spatsurv-0.9-5/spatsurv/man/posteriorcov.Rd | 21
spatsurv-0.9-5/spatsurv/man/predict.mcmcspatsurv.Rd | 18
spatsurv-0.9-5/spatsurv/man/print.mcmc.Rd | 8
spatsurv-0.9-5/spatsurv/man/print.mcmcspatsurv.Rd | 11
spatsurv-0.9-5/spatsurv/man/proposalVariance.Rd |only
spatsurv-0.9-5/spatsurv/man/proposalVariance_gridded.Rd |only
spatsurv-0.9-5/spatsurv/man/proposalvariance_exponential_nospat.Rd | 24
spatsurv-0.9-5/spatsurv/man/quantile.mcmcspatsurv.Rd | 10
spatsurv-0.9-5/spatsurv/man/randompars.Rd | 6
spatsurv-0.9-5/spatsurv/man/resetLoop.Rd | 3
spatsurv-0.9-5/spatsurv/man/setTxtProgressBar2.Rd | 12
spatsurv-0.9-5/spatsurv/man/setupHazard.Rd |only
spatsurv-0.9-5/spatsurv/man/simsurv.Rd | 40 -
spatsurv-0.9-5/spatsurv/man/spatialpars.Rd | 6
spatsurv-0.9-5/spatsurv/man/spatsurv-package.Rd | 29
spatsurv-0.9-5/spatsurv/man/summary.mcmc.Rd | 11
spatsurv-0.9-5/spatsurv/man/summary.mcmcspatsurv.Rd | 7
spatsurv-0.9-5/spatsurv/man/surv3d.Rd | 30
spatsurv-0.9-5/spatsurv/man/survexpon.Rd | 19
spatsurv-0.9-5/spatsurv/man/survival_PP.Rd |only
spatsurv-0.9-5/spatsurv/man/survspat.Rd | 22
spatsurv-0.9-5/spatsurv/man/transformestimates.exp.Rd | 10
spatsurv-0.9-5/spatsurv/man/transformestimates.weibull.Rd | 11
spatsurv-0.9-5/spatsurv/man/txtProgressBar2.Rd | 23
spatsurv-0.9-5/spatsurv/man/weibull_ltar.Rd | 17
133 files changed, 1171 insertions(+), 1635 deletions(-)
Title: The Rebmix Package
Diff between rebmix versions 2.5.1 dated 2013-10-12 and 2.6.0 dated 2014-06-25
Description: R functions for random univariate and multivariate finite mixture generation, number of components, component weights and component parameters estimation, printing and plotting of finite mixtures, bootstrapping and class membership prediction. Variables can be either continuous or discrete, may follow normal, lognormal, Weibull, gamma, binomial, Poisson or Dirac parametric families and should be independent within components.
Author: Marko Nagode [aut, cre]
Maintainer: Marko Nagode
DESCRIPTION | 15
MD5 | 70
R/REBMIX.R | 27
R/RNGMIX.R | 2
R/boot.R | 1
R/plot.REBMIX.R | 14
R/predict.list.R | 2
build/vignette.rds |binary
data/adult.rda |binary
data/galaxy.rda |binary
data/weibull.rda |binary
data/wine.rda |binary
inst/NEWS.Rd | 92 -
inst/doc/rebmix.R | 12
inst/doc/rebmix.Rnw | 108 -
inst/doc/rebmix.pdf |binary
man/REBMIX.Rd | 18
man/boot.Rd | 1
man/coef.REBMIX.Rd | 3
man/dfmix.Rd | 3
man/pfmix.Rd | 3
man/plot.REBMIX.Rd | 2
man/predict.list.Rd | 3
man/print.REBMIX.Rd | 3
man/print.RNGMIX.Rd | 3
man/print.boot.REBMIX.Rd | 3
man/summary.REBMIX.Rd | 3
man/summary.boot.REBMIX.Rd | 3
src/Rrebmix.c | 1896 +++++++++++++-------------
src/rebmix.c | 2
src/rebmixf.c | 3200 +++++++++++++++++----------------------------
src/rebmixf.h | 80 -
src/rngmixf.c | 213 +-
src/rngmixf.h | 8
vignettes/rebmix.Rnw | 108 -
vignettes/rebmix.bib | 4
36 files changed, 2584 insertions(+), 3318 deletions(-)
Title: Toolkit of helper functions to pre-process amplification data
Diff between chipPCR versions 0.0.6 dated 2014-04-24 and 0.0.7 dated 2014-06-25
