Title: Latent Variable Analysis
Description: Fit a variety of latent variable models, including confirmatory
factor analysis, structural equation modeling and latent growth curve models.
Author: Yves Rosseel [aut, cre],
Daniel Oberski [ctb],
Jarrett Byrnes [ctb],
Leonard Vanbrabant [ctb],
Victoria Savalei [ctb],
Ed Merkle [ctb],
Michael Hallquist [ctb],
Mijke Rhemtulla [ctb],
Myrsini Katsikatsou [ctb],
Mariska Barendse [ctb]
Maintainer: Yves Rosseel <Yves.Rosseel@UGent.be>
Diff between lavaan versions 0.5-18 dated 2015-04-04 and 0.5-19 dated 2015-10-03
DESCRIPTION | 13 - MD5 | 97 +++++------ NAMESPACE | 56 ++++-- R/00class.R | 14 + R/00generic.R | 9 + R/ctr_estfun.R | 16 + R/ctr_pml_plrt.R | 148 ++++++++-------- R/ctr_pml_plrt2.R |only R/ctr_pml_plrt_nested.R | 12 - R/lav_fit.R | 60 ------ R/lav_fit_measures.R | 16 + R/lav_matrix.R | 4 R/lav_model.R | 12 + R/lav_model_compute.R | 15 + R/lav_model_estimate.R | 16 + R/lav_model_gradient.R | 19 +- R/lav_model_implied.R |only R/lav_model_information.R | 14 + R/lav_model_objective.R | 5 R/lav_model_vcov.R | 83 ++++++++- R/lav_modification.R | 322 ++++++++++++------------------------ R/lav_object_generate.R | 92 ++++++++++ R/lav_object_inspect.R | 243 ++++++++++++++++++++++++--- R/lav_object_methods.R | 246 ++++++++++++++++++++------- R/lav_object_post_check.R |only R/lav_partable.R | 45 +++-- R/lav_partable_complete.R | 101 ++++++----- R/lav_partable_constraints.R | 212 ++++++------------------ R/lav_partable_vnames.R | 66 ++++--- R/lav_predict.R | 113 ++++++++++-- R/lav_print.R | 361 +++++++++++++++++++++++++++++++++++++++++ R/lav_representation_lisrel.R | 183 ++++++++++++++++++-- R/lav_residuals.R | 14 + R/lav_standardize.R | 12 - R/lav_start.R | 7 R/lav_syntax.R | 122 +++++++------ R/lav_test.R | 19 ++ R/lav_test_LRT.R | 18 +- R/lav_test_diff.R | 198 ++++++++++++++-------- R/lav_test_score.R | 316 ++++++++++++++++++++++++++--------- R/lavaan.R | 110 +++++++----- man/fitMeasures.Rd | 2 man/lavInspect.Rd | 11 + man/lavMatrixRepresentation.Rd | 8 man/lavPredict.Rd | 17 + man/lavTestScore.Rd |only man/lav_model.Rd |only man/lav_partable.Rd | 22 ++ man/lavaan-class.Rd | 6 man/modificationIndices.Rd | 8 man/parameterEstimates.Rd | 41 +++- man/standardizedSolution.Rd | 9 - 52 files changed, 2396 insertions(+), 1137 deletions(-)
Title: Analysis of Geostatistical Data using Bayes and Empirical Bayes
Methods
Description: Functions to fit geostatistical data. The data can be
continuous, binary or count data and the models implemented are
flexible. Conjugate priors are assumed on some parameters while
inference on the other parameters can be done through a full
Bayesian analysis of by empirical Bayes methods.
