Title: Test Analysis Modules
Description:
Includes marginal and joint maximum likelihood
estimation of uni- and multidimensional item response models
(Rasch, 2PL, 3PL, Generalized Partial Credit, Multi Facets,
Nominal Item Response, Structured Latent Class Analysis,
Mixture Distribution IRT Models, Located Latent Class Models).
Latent regression models and plausible value imputation are
also supported.
Author: Thomas Kiefer [aut], Alexander Robitzsch [aut, cre], Margaret Wu [aut]
Maintainer: Alexander Robitzsch <a.robitzsch@bifie.at>
Diff between TAM versions 1.12-0 dated 2015-08-27 and 1.13-0 dated 2015-08-29
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/TAM.itempartable.R | 13 +++++++++++-- R/tam.mml.R | 2 +- inst/NEWS | 22 ++++++++++++++++++++++ man/TAM-package.Rd | 2 +- man/tam.mml.Rd | 44 ++++++++++++++++++++++++++++++++++++++++++++ 7 files changed, 89 insertions(+), 14 deletions(-)
Title: PRIM Survival Regression Classification
Description: Performs a unified treatment of Bump Hunting by Patient Rule Induction Method (PRIM) in Survival, Regression and Classification settings (SRC). The current version is a development release that only implements the case of a survival response. New features will be added soon as they are available.
Author: Jean-Eudes Dazard [aut, cre], Michael Choe [ctb], Michael LeBlanc [ctb], Alberto Santana [ctb]
Maintainer: Jean-Eudes Dazard <jxd101@case.edu>
Diff between PRIMsrc versions 0.5.7 dated 2015-07-28 and 0.5.8 dated 2015-08-29
PRIMsrc-0.5.7/PRIMsrc/inst/doc/PRIMsrc_0.5.7.pdf |only PRIMsrc-0.5.8/PRIMsrc/DESCRIPTION | 8 PRIMsrc-0.5.8/PRIMsrc/MD5 | 56 +-- PRIMsrc-0.5.8/PRIMsrc/NAMESPACE | 1 PRIMsrc-0.5.8/PRIMsrc/R/PRIMsrc.internal.r | 218 ++++++++++---- PRIMsrc-0.5.8/PRIMsrc/R/PRIMsrc.r | 348 +++++++++++++---------- PRIMsrc-0.5.8/PRIMsrc/data/Real.1.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/Real.2.rda |only PRIMsrc-0.5.8/PRIMsrc/data/Synthetic.1.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/Synthetic.2.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/Synthetic.3.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/Synthetic.4.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/Synthetic.5.rda |binary PRIMsrc-0.5.8/PRIMsrc/data/datalist |only PRIMsrc-0.5.8/PRIMsrc/inst/NEWS | 28 + PRIMsrc-0.5.8/PRIMsrc/inst/doc/PRIMsrc_0.5.8.pdf |only PRIMsrc-0.5.8/PRIMsrc/man/PrimSRC-package.Rd | 33 +- PRIMsrc-0.5.8/PRIMsrc/man/Real.1-data.Rd | 8 PRIMsrc-0.5.8/PRIMsrc/man/Real.2-data.Rd |only PRIMsrc-0.5.8/PRIMsrc/man/Synthetic.1-data.Rd | 2 PRIMsrc-0.5.8/PRIMsrc/man/Synthetic.2-data.Rd | 2 PRIMsrc-0.5.8/PRIMsrc/man/Synthetic.3-data.Rd | 2 PRIMsrc-0.5.8/PRIMsrc/man/Synthetic.4-data.Rd | 4 PRIMsrc-0.5.8/PRIMsrc/man/Synthetic.5-data.Rd | 4 PRIMsrc-0.5.8/PRIMsrc/man/plot_boxkm.Rd | 19 - PRIMsrc-0.5.8/PRIMsrc/man/plot_boxtrace.Rd | 11 PRIMsrc-0.5.8/PRIMsrc/man/plot_boxtraj.Rd | 11 PRIMsrc-0.5.8/PRIMsrc/man/plot_profile.Rd | 9 PRIMsrc-0.5.8/PRIMsrc/man/plot_scatter.Rd | 15 PRIMsrc-0.5.8/PRIMsrc/man/print.Rd |only PRIMsrc-0.5.8/PRIMsrc/man/sbh.Rd | 76 ++--- PRIMsrc-0.5.8/PRIMsrc/man/summary.Rd | 4 32 files changed, 539 insertions(+), 320 deletions(-)
Title: Multiple Factor Analysis (MFA)
Description: Performs Multiple Factor Analysis method for quantitative, categorical, frequency and mixed data, in addition to generating a lot of graphics, also has other useful functions.
