Title: GoFKernel: Testing Goodness-of-fit with the Kernel Density
Estimator
Diff between GoFKernel versions 2.0-3 dated 2014-07-15 and 2.0-4 dated 2014-08-26
Description: Tests of goodness-of-fit based on kernel smoothing of the data
Author: Jose M. Pavia
Maintainer: Jose M. Pavia
DESCRIPTION | 8 ++++----
MD5 | 10 +++++-----
NAMESPACE | 2 +-
man/GoFKernel-package.Rd | 4 ++--
man/density.reflected.Rd | 4 ++--
man/support.facto.Rd | 14 +++++++-------
6 files changed, 21 insertions(+), 21 deletions(-)
Title: Smoothing splines for large samples
Diff between bigsplines versions 1.0-2 dated 2014-07-12 and 1.0-3 dated 2014-08-26
Description: Fits smoothing spline regression models using scalable algorithms designed for large samples. Five marginal spline types are supported: cubic, different cubic, cubic periodic, cubic thin-plate, and nominal. Parametric predictors are also supported. Response can be Gaussian or non-Gaussian: Binomial, Poisson, Gamma, Inverse Gaussian, or Negative Binomial.
Author: Nathaniel E. Helwig
Maintainer: Nathaniel E. Helwig
ChangeLog | 155 +++++++++++++++++++++------------------------
DESCRIPTION | 14 ++--
MD5 | 117 +++++++++++++++++++--------------
R/bigspline.R | 4 -
R/bigssa.R | 8 +-
R/bigssg.R |only
R/bigssp.R | 8 +-
R/bigtps.R | 4 -
R/gcvgss.R |only
R/gcvssg.R |only
R/lamcoefg.R |only
R/lamloopg.R |only
R/makessa.R | 36 +++++++++-
R/makessg.R |only
R/makessp.R | 36 +++++++++-
R/nbmle.R |only
R/pinvsm.R | 2
R/predict.css.R | 4 -
R/predict.ssa.R | 4 -
R/predict.ssg.R |only
R/predict.ssp.R | 4 -
R/predict.tps.R | 4 -
R/print.ssg.R |only
R/print.summary.css.R | 44 ++++++++----
R/print.summary.ssa.R | 47 +++++++++----
R/print.summary.ssg.R |only
R/print.summary.ssp.R | 47 +++++++++----
R/print.summary.tps.R | 44 ++++++++----
R/smartssg.R |only
R/ssawork.R | 11 +--
R/ssgwork.R |only
R/sspwork.R | 11 +--
R/summary.css.R | 5 -
R/summary.ssa.R | 5 -
R/summary.ssg.R |only
R/summary.ssp.R | 5 -
R/summary.tps.R | 5 -
R/unifqsumg.R |only
man/bigspline.Rd | 2
man/bigsplines-internal.Rd | 10 ++
man/bigsplines-package.Rd | 10 +-
man/bigssa.Rd | 15 ++--
man/bigssg.Rd |only
man/bigssp.Rd | 13 ++-
man/bigtps.Rd | 2
man/binsamp.Rd | 2
man/imagebar.Rd | 2
man/makessa.Rd | 9 +-
man/makessg.Rd |only
man/makessp.Rd | 9 +-
man/predict.css.Rd | 2
man/predict.ssa.Rd | 2
man/predict.ssg.Rd |only
man/predict.ssp.Rd | 2
man/predict.tps.Rd | 2
man/print.Rd | 16 +++-
man/summary.Rd | 35 ++++++++--
src/cubker.f | 3
src/cubkersym.f | 2
src/cubkerz.f | 2
src/cubkerzsym.f | 2
src/nomker.f | 2
src/nomkersym.f | 2
src/perker.f | 2
src/perkersym.f | 2
src/sumfreq.f | 3
src/tpsker.f | 2
src/tpskersym.f | 3
68 files changed, 480 insertions(+), 302 deletions(-)
Title: Learn R, in R.
Diff between swirl versions 2.2.15 dated 2014-08-08 and 2.2.16 dated 2014-08-26
Description: swirl turns the R console into an interactive learning
environment. Users receive immediate feedback as they are guided through
self-paced lessons in data science and R programming.
Author: Nick Carchedi [aut, cre],
Bill Bauer [aut],
Gina Grdina [aut],
Sean Kross [aut]
Maintainer: Nick Carchedi
DESCRIPTION | 6 +--
MD5 | 72 ++++++++++++++++++-------------------
NAMESPACE | 2 -
R/install_course.R | 5 ++
R/menu.R | 6 +--
README.md | 17 ++++++--
man/AnswerTests.Rd | 2 -
man/InstallCourses.Rd | 2 -
man/any_of_exprs.Rd | 2 -
man/bye.Rd | 2 -
man/email_admin.Rd | 2 -
man/expr_creates_var.Rd | 2 -
man/expr_identical_to.Rd | 2 -
man/expr_is_a.Rd | 2 -
man/expr_uses_func.Rd | 2 -
man/func_of_newvar_equals.Rd | 2 -
man/info.Rd | 2 -
man/install_course_directory.Rd | 2 -
man/install_course_dropbox.Rd | 2 -
man/install_course_github.Rd | 2 -
man/install_course_google_drive.Rd | 2 -
man/install_course_url.Rd | 2 -
man/install_course_zip.Rd | 2 -
man/install_from_swirl.Rd | 2 -
man/main.Rd | 2 -
man/nxt.Rd | 2 -
man/omnitest.Rd | 2 -
man/play.Rd | 2 -
man/reset.Rd | 2 -
man/skip.Rd | 2 -
man/submit.Rd | 2 -
man/swirl.Rd | 2 -
man/uninstall_course.Rd | 2 -
man/val_has_length.Rd | 2 -
man/val_matches.Rd | 2 -
man/var_is_a.Rd | 2 -
man/zip_course.Rd | 2 -
37 files changed, 90 insertions(+), 80 deletions(-)
Title: Phylogenetic Tools for comparative biology (and other things)
Diff between phytools versions 0.4-21 dated 2014-06-28 and 0.4-31 dated 2014-08-26
Description: phytools provides various functions for phylogenetic analysis,
mostly relevant to comparative biology.
Author: Liam J. Revell
Maintainer: Liam J. Revell
DESCRIPTION | 10 +++++-----
MD5 | 25 +++++++++++++------------
NAMESPACE | 10 ++++++----
R/contMap.R | 11 +++++++++++
R/densityMap.R | 8 ++++++++
R/locate.yeti.R | 35 +++++++++++++++++++++++------------
R/make.simmap.R | 24 ++++++++++++++----------
R/phylo.to.map.R | 30 +++++++++++++++++++++---------
R/plotBranchbyTrait.R | 10 ++++++----
R/read.newick.R | 2 +-
R/read.simmap.R | 22 ++++++----------------
R/threshBayes.R | 7 ++++---
R/utilities.R | 2 +-
man/drop.tip.contMap.Rd |only
14 files changed, 119 insertions(+), 77 deletions(-)
Title: Utility Functions for R Histograms
Diff between HistogramTools versions 0.3 dated 2013-12-11 and 0.3.1 dated 2014-08-26
More information about HistogramTools at CRAN
Description: This package provides a number of utility functions useful for manipulating large histograms. This includes methods to trim, subset, merge buckets, merge histograms, convert to CDF, and calculate information loss due to binning. It also provides a protocol buffer representations of the default R histogram class to allow histograms over large data sets to be computed and manipulated in a MapReduce environment.