Author: Evangelos Evangelou <e.evangelou@maths.bath.ac.uk>, Vivekananda
Roy <vroy@iastate.edu>
Maintainer: Evangelos Evangelou <e.evangelou@maths.bath.ac.uk>
Diff between geoBayes versions 0.2.150402 dated 2015-04-02 and 0.3.0 dated 2015-10-03
geoBayes-0.2.150402/geoBayes/src/skelpnts.f90 |only geoBayes-0.3.0/geoBayes/DESCRIPTION | 18 - geoBayes-0.3.0/geoBayes/MD5 | 68 ++-- geoBayes-0.3.0/geoBayes/NAMESPACE | 19 + geoBayes-0.3.0/geoBayes/NEWS | 5 geoBayes-0.3.0/geoBayes/R/bf.R | 75 ++-- geoBayes-0.3.0/geoBayes/R/calcbf.R | 3 geoBayes-0.3.0/geoBayes/R/comparebinlinks.R | 2 geoBayes-0.3.0/geoBayes/R/geoesteb.R | 17 - geoBayes-0.3.0/geoBayes/R/linkfcn.R | 44 ++ geoBayes-0.3.0/geoBayes/R/mcsp2.R | 16 geoBayes-0.3.0/geoBayes/man/bf1skel.Rd | 8 geoBayes-0.3.0/geoBayes/man/bf2new.Rd | 3 geoBayes-0.3.0/geoBayes/man/bf2optim.Rd | 3 geoBayes-0.3.0/geoBayes/man/bfse.Rd | 3 geoBayes-0.3.0/geoBayes/man/comparebinlinks.Rd | 3 geoBayes-0.3.0/geoBayes/man/ebsglmm.Rd | 16 geoBayes-0.3.0/geoBayes/man/ebstrga.Rd | 3 geoBayes-0.3.0/geoBayes/man/geoBayes.Rd | 3 geoBayes-0.3.0/geoBayes/man/linkfcn.Rd | 17 - geoBayes-0.3.0/geoBayes/man/mcmcmake.Rd | 3 geoBayes-0.3.0/geoBayes/man/mcsglmm.Rd | 13 geoBayes-0.3.0/geoBayes/man/mcstrga.Rd | 3 geoBayes-0.3.0/geoBayes/man/mkpredgrid2d.Rd | 3 geoBayes-0.3.0/geoBayes/man/plotbf2.Rd | 3 geoBayes-0.3.0/geoBayes/man/rhizoctonia.Rd | 3 geoBayes-0.3.0/geoBayes/man/stackdata.Rd | 3 geoBayes-0.3.0/geoBayes/src/Makevars | 7 geoBayes-0.3.0/geoBayes/src/auxfcns.c | 12 geoBayes-0.3.0/geoBayes/src/bfsp.f90 | 107 ++++-- geoBayes-0.3.0/geoBayes/src/calcb2.f90 | 416 ++++++++++++++----------- geoBayes-0.3.0/geoBayes/src/linkfcn.f90 | 33 + geoBayes-0.3.0/geoBayes/src/llik.f90 | 92 +++++ geoBayes-0.3.0/geoBayes/src/mcsp2.f90 | 150 ++++++++- geoBayes-0.3.0/geoBayes/src/pdfw.f90 |only geoBayes-0.3.0/geoBayes/src/pdfy.f90 | 104 ++++++ 36 files changed, 925 insertions(+), 353 deletions(-)
Title: An Enhanced Chart for Simple and Truthful Representation of
Single Observations over Multiple Classes
Description: The sinaplot is a data visualization chart suitable for plotting
any single variable in a multiclass dataset. It is an enhanced jitter strip
chart, where the width of the jitter is controlled by the density
distribution of the data within each class.
Author: Nikos Sidiropoulos [aut, cre],
Sina Hadi Sohi [aut],
Nicolas Rapin [aut],
Frederik Otzen Bagger [aut]
Maintainer: Nikos Sidiropoulos <nikos.sidiro@gmail.com>
Diff between sinaplot versions 0.1.1 dated 2015-10-01 and 0.1.2 dated 2015-10-03
sinaplot-0.1.1/sinaplot/inst/temp.Rmd |only sinaplot-0.1.2/sinaplot/DESCRIPTION | 15 ++++++++------- sinaplot-0.1.2/sinaplot/MD5 | 14 +++++++++----- sinaplot-0.1.2/sinaplot/NEWS |only sinaplot-0.1.2/sinaplot/R/sinaplot.R | 8 ++------ sinaplot-0.1.2/sinaplot/build |only sinaplot-0.1.2/sinaplot/inst/doc |only sinaplot-0.1.2/sinaplot/man/sinaplot.Rd | 8 ++++---- sinaplot-0.1.2/sinaplot/vignettes/SinaPlot.Rmd | 11 +++++++---- 9 files changed, 30 insertions(+), 26 deletions(-)
Title: Nonparametric Methods for Cognitive Diagnosis
Description: An array of nonparametric and parametric estimation methods for cognitive diagnostic models, including nonparametric classification of examinee attribute profiles, joint maximum likelihood estimation (JMLE) of examinee attribute profiles and item parameters, and nonparametric refinement of the Q-matrix, as well as conditional maximum likelihood estimation (CMLE) of examinee attribute profiles given item parameters and CMLE of item parameters given examinee attribute profiles. Currently the nonparametric methods in the package support both conjunctive and disjunctive models, and the parametric methods in the package support the DINA model, the DINO model, the NIDA model, the G-NIDA model, and the R-RUM model.