Author: Paulo Cesar Ossani <ossanipc@hotmail.com>
Marcelo Angelo Cirillo <macufla@dex.ufla.br>
Maintainer: Paulo Cesar Ossani <ossanipc@hotmail.com>
Diff between MFAg versions 1.0 dated 2015-08-21 and 1.1 dated 2015-08-29
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- man/IM.Rd | 2 +- man/MFA.Rd | 2 +- man/MFAg-package.Rd | 8 ++++---- 5 files changed, 15 insertions(+), 15 deletions(-)
Title: Statistical Methods for the Analysis of Case-Control Point Data
Description: Various statistical methods for analyzing case-control point data.
The methods available closely follow those in chapter 6 of Applied Spatial
Statistics for Public Health Data by Waller and Gotway (2004).
Author: Joshua French
Maintainer: Joshua French <joshua.french@ucdenver.edu>
Diff between smacpod versions 1.1.1 dated 2014-11-18 and 1.2.3 dated 2015-08-29
smacpod-1.1.1/smacpod/R/confenv.kdenv.R |only smacpod-1.1.1/smacpod/R/lines.cienv.R |only smacpod-1.1.1/smacpod/R/tolenv.renv.R |only smacpod-1.1.1/smacpod/man/confenv.Rd |only smacpod-1.1.1/smacpod/man/lines.Rd |only smacpod-1.2.3/smacpod/DESCRIPTION | 8 +-- smacpod-1.2.3/smacpod/MD5 | 50 ++++++++++----------- smacpod-1.2.3/smacpod/NAMESPACE | 16 ++++-- smacpod-1.2.3/smacpod/R/kd.R | 6 +- smacpod-1.2.3/smacpod/R/kdest.R | 24 +++++++--- smacpod-1.2.3/smacpod/R/kdplus.test.R | 9 ++- smacpod-1.2.3/smacpod/R/logrr.R | 68 ++++++++++++++++++++--------- smacpod-1.2.3/smacpod/R/logrr.test.R | 2 smacpod-1.2.3/smacpod/R/plot.kdenv.R |only smacpod-1.2.3/smacpod/R/plot.logrrenv.R |only smacpod-1.2.3/smacpod/R/qnn.test.R | 6 +- smacpod-1.2.3/smacpod/R/spdensity.R | 4 - smacpod-1.2.3/smacpod/R/spscan.test.R | 7 +- smacpod-1.2.3/smacpod/R/tolenv.R |only smacpod-1.2.3/smacpod/man/grave.Rd | 3 - smacpod-1.2.3/smacpod/man/kd.Rd | 3 - smacpod-1.2.3/smacpod/man/kdest.Rd | 13 +++-- smacpod-1.2.3/smacpod/man/kdplus.test.Rd | 5 +- smacpod-1.2.3/smacpod/man/logrr.Rd | 29 ++++++++---- smacpod-1.2.3/smacpod/man/logrr.test.Rd | 3 - smacpod-1.2.3/smacpod/man/plot.kdenv.Rd |only smacpod-1.2.3/smacpod/man/plot.logrrenv.Rd |only smacpod-1.2.3/smacpod/man/qnn.test.Rd | 3 - smacpod-1.2.3/smacpod/man/spdensity.Rd | 3 - smacpod-1.2.3/smacpod/man/spscan.test.Rd | 9 ++- smacpod-1.2.3/smacpod/man/tolenv.Rd | 24 ++-------- 31 files changed, 178 insertions(+), 117 deletions(-)
Title: Talk to the NCBI EUtils
Description: An interface to NCBI databases such as PubMed, GenBank, or GEO
powered by the Entrez Programming Utilities (EUtils). The nine EUtils
provide programmatic access to the NCBI Entrez query and database
system for searching and retrieving biological data.