Description: The chipPCR package is a toolkit of functions to preprocess amplification curve data. Amplification data can be obtained from conventional PCR reactions or isothermal amplification reactions. The package contains functions to normalize and baseline amplification curves, a routine to detect the start of an amplification reaction, several smoothers for amplification data, a function to distinguish positive and negative amplification reactions and a function to determine the amplification efficiency. The smoothers are based on LOWESS, moving average, cubic splines, Savitzky-Golay and others. In addition the first approximate approximate derivative maximum (FDM) and second approximate derivative maximum (SDM) can be calculated by a 5-point-stencil as quantification points from real-time amplification curves. chipPCR contains data sets of experimental nucleic acid amplification systems including the VideoScan HCU and a capillary convective PCR (ccPCR) system. The amplification data were generated by helicase dependent amplification (HDA) or polymerase chain reaction (PCR) under various temperature conditions. As detection system intercalating dyes (EvaGreen, SYBR Green) and hydrolysis probes (TaqMan) were used. The latest source code is available via: https://github.com/michbur/chipPCR
Author: Stefan Roediger, Michal Burdukiewicz
Maintainer: Stefan Roediger
CHANGELOG | 52 ++++++
DESCRIPTION | 14 -
MD5 | 88 +++++++----
NAMESPACE | 52 ++++--
R/AmpSim.R | 74 +++++----
R/AmpSim.gui.R |only
R/CPP.R | 246 +++++++++++++++++++++++++------
R/MFIaggr.R |only
R/amptester.R | 180 ++++++++++++++++++-----
R/bg.max.R | 175 +++++++++++++---------
R/classes.R |only
R/effcalc.R |only
R/fixNA.R | 121 ++++++++++++---
R/inder.R | 205 +++++++++++++++-----------
R/rounder.R |only
R/smoother.R | 281 +++++++++++++++++++++++++-----------
R/testxy.R |only
README |only
data/C54.rda |only
data/C60.amp.rda |only
data/C60.melt.rda |only
inst |only
man/AmpSim.Rd | 23 +-
man/AmpSim.gui.Rd |only
man/C126EG595.Rd | 14 -
man/C126EG685.Rd | 44 +++--
man/C127EGHP.Rd | 9 -
man/C17.Rd | 53 +++---
man/C54.Rd |only
man/C60.amp.Rd |only
man/C60.melt.Rd |only
man/C67.Rd | 65 ++++----
man/C85.Rd | 48 +++---
man/CD74.Rd | 15 +
man/CD75.Rd | 4
man/CPP.Rd | 343 +++++++++++++++++++++++++++++---------------
man/MFIaggr.Rd |only
man/VIMiQ5_melt.Rd | 2
man/amptest-class.Rd |only
man/amptester.Rd | 295 +++++++++++++++++++++++--------------
man/bg-class.Rd |only
man/bg.max.Rd | 374 ++++++++++++++++++++++++++++++------------------
man/capillaryPCR.Rd | 56 +++----
man/chipPCR-package.Rd | 68 +++++---
man/chipPCR.datasets.Rd |only
man/chipPCR.sp.Rd |only
man/der-class.Rd |only
man/effcalc.Rd |only
man/fixNA.Rd | 221 ++++++++++++++--------------
man/inder.Rd | 245 +++++++++++++++++--------------
man/plot-bg.Rd |only
man/plot-der.Rd |only
man/plot-refMFI.Rd |only
man/refMFI-class.Rd |only
man/rounder.Rd |only
man/smoother.Rd | 226 +++++++++++++++--------------
man/summary-bg.Rd |only
man/summary-der.Rd |only
man/summary-refMFI.Rd |only
59 files changed, 2286 insertions(+), 1307 deletions(-)
Title: Affinity Propagation Clustering
Diff between apcluster versions 1.3.3 dated 2014-02-21 and 1.3.4 dated 2014-06-25
Description: The apcluster package implements Frey's and Dueck's
Affinity Propagation clustering in R. The algorithms are
largely analogous to the Matlab code published by Frey and
Dueck. The package further provides leveraged affinity
propagation and an algorithm for exemplar-based agglomerative
clustering that can also be used to join clusters obtained
from affinity propagation. Various plotting functions are
available for analyzing clustering results.