Author: Yi Zheng [aut, cre],
Chia-Yi Chiu [aut],
Jeffrey A. Douglas [ctb]
Maintainer: Yi Zheng <yi.isabel.zheng@asu.edu>
Diff between NPCD versions 1.0-8 dated 2015-05-02 and 1.0-9 dated 2015-10-03
DESCRIPTION | 8 ++++---- MD5 | 30 +++++++++++++++++------------- NAMESPACE | 5 ++++- R/AlphaMLE.R | 2 +- R/AlphaNP.R | 2 +- R/CDL.R | 4 ++-- R/CDP.R |only R/ItemFit.R |only R/JMLE.R | 2 +- R/ParMLE.R | 4 ++-- man/AlphaMLE.Rd | 3 ++- man/AlphaNP.Rd | 3 +++ man/CDL.Rd | 2 +- man/CDP.Rd |only man/ItemFit.Rd |only man/JMLE.Rd | 3 ++- man/NPCD.Rd | 4 ++-- man/ParMLE.Rd | 4 ++-- 18 files changed, 44 insertions(+), 32 deletions(-)
Title: Generalized Linear Autoregressive Moving Average Models
Description: Functions are provided for estimation, testing, diagnostic checking and forecasting of generalized linear autoregressive moving average (GLARMA) models for discrete valued time series with regression variables. These are a class of observation driven non-linear non-Gaussian state space models. The state vector consists of a linear regression component plus an observation driven component consisting of an autoregressive-moving average (ARMA) filter of past predictive residuals. Currently three distributions (Poisson, negative binomial and binomial) can be used for the response series. Three options (Pearson, score-type and unscaled) for the residuals in the observation driven component are available. Estimation is via maximum likelihood (conditional on initializing values for the ARMA process) optimized using Fisher scoring or Newton Raphson iterative methods. Likelihood ratio and Wald tests for the observation driven component allow testing for serial dependence in generalized linear model settings. Graphical diagnostics including model fits, autocorrelation functions and probability integral transform residuals are included in the package. Several standard data sets are included in the package.
Author: William T.M. Dunsmuir <w.dunsmuir@unsw.edu.au>, Cenanning Li
<cli113@aucklanduni.ac.nz>, and David J. Scott
<d.scott@auckland.ac.nz>
Maintainer: "William T.M. Dunsmuir" <w.dunsmuir@unsw.edu.au>
Diff between glarma versions 1.3-0 dated 2014-09-25 and 1.4-0 dated 2015-10-03
ChangeLog | 9 ++++++++- DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- NAMESPACE | 8 +++++++- build/vignette.rds |binary inst/CITATION | 36 +++++++++++++++++++----------------- inst/doc/glarma.pdf |binary inst/unitTests/Makefile | 44 ++++++++++++++++++++++---------------------- man/glarma.Rd | 20 ++++++++++++++------ 9 files changed, 83 insertions(+), 60 deletions(-)
Title: Primal or Dual Cone Projections with Routines for Constrained
Regression
Description: Routines doing cone projection and quadratic programming, as well as doing estimation and inference for constrained parametric regression and shape-restricted regression problems.
