Title: Semantically Rich I/O for the 'NeXML' Format
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.
Author: Carl Boettiger [cre, aut],
Scott Chamberlain [aut],
Hilmar Lapp [aut],
Kseniia Shumelchyk [aut],
Rutger Vos [aut]
Maintainer: Carl Boettiger <cboettig@gmail.com>
Diff between RNeXML versions 2.0.2 dated 2015-05-01 and 2.0.3 dated 2015-05-26
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- NEWS | 4 ++++ tests/testthat/test_simmap.R | 25 ++++++++++--------------- 4 files changed, 21 insertions(+), 22 deletions(-)
Title: Permits *apply() Style Dispatch for 'HPC'
Description: Function of apply style using 'MPI' provides better 'HPC' environment on R.
and this package supports long vector, can deal with slightly big data.
Author: Junji NAKANO <nakanoj@ism.ac.jp> and Ei-ji Nakama<nakama@com-one.com>
Maintainer: Ei-ji Nakama <nakama@com-one.com>
Diff between Rhpc versions 0.15-145 dated 2015-05-25 and 0.15-146 dated 2015-05-26
Rhpc-0.15-145/Rhpc/src/windows |only Rhpc-0.15-146/Rhpc/ChangeLog | 2 + Rhpc-0.15-146/Rhpc/DESCRIPTION | 18 +++++----- Rhpc-0.15-146/Rhpc/MD5 | 31 ++++++++---------- Rhpc-0.15-146/Rhpc/README | 17 +++++++++ Rhpc-0.15-146/Rhpc/cleanup | 6 +++ Rhpc-0.15-146/Rhpc/man/Rhpc-package.Rd | 2 - Rhpc-0.15-146/Rhpc/src/Makevars.win | 20 +++++------ Rhpc-0.15-146/Rhpc/src/RhpcMPI.c | 2 - Rhpc-0.15-146/Rhpc/src/RhpcMPIWorkerCall.h | 2 - Rhpc-0.15-146/Rhpc/src/RhpcMPIlapplyLB.h | 2 - Rhpc-0.15-146/Rhpc/src/RhpcMPIlapplyseq.h | 2 - Rhpc-0.15-146/Rhpc/src/worker/Makefile.win | 10 ++--- Rhpc-0.15-146/Rhpc/src/worker/RhpcWorker.c | 2 - Rhpc-0.15-146/Rhpc/src/worker/RhpcWorker_LapplyLB.h | 2 - Rhpc-0.15-146/Rhpc/src/worker/RhpcWorker_Lapplyseq.h | 2 - Rhpc-0.15-146/Rhpc/src/worker/RhpcWorker_WorkerCall.h | 2 - 17 files changed, 73 insertions(+), 49 deletions(-)
Title: Tools for Computing on the Language
Description: Useful tools to pry back the covers of R and understand the
language at a deeper level.
Author: Hadley Wickham [aut, cre],
R Core team [ctb] (Some code extracted from base R)
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between pryr versions 0.1 dated 2014-07-25 and 0.1.1 dated 2015-05-26
DESCRIPTION | 20 +- MD5 | 106 +++++++-------- NAMESPACE | 2 R/RcppExports.R | 6 R/explicit-promise.R | 32 ---- R/inspect.r | 7 + R/s3.r | 10 + README.md | 8 - man/as.envlist.Rd | 3 man/assign-active.Rd | 3 man/assign-constant.Rd | 3 man/assign-delayed.Rd | 3 man/bytes.Rd | 3 man/call_tree.Rd | 3 man/compose.Rd | 3 man/dots.Rd | 3 man/enclosing_env.Rd | 3 man/explicit.Rd | 33 ---- man/f.Rd | 3 man/fget.Rd | 3 man/find_funs.Rd | 3 man/find_uses.Rd | 3 man/ftype.Rd | 3 man/inspect.Rd | 11 - man/is_promise.Rd | 3 man/is_s3_generic.Rd | 7 - man/make_call.Rd | 3 man/make_function.Rd | 3 man/mem_change.Rd | 3 man/mem_used.Rd | 3 man/method_from_call.Rd | 3 man/modify_call.Rd | 3 man/modify_lang.Rd | 3 man/names_c.Rd | 3 man/object_size.Rd | 7 - man/otype.Rd | 3 man/parent_promise.Rd | 3 man/parenv.Rd | 3 man/parenvs.Rd | 3 man/partial.Rd | 3 man/print.envlist.Rd | 3 man/rebind.Rd | 3 man/rls.Rd | 3 man/show_c_source.Rd | 3 man/standardise_call.Rd | 3 man/subs.Rd | 3 man/substitute_q.Rd | 3 man/track_copy.Rd | 3 man/unenclose.Rd | 3 man/uneval.Rd | 3 man/where.Rd | 3 src/RcppExports.cpp | 327 +++++++++++++++++------------------------------- src/bytes.cpp | 6 src/inspect.cpp | 4 54 files changed, 299 insertions(+), 404 deletions(-)
Title: Local Approximate Gaussian Process Regression
Description: Performs approximate GP regression for large computer experiments and spatial datasets. The approximation is based on finding small local designs for prediction (independently) at particular inputs. OpenMP and SNOW parallelization are supported for prediction over a vast out-of-sample testing set; GPU acceleration is also supported for an important subroutine. OpenMP and GPU features may require special compilation. An interface to lower-level (full) GP inference and prediction is also provided, as are associated wrapper routines for blackbox optimization under constraints via an augmented Lagrangian scheme, and large scale computer model calibration.