Author: Murray Stokely [aut, cre],
Tim Hesterberg [ctb]
Maintainer: Murray Stokely
ChangeLog | 18 +++++++++++++++++-
DESCRIPTION | 16 +++++++++++-----
MD5 | 23 ++++++++++++-----------
R/plot.R | 4 ++--
build/vignette.rds |binary
inst/NEWS.Rd | 21 +++++++++++++++++++++
inst/doc/HistogramTools-UnitTests.pdf |binary
inst/doc/HistogramTools-quickref.R | 21 ++++++++++++---------
inst/doc/HistogramTools-quickref.Rnw | 30 ++++++++++++++++--------------
inst/doc/HistogramTools-quickref.pdf |binary
inst/doc/HistogramTools.R |only
inst/doc/HistogramTools.pdf |binary
vignettes/HistogramTools-quickref.Rnw | 30 ++++++++++++++++--------------
13 files changed, 107 insertions(+), 56 deletions(-)
Permanent link
Title: Extreme Value Analysis
Diff between extRemes versions 2.0-2 dated 2014-08-18 and 2.0-3 dated 2014-08-26
Description: Functions for performing extreme value analysis.
Author: Eric Gilleland
Maintainer: Eric Gilleland
extRemes-2.0-2/extRemes/R/postpred.R |only
extRemes-2.0-2/extRemes/man/postpred.Rd |only
extRemes-2.0-3/extRemes/DESCRIPTION | 6 +++---
extRemes-2.0-3/extRemes/MD5 | 6 ++----
extRemes-2.0-3/extRemes/R/fitdiagnostics.R | 6 ++----
5 files changed, 7 insertions(+), 11 deletions(-)
Title: Programmatic interface to the API serving UC Berkeley's Natural
History Data
Diff between ecoengine versions 1.5 dated 2014-08-13 and 1.6 dated 2014-08-26
Description: The ecoengine (http://ecoengine.berkeley.edu/) provides access to
more than 2 million georeferenced specimen records from the Berkeley
Natural History Museums. http://bnhm.berkeley.edu/
Author: Karthik Ram [aut, cre]
Maintainer: Karthik Ram
ecoengine-1.5/ecoengine/inst/cache/location_9c3bded5722d3058afd6f48abd9d9d95.RData |only
ecoengine-1.5/ecoengine/inst/cache/location_9c3bded5722d3058afd6f48abd9d9d95.rdb |only
ecoengine-1.5/ecoengine/inst/cache/location_9c3bded5722d3058afd6f48abd9d9d95.rdx |only
ecoengine-1.6/ecoengine/DESCRIPTION | 10 -
ecoengine-1.6/ecoengine/MD5 | 63 +++++-----
ecoengine-1.6/ecoengine/NAMESPACE | 2
ecoengine-1.6/ecoengine/NEWS | 9 +
ecoengine-1.6/ecoengine/R/ee_about.R | 8 -
ecoengine-1.6/ecoengine/R/ee_checklists.R | 6
ecoengine-1.6/ecoengine/R/ee_footprints.R | 2
ecoengine-1.6/ecoengine/R/ee_map.R | 10 -
ecoengine-1.6/ecoengine/R/ee_observations.R | 7 -
ecoengine-1.6/ecoengine/R/ee_search.R | 10 -
ecoengine-1.6/ecoengine/R/ee_sensor_aggregation.R | 2
ecoengine-1.6/ecoengine/R/ee_sensors.R | 7 -
ecoengine-1.6/ecoengine/R/ee_sources.R | 2
ecoengine-1.6/ecoengine/README.md | 4
ecoengine-1.6/ecoengine/inst/Using_ecoengine.Rmd | 15 +-
ecoengine-1.6/ecoengine/inst/Using_ecoengine.md | 13 +-
ecoengine-1.6/ecoengine/inst/Using_ecoengine.pdf |binary
ecoengine-1.6/ecoengine/inst/cache/location_40584eaec3605e9270371021f83f239a.RData |only
ecoengine-1.6/ecoengine/inst/cache/location_40584eaec3605e9270371021f83f239a.rdb |only
ecoengine-1.6/ecoengine/inst/cache/location_40584eaec3605e9270371021f83f239a.rdx |only
ecoengine-1.6/ecoengine/inst/cache/request_fields_ef574e5f5afc117c1a58e909b4c75cff.RData |only
ecoengine-1.6/ecoengine/inst/cache/request_fields_ef574e5f5afc117c1a58e909b4c75cff.rdb |only
ecoengine-1.6/ecoengine/inst/cache/request_fields_ef574e5f5afc117c1a58e909b4c75cff.rdx |only
ecoengine-1.6/ecoengine/man/ee_about.Rd | 6
ecoengine-1.6/ecoengine/man/ee_checklists.Rd | 6
ecoengine-1.6/ecoengine/man/ee_footprints.Rd | 2
ecoengine-1.6/ecoengine/man/ee_map.Rd | 10 -
ecoengine-1.6/ecoengine/man/ee_observations.Rd | 4
ecoengine-1.6/ecoengine/man/ee_search.Rd | 2
ecoengine-1.6/ecoengine/man/ee_search_obs.Rd | 6
ecoengine-1.6/ecoengine/man/ee_sensor_agg.Rd | 2
ecoengine-1.6/ecoengine/man/ee_sensor_data.Rd | 2
ecoengine-1.6/ecoengine/man/ee_sensors.Rd | 4
ecoengine-1.6/ecoengine/man/ee_sources.Rd | 2
37 files changed, 120 insertions(+), 96 deletions(-)
Title: Visualization of regression models
Diff between visreg versions 2.0-5 dated 2014-05-29 and 2.0-6 dated 2014-08-26
Description: Provides convenient interface for constructing plots to visualize the fit of regression models arising from a wide variety of models in R (lm, glm, coxph, rlm, gam, locfit, etc.)
Author: Patrick Breheny, Woodrow Burchett
Maintainer: Patrick Breheny
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
NEWS | 14 +++++++++++---
R/Terms.R | 2 +-
R/setupF.R | 3 ++-
R/setupX.R | 2 +-
R/visreg.R | 2 +-
man/visreg.Rd | 29 ++++++++++++++++-------------
8 files changed, 43 insertions(+), 31 deletions(-)
Title: Read and analyze PLEXOS solutions from R
Diff between rplexos versions 0.8 dated 2014-08-06 and 0.9 dated 2014-08-26
Description: Read and analyze PLEXOS solutions from R
Author: Eduardo Ibanez
Maintainer: Eduardo Ibanez
rplexos-0.8/rplexos/src/new_database.cpp |only
rplexos-0.8/rplexos/src/sqlite3.c |only
rplexos-0.8/rplexos/src/sqlite3.h |only
rplexos-0.9/rplexos/DESCRIPTION | 8 -
rplexos-0.9/rplexos/MD5 | 41 ++---
rplexos-0.9/rplexos/NAMESPACE | 4
rplexos-0.9/rplexos/R/RcppExports.R | 4
rplexos-0.9/rplexos/R/auxiliary.R | 95 ++++--------
rplexos-0.9/rplexos/R/globalVariables.R | 5
rplexos-0.9/rplexos/R/help.R | 20 --
rplexos-0.9/rplexos/R/plexos_open.R | 126 ++++++++++-------
rplexos-0.9/rplexos/R/process_folder.R | 15 +-
rplexos-0.9/rplexos/R/process_solution.R | 67 ++++++---
rplexos-0.9/rplexos/R/query.R | 221 ++++++++++++++++++++----------
rplexos-0.9/rplexos/README.md | 115 ---------------
rplexos-0.9/rplexos/build/vignette.rds |binary
rplexos-0.9/rplexos/man/list_folders.Rd |only
rplexos-0.9/rplexos/man/plexos_open.Rd | 8 -
rplexos-0.9/rplexos/man/process_folder.Rd | 6
rplexos-0.9/rplexos/man/query_master.Rd | 5
rplexos-0.9/rplexos/man/rplexos.Rd | 20 --
rplexos-0.9/rplexos/src/RcppExports.cpp | 9 -
rplexos-0.9/rplexos/src/process_xml.cpp |only
rplexos-0.9/rplexos/vignettes/rplexos.Rmd | 140 +++++++++----------
24 files changed, 452 insertions(+), 457 deletions(-)
Title: Obtain and Analyze Rainfall Data from the Climate Prediction
Center
Diff between raincpc versions 0.2 dated 2014-06-25 and 0.3 dated 2014-08-26
Description: The Climate Prediction Center's (CPC) rainfall data for the
world (1979 to present, 50 km resolution) and the USA (1948 to
present, 25 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 straightforward. There are
more than 12,000 files for the world and about 24,000 files for the USA.
