Title: Weighted k-means Clustering
Diff between wskm versions 1.4.11 dated 2014-07-31 and 1.4.19 dated 2014-12-26
Description: Entropy weighted k-means (ewkm) is a weighted subspace
clustering algorithm that is well suited to very high
dimensional data. Weights are calculated as the importance of a
variable with regard to cluster membership.
The two-level variable weighting clustering algorithm TW-k-means (twkm)
introduces two types of weights, the weights on individual variables and
the weights on variable groups, and they are calculated during the clustering process.
The feature group weighted k-means (fgkm) extends this concept by grouping
features and weighting the group in addition to weighting
individual features.
Author: Graham Williams [aut],
Joshua Z Huang [aut],
Xiaojun Chen [aut],
Qiang Wang [aut],
Longfei Xiao [aut],
He Zhao [cre]
Maintainer: He Zhao
DESCRIPTION | 8 -
MD5 | 26 +--
R/fgkm.R | 20 +-
R/twkm.R | 24 ++-
man/fgkm.Rd | 18 +-
man/twkm.Rd | 19 +-
src/Utils.c | 13 -
src/ewkm.c | 10 -
src/fgkm.c | 19 +-
src/twkm.c | 19 +-
tests/Makefile | 4
tests/ewkm01.Rout.save | 346 ++++++++++++++++++++++------------------------
tests/fgkm_test.R |only
tests/fgkm_test.Rout.save |only
tests/twkm_test.R |only
tests/twkm_test.Rout.save |only
16 files changed, 282 insertions(+), 244 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-12-20 1.2
Title: Automatic Generation of Exams in R
Diff between exams versions 2.0-0 dated 2014-06-10 and 2.0-1 dated 2014-12-26
Description: Sweave-based automatic generation of exams including multiple-choice
questions and arithmetic problems. Exams can be produced in various formats, including
PDF, HTML, Moodle XML, QTI 1.2 (for OLAT/OpenOLAT), QTI 2.1.
Author: Achim Zeileis [aut, cre],
Bettina Gruen [aut],
Friedrich Leisch [aut],
Nikolaus Umlauf [aut],
Dominik Ernst [ctb]
Maintainer: Achim Zeileis
DESCRIPTION | 16 +++++++++-------
MD5 | 31 ++++++++++++++++---------------
NEWS | 21 +++++++++++++++++++++
R/exams2html.R | 37 ++++++++++++++++++++-----------------
R/exams2moodle.R | 10 +++++++---
R/exams2pdf.R | 13 ++++++++-----
R/exams2qti12.R | 39 +++++++++++++++++++++++----------------
R/exams2qti21.R | 2 +-
R/fileURI.R | 5 ++---
R/read_exercise.R | 30 ++++++++++++++++++++++++++++++
R/read_metainfo.R | 5 +++--
R/transformers.R | 2 +-
build/vignette.rds |binary
inst/CITATION | 2 +-
inst/doc/exams.pdf |binary
inst/doc/exams2.pdf |binary
inst/xml/blackboard.xml |only
17 files changed, 142 insertions(+), 71 deletions(-)
Title: Reactive transport modelling in 1D, 2D and 3D
Diff between ReacTran versions 1.4.1 dated 2013-06-12 and 1.4.2 dated 2014-12-26
Description: Routines for developing models that describe reaction and advective-diffusive transport in one, two or three dimensions.
Includes transport routines in porous media, in estuaries, and in bodies with variable shape.
Author: Karline Soetaert
Maintainer: Karline Soetaert
ReacTran-1.4.1/ReacTran/inst/doc/fortran/tran.volume.1D.f |only
ReacTran-1.4.1/ReacTran/inst/doc/fortran/tran.volume.2D.f |only
ReacTran-1.4.1/ReacTran/inst/doc/fortran/tran.volume.3D.f |only
ReacTran-1.4.2/ReacTran/DESCRIPTION | 21
ReacTran-1.4.2/ReacTran/MD5 | 16
ReacTran-1.4.2/ReacTran/NAMESPACE | 4
ReacTran-1.4.2/ReacTran/build |only
ReacTran-1.4.2/ReacTran/inst/doc/PDE.R | 454 +++----
ReacTran-1.4.2/ReacTran/inst/doc/ReacTran.R | 834 +++++++-------
ReacTran-1.4.2/ReacTran/man/setup.prop.2D.Rd | 8
ReacTran-1.4.2/ReacTran/man/tran.volume.1D.Rd | 2
11 files changed, 671 insertions(+), 668 deletions(-)
Title: Estimating network indices, including trophic structure of
foodwebs in R
Diff between NetIndices versions 1.4.3 dated 2014-01-13 and 1.4.4 dated 2014-12-26
Description: Given a network (e.g. a food web), estimates several network indices. These include: Ascendency network indices, Direct and indirect dependencies, Effective measures, Environ network indices, General network indices, Pathway analysis, Network uncertainty indices and constraint efficiencies and the trophic level and omnivory indices of food webs.