Author: Robert B. Gramacy <rbgramacy@chicagobooth.edu>
Maintainer: Robert B. Gramacy <rbgramacy@chicagobooth.edu>
Diff between laGP versions 1.1-3 dated 2014-10-31 and 1.1-5 dated 2015-05-26
ChangeLog | 34 + DESCRIPTION | 12 INSTALL | 8 MD5 | 87 +-- NAMESPACE | 4 R/auglag.R | 94 ++- R/gp.R | 49 - R/gp_sep.R | 137 ++++ R/laGP.R | 2 R/parallel.R | 2 R/prior.R | 10 R/util.R | 18 build/vignette.rds |binary demo/00Index | 1 demo/ALfhat.R |only inst/doc/laGP.R | 565 +++++++++----------- inst/doc/laGP.Rnw | 1430 ++++++++++++++++++++++++++-------------------------- inst/doc/laGP.pdf |binary man/aGP.Rd | 5 man/alcGP.Rd | 5 man/darg.Rd | 11 man/deleteGP.Rd | 4 man/discrep.est.Rd | 4 man/fcalib.Rd | 1 man/laGP.Rd | 5 man/llikGP.Rd | 4 man/mleGP.Rd | 12 man/newGP.Rd | 13 man/optim.auglag.Rd | 54 + man/predGP.Rd | 13 src/covar.c | 39 + src/covar.h | 5 src/covar_sep.c | 92 +++ src/covar_sep.h | 11 src/gp.c | 133 +--- src/gp.h | 5 src/gp_sep.c | 426 +++++++++++++++ src/gp_sep.h | 10 src/ieci.c | 82 +- src/ieci.h | 8 src/laGP.c | 8 src/matrix.c | 34 + src/matrix.h | 1 vignettes/laGP.Rnw | 1430 ++++++++++++++++++++++++++-------------------------- vignettes/laGP.bib | 167 +++++- 45 files changed, 2998 insertions(+), 2037 deletions(-)
Title: A Very Basic Templating Engine
Description: Replace parameters in strings and/or text files with specified values.
Author: Bart Smeets
Maintainer: Bart Smeets <bartsmeets86@gmail.com>
Diff between infuser versions 0.1 dated 2015-05-17 and 0.2 dated 2015-05-26
DESCRIPTION | 6 +- MD5 | 22 +++++----- NAMESPACE | 3 - R/core.R | 29 ++++++++++++-- R/helpers.R | 9 ++++ man/infuse.Rd | 18 ++++++-- man/print.infuse.Rd |only man/print_requested_params.Rd | 2 man/read_template.Rd | 2 man/trim.Rd | 2 man/variables_requested.Rd | 2 tests/testthat/test_core_functionality.R | 58 +++++++++++++++++++++++++--- tests/testthat/test_helpers_functionality.R |only 13 files changed, 120 insertions(+), 33 deletions(-)
Title: Bayesian Regression Models using Stan
Description: Fit Bayesian generalized linear and ordinal mixed models using Stan for full Bayesian inference.
Author: Paul-Christian Buerkner [aut, cre]
Maintainer: Paul-Christian Buerkner <paul.buerkner@gmail.com>
Diff between brms versions 0.1.0 dated 2015-05-08 and 0.2.0 dated 2015-05-26
DESCRIPTION | 14 +-- MD5 | 47 ++++++----- NAMESPACE | 17 ++++ R/bugs.R | 19 +--- R/data.docu.R | 46 +++++----- R/extract.old.R |only R/main.R | 173 +++++++++++++++++++++-------------------- R/s3.generics.R |only R/s3.methods.R |only R/stan.R | 80 +++++++++--------- R/support.export.R | 76 ++++-------------- R/support.internal.R | 73 +++++++++++++---- README.md | 63 ++++++++------ man/VarCorr.Rd |only man/brm.Rd | 104 ++++++++++++------------ man/brm.data.Rd | 6 - man/brm.pars.Rd | 12 +- man/brm.plot.Rd | 18 +--- man/brms-package.Rd | 10 +- man/brmsfit-class.Rd |only man/epilepsy.Rd | 16 +-- man/fixef.Rd |only man/inhaler.Rd | 14 +-- man/kidney.Rd | 16 +-- man/ngrps.Rd |only man/plot.brmsfit.Rd |only man/print.brmsfit.Rd |only man/ranef.Rd |only man/summary.brmsfit.Rd |only tests/testthat/tests.support.R | 2 30 files changed, 429 insertions(+), 377 deletions(-)
Title: Interface to the arXiv API
Description: An interface to the API for arXiv, a repository of
electronic preprints for computer science, mathematics, physics,
quantitative biology, quantitative finance, and statistics.
Author: Karthik Ram [aut],
Karl Broman [aut, cre]
Maintainer: Karl Broman <kbroman@biostat.wisc.edu>
Diff between aRxiv versions 0.5.8 dated 2014-12-28 and 0.5.10 dated 2015-05-26
DESCRIPTION | 10 +++++----- LICENSE | 2 +- MD5 | 32 ++++++++++++++++---------------- NAMESPACE | 2 +- R/arxiv_count.R | 6 ++++-- R/arxiv_search.R | 8 +++++--- R/query_util.R | 7 +++++++ build/vignette.rds |binary data/arxiv_cats.RData |binary data/query_terms.RData |binary man/arxiv_cats.Rd | 2 +- man/arxiv_count.Rd | 2 +- man/arxiv_open.Rd | 2 +- man/arxiv_search.Rd | 2 +- man/can_arxiv_connect.Rd | 2 +- man/query_terms.Rd | 2 +- tests/testthat/test-clean.R | 14 ++++++++++++++ 17 files changed, 59 insertions(+), 34 deletions(-)
Title: Framework for the Analysis of Genomic Prediction Data using R
Description: A collection of functions required for genomic prediction which were developed within the Synbreed project for synergistic plant and animal breeding (www.synbreed.tum.de). This covers data processing, data visualization, and analysis. All functions are embedded within the framework of a single, unified data object. The implementation is flexible with respect to a wide range of data formats in plant and animal breeding. This research was funded by the German Federal Ministry of Education and Research (BMBF) within the AgroClustEr Synbreed - Synergistic plant and animal breeding (FKZ 0315528A).