Author: Ulrich Bodenhofer, Andreas Kothmeier, Johannes Palme
Maintainer: Ulrich Bodenhofer
DESCRIPTION | 18 ++--
MD5 | 60 +++++++-------
NAMESPACE | 9 +-
NEWS | 15 +++
R/AllGenerics.R | 1
R/aggExCluster-methods.R | 18 ++--
R/apcluster-methods.R | 26 +++---
R/apclusterDemo.R | 4
R/apclusterK-methods.R | 14 +--
R/apclusterL-methods.R | 184 ++++++++++++++++++++------------------------
R/coerce-methods.R | 8 -
R/cutree-methods.R | 18 ++--
R/heatmap-methods.R | 18 ++--
R/labels-methods.R | 4
R/plot-methods.R | 59 +++-----------
R/preferenceRange.R | 2
R/show-methods.R | 19 ++--
R/similarity.R | 9 +-
R/simpleDist.R | 4
R/sort-methods.R |only
R/sparseToFull.R | 11 +-
build/vignette.rds |binary
inst/doc/apcluster.Rnw | 31 +++++--
inst/doc/apcluster.pdf |binary
man/APResult-class.Rd | 2
man/ExClust-class.Rd | 2
man/apclusterL-methods.Rd | 11 +-
man/plot-methods.Rd | 28 ------
man/sort-methods.Rd |only
src/apclusterC.cpp | 16 +--
src/apclusterLeveragedC.cpp | 57 +++++--------
vignettes/apcluster.Rnw | 31 +++++--
32 files changed, 334 insertions(+), 345 deletions(-)
Title: Visualizing and Analyzing Mass Spectrometry Related Data in
Proteomics
Diff between protViz versions 0.1.97 dated 2014-06-19 and 0.1.98 dated 2014-06-25
Description: This R package helps with quality checks, visualizations
and analysis of mass spectrometry data, coming from proteomics
experiments. The package is developed, tested and used at the Functional
Genomics Center Zurich. We use this package mainly for prototyping,
teaching, and having fun with proteomics data. But it can also be
used to do solid data analysis for small scale data sets.
Author: Christian Panse
Maintainer: Christian Panse
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
inst/doc/PTM_MarkerFinder.pdf |binary
inst/doc/protViz.pdf |binary
inst/unitTests/test_deisotoper.R | 4 ++--
inst/unitTests/test_fragmentIon.R | 4 ++--
6 files changed, 13 insertions(+), 13 deletions(-)
Title: Utilities for Official Spanish Microdata
Diff between MicroDatosEs versions 0.6.2 dated 2014-06-24 and 0.6.2.1 dated 2014-06-25
Description: The MicroDatosEs package provides utilities for reading and processing microdata from Spanish official statistics with R
Author: Carlos J. Gil Bellosta [aut, cre],
Carlos Neira [ctb],
José Luis Cañadas Reche [ctb]
Maintainer: Carlos J. Gil Bellosta
DESCRIPTION | 6 +++---
MD5 | 8 ++++----
R/censo2010.R | 6 +++---
R/defun2011.R | 6 +++---
man/test.metadata.Rd | 2 +-
5 files changed, 14 insertions(+), 14 deletions(-)
Title: Tools for ABC analyses
Diff between abctools versions 0.2-2 dated 2013-12-18 and 0.3-2 dated 2014-06-25
Description: Tools for approximate Bayesian computation including summary statistic selection and assessing coverage
Author: Matt Nunes [aut, cre],
Dennis Prangle [aut]
Maintainer: Matt Nunes
DESCRIPTION | 8 ++++----
MD5 | 22 +++++++++++-----------
NAMESPACE | 2 +-
R/selectsumm.R | 2 +-
R/stage2.R | 6 +++---
data/Routput_test.rda |binary
data/coal.rda |binary
data/coalobs.rda |binary
man/abctools-package.Rd | 4 ++--
man/selectsumm.Rd | 2 +-
man/stage2.Rd | 5 +++--
src/abctools.c | 14 +++++++++++---
12 files changed, 37 insertions(+), 28 deletions(-)
Title: Mixed models, particularly spatial GLMMs
Diff between spaMM versions 1.1 dated 2014-01-17 and 1.2.0 dated 2014-06-25
Description: Implements a collection of functions for inference in mixed models. It was developed in particular for GLMMs with spatial correlations, but also fits models with non-Gaussian random effects (e.g., Beta Binomial, or negative-binomial mixed models). Heteroskedasticity can further be fitted by a linear model. The algorithms are currently various Laplace approximations methods for ML or REML, in particular h-likelihood and penalized-likelihood methods.