Moreover, file formats and file extensions have not been consistent.
This package provides functionality to download, process and visualize
over 35 years of global rainfall data and over 65 years of USA rainfall
data from CPC.
Author: Gopi Goteti
Maintainer: Gopi Goteti
DESCRIPTION | 28 ++++----
LICENSE | 4 -
MD5 | 30 ++++-----
NAMESPACE | 2
NEWS | 8 ++
R/cpc_get_rawdata.r | 121 +++++++++++++++++++++++--------------
R/cpc_read_rawdata.r | 71 +++++++++++++++-------
R/raincpc-package.r | 24 +++----
build/vignette.rds |binary
inst/doc/raincpc_demo.R | 70 +++++++++++++++------
inst/doc/raincpc_demo.Rmd | 106 ++++++++++++++++++++++----------
inst/doc/raincpc_demo.html | 145 +++++++++++++++++++++++++++++++++------------
man/cpc_get_rawdata.Rd | 41 +++++-------
man/cpc_read_rawdata.Rd | 45 ++++++++-----
man/raincpc.Rd | 37 ++++-------
vignettes/raincpc_demo.Rmd | 106 ++++++++++++++++++++++----------
16 files changed, 539 insertions(+), 299 deletions(-)
Title: An R Package for Harnessing GPU Power
Diff between gmatrix versions 0.1 dated 2013-10-31 and 0.2 dated 2014-08-26
Description: This package implements a general framework for utilizing R to harness the power of NVIDIA GPU's. The "gmatrix" and "gvector" classes allow for easy management of the separate device and host memory spaces. Numerous numerical operations are implemented for these objects on the GPU. These operations include matrix multiplication, addition, subtraction, the kronecker product, the outer product, comparison operators, logical operators, trigonometric functions, indexing, sorting, random number generation and many more.
Author: Nathan Morris
Maintainer: Nathan Morris
gmatrix-0.1/gmatrix/src/Makefile.win |only
gmatrix-0.1/gmatrix/src/symbols.rds |only
gmatrix-0.2/gmatrix/DESCRIPTION | 7
gmatrix-0.2/gmatrix/MD5 | 36
gmatrix-0.2/gmatrix/NAMESPACE | 164 -
gmatrix-0.2/gmatrix/R/00general.R | 750 +++----
gmatrix-0.2/gmatrix/R/01gmatrix.R | 1202 ++++++------
gmatrix-0.2/gmatrix/R/02gvector.R | 998 +++++-----
gmatrix-0.2/gmatrix/R/03dist.R | 796 ++++----
gmatrix-0.2/gmatrix/R/04operations.R | 3175 ++++++++++++++++----------------
gmatrix-0.2/gmatrix/R/05test.R | 1600 ++++++++--------
gmatrix-0.2/gmatrix/README.md | 110 -
gmatrix-0.2/gmatrix/inst |only
gmatrix-0.2/gmatrix/man/gmm.Rd |only
gmatrix-0.2/gmatrix/src/conversions.cu | 202 +-
gmatrix-0.2/gmatrix/src/dist.cu | 2316 +++++++++++------------
gmatrix-0.2/gmatrix/src/general.cu | 928 ++++-----
gmatrix-0.2/gmatrix/src/gmatrix.h | 1
gmatrix-0.2/gmatrix/src/manipulation.cu | 1796 +++++++++---------
gmatrix-0.2/gmatrix/src/matrix.cu | 2696 ++++++++++++++-------------
gmatrix-0.2/gmatrix/src/ops.cu | 1356 ++++++-------
21 files changed, 9187 insertions(+), 8946 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-12-03 1.53
2010-08-16 1.52
2010-07-28 1.51
2010-07-24 1.49
2010-01-07 1.35
2008-09-10 1.27
2008-09-05 1.25
2008-08-23 1.24
Title: Variance estimation for sample surveys by the ultimate cluster
method
Diff between vardpoor versions 0.2.0.9.2 dated 2014-08-01 and 0.2.0.12 dated 2014-08-26
Description: Generation of domain variables, linearisation of several nonlinear population statistics (the ratio of two totals, weighted income percentile, at-risk-of-poverty rate, at-risk-of-poverty threshold, Gini coefficient, gender pay gap, median income below at-risk-of-poverty gap, income quintile share ratio, relative median at-risk-of-poverty gap), computation of regression residuals in case of weight calibration, variance estimation of sample surveys by the ultimate cluster method (Hansen, Hurwitz and Madow, 1953), variance estimation for longitudinal, crossectional measures and measures of change for single and multistage stage cluster sampling designs (Berger, Y.G.). Several other precision measures are derived - standard error, the coefficient of variation, the margin of error, confidence interval, design effect.
Author: Juris Breidaks [aut, cre], Martins Liberts [aut]
Maintainer: Juris Breidaks
DESCRIPTION | 12 -
MD5 | 90 ++++----
NAMESPACE | 4
R/domain.R | 2
R/incPercentile.R | 82 +++++--
R/lin.ratio.R | 12 -
R/linarpr.R | 199 +++++++++++--------
R/linarpt.R | 159 ++++++++-------
R/lingini.R | 124 ++++++-----
R/lingini2.R | 180 +++++++++--------
R/lingpg.R | 159 ++++++++-------
R/linpoormed.R | 200 +++++++++++--------
R/linqsr.R | 168 ++++++++--------
R/linrmpg.R | 189 ++++++++++--------
R/residual_est.R | 2
R/var_srs.R | 3
R/vardchanges.R | 161 +++++++++------
R/vardcros.R | 499 +++++++++++++++++++++++++++---------------------
R/vardom.R | 40 ++-
R/vardom_othstr.R | 18 +
R/vardomh.R | 35 ++-
R/variance_est.R | 3
R/variance_othstr.R | 1
R/varpoord.R | 220 ++++++++++-----------
inst/CITATION | 4
inst/NEWS | 8
man/incPercentile.Rd | 21 +-
man/lin.ratio.Rd | 8
man/linarpr.Rd | 115 ++++++-----
man/linarpt.Rd | 122 +++++++----
man/lingini.Rd | 32 +--
man/lingini2.Rd | 31 +-
man/lingpg.Rd | 105 +++++++---
man/linpoormed.Rd | 40 ++-
man/linqsr.Rd | 33 +--
man/linrmpg.Rd | 35 +--
man/residual_est.Rd | 4
man/var_srs.Rd | 2
man/vardchanges.Rd | 94 ++++++---
man/vardcros.Rd | 88 ++++++--
man/vardom.Rd | 39 +--
man/vardom_othstr.Rd | 54 +++--
man/vardomh.Rd | 50 ++--
man/vardpoor-package.Rd | 25 +-
man/variance_othstr.Rd | 14 -
man/varpoord.Rd | 76 ++++---
46 files changed, 2117 insertions(+), 1445 deletions(-)
Title: Nonlinear time series models with regime switching
Diff between tsDyn versions 0.9-33 dated 2014-03-29 and 0.9-41 dated 2014-08-26
Description: Implements nonlinear autoregressive (AR) time series models. For univariate series, a non-parametric approach is available through additive nonlinear AR. Parametric modeling and testing for regime switching dynamics is available when the transition is either direct (TAR: threshold AR) or smooth (STAR: smooth transition AR, LSTAR). For multivariate series, one can estimate a range of TVAR or threshold cointegration TVECM models with two or three regimes. Tests can be conducted for TVAR as well as for TVECM (Hansen and Seo 2002 and Seo 2006).