Author: Valentin Wimmer, Hans-Juergen Auinger, Theresa Albrecht, Chris-Carolin Schoen with contributions by Larry Schaeffer, Malena Erbe, Ulrike Ober, Christian Reimer, Yvonne Badke and Peter VandeHaar
Maintainer: Valentin Wimmer <Valentin.Wimmer@kws.com>
Diff between synbreed versions 0.10-5 dated 2014-11-25 and 0.11-2 dated 2015-05-26
DESCRIPTION | 21 +-- MD5 | 168 ++++++++++++++++++++++++-- NAMESPACE | 42 ++++-- R/codeGeno.r | 257 +++++++++++++++++++++++++++++------------ R/create.gpData.r | 30 ++-- R/crossVal.r | 5 R/discard.markers.r | 19 +-- R/kinship.r | 215 ++++++++++++++++++---------------- R/plot.relationshipMatrix.r | 57 ++++----- R/read.write.vcf.r |only R/simul.pedigree.r | 24 ++- R/summary.relationshipMatrix.r | 8 - inst/java |only java |only man/codeGeno.Rd | 35 ++--- man/kinship.Rd | 40 ++++-- man/plot.relationshipMatrix.Rd | 11 - man/read.vcf2list.Rd |only man/read.vcf2matrix.Rd |only man/write.vcf.Rd |only vignettes/Makefile | 2 21 files changed, 628 insertions(+), 306 deletions(-)
Title: Utilities for Formulas, Expressions, Calls and Other Objects
Description: These utilities facilitate the programmatic manipulations of
formulas, expressions,calls, names, symbols and other objects.
Author: Christopher Brown
Maintainer: Christopher Brown <chris.brown@decisionpatterns.com>
Diff between formula.tools versions 1.3.4 dated 2014-03-20 and 1.5.2 dated 2015-05-26
formula.tools-1.3.4/formula.tools/ChangeLog |only formula.tools-1.3.4/formula.tools/R/lhs.R |only formula.tools-1.3.4/formula.tools/R/op.R |only formula.tools-1.3.4/formula.tools/R/rhs.R |only formula.tools-1.3.4/formula.tools/R/which.class.R |only formula.tools-1.3.4/formula.tools/inst |only formula.tools-1.3.4/formula.tools/man/formula.parts-methods.Rd |only formula.tools-1.3.4/formula.tools/man/formula.tools-package.Rd |only formula.tools-1.3.4/formula.tools/man/get.vars-methods.Rd |only formula.tools-1.3.4/formula.tools/man/which.class.Rd |only formula.tools-1.3.4/formula.tools/tests/run-all.R |only formula.tools-1.5.2/formula.tools/DESCRIPTION | 32 +- formula.tools-1.5.2/formula.tools/MD5 | 62 ++-- formula.tools-1.5.2/formula.tools/NAMESPACE | 26 + formula.tools-1.5.2/formula.tools/NEWS |only formula.tools-1.5.2/formula.tools/R/as.character.formula.R | 32 ++ formula.tools-1.5.2/formula.tools/R/catcont.R |only formula.tools-1.5.2/formula.tools/R/get.vars.R | 66 +++- formula.tools-1.5.2/formula.tools/R/invert.R | 77 +++-- formula.tools-1.5.2/formula.tools/R/is.one.sided.R | 76 +++-- formula.tools-1.5.2/formula.tools/R/is.two.sided.R |only formula.tools-1.5.2/formula.tools/R/lhs.vars.R | 15 + formula.tools-1.5.2/formula.tools/R/op.type.R | 34 ++ formula.tools-1.5.2/formula.tools/R/parts.R |only formula.tools-1.5.2/formula.tools/R/parts.lhs.get.R |only formula.tools-1.5.2/formula.tools/R/parts.lhs.set.R |only formula.tools-1.5.2/formula.tools/R/parts.op.get.R |only formula.tools-1.5.2/formula.tools/R/parts.op.set.R |only formula.tools-1.5.2/formula.tools/R/parts.rhs.get.R |only formula.tools-1.5.2/formula.tools/R/parts.rhs.set.R |only formula.tools-1.5.2/formula.tools/R/rhs.vars.R | 14 - formula.tools-1.5.2/formula.tools/R/terms.R | 43 ++- formula.tools-1.5.2/formula.tools/R/zzz.R | 19 - formula.tools-1.5.2/formula.tools/README.md |only formula.tools-1.5.2/formula.tools/man/as.character.formula.Rd | 52 +-- formula.tools-1.5.2/formula.tools/man/catcont.Rd |only formula.tools-1.5.2/formula.tools/man/formula.parts.Rd |only formula.tools-1.5.2/formula.tools/man/get.vars.Rd |only formula.tools-1.5.2/formula.tools/man/invert-methods.Rd | 67 ++-- formula.tools-1.5.2/formula.tools/man/invert.Rd |only formula.tools-1.5.2/formula.tools/man/is.one.sided.Rd | 139 +++------- formula.tools-1.5.2/formula.tools/man/op.type.Rd |only formula.tools-1.5.2/formula.tools/man/terms.Rd | 73 ++--- formula.tools-1.5.2/formula.tools/tests/testthat |only formula.tools-1.5.2/formula.tools/tests/testthat.R |only 45 files changed, 487 insertions(+), 340 deletions(-)
Title: Community Ecology Package
Description: Ordination methods, diversity analysis and other
functions for community and vegetation ecologists.