Author: François Rousset [aut, cre, cph],
Jean-Baptiste Ferdy [aut, cph]
Maintainer: François Rousset
spaMM-1.1/spaMM/R/calc.XinvS.R |only
spaMM-1.1/spaMM/R/plot.HLCor.R |only
spaMM-1.1/spaMM/R/plot.corrHLfit.R |only
spaMM-1.1/spaMM/R/predict.HL.R |only
spaMM-1.1/spaMM/R/predict.HLCor.R |only
spaMM-1.1/spaMM/R/predict.corrHLfit.R |only
spaMM-1.1/spaMM/R/print.HLCor.R |only
spaMM-1.1/spaMM/R/print.corrHLfit.R |only
spaMM-1.1/spaMM/R/simulate.HLCor.R |only
spaMM-1.1/spaMM/R/simulate.corrHLfit.R |only
spaMM-1.1/spaMM/R/summary.HLCor.R |only
spaMM-1.1/spaMM/R/summary.corrHLfit.R |only
spaMM-1.2.0/spaMM/DESCRIPTION | 22
spaMM-1.2.0/spaMM/MD5 | 209 +-
spaMM-1.2.0/spaMM/NAMESPACE | 3
spaMM-1.2.0/spaMM/R/CondNormfn.R |only
spaMM-1.2.0/spaMM/R/DEPARSE.R |only
spaMM-1.2.0/spaMM/R/HLCor.R | 236 ++-
spaMM-1.2.0/spaMM/R/HLCor.obj.R | 37
spaMM-1.2.0/spaMM/R/HL_process.args.R | 14
spaMM-1.2.0/spaMM/R/HLfit.R | 1624 ++++++++++++++--------
spaMM-1.2.0/spaMM/R/HLframes.R | 31
spaMM-1.2.0/spaMM/R/LevenbergMstep.R |only
spaMM-1.2.0/spaMM/R/LevenbergMstepCallingCpp.R |only
spaMM-1.2.0/spaMM/R/Matern.corr.R | 5
spaMM-1.2.0/spaMM/R/Matern.local.R | 5
spaMM-1.2.0/spaMM/R/Predictor.R | 32
spaMM-1.2.0/spaMM/R/QRwrap.R |only
spaMM-1.2.0/spaMM/R/RcppChol.blockDiag.R |only
spaMM-1.2.0/spaMM/R/RcppExports.R |only
spaMM-1.2.0/spaMM/R/ULI.R | 8
spaMM-1.2.0/spaMM/R/alternating.R |only
spaMM-1.2.0/spaMM/R/as.blockDiag.bar.R |only
spaMM-1.2.0/spaMM/R/as.blockDiag.formula.R |only
spaMM-1.2.0/spaMM/R/as.blockDiag.list.R |only
spaMM-1.2.0/spaMM/R/as.blockDiag.matrix.R |only
spaMM-1.2.0/spaMM/R/as.blockDiag.partition.R |only
spaMM-1.2.0/spaMM/R/as.matrix.blockDiag.R |only
spaMM-1.2.0/spaMM/R/asStandardFormula.R | 4
spaMM-1.2.0/spaMM/R/binomialize.R |only
spaMM-1.2.0/spaMM/R/calc.tXinvS.R |only
spaMM-1.2.0/spaMM/R/calcDhDv2.R |only
spaMM-1.2.0/spaMM/R/calcPredVar.R |only
spaMM-1.2.0/spaMM/R/checkDistMatrix.R |only
spaMM-1.2.0/spaMM/R/checkLink.R |only
spaMM-1.2.0/spaMM/R/checkLinkS.R |only
spaMM-1.2.0/spaMM/R/chol.blockDiag.R |only
spaMM-1.2.0/spaMM/R/compute.ZALlist.R |only
spaMM-1.2.0/spaMM/R/connectedSets.R |only
spaMM-1.2.0/spaMM/R/corrHLfit.R | 630 +++++---
spaMM-1.2.0/spaMM/R/corrMM.LRT.R | 55
spaMM-1.2.0/spaMM/R/designL.from.Corr.R | 114 +
spaMM-1.2.0/spaMM/R/dispGammaGLM.R | 13
spaMM-1.2.0/spaMM/R/elim.redundant.V.R |only
spaMM-1.2.0/spaMM/R/extract.check.coords.R |only