Author: Mary C. Meyer and Xiyue Liao
Maintainer: Xiyue Liao <xiyue@rams.colostate.edu>
Diff between coneproj versions 1.7 dated 2015-09-02 and 1.8 dated 2015-10-03
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/coneproj.R | 2 +- man/qprog.Rd | 1 + src/coneproj.cpp | 7 +++++-- 5 files changed, 15 insertions(+), 11 deletions(-)
Title: Tools for Retrieval and Storage of Functional Genomics Data
Description: Package for the systematic retrieval and storage of
functional genomics data via a MySQL database.
Author: Umesh K. Nandal <u.k.nandal@amc.uva.nl> and Perry D. Moerland
<p.d.moerland@amc.uva.nl>
Maintainer: Umesh Nandal <u.k.nandal@amc.uva.nl>
Diff between compendiumdb versions 1.0.1 dated 2015-06-15 and 1.0.2 dated 2015-10-03
DESCRIPTION | 11 INSTALL | 9 MD5 | 22 NAMESPACE | 33 - R/checkUpdates.R |only R/createESET.R | 236 ++++---- inst/doc/compendiumdb.pdf |binary inst/extdata/compendiumSchema.sql | 4 inst/scripts/Perl/loadAllforGSEeset.pl | 915 ++++++++++++++++----------------- inst/scripts/README | 2 man/checkUpdates.Rd |only man/compendiumdb-package.Rd | 4 man/createESET.Rd | 2 13 files changed, 631 insertions(+), 607 deletions(-)
Title: Tools for Sotkanet Open Data Portal
Description: Tools to download data from the Sotkanet open data portal.
Author: Leo Lahti, Einari Happonen, Juuso Parkkinen, Joona Lehtomaki
Maintainer: Leo Lahti <louhos@googlegroups.com>
Diff between sotkanet versions 0.9.14 dated 2015-06-24 and 0.9.21 dated 2015-10-03
DESCRIPTION | 8 - MD5 | 18 +-- NAMESPACE | 1 R/base_url.R | 2 R/csv.R | 10 -- inst/doc/tutorial.R | 107 +++++++++++----------- inst/doc/tutorial.Rmd | 11 +- inst/doc/tutorial.html | 217 +++++++++++++++++++++++++++++++++++++++++++++- man/sotkanet.csv_query.Rd | 9 - vignettes/tutorial.Rmd | 11 +- 10 files changed, 300 insertions(+), 94 deletions(-)
Title: Penalized Likelihood Estimation and Prediction under the Joint
Cox Models Between Tumour Progression and Death for
Meta-Analysis
Description: Perform regression analyses under the joint Cox proportional hazards model between tumour progression and death for meta-analysis.
The method is applicable for meta-analysis combining several studies or for cluster survival data.
Author: Takeshi Emura
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between joint.Cox versions 2.1 dated 2015-09-25 and 2.2 dated 2015-10-03
DESCRIPTION | 8 ++--- MD5 | 14 ++++----- NAMESPACE | 3 + R/F.window.R | 45 ++++++++++++++++++++++++++--- man/F.window.Rd | 70 ++++++++++++++++++++++++++++------------------ man/joint.Cox-package.Rd | 4 +- man/jointCox.indep.reg.Rd | 2 - man/jointCox.reg.Rd | 2 - 8 files changed, 101 insertions(+), 47 deletions(-)
Title: Command Line Option Parser
Description: A command line parser inspired by Python's 'optparse' library to
be used with Rscript to write "#!" shebang scripts that accept short and
long flag/options.
Author: Trevor L Davis. Some documentation and examples ported from Allen Day's
getopt package. Some documentation from the optparse Python module by the
Python Software Foundation. Contributions from Steve Lianoglou, Jim
Nikelski, Kirill Müller, Peter Humburg, and Rich FitzJohn.
Maintainer: Trevor L Davis <trevor.l.davis@gmail.com>
Diff between optparse versions 1.3.0 dated 2014-12-11 and 1.3.2 dated 2015-10-03
DESCRIPTION | 12 ++++++------ MD5 | 30 +++++++++++++++--------------- NAMESPACE | 3 ++- NEWS | 5 ++++- R/optparse.R | 24 +++++++++++++++--------- build/vignette.rds |binary inst/COPYRIGHTS | 4 +++- inst/doc/optparse.pdf |binary man/OptionParser-class.Rd | 2 +- man/OptionParser.Rd | 2 +- man/OptionParserOption-class.Rd | 2 +- man/add_make_option.Rd | 4 +++- man/optparse-package.Rd | 2 +- man/parse_args.Rd | 2 +- man/print_help.Rd | 2 +- tests/testthat/test-optparse.R | 36 +++++++++++++++++++++++++++++++----- 16 files changed, 85 insertions(+), 45 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package pan, jomo is a package for multilevel joint modelling multiple imputation.