Author: Jari Oksanen, F. Guillaume Blanchet, Roeland Kindt, Pierre Legendre,
Peter R. Minchin, R. B. O'Hara, Gavin L. Simpson, Peter Solymos,
M. Henry H. Stevens, Helene Wagner
Maintainer: Jari Oksanen <jari.oksanen@oulu.fi>
Diff between vegan versions 2.2-1 dated 2015-01-12 and 2.3-0 dated 2015-05-26
vegan-2.2-1/vegan/R/goodness.rda.R |only vegan-2.3-0/vegan/DESCRIPTION | 8 - vegan-2.3-0/vegan/MD5 | 172 ++++++++++++------------ vegan-2.3-0/vegan/NAMESPACE | 18 +- vegan-2.3-0/vegan/R/CCorA.R | 16 +- vegan-2.3-0/vegan/R/MDSrotate.R | 2 vegan-2.3-0/vegan/R/adipart.default.R | 18 +- vegan-2.3-0/vegan/R/adonis.R | 2 vegan-2.3-0/vegan/R/anosim.R | 2 vegan-2.3-0/vegan/R/anova.ccabyterm.R | 2 vegan-2.3-0/vegan/R/betadiver.R | 2 vegan-2.3-0/vegan/R/bioenv.default.R | 9 + vegan-2.3-0/vegan/R/capscale.R | 26 +-- vegan-2.3-0/vegan/R/cascadeKM.R | 3 vegan-2.3-0/vegan/R/cca.default.R | 43 +++--- vegan-2.3-0/vegan/R/centroids.cca.R | 11 - vegan-2.3-0/vegan/R/estimateR.default.R | 2 vegan-2.3-0/vegan/R/factorfit.R | 24 +-- vegan-2.3-0/vegan/R/fitspecaccum.R | 13 + vegan-2.3-0/vegan/R/goodness.cca.R | 72 ++++++---- vegan-2.3-0/vegan/R/make.commsim.R | 56 +++---- vegan-2.3-0/vegan/R/multipart.default.R | 38 ++--- vegan-2.3-0/vegan/R/nesteddisc.R | 4 vegan-2.3-0/vegan/R/nestedtemp.R | 6 vegan-2.3-0/vegan/R/ordiArrowMul.R | 26 ++- vegan-2.3-0/vegan/R/ordiArrowTextXY.R | 54 ++++++- vegan-2.3-0/vegan/R/ordiGetData.R | 2 vegan-2.3-0/vegan/R/ordiParseFormula.R | 23 ++- vegan-2.3-0/vegan/R/ordiR2step.R | 3 vegan-2.3-0/vegan/R/orditkplot.R | 20 ++ vegan-2.3-0/vegan/R/pcnm.R | 13 + vegan-2.3-0/vegan/R/permustats.R | 2 vegan-2.3-0/vegan/R/plot.cca.R | 2 vegan-2.3-0/vegan/R/plot.meandist.R | 14 + vegan-2.3-0/vegan/R/plot.radfit.frame.R | 6 vegan-2.3-0/vegan/R/plot.specaccum.R | 4 vegan-2.3-0/vegan/R/predict.fitspecaccum.R | 16 ++ vegan-2.3-0/vegan/R/predict.specaccum.R | 43 +++++- vegan-2.3-0/vegan/R/print.oecosimu.R | 2 vegan-2.3-0/vegan/R/print.specaccum.R | 2 vegan-2.3-0/vegan/R/print.varpart.R | 4 vegan-2.3-0/vegan/R/print.varpart234.R | 2 vegan-2.3-0/vegan/R/rankindex.R | 2 vegan-2.3-0/vegan/R/rarecurve.R | 2 vegan-2.3-0/vegan/R/rarefy.R | 5 vegan-2.3-0/vegan/R/rareslope.R |only vegan-2.3-0/vegan/R/rda.default.R | 7 vegan-2.3-0/vegan/R/read.cep.R | 10 - vegan-2.3-0/vegan/R/scores.cca.R | 4 vegan-2.3-0/vegan/R/scores.ordihull.R | 2 vegan-2.3-0/vegan/R/scores.rda.R | 4 vegan-2.3-0/vegan/R/showvarparts.R | 89 +++++++++--- vegan-2.3-0/vegan/R/specaccum.R | 9 - vegan-2.3-0/vegan/R/specslope.R |only vegan-2.3-0/vegan/R/summary.anosim.R | 6 vegan-2.3-0/vegan/R/summary.bioenv.R | 2 vegan-2.3-0/vegan/R/summary.cca.R | 4 vegan-2.3-0/vegan/R/summary.radfit.frame.R | 4 vegan-2.3-0/vegan/R/varpart.R | 18 +- vegan-2.3-0/vegan/R/vegemite.R | 50 +++--- vegan-2.3-0/vegan/build/vignette.rds |binary vegan-2.3-0/vegan/inst/NEWS.Rd | 109 +++++++++++++++ vegan-2.3-0/vegan/inst/doc/FAQ-vegan.pdf |binary vegan-2.3-0/vegan/inst/doc/NEWS.html | 127 +++++++++++++++++ vegan-2.3-0/vegan/inst/doc/decision-vegan.pdf |binary vegan-2.3-0/vegan/inst/doc/diversity-vegan.pdf |binary vegan-2.3-0/vegan/inst/doc/intro-vegan.pdf |binary vegan-2.3-0/vegan/man/cascadeKM.Rd | 12 - vegan-2.3-0/vegan/man/cca.Rd | 2 vegan-2.3-0/vegan/man/diversity.Rd | 12 + vegan-2.3-0/vegan/man/envfit.Rd | 19 ++ vegan-2.3-0/vegan/man/goodness.cca.Rd | 46 +++--- vegan-2.3-0/vegan/man/oecosimu.Rd | 4 vegan-2.3-0/vegan/man/ordiArrowTextXY.Rd |only vegan-2.3-0/vegan/man/ordiarrows.Rd | 8 - vegan-2.3-0/vegan/man/orditkplot.Rd | 41 ++--- vegan-2.3-0/vegan/man/permustats.Rd | 20 +- vegan-2.3-0/vegan/man/procrustes.Rd | 2 vegan-2.3-0/vegan/man/sipoo.Rd | 4 