Author: Gerhard Schöfl <gerhard.schofl@gmail.com>
Maintainer: Gerhard Schöfl <gerhard.schofl@gmail.com>
Diff between reutils versions 0.1.2 dated 2014-02-26 and 0.2.1 dated 2015-08-29
reutils-0.1.2/reutils/man/efetch-methods.Rd |only reutils-0.1.2/reutils/man/einfo-methods.Rd |only reutils-0.1.2/reutils/man/elink-methods.Rd |only reutils-0.1.2/reutils/man/esearch-methods.Rd |only reutils-0.1.2/reutils/man/esummary-methods.Rd |only reutils-0.2.1/reutils/DESCRIPTION | 26 - reutils-0.2.1/reutils/LICENSE | 2 reutils-0.2.1/reutils/MD5 | 125 ++++---- reutils-0.2.1/reutils/NAMESPACE | 43 +- reutils-0.2.1/reutils/NEWS | 17 - reutils-0.2.1/reutils/R/ecitmatch.R | 36 +- reutils-0.2.1/reutils/R/efetch.R | 144 ++++++--- reutils-0.2.1/reutils/R/egquery.R | 23 - reutils-0.2.1/reutils/R/einfo.R | 170 ++++++----- reutils-0.2.1/reutils/R/elink.R | 89 ++--- reutils-0.2.1/reutils/R/epost.R | 54 +-- reutils-0.2.1/reutils/R/esearch.R | 145 ++++++--- reutils-0.2.1/reutils/R/espell.R | 30 + reutils-0.2.1/reutils/R/esummary.R | 56 ++- reutils-0.2.1/reutils/R/eutil-error.R | 40 +- reutils-0.2.1/reutils/R/eutil.R | 149 +++++---- reutils-0.2.1/reutils/R/parse-docsum.R | 48 +-- reutils-0.2.1/reutils/R/parse-params.R | 12 reutils-0.2.1/reutils/R/reutils-package.R | 6 reutils-0.2.1/reutils/R/utils.R | 114 +++---- reutils-0.2.1/reutils/man/content.Rd | 99 +++++- reutils-0.2.1/reutils/man/database.Rd | 15 reutils-0.2.1/reutils/man/ecitmatch.Rd | 20 - reutils-0.2.1/reutils/man/efetch.Rd | 137 ++++---- reutils-0.2.1/reutils/man/egquery.Rd | 7 reutils-0.2.1/reutils/man/einfo.Rd | 47 ++- reutils-0.2.1/reutils/man/elink.Rd | 58 +-- reutils-0.2.1/reutils/man/entrez_linkset-class.Rd | 3 reutils-0.2.1/reutils/man/entrez_uid-class.Rd | 3 reutils-0.2.1/reutils/man/epost.Rd | 30 - reutils-0.2.1/reutils/man/esearch.Rd | 112 +++---- reutils-0.2.1/reutils/man/espell.Rd | 12 reutils-0.2.1/reutils/man/esummary.Rd | 71 ++-- reutils-0.2.1/reutils/man/eutil-class.Rd | 46 +- reutils-0.2.1/reutils/man/eutil_error-class.Rd | 15 reutils-0.2.1/reutils/man/extract-efetch.Rd |only reutils-0.2.1/reutils/man/extract-einfo.Rd |only reutils-0.2.1/reutils/man/extract-elink.Rd |only reutils-0.2.1/reutils/man/extract-esearch.Rd |only reutils-0.2.1/reutils/man/getError.Rd | 11 reutils-0.2.1/reutils/man/getUrl.Rd | 11 reutils-0.2.1/reutils/man/linkset.Rd | 20 - reutils-0.2.1/reutils/man/make_flattener.Rd | 8 reutils-0.2.1/reutils/man/ncbi_retrieval_type.Rd | 9 reutils-0.2.1/reutils/man/performQuery.Rd | 9 reutils-0.2.1/reutils/man/querykey.Rd | 15 reutils-0.2.1/reutils/man/retmode.Rd | 13 reutils-0.2.1/reutils/man/rettype.Rd | 13 reutils-0.2.1/reutils/man/reutils.Rd | 138 ++++---- reutils-0.2.1/reutils/man/sub-esummary.Rd |only reutils-0.2.1/reutils/man/uid.Rd | 17 - reutils-0.2.1/reutils/man/webenv.Rd | 15 reutils-0.2.1/reutils/man/xattr.Rd | 18 - reutils-0.2.1/reutils/man/xname.Rd | 16 - reutils-0.2.1/reutils/man/xset.Rd | 11 reutils-0.2.1/reutils/man/xvalue.Rd | 16 - reutils-0.2.1/reutils/tests/testthat/test-01-helpers.R | 6 reutils-0.2.1/reutils/tests/testthat/test-02-eutil-methods.R | 20 - reutils-0.2.1/reutils/tests/testthat/test-03-einfo.R | 20 - reutils-0.2.1/reutils/tests/testthat/test-04-esearch.R | 63 +++- reutils-0.2.1/reutils/tests/testthat/test-05-esummary.R | 10 reutils-0.2.1/reutils/tests/testthat/test-06-epost.R | 4 reutils-0.2.1/reutils/tests/testthat/test-07-efetch.R | 36 ++ reutils-0.2.1/reutils/tests/testthat/test-09-ecitmatch.R |only 69 files changed, 1476 insertions(+), 1027 deletions(-)
Title: Tools to Fit Flexible Parametric Curves
Description: Model selection tools and 'selfStart' functions to fit parametric curves in 'nls', 'nlsList' and 'nlme' frameworks.
Author: Stephen Oswald [aut, cre]
Maintainer: Stephen Oswald <steve.oswald@psu.edu>
Diff between FlexParamCurve versions 1.5-2 dated 2015-04-01 and 1.5-3 dated 2015-08-29
DESCRIPTION | 11 ++- MD5 | 34 +++++------ NAMESPACE | 2 NEWS | 31 ++++++++++ R/SSposnegRichards.R | 126 ++++++++++++++++++++++++------------------ R/get.mod.R | 25 ++++---- R/modpar.R | 49 ++++++++++------ R/pn.mod.compare.R | 7 +- R/pn.modselect.step.R | 21 ++++--- man/FlexParamCurve-package.Rd | 8 ++ man/SSposnegRichards.Rd | 10 +-- man/get.mod.Rd | 23 ++++--- man/logist.data.Rd | 1 man/modpar.Rd | 11 +++ man/penguin.data.Rd | 1 man/posneg.data.Rd | 1 man/posnegRichards.calls.Rd | 8 +- man/tern.data.Rd | 1 18 files changed, 231 insertions(+), 139 deletions(-)
More information about FlexParamCurve at CRAN
Permanent link
Title: Partial Linear Least-Squares Regression using Constrained
Splines
Description: Given response y, continuous predictor x, and covariate matrix, the relationship between E(y) and x is estimated with a shape constrained regression spline. Function outputs fits and various types of inference.
Author: Mary C Meyer
Maintainer: Mary C Meyer <meyer@stat.colostate.edu>
Diff between ConSpline versions 1.0 dated 2015-03-30 and 1.1 dated 2015-08-29
DESCRIPTION | 10 ++++---- MD5 | 14 ++++++----- R/conspline.R | 47 +++++++++++++++++++++++--------------- data/GAVoting.rda |only data/WhiteSpruce.rda |binary man/ConSpline-package.Rd | 20 +++++++++------- man/GAVoting.Rd |only man/WhiteSpruce.Rd | 6 +++- man/conspline.Rd | 57 +++++++++++++++++------------------------------ 9 files changed, 79 insertions(+), 75 deletions(-)
Title: Cognitive Diagnosis Modeling
Description: Functions for cognitive diagnosis modeling
and multidimensional item response modeling for dichotomous
and polytomous data. This package enables the estimation of the
DINA and DINO model, the multiple group (polytomous) GDINA model,
the multiple choice DINA model, the general diagnostic model (GDM),
the multidimensional linear compensatory item response model and
the structured latent class model (SLCA).