Novel aspects of jomo are the possibility of handling binary and categorical data through latent normal variables and the option to use cluster-specific covariance matrices.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <matteo.quartagno@lshtm.ac.uk>
Diff between jomo versions 1.2-0 dated 2015-06-26 and 1.2-1 dated 2015-10-03
DESCRIPTION | 8 ++++---- MD5 | 42 +++++++++++++++++++++--------------------- R/jomo1.MCMCchain.R | 4 +++- R/jomo1.R | 4 +++- R/jomo1cat.MCMCchain.R | 15 +++++++++------ R/jomo1cat.R | 16 ++++++++++------ R/jomo1mix.MCMCchain.R | 15 +++++++++------ R/jomo1mix.R | 15 +++++++++------ R/jomo1ran.MCMCchain.R | 4 +++- R/jomo1ran.R | 4 +++- R/jomo1rancat.MCMCchain.R | 15 +++++++++------ R/jomo1rancat.R | 15 +++++++++------ R/jomo1rancathr.MCMCchain.R | 15 +++++++++------ R/jomo1rancathr.R | 15 +++++++++------ R/jomo1rancon.MCMCchain.R | 1 - R/jomo1rancon.R | 1 - R/jomo1ranconhr.MCMCchain.R | 1 - R/jomo1ranconhr.R | 1 - R/jomo1ranmix.MCMCchain.R | 15 +++++++++------ R/jomo1ranmix.R | 16 ++++++++++------ R/jomo1ranmixhr.MCMCchain.R | 16 ++++++++++------ R/jomo1ranmixhr.R | 16 ++++++++++------ 22 files changed, 149 insertions(+), 105 deletions(-)
Title: Hidden State Speciation and Extinction
Description: Sets up and executes a HiSSE model (Hidden State Speciation and Extinction) on a phylogeny and character sets to test for hidden shifts in trait dependent rates of diversification.
Author: Jeremy M. Beaulieu <jbeaulieu@nimbios.org>, Brian O'Meara <bomeara@utk.edu>
Maintainer: Jeremy Beaulieu <jbeaulieu@nimbios.org>
Diff between hisse versions 1.2 dated 2015-09-25 and 1.3 dated 2015-10-03
DESCRIPTION | 8 MD5 | 14 R/supportRegion.R | 46 ++ build/vignette.rds |binary inst/doc/hisse-vignette.Rmd | 18 - inst/doc/hisse-vignette.html | 693 +++++++++++++------------------------------ man/supportRegion.Rd | 3 vignettes/hisse-vignette.Rmd | 18 - 8 files changed, 288 insertions(+), 512 deletions(-)
Title: Streamlining Design and Deployment of Complex Workflows
Description:
This framework allows you to design and implement complex pipelines, and
deploy them on your institution's computing cluster. This has been built
keeping in mind the needs of bioinformatics workflows. However, it is
easily extendable to any field where a series of steps (shell commands)
are to be executed in a (work)flow.