vegan-2.3-0/vegan/man/specaccum.Rd | 49 ++++-- vegan-2.3-0/vegan/man/varpart.Rd | 49 ++++-- vegan-2.3-0/vegan/man/vegan-internal.Rd | 22 --- vegan-2.3-0/vegan/man/vegan-package.Rd | 11 - vegan-2.3-0/vegan/vignettes/FAQ-vegan.pdf |binary vegan-2.3-0/vegan/vignettes/FAQ-vegan.texi | 35 +++- vegan-2.3-0/vegan/vignettes/NEWS.html | 127 +++++++++++++++++ vegan-2.3-0/vegan/vignettes/decision-vegan.tex | 18 +- vegan-2.3-0/vegan/vignettes/diversity-vegan.tex | 80 +++++------ vegan-2.3-0/vegan/vignettes/intro-vegan.tex | 48 +++--- 89 files changed, 1259 insertions(+), 591 deletions(-)
Title: Linear Group Fixed Effects
Description: Transforms away factors with many levels prior to doing an OLS.
Useful for estimating linear models with multiple group fixed effects, and for
estimating linear models which uses factors with many levels as pure control variables.
Includes support for instrumental variables, conditional F statistics for weak instruments,
robust and multi-way clustered standard errors, as well as limited mobility bias correction.
Author: Simen Gaure, Ragnar Frisch Centre for Economic Research
Maintainer: Simen Gaure <Simen.Gaure@frisch.uio.no>
Diff between lfe versions 2.2-1699 dated 2015-04-13 and 2.3-1709 dated 2015-05-26
DESCRIPTION | 12 +++++------ MD5 | 40 +++++++++++++++++++-------------------- R/felm.R | 34 ++++++++++++++++++++++++++++----- R/startup.R | 22 +++++++++++---------- exec/lfescript | 45 +++++++++++++++++++++++++++++++++++++------- inst/NEWS.Rd | 13 +++++++++++- inst/doc/identification.pdf |binary inst/doc/lfehow.pdf |binary inst/doc/speed.pdf |binary man/bccorr.Rd | 10 ++++----- man/condfstat.Rd | 8 ++++--- man/felm.Rd | 20 +++++++++++++++++-- man/fevcov.Rd | 8 ++----- man/lfe-package.Rd | 33 +++++++++++++++++++++++--------- man/makeDmatrix.Rd | 2 - man/waldtest.Rd | 2 - src/demean.c | 11 ++++++---- tests/anomalies.R | 8 +++++++ tests/anomalies.Rout.save | 15 ++++++++++++-- tests/ivtest.R | 1 tests/ivtest.Rout.save | 27 ++++++++++++++++++++++++-- 21 files changed, 228 insertions(+), 83 deletions(-)
Title: Response Probability Functions
Description: The purpose of this package is to factor out logic and math common
to Item Factor Analysis fitting, diagnostics, and analysis. It is
envisioned as core support code suitable for more specialized IRT packages
to build upon. Complete access to optimized C functions are made available
with R_RegisterCCallable.
Author: Joshua Pritikin [cre, aut],
Jonathan Weeks [ctb],
Li Cai [ctb],
Carrie Houts [ctb],
Phil Chalmers [ctb],
Michael D. Hunter [ctb]
Maintainer: Joshua Pritikin <jpritikin@pobox.com>
Diff between rpf versions 0.44 dated 2014-12-11 and 0.45 dated 2015-05-26
DESCRIPTION | 14 ++++++++------ MD5 | 34 ++++++++++++++++++---------------- R/util.R | 28 ++++++++++++++++++++++++++-- inst/doc/diagnostics.html | 42 +++++++++++++++++++++--------------------- inst/include/libifa-rpf.h | 4 +++- inst/tests/test-dTheta.R | 8 ++++---- inst/tests/test-gamma.R | 2 +- inst/tests/test-ld.R | 8 ++++---- inst/tests/test-multinomial.R | 24 ++++++++++++------------ inst/tests/test-raschfit.R | 18 +++++++++--------- inst/tests/test-score.R | 4 ++-- man/EAPscores.Rd | 4 +--- man/fromFactorThreshold.Rd |only man/toFactorThreshold.Rd |only src/ba81quad.cpp | 4 ++-- src/ba81quad.h | 2 +- src/diagnose.cpp | 2 +- src/eap.cpp | 2 +- src/glue.cpp | 4 ++-- 19 files changed, 116 insertions(+), 88 deletions(-)
Title: Utilities for Working with R's Operators
Description: These utilities allow for programatically working with
R's operators: translating between an operator and its underlying
function, inverting an operator, determining an operator's type, etc.