Author: Karline Soetaert
Maintainer: Karline Soetaert
DESCRIPTION | 10 +++++-----
MD5 | 10 +++++-----
NAMESPACE | 1 +
build/vignette.rds |binary
data/Conesprings.rda |binary
data/Takapoto.rda |binary
6 files changed, 11 insertions(+), 10 deletions(-)
Title: Linear Inverse Model examples and solution methods.
Diff between LIM versions 1.4.5 dated 2014-01-13 and 1.4.6 dated 2014-12-26
Description: Functions that read and solve linear inverse problems (food web problems, linear programming problems).
These problems find solutions to linear or quadratic functions:
min or max (f(x)), where f(x) = ||Ax-b||^2 or f(x) = sum(ai*xi)
subject to equality constraints Ex=f and inequality constraints Gx>=h. Uses package limSolve.
Author: Karline Soetaert
Maintainer: Karline Soetaert
DESCRIPTION | 10 +++++-----
MD5 | 32 ++++++++++++++++----------------
NAMESPACE | 2 ++
build/vignette.rds |binary
data/FILERigaAutumn.rda |binary
data/LIMBlending.rda |binary
data/LIMBrouageMudflat.rda |binary
data/LIMCaliforniaSediment.rda |binary
data/LIMCoralRockall.rda |binary
data/LIMEcoli.rda |binary
data/LIMEverglades.rda |binary
data/LIMRigaAutumn.rda |binary
data/LIMRigaSpring.rda |binary
data/LIMRigaSummer.rda |binary
data/LIMScheldtIntertidal.rda |binary
data/LIMTakapoto.rda |binary
data/LIMinputBlending.rda |binary
17 files changed, 23 insertions(+), 21 deletions(-)
Title: Implement semantically rich I/O for the NeXML format
Diff between RNeXML versions 2.0.0 dated 2014-12-06 and 2.0.1 dated 2014-12-26
Description: Provides access to phyloinformatic data in NeXML format. The
package should add new functionality to R such as the possibility to
manipulate NeXML objects in more various and refined way and compatibility
with 'ape' objects. Note that for the suggested packages, Sxslt is
available through Omegahat.org and rrdf from carlboettiger.info using the
additional repository URLs given below. Alternatively these can be
installed from Github, https://github.com/cboettig/Sxslt and
https://github.com/egonw/rrdf/
Author: Carl Boettiger [cre, aut],
Scott Chamberlain [aut],
Hilmar Lapp [aut],
Kseniia Shumelchyk [aut],
Rutger Vos [aut]
Maintainer: Carl Boettiger
DESCRIPTION | 25 +++---
MD5 | 88 ++++++++++++------------
NAMESPACE | 2
NEWS | 5 +
README.md | 2
inst/doc/tutorial.html | 2
man/add_basic_meta.Rd | 3
man/add_characters.Rd | 3
man/add_meta.Rd | 3
man/add_namespaces.Rd | 3
man/add_trees.Rd | 3
man/c-ListOfmeta-method.Rd | 3
man/c-meta-method.Rd | 3
man/c-nexml-method.Rd | 3
man/flatten_multiphylo.Rd | 3
man/get_characters.Rd | 3
man/get_characters_list.Rd | 3
man/get_citation.Rd | 3
man/get_flat_trees.Rd | 3
man/get_license.Rd | 3
man/get_metadata.Rd | 3
man/get_namespaces.Rd | 3
man/get_rdf.Rd | 3
man/get_taxa.Rd | 3
man/get_taxa_list.Rd | 3
man/get_taxa_meta.Rd | 3
man/get_taxa_meta_list.Rd | 3
man/get_trees.Rd | 3
man/get_trees_list.Rd | 3
man/meta.Rd | 3
man/nexml_add.Rd | 3
man/nexml_figshare.Rd | 3
man/nexml_get.Rd | 3
man/nexml_publish.Rd | 3
man/nexml_read.Rd | 3
man/nexml_to_simmap.Rd | 3
man/nexml_validate.Rd | 3
man/nexml_write.Rd | 3
man/reset_id_counter.Rd | 3
man/simmap_ex.Rd | 3
man/simmap_to_nexml.Rd | 3
man/taxize_nexml.Rd | 3
man/toPhylo.Rd | 3
vignettes/figure/tutorial-unnamed-chunk-4-1.png |binary
vignettes/tutorial.md | 2
45 files changed, 141 insertions(+), 96 deletions(-)
Title: Text mining of PubMed Abstracts
Diff between pubmed.mineR versions 1.0.2.1 dated 2014-12-20 and 1.0.3 dated 2014-12-26
Description: Text mining of PubMed Abstracts (text and XML) from http://www.ncbi.nlm.nih.gov/pubmed.