Author: Sahil Seth [aut, cre]
Maintainer: Sahil Seth <me@sahilseth.com>
Diff between flowr versions 0.9.7.10 dated 2015-08-22 and 0.9.8.2 dated 2015-10-03
flowr-0.9.7.10/flowr/inst/doc/build-pipes.R |only flowr-0.9.7.10/flowr/inst/doc/build-pipes.Rmd |only flowr-0.9.7.10/flowr/inst/doc/build-pipes.html |only flowr-0.9.7.10/flowr/inst/doc/example_sleep.R |only flowr-0.9.7.10/flowr/inst/doc/example_sleep.Rmd |only flowr-0.9.7.10/flowr/inst/doc/example_sleep.html |only flowr-0.9.7.10/flowr/inst/doc/hpcc-support.R |only flowr-0.9.7.10/flowr/inst/doc/hpcc-support.Rmd |only flowr-0.9.7.10/flowr/inst/doc/hpcc-support.html |only flowr-0.9.7.10/flowr/inst/doc/quick-start.R |only flowr-0.9.7.10/flowr/inst/doc/quick-start.Rmd |only flowr-0.9.7.10/flowr/inst/doc/quick-start.html |only flowr-0.9.7.10/flowr/man/as.flowdef.Rd |only flowr-0.9.7.10/flowr/man/as.flowmat.Rd |only flowr-0.9.7.10/flowr/man/calc_boxdim.Rd |only flowr-0.9.7.10/flowr/man/cmds_to_flow.Rd |only flowr-0.9.7.10/flowr/man/detect_dep_type.Rd |only flowr-0.9.7.10/flowr/man/flow-class.Rd |only flowr-0.9.7.10/flowr/man/get_resources.Rd |only flowr-0.9.7.10/flowr/man/get_resources_lsf.Rd |only flowr-0.9.7.10/flowr/man/parse_jobids.Rd |only flowr-0.9.7.10/flowr/man/parse_lsf_out.Rd |only flowr-0.9.7.10/flowr/man/queue-class.Rd |only flowr-0.9.7.10/flowr/man/read_fobj.Rd |only flowr-0.9.7.10/flowr/man/render_dependency.Rd |only flowr-0.9.7.10/flowr/man/render_queue_cmd.Rd |only flowr-0.9.7.10/flowr/man/split_multi_dep.Rd |only flowr-0.9.7.10/flowr/man/subset_fdef.Rd |only flowr-0.9.7.10/flowr/man/subset_fmat.Rd |only flowr-0.9.7.10/flowr/man/update_flow_det.Rd |only flowr-0.9.7.10/flowr/tests/testthat/test-rerun.R |only flowr-0.9.7.10/flowr/tests/testthat/test_plots.R |only flowr-0.9.7.10/flowr/vignettes/build-pipes.Rmd |only flowr-0.9.7.10/flowr/vignettes/example_sleep.Rmd |only flowr-0.9.7.10/flowr/vignettes/hpcc-support.Rmd |only flowr-0.9.7.10/flowr/vignettes/imgs |only flowr-0.9.7.10/flowr/vignettes/quick-start.Rmd |only flowr-0.9.8.2/flowr/DESCRIPTION | 25 - flowr-0.9.8.2/flowr/MD5 | 190 +++----- flowr-0.9.8.2/flowr/NAMESPACE | 11 flowr-0.9.8.2/flowr/NEWS.md | 181 +++++-- flowr-0.9.8.2/flowr/R/check-args.R | 133 ++++- flowr-0.9.8.2/flowr/R/check.R | 129 ++++- flowr-0.9.8.2/flowr/R/class-def.R | 355 ++++++++------- flowr-0.9.8.2/flowr/R/conf.R | 39 + flowr-0.9.8.2/flowr/R/errors.R | 14 flowr-0.9.8.2/flowr/R/fetch.r | 177 +++++-- flowr-0.9.8.2/flowr/R/kill-flow.R | 95 +++- flowr-0.9.8.2/flowr/R/limit_runs.R |only flowr-0.9.8.2/flowr/R/parse-jobids.R | 10 flowr-0.9.8.2/flowr/R/plot.R | 248 +++++++--- flowr-0.9.8.2/flowr/R/render-dependency.R | 24 - flowr-0.9.8.2/flowr/R/rerun.R | 240 +++++++--- flowr-0.9.8.2/flowr/R/run.R | 46 + flowr-0.9.8.2/flowr/R/rw-flow-details.R | 10 flowr-0.9.8.2/flowr/R/setup.R | 30 + flowr-0.9.8.2/flowr/R/status.R | 231 +++++++-- flowr-0.9.8.2/flowr/R/submit-flow.R | 38 + flowr-0.9.8.2/flowr/R/submit-job.R | 41 + flowr-0.9.8.2/flowr/R/to-flow.R | 422 +++++++++++------- flowr-0.9.8.2/flowr/R/to-flowdef.R | 182 +++++-- flowr-0.9.8.2/flowr/R/to-flowdet.R | 23 flowr-0.9.8.2/flowr/R/to-flowmat.R | 192 ++++---- flowr-0.9.8.2/flowr/R/verbose.R |only flowr-0.9.8.2/flowr/R/zz-parse-resources.R | 169 ++++--- flowr-0.9.8.2/flowr/R/zz-test-queue.R | 11 flowr-0.9.8.2/flowr/R/zzz.R | 11 flowr-0.9.8.2/flowr/README.md | 122 +++-- flowr-0.9.8.2/flowr/build/vignette.rds |binary flowr-0.9.8.2/flowr/inst/conf/flowr.conf | 4 flowr-0.9.8.2/flowr/inst/conf/lsf.sh | 5 flowr-0.9.8.2/flowr/inst/conf/moab.sh | 4 flowr-0.9.8.2/flowr/inst/conf/slurm.sh | 52 +- flowr-0.9.8.2/flowr/inst/conf/torque.sh | 1 flowr-0.9.8.2/flowr/inst/doc/flowr_install.R |only flowr-0.9.8.2/flowr/inst/doc/flowr_install.Rmd |only flowr-0.9.8.2/flowr/inst/doc/flowr_install.html |only flowr-0.9.8.2/flowr/inst/doc/flowr_overview.R |only flowr-0.9.8.2/flowr/inst/doc/flowr_overview.Rmd |only flowr-0.9.8.2/flowr/inst/doc/flowr_overview.html |only flowr-0.9.8.2/flowr/inst/doc/flowr_tutorial.R |only flowr-0.9.8.2/flowr/inst/doc/flowr_tutorial.Rmd |only flowr-0.9.8.2/flowr/inst/doc/flowr_tutorial.html |only flowr-0.9.8.2/flowr/inst/pipelines/abcd.def | 7 flowr-0.9.8.2/flowr/inst/pipelines/fastq_bam_bwa.R |only flowr-0.9.8.2/flowr/inst/pipelines/fastq_bam_bwa.conf |only flowr-0.9.8.2/flowr/inst/pipelines/fastq_bam_bwa.def |only flowr-0.9.8.2/flowr/inst/scripts/flowr | 411 ++++++++++++----- flowr-0.9.8.2/flowr/inst/scripts/flowr2 |only flowr-0.9.8.2/flowr/man/check.Rd | 33 + flowr-0.9.8.2/flowr/man/check_args.Rd | 17 flowr-0.9.8.2/flowr/man/error.Rd | 2 flowr-0.9.8.2/flowr/man/fetch.Rd | 81 ++- flowr-0.9.8.2/flowr/man/flow.Rd | 36 - 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Title: Mining Frequent Sequences
Description: Add-on for arules to handle and mine frequent sequences.
Provides interfaces to the C++ implementation of cSPADE by
Mohammed J. Zaki.
Author: Christian Buchta and Michael Hahsler, with contributions from
Daniel Diaz
Maintainer: Christian Buchta <christian.buchta@wu.ac.at>
Diff between arulesSequences versions 0.2-10 dated 2015-09-16 and 0.2-11 dated 2015-10-03
CHANGELOG | 12 + DESCRIPTION | 8 - MD5 | 43 +++--- NAMESPACE | 5 R/02sequences.R | 50 ++++++- R/03rules.R | 159 +++++++++++++++++++----- R/20support.R | 278 +++++++++++++++++++++++++++---------------- man/cspade.Rd | 9 + man/itemFrequency-methods.Rd | 2 man/ruleInduction-methods.Rd | 34 +++-- man/sequences-class.Rd | 4 man/support-methods.Rd | 9 + man/times-methods.Rd | 2 src/ptree.c |only tests/arules.Rout.save | 8 - tests/idlists.R | 13 +- tests/idlists.Rout.save | 20 ++- tests/makebin.Rout.save | 12 - tests/native.Rout.save | 12 - tests/ptree.R |only tests/ptree.Rout.save |only tests/similarity.Rout.save | 12 - tests/zaki.R | 17 ++ tests/zaki.Rout.save | 36 ++++- 24 files changed, 519 insertions(+), 226 deletions(-)
More information about arulesSequences at CRAN
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