Author: Decision Patterns
Maintainer: Christopher Brown <chris.brown@decisionpatterns.com>
Diff between operator.tools versions 1.3.0 dated 2012-11-30 and 1.4.4 dated 2015-05-26
operator.tools-1.3.0/operator.tools/R/setOperators.R |only operator.tools-1.3.0/operator.tools/TODO |only operator.tools-1.3.0/operator.tools/operator.Rproj |only operator.tools-1.3.0/operator.tools/tests/1_init.R |only operator.tools-1.3.0/operator.tools/tests/2_operators.R |only operator.tools-1.3.0/operator.tools/tests/3_inverse.R |only operator.tools-1.4.4/operator.tools/DESCRIPTION | 24 + operator.tools-1.4.4/operator.tools/MD5 | 63 ++-- operator.tools-1.4.4/operator.tools/NAMESPACE | 30 ++ operator.tools-1.4.4/operator.tools/R/can.operator.R | 47 +-- operator.tools-1.4.4/operator.tools/R/fun2name.R | 27 + operator.tools-1.4.4/operator.tools/R/init.R | 4 operator.tools-1.4.4/operator.tools/R/inverse.R | 114 ++------ operator.tools-1.4.4/operator.tools/R/is.operator.R | 81 ++++- operator.tools-1.4.4/operator.tools/R/not-in.R | 12 operator.tools-1.4.4/operator.tools/R/operator-tools-package.R |only operator.tools-1.4.4/operator.tools/R/operator.type.R | 61 +++- operator.tools-1.4.4/operator.tools/R/operators.R | 88 ++++-- operator.tools-1.4.4/operator.tools/R/rel.type.R | 57 +++- operator.tools-1.4.4/operator.tools/R/removeOperator.R | 25 + operator.tools-1.4.4/operator.tools/R/setOperator.R | 69 ++++- operator.tools-1.4.4/operator.tools/R/zzz.R | 17 - operator.tools-1.4.4/operator.tools/README.md |only operator.tools-1.4.4/operator.tools/man/can.operator.Rd |only operator.tools-1.4.4/operator.tools/man/fun2name.Rd | 65 +--- operator.tools-1.4.4/operator.tools/man/initOps.Rd |only operator.tools-1.4.4/operator.tools/man/inverse.Rd | 76 ++--- operator.tools-1.4.4/operator.tools/man/is.operator.Rd | 118 +++----- operator.tools-1.4.4/operator.tools/man/not-in.Rd | 40 -- operator.tools-1.4.4/operator.tools/man/operator.tools-package.Rd | 35 +- operator.tools-1.4.4/operator.tools/man/operator.type.Rd | 82 ++---- operator.tools-1.4.4/operator.tools/man/operators.Rd | 136 +++------- operator.tools-1.4.4/operator.tools/man/rel.type.Rd | 71 ++--- operator.tools-1.4.4/operator.tools/man/removeOperator.Rd | 53 +-- operator.tools-1.4.4/operator.tools/man/setOperator.Rd | 123 +++------ operator.tools-1.4.4/operator.tools/tests/testthat |only operator.tools-1.4.4/operator.tools/tests/testthat.R |only 37 files changed, 795 insertions(+), 723 deletions(-)
More information about operator.tools at CRAN
Permanent link
Title: Functions for Soil Texture Plot, Classification and
Transformation
Description: "The Soil Texture Wizard" is a set of R functions designed to produce texture triangles (also called texture plots, texture diagrams, texture ternary plots), classify and transform soil textures data. These functions virtually allows to plot any soil texture triangle (classification) into any triangle geometry (isosceles, right-angled triangles, etc.). This set of function is expected to be useful to people using soil textures data from different soil texture classification or different particle size systems. Many (> 15) texture triangles from all around the world are predefined in the package. A simple text based graphical user interface is provided: soiltexture_gui().