Author: Alexander Robitzsch [aut, cre], Thomas Kiefer [aut],
Ann Cathrice George [aut], Ali Uenlue [aut]
Maintainer: Alexander Robitzsch <a.robitzsch@bifie.at>
Diff between CDM versions 4.4-1 dated 2015-07-01 and 4.5-0 dated 2015-08-29
DESCRIPTION | 12 +++---- MD5 | 59 +++++++++++++++++++------------------ NAMESPACE | 2 - R/IRT.jackknife.gdina.R | 1 R/din.R | 4 +- R/gdina.R | 5 ++- R/gdina_designmatrices.R | 74 +++++++++++++++++++++++++++++++++++++++++++---- R/gdm.R | 5 ++- R/gdm_algorithm.R | 5 +-- R/gdm_postproc.R | 6 ++- R/itemfit.rmsea.R | 7 ++++ R/mcdina.R | 2 - R/print.summary.din.R | 8 ++++- R/slca.R | 1 R/summary.din.R | 6 +-- R/summary.gdina.R | 8 +++-- R/summary.gdm.R | 6 ++- R/summary.mcdina.R | 4 +- R/summary.slca.R | 5 ++- R/vcov.din.R | 33 -------------------- R/vcov.loglike.din.R |only inst/NEWS | 17 +++++++++- man/CDM-package.Rd | 53 +++++++++++++++++---------------- man/IRT.itemfit.Rd | 2 - man/din.Rd | 1 man/gdina.Rd | 3 + man/gdm.Rd | 1 man/itemfit.sx2.Rd | 15 +++++---- man/mcdina.Rd | 1 man/modelfit.cor.Rd | 2 - man/slca.Rd | 1 31 files changed, 218 insertions(+), 131 deletions(-)
Title: The Bee Swarm Plot, an Alternative to Stripchart
Description: The bee swarm plot is a one-dimensional scatter plot like "stripchart", but with closely-packed, non-overlapping points.
Author: Aron Eklund
Maintainer: Aron Eklund <eklund@cbs.dtu.dk>
Diff between beeswarm versions 0.2.0 dated 2015-05-04 and 0.2.1 dated 2015-08-29
DESCRIPTION | 12 ++++++------ MD5 | 7 ++++--- NAMESPACE | 4 ++++ NEWS | 5 +++++ README.md |only 5 files changed, 19 insertions(+), 9 deletions(-)
Title: Debugging with Restore Points
Description: Debugging with restore points instead of break points. A restore
point stores all local variables when called inside a function. The stored
values can later be retrieved and evaluated in a modified R console that
replicates the function's environment. To debug step by step, one can
simply copy & paste the function body from the R script. Particularly
convenient in combination with RStudio. See the github page for a tutorial.
Author: Sebastian Kranz
Maintainer: Sebastian Kranz <sebastian.kranz@uni-ulm.de>
Diff between restorepoint versions 0.1.5 dated 2014-02-20 and 0.1.7 dated 2015-08-29
restorepoint-0.1.5/restorepoint/man/set.restore.point.options.Rd |only restorepoint-0.1.7/restorepoint/DESCRIPTION | 10 restorepoint-0.1.7/restorepoint/MD5 | 46 +- restorepoint-0.1.7/restorepoint/NAMESPACE | 6 restorepoint-0.1.7/restorepoint/R/restorepoint.R | 138 +++++- restorepoint-0.1.7/restorepoint/inst/examples/restorepoint_examples.R | 77 +++ restorepoint-0.1.7/restorepoint/man/add.restore.point.test.Rd |only restorepoint-0.1.7/restorepoint/man/assert.Rd | 8 restorepoint-0.1.7/restorepoint/man/break.point.Rd |only restorepoint-0.1.7/restorepoint/man/calls.to.trace.Rd | 14 restorepoint-0.1.7/restorepoint/man/can.parse.multi.line.Rd | 12 restorepoint-0.1.7/restorepoint/man/clone.environment.Rd | 12 restorepoint-0.1.7/restorepoint/man/copy.into.env.Rd | 32 - restorepoint-0.1.7/restorepoint/man/default.error.string.fun.Rd | 10 restorepoint-0.1.7/restorepoint/man/env.console.Rd | 59 -- restorepoint-0.1.7/restorepoint/man/eval.with.error.trace.Rd | 31 - restorepoint-0.1.7/restorepoint/man/get.restore.point.options.Rd | 6 restorepoint-0.1.7/restorepoint/man/get.stored.dots.Rd | 12 restorepoint-0.1.7/restorepoint/man/get.stored.object.list.Rd | 7 restorepoint-0.1.7/restorepoint/man/is.storing.Rd | 6 restorepoint-0.1.7/restorepoint/man/restore.objects.Rd | 29 - restorepoint-0.1.7/restorepoint/man/restore.point.Rd | 227 ++++++---- restorepoint-0.1.7/restorepoint/man/restore.point.browser.Rd | 52 +- restorepoint-0.1.7/restorepoint/man/restore.point.options.Rd |only restorepoint-0.1.7/restorepoint/man/set.storing.Rd | 10 restorepoint-0.1.7/restorepoint/man/store.objects.Rd | 65 +- 26 files changed, 549 insertions(+), 320 deletions(-)