Author: Antonio Fabio Di Narzo [aut, cre],
Jose Luis Aznarte [ctb],
Matthieu Stigler [aut, cre]
Maintainer: Matthieu Stigler
tsDyn-0.9-33/tsDyn/R/TVECM.HSTest.R |only
tsDyn-0.9-33/tsDyn/man/TVECM.HSTest.Rd |only
tsDyn-0.9-33/tsDyn/man/fitted.Rd |only
tsDyn-0.9-33/tsDyn/man/toLaTex.setar.Rd |only
tsDyn-0.9-33/tsDyn/tests/VAR.Rout |only
tsDyn-0.9-41/tsDyn/DESCRIPTION | 11
tsDyn-0.9-41/tsDyn/MD5 | 199 -
tsDyn-0.9-41/tsDyn/NAMESPACE | 28
tsDyn-0.9-41/tsDyn/R/BBCtest.R | 1
tsDyn-0.9-41/tsDyn/R/KapShinTest.R | 4
tsDyn-0.9-41/tsDyn/R/TVAR.sim.R | 5
tsDyn-0.9-41/tsDyn/R/TVAR_LRtest.R | 1
tsDyn-0.9-41/tsDyn/R/TVARestim.R | 66
tsDyn-0.9-41/tsDyn/R/TVECM.HStest.R |only
tsDyn-0.9-41/tsDyn/R/TVECM.R | 9
tsDyn-0.9-41/tsDyn/R/TVECM.sim.R | 154 -
tsDyn-0.9-41/tsDyn/R/VECM_symbolic.R | 1
tsDyn-0.9-41/tsDyn/R/aar.R | 6
tsDyn-0.9-41/tsDyn/R/accuracy.R | 1
tsDyn-0.9-41/tsDyn/R/autopairs.R | 12
tsDyn-0.9-41/tsDyn/R/autotriples.R | 13
tsDyn-0.9-41/tsDyn/R/autotriples.rgl.R | 8
tsDyn-0.9-41/tsDyn/R/coefECT.R |only
tsDyn-0.9-41/tsDyn/R/delta.R | 2
tsDyn-0.9-41/tsDyn/R/isLinear.R | 2
tsDyn-0.9-41/tsDyn/R/lineVar.R | 290 +-
tsDyn-0.9-41/tsDyn/R/linear.R | 5
tsDyn-0.9-41/tsDyn/R/llar.R | 6
tsDyn-0.9-41/tsDyn/R/lstar.R | 67
tsDyn-0.9-41/tsDyn/R/misc.R | 38
tsDyn-0.9-41/tsDyn/R/miscSETAR.R | 137 -
tsDyn-0.9-41/tsDyn/R/nlVar-methods.R | 85
tsDyn-0.9-41/tsDyn/R/nlar-methods.R | 71
tsDyn-0.9-41/tsDyn/R/nnet.R | 4
tsDyn-0.9-41/tsDyn/R/predict.R | 9
tsDyn-0.9-41/tsDyn/R/predict_rolling.R | 8
tsDyn-0.9-41/tsDyn/R/rank.select.R | 2
tsDyn-0.9-41/tsDyn/R/rank.test.R | 1
tsDyn-0.9-41/tsDyn/R/resVar.R | 2
tsDyn-0.9-41/tsDyn/R/selectLSTAR.R | 1
tsDyn-0.9-41/tsDyn/R/selectSETAR.R | 11
tsDyn-0.9-41/tsDyn/R/setar.R | 62
tsDyn-0.9-41/tsDyn/R/setar.sim.R | 1
tsDyn-0.9-41/tsDyn/R/setarTest.R | 7
tsDyn-0.9-41/tsDyn/R/star.R | 6
tsDyn-0.9-41/tsDyn/R/vec2var.tsDyn.R | 23
tsDyn-0.9-41/tsDyn/build/vignette.rds |binary
tsDyn-0.9-41/tsDyn/data/barry.rda |binary
tsDyn-0.9-41/tsDyn/data/zeroyld.rda |binary
tsDyn-0.9-41/tsDyn/inst/ChangeLog | 19
tsDyn-0.9-41/tsDyn/inst/doc/ThCointOverview.pdf |binary
tsDyn-0.9-41/tsDyn/inst/doc/tsDyn.pdf |binary
tsDyn-0.9-41/tsDyn/man/BBCTest.Rd | 37
tsDyn-0.9-41/tsDyn/man/MAPE.Rd | 18
tsDyn-0.9-41/tsDyn/man/MakeThSpec.Rd | 54
tsDyn-0.9-41/tsDyn/man/TVAR.LRtest.Rd | 159 -
tsDyn-0.9-41/tsDyn/man/TVAR.Rd | 132 -
tsDyn-0.9-41/tsDyn/man/TVAR.boot.Rd | 42
tsDyn-0.9-41/tsDyn/man/TVAR.sim.Rd | 124 -
tsDyn-0.9-41/tsDyn/man/TVECM.HStest.Rd |only
tsDyn-0.9-41/tsDyn/man/TVECM.Rd | 181 -
tsDyn-0.9-41/tsDyn/man/TVECM.SeoTest.Rd | 77
tsDyn-0.9-41/tsDyn/man/TVECM.sim.Rd | 166 -
tsDyn-0.9-41/tsDyn/man/VARrep.Rd | 30
tsDyn-0.9-41/tsDyn/man/VECM.Rd | 139 -
tsDyn-0.9-41/tsDyn/man/VECM_symbolic.Rd | 28
tsDyn-0.9-41/tsDyn/man/accuracy_stat.Rd | 47
tsDyn-0.9-41/tsDyn/man/addRegime.Rd | 21
tsDyn-0.9-41/tsDyn/man/autopairs.Rd | 46
tsDyn-0.9-41/tsDyn/man/autotriples.Rd | 41
tsDyn-0.9-41/tsDyn/man/autotriples.rgl.Rd | 32
tsDyn-0.9-41/tsDyn/man/availableModels.Rd | 15
tsDyn-0.9-41/tsDyn/man/coefB.Rd |only
tsDyn-0.9-41/tsDyn/man/computeGradient.Rd | 17
tsDyn-0.9-41/tsDyn/man/delta.Rd | 55
tsDyn-0.9-41/tsDyn/man/delta.lin.Rd | 39
tsDyn-0.9-41/tsDyn/man/fitted.nlVar.Rd |only
tsDyn-0.9-41/tsDyn/man/getTh.Rd | 17
tsDyn-0.9-41/tsDyn/man/isLinear.Rd | 11
tsDyn-0.9-41/tsDyn/man/lags.select.Rd | 44
tsDyn-0.9-41/tsDyn/man/lineVar.Rd | 97
tsDyn-0.9-41/tsDyn/man/logLik.VECM.Rd | 66
tsDyn-0.9-41/tsDyn/man/logLik.nlVar.Rd | 51
tsDyn-0.9-41/tsDyn/man/mse.Rd | 16
tsDyn-0.9-41/tsDyn/man/nlar.Rd | 82
tsDyn-0.9-41/tsDyn/man/oneStep.Rd | 33
tsDyn-0.9-41/tsDyn/man/predict_rolling.Rd | 85
tsDyn-0.9-41/tsDyn/man/rank.select.Rd | 126 -
tsDyn-0.9-41/tsDyn/man/rank.test.Rd | 172 -
tsDyn-0.9-41/tsDyn/man/regime.Rd | 39
tsDyn-0.9-41/tsDyn/man/setar.sim.Rd | 88
tsDyn-0.9-41/tsDyn/man/sigmoid.Rd | 12
tsDyn-0.9-41/tsDyn/man/toLatex.setar.Rd |only
tsDyn-0.9-41/tsDyn/tests/00SetarAndFriends.R | 43
tsDyn-0.9-41/tsDyn/tests/00SetarAndFriends.Rout.save | 1403 ++++++++++---
tsDyn-0.9-41/tsDyn/tests/TVECM.sim.R | 93
tsDyn-0.9-41/tsDyn/tests/TVECM.sim.Rout.save | 314 ++
tsDyn-0.9-41/tsDyn/tests/VAR.R | 14
tsDyn-0.9-41/tsDyn/tests/VAR.Rout.save | 306 ++
tsDyn-0.9-41/tsDyn/tests/VECM.R | 40
tsDyn-0.9-41/tsDyn/tests/VECM.Rout.save | 1904 +++++++++++++++---
tsDyn-0.9-41/tsDyn/tests/compare_tsDyn_vars.R | 26
tsDyn-0.9-41/tsDyn/tests/compare_tsDyn_vars.Rout.save | 45
tsDyn-0.9-41/tsDyn/tests/lstar.R | 10
tsDyn-0.9-41/tsDyn/tests/lstar.Rout.save | 95
tsDyn-0.9-41/tsDyn/tests/nlar-methods.Rout.save | 4
106 files changed, 5739 insertions(+), 2375 deletions(-)
Title: minerva: Maximal Information-Based Nonparametric Exploration R
package for Variable Analysis
Diff between minerva versions 1.4 dated 2014-08-15 and 1.4.1 dated 2014-08-26
Description: R wrapper for cmine implementation of Maximal
Information-based Nonparametric Exploration statistics (MIC and
MINE family)
Author: Michele Filosi [aut, cre], Roberto Visintainer [aut], Davide
Albanese [aut], Samantha Riccadonna [ctb], Giuseppe Jurman
[ctb], Cesare Furlanello [ctb]
Maintainer: Michele Filosi
minerva-1.4.1/minerva/DESCRIPTION | 40 +-
minerva-1.4.1/minerva/MD5 | 25 +
minerva-1.4.1/minerva/NEWS | 9
minerva-1.4.1/minerva/R/mine.R | 165 +++++-----
minerva-1.4.1/minerva/README.md |only