spaMM-1.2.0/spaMM/R/extrapolhull.R |only
spaMM-1.2.0/spaMM/R/filled.mapMM.R |only
spaMM-1.2.0/spaMM/R/findSpatial.R | 2
spaMM-1.2.0/spaMM/R/findSpatialOrNot.R | 10
spaMM-1.2.0/spaMM/R/findblocks.R |only
spaMM-1.2.0/spaMM/R/fitted.HLfitlist.R |only
spaMM-1.2.0/spaMM/R/fixedLRT.R | 4
spaMM-1.2.0/spaMM/R/getCovariate.corMatern.R | 10
spaMM-1.2.0/spaMM/R/getgroups.R |only
spaMM-1.2.0/spaMM/R/is.identity.R |only
spaMM-1.2.0/spaMM/R/is.square.diagonal.R |only
spaMM-1.2.0/spaMM/R/largeLambdaMessages.R |only
spaMM-1.2.0/spaMM/R/legend_lambda.R |only
spaMM-1.2.0/spaMM/R/locoptim.R | 66
spaMM-1.2.0/spaMM/R/locoptimthroughSmooth.R |only
spaMM-1.2.0/spaMM/R/make.scaled.dist.R | 14
spaMM-1.2.0/spaMM/R/makeCheckGeoMatrices.R |only
spaMM-1.2.0/spaMM/R/makeCovEst.R |only
spaMM-1.2.0/spaMM/R/mapMM.R |only
spaMM-1.2.0/spaMM/R/muetafn.R | 16
spaMM-1.2.0/spaMM/R/multi.R |only
spaMM-1.2.0/spaMM/R/newetaFix.R |only
spaMM-1.2.0/spaMM/R/noReForm.R |only
spaMM-1.2.0/spaMM/R/old.nextPoints.R |only
spaMM-1.2.0/spaMM/R/ordinaryKrigingCoefs.R |only
spaMM-1.2.0/spaMM/R/plot.HLfit.R | 6
spaMM-1.2.0/spaMM/R/post.process.ZALlist.R |only
spaMM-1.2.0/spaMM/R/predict.HLfit.R | 179 ++
spaMM-1.2.0/spaMM/R/preprocess.R | 622 ++++----
spaMM-1.2.0/spaMM/R/print.HLfitlist.R |only
spaMM-1.2.0/spaMM/R/rntneg.R |only
spaMM-1.2.0/spaMM/R/rntpos.R |only
spaMM-1.2.0/spaMM/R/rsimplex.R |only
spaMM-1.2.0/spaMM/R/rtnorm.copy.R |only
spaMM-1.2.0/spaMM/R/rvolTriangulation.R |only
spaMM-1.2.0/spaMM/R/safesolve.qr.matrix.R | 9
spaMM-1.2.0/spaMM/R/safesolve.qr.vector.R | 9
spaMM-1.2.0/spaMM/R/sampleGridFromLowUp.R |only
spaMM-1.2.0/spaMM/R/sampleNearby.R |only
spaMM-1.2.0/spaMM/R/sampleNextPoints.R |only
spaMM-1.2.0/spaMM/R/selectLoglfn.R | 6
spaMM-1.2.0/spaMM/R/simulate.HLfit.R | 84 -
spaMM-1.2.0/spaMM/R/simulate.HLfitlist.R |only
spaMM-1.2.0/spaMM/R/solveWrap.matrix.R |only
spaMM-1.2.0/spaMM/R/solveWrap.vector.R |only
spaMM-1.2.0/spaMM/R/spMMFactorList.R | 57
spaMM-1.2.0/spaMM/R/spMMexpandSlash.R | 2
spaMM-1.2.0/spaMM/R/spaMM-internal.R | 255 +--
spaMM-1.2.0/spaMM/R/spaMM.colors.R |only
spaMM-1.2.0/spaMM/R/spaMM.filled.contour.R |only
spaMM-1.2.0/spaMM/R/spaMMLRT.R | 74 -
spaMM-1.2.0/spaMM/R/summary.HLfit.R | 138 +
spaMM-1.2.0/spaMM/R/summary.HLfitlist.R |only
spaMM-1.2.0/spaMM/R/t.blockDiag.R |only
spaMM-1.2.0/spaMM/R/tryCatch.W.E.R |only
spaMM-1.2.0/spaMM/R/updateW_ranefS.R |only