Author: Julien Moeys [aut, cre], Wei Shangguan [ctb], Rainer Petzold [ctb], Budiman Minasny [ctb], Bogdan Rosca [ctb], Nic Jelinski [ctb], Wiktor Zelazny [ctb], Rodolfo Marcondes Silva Souza [ctb], Jose Lucas Safanelli [ctb], Alexandre ten Caten [ctb]
Maintainer: Julien Moeys <jules_m78-soiltexture@yahoo.fr>
Diff between soiltexture versions 1.2.19 dated 2014-09-29 and 1.3.3 dated 2015-05-26
DESCRIPTION | 34 +- MD5 | 139 ++++++----- NAMESPACE | 10 NEWS | 55 ++++ R/soiltexture.R | 278 +++++++++-------------- R/soiltextureInfo.R | 4 R/soiltexture_text_gui.R |only build/vignette.rds |binary inst/SVN_VERSION | 2 inst/doc/soiltexture_vignette.R | 313 +++++++++++++------------- inst/doc/soiltexture_vignette.Rnw | 101 +++++--- inst/doc/soiltexture_vignette.pdf |binary man/TT.DJ.col.Rd | 4 man/TT.add.Rd | 2 man/TT.auto.set.Rd | 2 man/TT.axis.arrows.Rd | 2 man/TT.baseplot.Rd | 2 man/TT.blr.ps.lim.Rd | 2 man/TT.blr.tx.check.Rd | 2 man/TT.check.ps.lim.Rd | 2 man/TT.chemometrics.alr.Rd | 2 man/TT.classes.Rd | 2 man/TT.classes.tbl.Rd | 2 man/TT.col2hsv.Rd | 4 man/TT.contour.Rd | 2 man/TT.css2xy.Rd | 4 man/TT.data.test.Rd | 2 man/TT.data.test.X.Rd | 2 man/TT.dataset.Rd | 2 man/TT.deg2rad.Rd | 4 man/TT.dia2phi.Rd | 4 man/TT.edges.Rd | 2 man/TT.gen.op.set.Rd | 2 man/TT.geo.get.Rd | 2 man/TT.geo.set.Rd | 2 man/TT.get.Rd | 2 man/TT.grid.Rd | 2 man/TT.ifelse.Rd | 2 man/TT.image.Rd | 2 man/TT.iwd.Rd | 2 man/TT.kde2d.Rd | 2 man/TT.lines.Rd | 2 man/TT.locator.Rd | 2 man/TT.mahalanobis.Rd | 2 man/TT.normalise.sum.Rd | 2 man/TT.normalise.sum.X.Rd | 2 man/TT.par.op.set.Rd | 2 man/TT.phi2dia.Rd | 4 man/TT.plot.Rd | 7 man/TT.points.Rd | 2 man/TT.points.in.classes.Rd | 2 man/TT.polygon.area.Rd | 4 man/TT.polygon.centroids.Rd | 4 man/TT.set.Rd | 2 man/TT.str.Rd | 2 man/TT.switch.Rd | 2 man/TT.text.Rd | 2 man/TT.text.transf.Rd | 2 man/TT.text.transf.X.Rd | 2 man/TT.ticks.Rd | 2 man/TT.ticks.lab.Rd | 2 man/TT.vertices.plot.Rd | 4 man/TT.vertices.tbl.Rd | 2 man/TT.xy.grid.Rd | 2 man/TT.xy2css.Rd | 2 man/soiltexture-package.Rd | 34 +- man/soiltextureInfo.Rd | 2 man/soiltexture_gui.Rd |only tests/TT.plot.R | 5 tests/soiltexture_gui.R |only vignettes/soiltexture_vignette.Rnw | 101 +++++--- vignettes/soiltexture_vignette.bib | 433 ++++++++++++++++++------------------- 72 files changed, 854 insertions(+), 786 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2015-05-22 0.9
Title: T-Distributed Stochastic Neighbor Embedding using Barnes-Hut
Implementation
Description: An R wrapper around the fast T-distributed Stochastic
Neighbor Embedding implementation by Van der Maaten.
Author: Jesse Krijthe <jkrijthe@gmail.com>
Maintainer: Jesse Krijthe <jkrijthe@gmail.com>
Diff between Rtsne versions 0.9 dated 2014-09-18 and 0.10 dated 2015-05-26
DESCRIPTION | 15 +- MD5 | 25 ++- NAMESPACE | 5 R/RcppExports.R | 4 R/Rtsne.R | 69 ++++++++-- R/bhtsne.R |only man/Rtsne.Rd | 53 ++++++- src/Makevars.win | 2 src/RcppExports.cpp | 27 +-- src/Rtsne.cpp | 14 +- src/tsne.cpp | 353 ++++++++++++++++++++++++++++++++++++++-------------- src/tsne.h | 8 - src/vptree.h | 5 tests |only 14 files changed, 429 insertions(+), 151 deletions(-)
Title: Drat R Archive Template
Description: Creation and Use of R Repositories via two helper functions
to insert packages into a repository, and to add repository information
to the current R session. Two primary types of repositories are support:
gh-pages at GitHub, as well as local repositories on either the same machine
or a local network. Drat is a recursive acronym: Drat R Archive Template.
Author: Dirk Eddelbuettel
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between drat versions 0.0.3 dated 2015-04-10 and 0.0.4 dated 2015-05-26
ChangeLog | 60 +++++ DESCRIPTION | 8 MD5 | 62 +++-- NAMESPACE | 4 R/addRepo.R | 11 R/initRepo.R |only R/insertPackage.R | 108 +++++++-- R/pruneRepo.R | 76 +++++- README.md | 54 ++-- build/vignette.rds |binary inst/TODO.md | 3 inst/doc/CombiningDratAndTravis.Rmd | 154 ++++++++----- inst/doc/CombiningDratAndTravis.html | 289 +++++++------------------ inst/doc/DratFAQ.Rmd |only inst/doc/DratFAQ.html |only inst/doc/DratForPackageAuthors.R | 8 inst/doc/DratForPackageAuthors.Rmd | 7 inst/doc/DratForPackageAuthors.html | 402 ++++++++--------------------------- inst/doc/DratForPackageUsers.R | 4 inst/doc/DratForPackageUsers.Rmd | 9 inst/doc/DratForPackageUsers.html | 310 ++++++-------------------- inst/doc/WhyDrat.R | 6 inst/doc/WhyDrat.Rmd | 4 inst/doc/WhyDrat.html | 340 +++++++---------------------- man/addRepo.Rd | 8 man/drat-package.Rd | 7 man/getPathForPackageType.Rd |only man/identifyPackageType.Rd |only man/initRepo.Rd |only man/insertPackage.Rd | 21 - man/pruneRepo.Rd |only vignettes/CombiningDratAndTravis.Rmd | 154 ++++++++----- vignettes/DratFAQ.Rmd |only vignettes/DratForPackageAuthors.Rmd | 7 vignettes/DratForPackageUsers.Rmd | 9 vignettes/WhyDrat.Rmd | 4 36 files changed, 867 insertions(+), 1262 deletions(-)
Title: Perform Common JavaScript Operations in Shiny Apps using Plain R
Code
Description: Perform common JavaScript operations in Shiny
applications without having to know any JavaScript. Examples include hiding an
element, disabling an input, resetting an input back to its original value,
and many more useful functions. Even if you do know JavaScript,
shinyjs can be used as convenience functions to avoid dealing with message
passing and writing JavaScript code. shinyjs can also be used to
easily run your own custom JavaScript functions from R.