minerva-1.4.1/minerva/man/mine.Rd | 14
minerva-1.4.1/minerva/man/minerva-package.Rd | 4
minerva-1.4.1/minerva/src/mine_interface.c | 62 +--
minerva-1.4.1/minerva/tests/MINE.jar |only
minerva-1.4.1/minerva/tests/MINEJAVA.sh |only
minerva-1.4.1/minerva/tests/Spellman.csv |only
minerva-1.4.1/minerva/tests/Spellman.csv,0-vs-1,cv=0.0,B=n^0.6,Results.csv |only
minerva-1.4.1/minerva/tests/Spellman.csv,0-vs-1,cv=0.0,B=n^0.6,Status.txt |only
minerva-1.4.1/minerva/tests/Spellman.csv,mv=0,cv=0.0,B=n^0.6,Results.csv |only
minerva-1.4.1/minerva/tests/Spellman.csv,mv=0,cv=0.0,B=n^0.6,Status.txt |only
minerva-1.4.1/minerva/tests/hs_err_pid16149.log |only
minerva-1.4.1/minerva/tests/testspellman0.R | 25 -
minerva-1.4.1/minerva/tests/valgrind.out |only
minerva-1.4/minerva/tests/java_vs_R.txt |only
19 files changed, 187 insertions(+), 157 deletions(-)
Title: Clustering high throughput sequencing (HTS) data
Diff between HTSCluster versions 2.0.3 dated 2014-07-28 and 2.0.4 dated 2014-08-26
Description: This package implements a Poisson mixture model to cluster observations (e.g., genes) in high throughput sequencing data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).
Author: Andrea Rau, Gilles Celeux, Marie-Laure Martin-Magniette, Cathy Maugis-Rabusseau
Maintainer: Andrea Rau
HTSCluster-2.0.3/HTSCluster/vignettes/HTSCluster.bib |only
HTSCluster-2.0.3/HTSCluster/vignettes/inconsolata.sty |only
HTSCluster-2.0.3/HTSCluster/vignettes/whbiocvignette.sty |only
HTSCluster-2.0.3/HTSCluster/vignettes/zi4.sty |only
HTSCluster-2.0.4/HTSCluster/DESCRIPTION | 15
HTSCluster-2.0.4/HTSCluster/MD5 | 60 +--
HTSCluster-2.0.4/HTSCluster/NAMESPACE | 8
HTSCluster-2.0.4/HTSCluster/R/HTSCluster-internal.R | 36 +
HTSCluster-2.0.4/HTSCluster/R/HTSClusterUsersGuide.R |only
HTSCluster-2.0.4/HTSCluster/R/PoisMixClus.R | 183 +++++-----
HTSCluster-2.0.4/HTSCluster/R/PoisMixClusWrapper.R | 114 +++++-
HTSCluster-2.0.4/HTSCluster/R/PoisMixMean.R | 9
HTSCluster-2.0.4/HTSCluster/R/emInit.R | 5
HTSCluster-2.0.4/HTSCluster/R/kmeanInit.R | 40 +-
HTSCluster-2.0.4/HTSCluster/R/logLikePoisMixDiff.R | 14
HTSCluster-2.0.4/HTSCluster/R/plot.HTSCluster.R | 145 ++++---
HTSCluster-2.0.4/HTSCluster/R/plot.HTSClusterWrapper.R | 17
HTSCluster-2.0.4/HTSCluster/R/probaPost.R | 25 -
HTSCluster-2.0.4/HTSCluster/R/probaPostInit.R | 69 +--
HTSCluster-2.0.4/HTSCluster/R/splitEMInit.R | 4
HTSCluster-2.0.4/HTSCluster/R/summary.HTSCluster.R | 5
HTSCluster-2.0.4/HTSCluster/R/summary.HTSClusterWrapper.R | 12
HTSCluster-2.0.4/HTSCluster/R/zzz.R |only
HTSCluster-2.0.4/HTSCluster/inst/NEWS | 12
HTSCluster-2.0.4/HTSCluster/inst/doc/HTSCluster.R | 11
HTSCluster-2.0.4/HTSCluster/inst/doc/HTSCluster.Rnw | 57 ---
HTSCluster-2.0.4/HTSCluster/inst/doc/HTSCluster.pdf |binary
HTSCluster-2.0.4/HTSCluster/inst/doc/HTSClusterUsersGuide.pdf |only
HTSCluster-2.0.4/HTSCluster/man/HTSCluster-package.Rd | 6
HTSCluster-2.0.4/HTSCluster/man/HTSClusterUsersGuide.Rd |only
HTSCluster-2.0.4/HTSCluster/man/Init.Rd | 26 -
HTSCluster-2.0.4/HTSCluster/man/PoisMixClus.Rd | 19 -
HTSCluster-2.0.4/HTSCluster/man/plot.HTSCluster.Rd | 30 -
HTSCluster-2.0.4/HTSCluster/man/summary.HTSCluster.Rd | 9
HTSCluster-2.0.4/HTSCluster/vignettes/HTSCluster.Rnw | 57 ---
35 files changed, 546 insertions(+), 442 deletions(-)
Title: Generation, reconstruction, simulation and analysis of
synchronous, asynchronous, and probabilistic Boolean networks
Diff between BoolNet versions 2.0 dated 2014-07-17 and 2.0.1 dated 2014-08-26
Description: Provides methods to reconstruct and generate synchronous,
asynchronous, and probabilistic Boolean networks, and to
analyze and visualize attractors in Boolean networks
Author: Christoph Müssel, Martin Hopfensitz, Dao Zhou, Hans Kestler
Maintainer: Hans Kestler
DESCRIPTION | 10 +++++-----
MD5 | 28 ++++++++++++++--------------
NAMESPACE | 2 ++
R/loadBioTapestry.R | 3 ---
R/loadSBML.R | 21 ++++++++++-----------
R/plotAttractors.R | 5 +----
R/plotNetworkWiring.R | 3 ---
R/plotPBNTransitions.R | 3 ---
R/plotSequence.R | 3 ---
R/plotStateGraph.R | 3 ---
R/testNetworkProperties.R | 1 -
inst/NEWS.Rd | 11 +++++++++++
inst/doc/BoolNet_package_vignette.pdf |binary
man/BoolNet-package.Rd | 4 ++--
src/symbolic_simulator.c | 31 ++++++++++++++++++++++++-------
15 files changed, 69 insertions(+), 59 deletions(-)
Title: Random Forests for Survival, Regression and Classification
(RF-SRC)
Diff between randomForestSRC versions 1.5.4 dated 2014-07-14 and 1.5.5 dated 2014-08-26
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 | 189 +++++++-------
NAMESPACE | 1
R/data.utilities.R | 5
R/factor.utilities.R | 2
R/find.interaction.R | 2
R/generic.impute.rfsrc.R |only
R/generic.predict.rfsrc.R | 2
R/impute.rfsrc.R | 71 +----
R/max.subtree.R | 5
R/plot.competing.risk.R | 2
R/plot.rfsrc.R | 2
R/plot.survival.R | 34 +-
R/plot.variable.R | 2
R/predict.rfsrc.R | 2
R/print.rfsrc.R | 2
R/rf2rfz.R | 29 +-
R/rfsrc.R | 2
R/rfsrc.news.R | 2
R/rfsrcSyn.R | 2
R/stat.split.R | 2
R/utilities.R | 2
R/var.select.R | 5
R/vimp.R | 2
R/zzz.R | 2
configure.ac | 2
data/breast.rda |binary
data/follic.rda |binary
data/hd.rda |binary
data/pbc.rda |binary
data/vdv.rda |binary
data/veteran.rda |binary
data/wihs.rda |binary
inst/NEWS | 26 +-
inst/doc/rsf-Rnews.pdf |binary