spaMM-1.2.0/spaMM/R/updateWranef.R | 65
spaMM-1.2.0/spaMM/R/upperPoints.R |only
spaMM-1.2.0/spaMM/R/validRows.R |only
spaMM-1.2.0/spaMM/R/volTriangulation.R |only
spaMM-1.2.0/spaMM/R/z%_%.blockDiag.R |only
spaMM-1.2.0/spaMM/R/z^.blockDiag.R |only
spaMM-1.2.0/spaMM/data/Loaloa.RData |binary
spaMM-1.2.0/spaMM/data/arabidopsis.RData |binary
spaMM-1.2.0/spaMM/data/blackcap.RData |binary
spaMM-1.2.0/spaMM/data/landMask.RData |only
spaMM-1.2.0/spaMM/data/salamander.RData |only
spaMM-1.2.0/spaMM/data/scotlip.RData |binary
spaMM-1.2.0/spaMM/data/seaMask.RData |only
spaMM-1.2.0/spaMM/data/wafers.RData |binary
spaMM-1.2.0/spaMM/man/HLCor.Rd | 49
spaMM-1.2.0/spaMM/man/HLfit.Rd | 55
spaMM-1.2.0/spaMM/man/Matern.corr.Rd | 2
spaMM-1.2.0/spaMM/man/Predictor.Rd | 2
spaMM-1.2.0/spaMM/man/corMatern.Rd | 4
spaMM-1.2.0/spaMM/man/corrHLfit.Rd | 30
spaMM-1.2.0/spaMM/man/designL.from.Corr.Rd | 19
spaMM-1.2.0/spaMM/man/make.scaled.dist.Rd |only
spaMM-1.2.0/spaMM/man/mapMM.Rd |only
spaMM-1.2.0/spaMM/man/multinomial.Rd |only
spaMM-1.2.0/spaMM/man/options.Rd | 12
spaMM-1.2.0/spaMM/man/plot.HL.Rd | 7
spaMM-1.2.0/spaMM/man/predict.Rd | 48
spaMM-1.2.0/spaMM/man/salamander.Rd |only
spaMM-1.2.0/spaMM/man/seaMask.Rd |only
spaMM-1.2.0/spaMM/man/simulate.HLCor.Rd | 28
spaMM-1.2.0/spaMM/man/spaMM-internal-Rcpp.Rd |only
spaMM-1.2.0/spaMM/man/spaMM-internal-blockDiag.Rd |only
spaMM-1.2.0/spaMM/man/spaMM-internal-migraine.Rd |only
spaMM-1.2.0/spaMM/man/spaMM-internal.Rd | 42
spaMM-1.2.0/spaMM/man/spaMM.Rd | 61
spaMM-1.2.0/spaMM/man/spaMM.filled.contour.Rd |only
spaMM-1.2.0/spaMM/man/spaMMcolors.Rd |only
spaMM-1.2.0/spaMM/man/summary.HL.Rd | 18
spaMM-1.2.0/spaMM/src/Makevars | 2
spaMM-1.2.0/spaMM/src/Makevars.win |only
spaMM-1.2.0/spaMM/src/RcppExports.cpp |only
spaMM-1.2.0/spaMM/src/spaMM_linear.cpp |only
spaMM-1.2.0/spaMM/src/spaMM_linear.h |only
154 files changed, 3295 insertions(+), 1754 deletions(-)
Title: Random Forests for Survival, Regression and Classification
(RF-SRC)
Diff between randomForestSRC versions 1.5.2 dated 2014-06-05 and 1.5.3 dated 2014-06-25
More information about randomForestSRC at CRAN
Description: A unified treatment of Breiman's random forests for survival, regression and classification problems based on Ishwaran and Kogalur's random survival forests (RSF) package. The package runs in both serial and parallel (OpenMP) modes.