Author: Jyoti Sharma, S.Ramachandran, Ab Rauf Shah
Maintainer: S. Ramachandran
pubmed.mineR-1.0.2.1/pubmed.mineR/R/Pathway_Info.R |only
pubmed.mineR-1.0.2.1/pubmed.mineR/R/Pathway_Link.R |only
pubmed.mineR-1.0.2.1/pubmed.mineR/man/Pathway_Info.Rd |only
pubmed.mineR-1.0.2.1/pubmed.mineR/man/Pathway_Link.Rd |only
pubmed.mineR-1.0.3/pubmed.mineR/DESCRIPTION | 27 ++++++--------
pubmed.mineR-1.0.3/pubmed.mineR/MD5 | 16 +++-----
pubmed.mineR-1.0.3/pubmed.mineR/NAMESPACE | 4 --
pubmed.mineR-1.0.3/pubmed.mineR/data/GeneToEntrez.rda |binary
pubmed.mineR-1.0.3/pubmed.mineR/data/HGNC2UniprotID.rda |binary
pubmed.mineR-1.0.3/pubmed.mineR/data/HGNCdata.rda |binary
pubmed.mineR-1.0.3/pubmed.mineR/data/common_words_new.rda |binary
11 files changed, 20 insertions(+), 27 deletions(-)
Title: Multivariate-from-Univariate (MfU) MCMC Sampler
Diff between MfUSampler versions 0.9 dated 2014-10-28 and 0.9.1 dated 2014-12-26
Description: Convenience functions for multivariate MCMC using univariate samplers, including slice sampler with stepout and shrinkage (Neal, 2003), and adaptive rejection sampler (Gilks and Wild, 1992).
Author: Alireza S. Mahani, Mansour T.A. Sharabiani
Maintainer: Alireza S. Mahani
MfUSampler-0.9.1/MfUSampler/ChangeLog |only
MfUSampler-0.9.1/MfUSampler/DESCRIPTION | 10 +++++-----
MfUSampler-0.9.1/MfUSampler/MD5 | 15 ++++++++++++---
MfUSampler-0.9.1/MfUSampler/R/MfUSampler.R | 4 ++--
MfUSampler-0.9.1/MfUSampler/build |only
MfUSampler-0.9.1/MfUSampler/inst |only
MfUSampler-0.9.1/MfUSampler/man/MfU.Control.Rd |only
MfUSampler-0.9.1/MfUSampler/man/MfU.Sample.Rd |only
MfUSampler-0.9.1/MfUSampler/vignettes |only
MfUSampler-0.9/MfUSampler/man/MfU_Sample.Rd |only
10 files changed, 19 insertions(+), 10 deletions(-)
Title: AMCE Estimator for Conjoint Experiments
Diff between cjoint versions 1.0.2 dated 2014-11-25 and 1.0.3 dated 2014-12-26
Description: An R implementation of the Average Marginal Component-specific Effects (AMCE) estimator presented in Hainmueller, J., Hopkins, D., and Yamamoto T. (2014) Causal Inference in Conjoint Analysis: Understanding Multi-Dimensional Choices via Stated Preference Experiments. Political Analysis 22(1):1-30.
Author: Anton Strezhnev, Jens Hainmueller, Daniel Hopkins, Teppei Yamamoto
Maintainer: Anton Strezhnev
DESCRIPTION | 8 ++++----
MD5 | 6 +++---
R/cjoint.R | 24 ++++++++++++++----------
man/cjoint-package.Rd | 6 +++---
4 files changed, 24 insertions(+), 20 deletions(-)