man/impute.Rd | 19 +
man/rfsrc.Rd | 14 -
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 | 3
src/nodeOps.h | 2
src/nrutil.c | 2
src/nrutil.h | 2
src/random.c | 2
src/random.h | 2
src/regression.c | 4
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 | 4
src/splitClas.h | 2
src/splitRegr.c | 2
src/splitRegr.h | 2
src/splitSurv.c | 2
src/splitSurv.h | 2
src/splitUspv.c | 597 ++++++++++++++++++++++++++++------------------
src/splitUspv.h | 2
src/splitUtil.c | 28 +-
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 | 7
src/trace.h | 3
src/tree.c | 2
src/tree.h | 2
src/treeUtil.c | 12
src/treeUtil.h | 2
96 files changed, 666 insertions(+), 532 deletions(-)
Permanent link
Title: Interactive Interpretation of Linear Regression Models
Diff between LinRegInteractive versions 0.1-3 dated 2014-08-18 and 0.2-1 dated 2014-08-26
More information about LinRegInteractive at CRAN
Description: Interactive visualization of effects and marginal effects for
linear regression models and of link functions, response functions and
marginal effects for generalized linear regression models with binary
dependent variables. A major feature is the handling of the effects of
categorical covariates: if two or more factors are used as covariates every
combination of the levels of each factor is treated separately. The
interactive approach, the automatic calculation of marginal effects and
far-reaching possibilities to customize the graphical output are
characteristic features as well.
Author: Martin Meermeyer
Maintainer: Martin Meermeyer
LinRegInteractive-0.1-3/LinRegInteractive/vignettes/fig-001.png |only
LinRegInteractive-0.2-1/LinRegInteractive/DESCRIPTION | 8
LinRegInteractive-0.2-1/LinRegInteractive/MD5 | 27
LinRegInteractive-0.2-1/LinRegInteractive/R/LinRegInteractive_functions.R | 292 +++++-----
LinRegInteractive-0.2-1/LinRegInteractive/build/vignette.rds |binary
LinRegInteractive-0.2-1/LinRegInteractive/inst/doc/LinRegInteractive.Rnw | 77 +-
LinRegInteractive-0.2-1/LinRegInteractive/inst/doc/LinRegInteractive.pdf |binary
LinRegInteractive-0.2-1/LinRegInteractive/inst/doc/vignettegraphics.zip |binary
LinRegInteractive-0.2-1/LinRegInteractive/man/LinRegInteractive-package.Rd | 4
LinRegInteractive-0.2-1/LinRegInteractive/man/factor.combinations.Rd | 9
LinRegInteractive-0.2-1/LinRegInteractive/man/glm.interactive.Rd | 8
LinRegInteractive-0.2-1/LinRegInteractive/man/lm.interactive.Rd | 10
LinRegInteractive-0.2-1/LinRegInteractive/vignettes/LinRegInteractive.Rnw | 77 +-
LinRegInteractive-0.2-1/LinRegInteractive/vignettes/fig-001-1.png |only
LinRegInteractive-0.2-1/LinRegInteractive/vignettes/fig-001-2.png |only
LinRegInteractive-0.2-1/LinRegInteractive/vignettes/vignettegraphics.zip |binary
16 files changed, 319 insertions(+), 193 deletions(-)
Permanent link
Title: Kernel smoothing
Diff between ks versions 1.9.2 dated 2014-04-22 and 1.9.3 dated 2014-08-26
Description: Kernel smoothers for univariate and multivariate data
Author: Tarn Duong
Maintainer: Tarn Duong
CHANGELOG | 52 ++++++++------
DESCRIPTION | 12 +--
MD5 | 36 +++++-----
NAMESPACE | 2
R/kcde.R | 189 +++++++++++++----------------------------------------
R/kcopula.R | 87 ++++++++++--------------
R/kde.R | 4 -
R/normal.R | 17 +++-
build/vignette.rds |binary
inst/doc/kde.pdf |binary
man/Hlscv.Rd | 3
man/Hns.Rd | 16 +++-
man/Hpi.Rd | 3
man/Hscv.Rd | 3
man/kcde.Rd | 4 -
man/kroc.Rd | 27 +------
man/ks-package.Rd | 15 ++--
man/plot.kroc.Rd | 5 -
man/plotmixt.Rd | 2
19 files changed, 194 insertions(+), 283 deletions(-)
Title: Toolkit of helper functions to pre-process amplification data
Diff between chipPCR versions 0.0.7 dated 2014-06-25 and 0.0.8-1 dated 2014-08-26
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 | 28 +++
DESCRIPTION | 35 +++-
MD5 | 104 ++++++++-----
NAMESPACE | 15 +
R/CPP.R | 145 +++++--------------
R/MFIaggr.R | 20 +-
R/MFIaggr.gui.R |only
R/amptester.R | 48 +++++-
R/amptester.gui.R |only
R/bg.max.R | 8 -
R/classes.R | 364 ++++++++++++++++++++++++++++++++++++++++--------
R/effcalc.R | 175 +++++------------------
R/fixNA.R | 2
R/humanrater.R |only
R/lm.coefs.R |only
R/normalizer.R |only
R/plotCurves.R |only
R/smoother.R | 195 ++++++++++---------------
R/th.cyc.R |only
README | 10 +
build |only
data/C60.melt.rda |binary
inst/AmpSim.gui/ui.R | 2
inst/MFIaggr.gui |only
inst/amptester.gui |only
inst/doc |only
man/AmpSim.Rd | 17 ++
man/AmpSim.gui.Rd | 2
man/C85.Rd | 96 +++++++-----
man/CPP.Rd | 63 ++++----
man/MFIaggr.Rd | 29 +++
man/MFIaggr.gui.Rd |only
man/amptest-class.Rd | 14 +
man/amptester.Rd | 8 -
man/amptester.gui.Rd |only
man/bg.max.Rd | 5
man/capillaryPCR.Rd | 22 +-
man/chipPCR-package.Rd | 8 -
man/chipPCR.datasets.Rd | 18 +-
man/chipPCR.sp.Rd | 2
man/der-class.Rd | 4
man/eff-class.Rd |only
man/effcalc.Rd | 78 +---------
man/fixNA.Rd | 2
man/humanrater.Rd |only
man/inder.Rd | 2
man/lm.coefs.Rd |only
man/normalizer.Rd |only
man/plot-eff.Rd |only
man/plot-refMFI.Rd | 2
man/plotCurves.Rd |only
man/refMFI-class.Rd | 3
man/rounder.Rd | 2
man/smoother.Rd | 67 +++++---
man/summary-der.Rd | 13 -
man/summary-refMFI.Rd | 7
man/th-class.Rd |only
man/th.cyc.Rd |only
vignettes |only
59 files changed, 931 insertions(+), 684 deletions(-)
Title: Quantification of the effect of geographic versus environmental