Author: Hemant Ishwaran
Maintainer: Udaya B. Kogalur
DESCRIPTION | 8 -
MD5 | 176 ++++++++++++++++++++---------------------
NAMESPACE | 8 +
R/data.utilities.R | 2
R/factor.utilities.R | 2
R/find.interaction.R | 2
R/generic.predict.rfsrc.R | 2
R/impute.rfsrc.R | 2
R/max.subtree.R | 2
R/plot.competing.risk.R | 2
R/plot.rfsrc.R | 2
R/plot.survival.R | 2
R/plot.variable.R | 2
R/predict.rfsrc.R | 2
R/print.rfsrc.R | 2
R/rf2rfz.R | 2
R/rfsrc.R | 2
R/rfsrc.news.R | 2
R/rfsrcSyn.R |only
R/utilities.R | 2
R/var.select.R | 2
R/vimp.R | 2
R/zzz.R | 2
configure.ac | 2
inst/NEWS | 13 ++-
inst/doc/rsf-Rnews.pdf |binary
man/plot.variable.Rd | 22 ++---
man/print.rfsrc.Rd | 4
man/randomForestSRC_package.Rd | 27 +++---
man/rfsrc.Rd | 1
man/rfsrcSyn.Rd |only
src/bootstrap.c | 2
src/bootstrap.h | 2
src/classification.c | 2
src/classification.h | 2
src/dataParser.c | 2
src/dataParser.h | 2
src/entry.c | 2
src/entry.h | 2
src/extern.h | 2
src/factor.h | 2
src/factorOps.c | 2
src/factorOps.h | 2
src/global.h | 2
src/importance.c | 2
src/importance.h | 2
src/impute.c | 2
src/impute.h | 2
src/node.h | 2
src/nodeOps.c | 2
src/nodeOps.h | 2
src/nrutil.c | 2
src/nrutil.h | 2
src/random.c | 2
src/random.h | 2
src/regression.c | 2
src/regression.h | 2
src/rfsrc.c | 2
src/rfsrc.h | 2
src/rfsrcUtil.c | 2
src/rfsrcUtil.h | 2
src/split.c | 2
src/split.h | 2
src/splitClas.c | 2
src/splitClas.h | 2
src/splitRegr.c | 2
src/splitRegr.h | 2
src/splitSurv.c | 2
src/splitSurv.h | 2
src/splitUspv.c | 2
src/splitUspv.h | 2
src/splitUtil.c | 2
src/splitUtil.h | 2
src/stack.c | 2
src/stack.h | 2
src/stackOutput.c | 2
src/stackOutput.h | 2
src/stackPreDefined.c | 2
src/stackPreDefined.h | 2
src/survival.c | 2
src/survival.h | 2
src/survivalE.c | 2
src/survivalE.h | 2
src/terminal.h | 2
src/trace.c | 2
src/trace.h | 2
src/tree.c | 2
src/tree.h | 2
src/treeUtil.c | 2
src/treeUtil.h | 2
90 files changed, 214 insertions(+), 203 deletions(-)
Permanent link
Title: An n-gram Babbler
Diff between ngram versions 1.0 dated 2014-06-23 and 1.1 dated 2014-06-25
Description: This package offers utilities for creating, displaying,
and "babbling" n-grams. The babbler is a simple Markov
process.
Author: Drew Schmidt [aut, cre], Christian Heckendorf [aut]
Maintainer: Drew Schmidt
ngram-1.0/ngram/src/ngram/src/gen_check.c |only
ngram-1.0/ngram/src/print.c |only
ngram-1.1/ngram/ChangeLog | 4 +
ngram-1.1/ngram/DESCRIPTION | 6 +-
ngram-1.1/ngram/MD5 | 48 ++++++++----------
ngram-1.1/ngram/build/vignette.rds |binary
ngram-1.1/ngram/inst/CITATION | 10 +--
ngram-1.1/ngram/inst/doc/ngram-guide.Rnw | 10 ++-
ngram-1.1/ngram/inst/doc/ngram-guide.pdf |binary
ngram-1.1/ngram/src/Makevars | 3 -
ngram-1.1/ngram/src/ngram/src/counts.c | 2
ngram-1.1/ngram/src/ngram/src/gen_noalloc2.c | 2
ngram-1.1/ngram/src/ngram/src/hash.c | 2
ngram-1.1/ngram/src/ngram/src/lex.c | 2
ngram-1.1/ngram/src/ngram/src/print.c | 2
ngram-1.1/ngram/src/ngram/src/process.c | 2
ngram-1.1/ngram/src/ngram/src/rand/get_seed.c | 5 -
ngram-1.1/ngram/src/ngram/src/wordcmp.c | 2
ngram-1.1/ngram/vignettes/cover/cover.pdf |binary
ngram-1.1/ngram/vignettes/cover/cover.tex | 4 -
ngram-1.1/ngram/vignettes/include/00-copyright.tex | 2
ngram-1.1/ngram/vignettes/include/01-introduction.tex | 8 +--
ngram-1.1/ngram/vignettes/include/02-installation.tex | 5 +
ngram-1.1/ngram/vignettes/include/03-use.tex | 25 +++++++--
ngram-1.1/ngram/vignettes/include/preamble.tex | 12 ----
ngram-1.1/ngram/vignettes/ngram-guide.Rnw | 10 ++-
26 files changed, 96 insertions(+), 70 deletions(-)
Title: Mixed GAM Computation Vehicle with GCV/AIC/REML smoothness
estimation
Diff between mgcv versions 1.7-29 dated 2014-03-31 and 1.8-0 dated 2014-06-25
Description: Routines for GAMs and other generalized ridge regression
with multiple smoothing parameter selection by GCV, REML
or UBRE/AIC. Also GAMMs. Includes a gam() function.