Title: Omics Data Integration Project
Description: We provide statistical integrative techniques and
variants to analyse highly dimensional data sets: regularized
Canonical Correlation Analysis ('rCCA') and sparse Partial Least Squares variants ('sPLS')
to unravel relationships between two heterogeneous data sets of size (n times p) and (n times q) where the p and
q variables are measured on the same samples or individuals n. These data may come from high throughput
technologies, such as 'omics' data (e.g. transcriptomics, metabolomics or proteomics
data) that require an integrative or joint analysis. However, 'mixOmics' can also be applied to any other
large data sets where p + q >> n. 'rCCA' is a regularized version of Canonical Correlation Analysis to deal with
the large number of variables. 'sPLS' allows variable selection in a one step procedure and two frameworks
are proposed: regression and canonical analysis. Numerous graphical outputs are provided to help interpreting
the results. Recent methodological developments include: sparse PLS-Discriminant Analysis ('sPLS-DA'), Independent
Principal Component Analysis ('IPCA'), multilevel analysis using variance decomposition of the data and integration
of multiple data sets with regularized Generalised Canonical Correlation Analysis ('rGCCA') and variants (sparse 'GCCA'). More details can be found
on our website.
Author: Kim-Anh Le Cao, Ignacio Gonzalez, Sebastien Dejean with key contributors Florian Rohart, Benoit Gautier
and contributions from Pierre Monget, Jeff Coquery, FangZou Yao, Benoit Liquet.
Maintainer: Kim-Anh Le Cao <k.lecao@uq.edu.au>
Diff between mixOmics versions 5.1.1 dated 2015-07-30 and 5.1.2 dated 2015-08-29
DESCRIPTION | 6 MD5 | 24 NAMESPACE | 12 NEWS | 21 R/helpers.R | 6 R/perf.R | 2 R/plotIndiv.R | 388 +++++---- R/plotVar.R | 2179 ++++++++++++------------------------------------------- R/spls.R | 4 man/plotIndiv.Rd | 89 +- man/plotVar.Rd | 238 +++--- man/sipca.Rd | 2 man/spca.Rd | 7 13 files changed, 962 insertions(+), 2016 deletions(-)
Title: Least-Squares Means
Description: Obtain least-squares means for many linear, generalized linear,
and mixed models. Compute contrasts or linear functions of least-squares
means, and comparisons of slopes. Plots and compact letter displays.
Author: Russell Lenth [aut, cre],
Maxime Herv\'e [ctb]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between lsmeans versions 2.19 dated 2015-07-26 and 2.20 dated 2015-08-29
DESCRIPTION | 22 +++--- MD5 | 30 ++++---- NAMESPACE | 4 + R/helpers.R | 22 +++--- R/lsmip.R | 12 +-- R/multinom-support.R |only R/rbind.R |only build/vignette.rds |binary inst/NEWS | 11 +++ inst/doc/extending.pdf |binary inst/doc/using-lsmeans.R | 158 +++++++++++++++++++++++--------------------- inst/doc/using-lsmeans.pdf |binary inst/doc/using-lsmeans.rnw | 16 ++++ man/lsmip.Rd | 7 + man/models.Rd | 12 ++- man/summary.Rd | 23 +++++- vignettes/using-lsmeans.rnw | 16 ++++ 17 files changed, 215 insertions(+), 118 deletions(-)