isolation on genetic differentiation
Diff between Sunder versions 0.0.2 dated 2014-07-21 and 0.0.3 dated 2014-08-26
Description: Quantification of the effect of geographic versus environmental isolation on genetic differentiation
Author: Filippo Botta, Casper Eriksen, Gilles Guillot
Maintainer: Filippo Botta
Sunder-0.0.2/Sunder/R/SunderInference.R |only
Sunder-0.0.2/Sunder/R/SunderInferenceGauss.R |only
Sunder-0.0.2/Sunder/man/SunderInference.Rd |only
Sunder-0.0.2/Sunder/man/SunderInferenceGauss.Rd |only
Sunder-0.0.3/Sunder/ChangeLog | 23 +++++++++++++----
Sunder-0.0.3/Sunder/DESCRIPTION | 15 ++++-------
Sunder-0.0.3/Sunder/MD5 | 23 +++++++++--------
Sunder-0.0.3/Sunder/NAMESPACE | 2 -
Sunder-0.0.3/Sunder/R/MCMCCV.R |only
Sunder-0.0.3/Sunder/R/MLCVGauss.R |only
Sunder-0.0.3/Sunder/R/SimSunderData.R | 18 ++++++-------
Sunder-0.0.3/Sunder/inst |only
Sunder-0.0.3/Sunder/man/MCMCCV.Rd |only
Sunder-0.0.3/Sunder/man/MLCVGauss.Rd |only
Sunder-0.0.3/Sunder/man/SimSunderData.Rd | 10 +++++--
Sunder-0.0.3/Sunder/man/Sunder-package.Rd | 31 ++++++++++--------------
Sunder-0.0.3/Sunder/src/tangle.f | 15 +++++++----
17 files changed, 77 insertions(+), 60 deletions(-)
Title: Functions for calibrating control charts
Diff between spcadjust versions 0.1-2 dated 2013-05-07 and 0.1-3 dated 2014-08-26
Description: This package calibrates thresholds of control charts such as
CUSUM charts based on past data, taking estimation error into account.
Author: Axel Gandy
Maintainer: Axel Gandy
spcadjust-0.1-2/spcadjust/inst/doc/Methods.pdf |only
spcadjust-0.1-2/spcadjust/inst/doc/papers.bib |only
spcadjust-0.1-2/spcadjust/inst/doc/spcadjustClasses.pdf |only
spcadjust-0.1-3/spcadjust/DESCRIPTION | 18 +++++++---------
spcadjust-0.1-3/spcadjust/MD5 | 16 ++++++++------
spcadjust-0.1-3/spcadjust/NAMESPACE | 2 +
spcadjust-0.1-3/spcadjust/inst/CITATION | 8 +++++--
spcadjust-0.1-3/spcadjust/inst/doc/spcadjust-intro.R |only
spcadjust-0.1-3/spcadjust/inst/doc/spcadjust-intro.pdf |binary
spcadjust-0.1-3/spcadjust/vignettes |only
10 files changed, 25 insertions(+), 19 deletions(-)
Title: Package to identify and sort genes overexpressed
Diff between KANT versions 1.0 dated 2014-03-18 and 2.0 dated 2014-08-26
Description: Identify and sort genes overexpressed and associated to transmembrane protein in Affymetrix expression set or any other results of microarray experiment.
Author: Noemie Robil
Maintainer: Noemie Robil
DESCRIPTION | 12 ++++-----
MD5 | 14 +++++------
NAMESPACE | 3 +-
R/expression_up.R | 21 +++++++++++-----
data/TM.rda |binary
man/KANT-package.Rd | 22 +++++++----------
man/TM.Rd | 6 ++--
man/expression_up.Rd | 64 ++++++++++-----------------------------------------
8 files changed, 55 insertions(+), 87 deletions(-)
Title: Graph Based Multiple Comparison Procedures
Diff between gMCP versions 0.8-6 dated 2014-02-17 and 0.8-7 dated 2014-08-26
Description: This package provides functions and a graphical user interface for graphical described multiple test procedures.
Author: Kornelius Rohmeyer [aut, cre],
Florian Klinglmueller [aut]
Maintainer: Kornelius Rohmeyer
gMCP-0.8-6/gMCP/build |only
gMCP-0.8-6/gMCP/inst/build.xml |only
gMCP-0.8-6/gMCP/inst/doc |only
gMCP-0.8-6/gMCP/inst/java-src |only
gMCP-0.8-6/gMCP/vignettes/Makefile |only
gMCP-0.8-6/gMCP/vignettes/cache |only
gMCP-0.8-6/gMCP/vignettes/createKnitrVignette.sh |only
gMCP-0.8-6/gMCP/vignettes/figure |only
gMCP-0.8-6/gMCP/vignettes/gMCP |only
gMCP-0.8-7/gMCP/DESCRIPTION | 16
gMCP-0.8-7/gMCP/MD5 | 581 +++++---
gMCP-0.8-7/gMCP/NAMESPACE | 1
gMCP-0.8-7/gMCP/NEWS | 16
gMCP-0.8-7/gMCP/R/doRUnitTests.R | 5
gMCP-0.8-7/gMCP/R/onLoad.R | 24
gMCP-0.8-7/gMCP/inst/classes |only
gMCP-0.8-7/gMCP/java |only
gMCP-0.8-7/gMCP/vignettes/AQuickStart-concordance.tex |only
gMCP-0.8-7/gMCP/vignettes/AQuickStart.R |only
gMCP-0.8-7/gMCP/vignettes/AQuickStart.Rnw | 112 +
gMCP-0.8-7/gMCP/vignettes/AQuickStart.pdf |only
gMCP-0.8-7/gMCP/vignettes/AQuickStart.synctex.gz |only
gMCP-0.8-7/gMCP/vignettes/AQuickStart.tex |only
gMCP-0.8-7/gMCP/vignettes/gMCP-concordance.tex |only
gMCP-0.8-7/gMCP/vignettes/gMCP.R |only
gMCP-0.8-7/gMCP/vignettes/gMCP.Rnw | 1163 +++++++++++++++++-
gMCP-0.8-7/gMCP/vignettes/gMCP.idx |only
gMCP-0.8-7/gMCP/vignettes/gMCP.ilg |only
gMCP-0.8-7/gMCP/vignettes/gMCP.ind |only
gMCP-0.8-7/gMCP/vignettes/gMCP.loa |only
gMCP-0.8-7/gMCP/vignettes/gMCP.lof |only
gMCP-0.8-7/gMCP/vignettes/gMCP.lot |only
gMCP-0.8-7/gMCP/vignettes/gMCP.pdf |only
gMCP-0.8-7/gMCP/vignettes/gMCP.synctex.gz |only
gMCP-0.8-7/gMCP/vignettes/gMCP.tex |only
gMCP-0.8-7/gMCP/vignettes/parametric-concordance.tex |only
gMCP-0.8-7/gMCP/vignettes/parametric.R |only
gMCP-0.8-7/gMCP/vignettes/parametric.Rnw | 449 ++++++
gMCP-0.8-7/gMCP/vignettes/parametric.pdf |only
gMCP-0.8-7/gMCP/vignettes/parametric.synctex.gz |only
gMCP-0.8-7/gMCP/vignettes/parametric.tex |only
41 files changed, 2089 insertions(+), 278 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2007-11-20 2.0.3
2007-11-09 2.0.2
2007-03-26 2.0.1
Title: Sensitivity Analysis
Diff between sensitivity versions 1.8-2 dated 2014-04-29 and 1.9 dated 2014-08-26
Description: A collection of functions for factor screening, global sensitivity analysis and reliability sensitivity analysis of model output.