Author: Simon Wood
Maintainer: Simon Wood
ChangeLog | 76 +++
DESCRIPTION | 8
MD5 | 115 ++--
NAMESPACE | 58 +-
R/bam.r | 47 -
R/coxph.r |only
R/efam.r |only
R/fast-REML.r | 48 +-
R/gam.fit3.r | 663 ++++++++++++++++++++-------
R/gam.fit4.r | 760 +++++++++++++++++++++-----------
R/gam.sim.r | 16
R/gamlss.r |only
R/gamm.r | 14
R/mgcv.r | 453 +++++++++++--------
R/misc.r | 31 +
R/mvam.r |only
R/plots.r | 60 +-
R/smooth.r | 6
man/Beta.Rd |only
man/Tweedie.Rd | 55 +-
man/bam.Rd | 46 -
man/coxph.Rd |only
man/family.mgcv.Rd |only
man/gam.Rd | 111 +---
man/gam.control.Rd | 2
man/gam.models.Rd | 46 +
man/gamObject.Rd | 10
man/gamSim.Rd | 3
man/gaulss.Rd |only
man/interpret.gam.Rd | 3
man/logLik.gam.Rd | 14
man/mgcv-FAQ.Rd | 8
man/mgcv-package.Rd | 11
man/mgcv-parallel.Rd | 42 +
man/mvn.Rd |only
man/negbin.Rd | 97 +---
man/ocat.Rd |only
man/plot.gam.Rd | 6
man/predict.gam.Rd | 7
man/print.gam.Rd | 4
man/residuals.gam.Rd | 16
man/scat.Rd |only
man/smooth.construct.ds.smooth.spec.Rd | 10
man/smooth.construct.mrf.smooth.spec.Rd | 9
man/smooth.construct.sos.smooth.spec.Rd | 1
man/smooth.construct.tp.smooth.spec.Rd | 8
man/summary.gam.Rd | 16
man/t2.Rd | 2
man/vcov.gam.Rd | 5
man/ziP.Rd |only
man/ziplss.Rd |only
po/R-mgcv.pot | 254 ++++++++--
po/R-pl.po |only
po/pl.po |only
src/Makevars | 4
src/coxph.c |only
src/gdi.c | 68 +-
src/init.c | 8
src/mat.c | 34 -
src/matrix.c | 89 +--
src/matrix.h | 13
src/mgcv.h | 21
src/misc.c | 383 ----------------
src/mvn.c |only
src/qp.c | 36 -
src/tprs.c | 37 -
src/tprs.h | 5
67 files changed, 2289 insertions(+), 1550 deletions(-)
Title: A package for geocoding, reverse geocoding and coordinate
transformations between WGS-84, GCJ-02 and BD-09 coordinate
systems
Diff between geoChina versions 1.1 dated 2014-05-10 and 1.1.1 dated 2014-06-25
Description: In China the digital maps use two main Geographic Coordinate
Systems (GCSs), namely GCJ-02 and BD-09, rather than the well known WGS-84
because of information security. geoChina provides functions for the mutual
coordinate conversions between those three GCSs. Therefore, when geocoding
address or reverse geocoding latitude/longitude location by calling either
Google or Baidu Geocoding API, geoChina allows for inputting or outputting
the coordinates in the GCS different from the one that Google or Baidu map
uses.
Author: Jun Cai
Maintainer: Jun Cai
DESCRIPTION | 11 +++++------
MD5 | 26 +++++++++++++-------------
NAMESPACE | 2 +-
NEWS | 9 +++++++++
R/geocode.R | 14 +++++++-------
man/bd2gcj.Rd | 2 +-
man/bd2wgs.Rd | 2 +-
man/conv.Rd | 2 +-
man/gcj2bd.Rd | 2 +-
man/gcj2wgs.Rd | 2 +-
man/geocode.Rd | 2 +-
man/revgeocode.Rd | 2 +-
man/wgs2bd.Rd | 2 +-
man/wgs2gcj.Rd | 2 +-
14 files changed, 44 insertions(+), 36 deletions(-)