Author: Gilles Pujol, Bertrand Iooss, Alexandre Janon with contributions from Paul Lemaitre, Laurent Gilquin, Loic Le Gratiet, Taieb Touati, Bernardo Ramos, Jana Fruth and Sebastien Da Veiga
Maintainer: Bertrand Iooss
DESCRIPTION | 14
MD5 | 60 +--
NAMESPACE | 17
R/PoincareConstant.R |only
R/morris.R | 24 -
R/sensiFdiv.R |only
R/sensiHSIC.R |only
R/sobolGP.R | 30 +
R/sobolGPmethods.R | 786 ++++++++++++++++++++++-----------------------
R/sobolowen.R |only
R/sobolroalhs.R | 6
man/DMBRSI.Rd | 4
man/PoincareConstant.Rd |only
man/decoupling.Rd | 172 +++++----
man/fast99.Rd | 212 ++++++------
man/morris.Rd | 6
man/pcc.Rd | 154 ++++----
man/sb.Rd | 198 +++++------
man/sensiFdiv.Rd |only
man/sensiHSIC.Rd |only
man/sensitivity-package.Rd | 32 +
man/sobol.Rd | 4
man/sobol2002.Rd | 5
man/sobol2007.Rd | 5
man/sobolCert.Rd | 138 ++++---
man/sobolEff.Rd | 23 +
man/sobolGP.Rd | 2
man/soboljansen.Rd | 4
man/sobolmara.Rd | 4
man/sobolowen.Rd |only
man/sobolroalhs.Rd | 4
man/src.Rd | 162 ++++-----
man/template_replace.Rd | 124 +++----
man/testmodels.Rd | 76 ++--
src/as.cpp | 28 +
35 files changed, 1221 insertions(+), 1073 deletions(-)
Title: Nucleic Acid Melting Curve Analysis on Microbead Surfaces with R
Diff between MBmca versions 0.0.3-3 dated 2014-06-25 and 0.0.3-4 dated 2014-08-26
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 | 4 ++++
DESCRIPTION | 8 ++++----
MD5 | 14 +++++++-------
R/diffQ.R | 15 ++++++++-------
R/diffQ2.R | 15 +++++++++------
man/MBmca-package.Rd | 4 ++--
man/diffQ.Rd | 7 ++++++-
man/diffQ2.Rd | 7 ++++++-
8 files changed, 46 insertions(+), 28 deletions(-)
Title: Empirical likelihood ratio for censored/truncated data
Diff between emplik versions 0.9-9-5 dated 2014-08-13 and 0.9-9-6 dated 2014-08-26
Description: empirical likelihood ratio tests for means/quantiles/hazards
from possibly censored and/or truncated data. Now does regression too.
Author: Mai Zhou.(Art Owen for el.test(), Yifan Yang for C part)
Maintainer: Mai Zhou
DESCRIPTION | 6 +++---
MD5 | 4 ++--
src/cumsumsurv.c | 4 ++--
3 files changed, 7 insertions(+), 7 deletions(-)
Title: Various programming utilities
Diff between R.utils versions 1.32.4 dated 2014-05-15 and 1.33.0 dated 2014-08-26
Description: This package provides utility methods useful when programming and developing R packages.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson
DESCRIPTION | 8 +-
MD5 | 36 ++++++-----
NAMESPACE | 1
NEWS | 35 ++++++++++
R/commandArgs.R | 15 +++-
R/createLink.R | 8 ++
R/egsub.R | 12 +++
R/mout.R |only
R/useRepos.R | 40 ++++++++++--
R/withCapture.R | 41 +++++++++++-
R/withLocale.R |only
R/withOptions.R | 2
man/egsub.Rd | 1
man/mout.Rd |only
man/useRepos.Rd | 7 +-
man/withLocale.Rd |only
man/withOptions.Rd | 2
tests/commandArgs.R | 4 -
tests/egsub.R | 14 ++++
tests/mout.R |only
tests/withCapture.R | 168 ++++++++++++++++++++++++++++++----------------------
tests/withLocale.R |only
22 files changed, 284 insertions(+), 110 deletions(-)
Title: Text mining of PubMed Abstracts.
Diff between pubmed.mineR versions 1.0.1 dated 2014-03-18 and 1.0.2 dated 2014-08-26
Description: An R package for text mining of PubMed Abstracts (http://www.ncbi.nlm.nih.gov/pubmed). The algorithms are designed for two formats (text and XML) from PubMed
Author: Jyoti Sharma, S.Ramachandran, Ab Rauf Shah
Maintainer: S. Ramachandran
DESCRIPTION | 11 ++++++-----
MD5 | 14 +++++++-------
NAMESPACE | 2 +-
R/gene_atomization.R | 4 ++--
R/uniprotfun.R | 1 +
R/word_atomizations.R | 3 ++-
R/xmlgene_atomizations.R | 1 +
R/xmlword_atomizations.R | 1 +
8 files changed, 21 insertions(+), 16 deletions(-)
Title: Fitting l2-regularized logit choice models via generalized
gradient descent
Diff between logitchoice versions 0.9.2.1 dated 2014-08-22 and 0.9.3 dated 2014-08-26
Description: Fits linear discrete logit choice models with l2 regularization. To handle reasonably sized datasets, we employ an accelerated version of generalized gradient descent.
Author: Michael Lim
Maintainer: Michael Lim
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
src/mle.c | 43 ++++++++++++++++++++-----------------------
3 files changed, 26 insertions(+), 29 deletions(-)
Title: Extension to ggplot2.
Diff between GGally versions 0.4.7 dated 2014-07-15 and 0.4.8 dated 2014-08-26
Description: GGally is designed to be a helper to ggplot2. It contains
templates for different plots to be combined into a plot matrix, a parallel
coordinate plot function, as well as a function for making a network plot.
Author: Barret Schloerke
Maintainer: Barret Schloerke
DESCRIPTION | 8 ++++----
MD5 | 19 ++++++++++++-------
NEWS | 14 ++++++++++++++
R/data-cityServiceFirms.r |only
R/ggnet.r | 41 ++++++++++++++++++++++-------------------
R/ggparcoord.r | 5 +++--
R/ggsurv.r | 10 +++-------
R/utils.r |only
data/cityServiceFirms.rda |only
data/happy.rda |binary
man/cityServiceFirms.Rd |only
man/ggnet.Rd | 8 +++-----
man/require_pkgs.Rd |only
13 files changed, 61 insertions(+), 44 deletions(-)