Author: Dean Attali [aut, cre]
Maintainer: Dean Attali <daattali@gmail.com>
Diff between shinyjs versions 0.0.3.3 dated 2015-04-22 and 0.0.6.0 dated 2015-05-26
shinyjs-0.0.3.3/shinyjs/inst/srcjs/shinyjs-message-handler.js |only shinyjs-0.0.6.0/shinyjs/DESCRIPTION | 19 shinyjs-0.0.6.0/shinyjs/MD5 | 84 +- shinyjs-0.0.6.0/shinyjs/NAMESPACE | 5 shinyjs-0.0.6.0/shinyjs/R/extendShinyjs.R |only shinyjs-0.0.6.0/shinyjs/R/hidden.R | 7 shinyjs-0.0.6.0/shinyjs/R/inlineCSS.R | 3 shinyjs-0.0.6.0/shinyjs/R/jsFunc-aaa.R | 9 shinyjs-0.0.6.0/shinyjs/R/jsFunc-classFuncs.R | 41 - shinyjs-0.0.6.0/shinyjs/R/jsFunc-messageFuncs.R | 7 shinyjs-0.0.6.0/shinyjs/R/jsFunc-runjs.R |only shinyjs-0.0.6.0/shinyjs/R/jsFunc-stateFuncs.R | 40 - shinyjs-0.0.6.0/shinyjs/R/jsFunc-text.R | 5 shinyjs-0.0.6.0/shinyjs/R/jsFunc-visibilityFuncs.R | 35 shinyjs-0.0.6.0/shinyjs/R/onclick.R | 7 shinyjs-0.0.6.0/shinyjs/R/reset.R |only shinyjs-0.0.6.0/shinyjs/R/runExample.R | 9 shinyjs-0.0.6.0/shinyjs/R/shinyjs.R | 13 shinyjs-0.0.6.0/shinyjs/R/useShinyjs.R | 36 shinyjs-0.0.6.0/shinyjs/R/utils.R | 39 + shinyjs-0.0.6.0/shinyjs/README.md | 368 ++++++---- shinyjs-0.0.6.0/shinyjs/inst/doc/overview.Rmd | 357 ++++++--- shinyjs-0.0.6.0/shinyjs/inst/doc/overview.html | 184 +++-- shinyjs-0.0.6.0/shinyjs/inst/examples/basic/DESCRIPTION |only shinyjs-0.0.6.0/shinyjs/inst/examples/basic/app.R | 92 -- shinyjs-0.0.6.0/shinyjs/inst/examples/basic/helper-text.R |only shinyjs-0.0.6.0/shinyjs/inst/examples/demo/helpers.R | 3 shinyjs-0.0.6.0/shinyjs/inst/examples/demo/ui.R | 7 shinyjs-0.0.6.0/shinyjs/inst/examples/sandbox/helpers.R | 2 shinyjs-0.0.6.0/shinyjs/inst/srcjs/shinyjs-default-funcs.js |only shinyjs-0.0.6.0/shinyjs/man/classFuncs.Rd | 42 - shinyjs-0.0.6.0/shinyjs/man/extendShinyjs.Rd |only shinyjs-0.0.6.0/shinyjs/man/hidden.Rd | 5 shinyjs-0.0.6.0/shinyjs/man/inlineCSS.Rd | 4 shinyjs-0.0.6.0/shinyjs/man/js.Rd |only shinyjs-0.0.6.0/shinyjs/man/messageFuncs.Rd | 7 shinyjs-0.0.6.0/shinyjs/man/reset.Rd |only shinyjs-0.0.6.0/shinyjs/man/resettable.Rd |only shinyjs-0.0.6.0/shinyjs/man/runExample.Rd | 6 shinyjs-0.0.6.0/shinyjs/man/runjs.Rd |only shinyjs-0.0.6.0/shinyjs/man/shinyjs.Rd | 13 shinyjs-0.0.6.0/shinyjs/man/stateFuncs.Rd | 41 - shinyjs-0.0.6.0/shinyjs/man/text.Rd | 5 shinyjs-0.0.6.0/shinyjs/man/useShinyjs.Rd | 1 shinyjs-0.0.6.0/shinyjs/man/visibilityFuncs.Rd | 35 shinyjs-0.0.6.0/shinyjs/tests/test-error.js |only shinyjs-0.0.6.0/shinyjs/tests/test-nofunc.js |only shinyjs-0.0.6.0/shinyjs/tests/test-success.js |only shinyjs-0.0.6.0/shinyjs/tests/testthat/test-extendShinyjs.R |only shinyjs-0.0.6.0/shinyjs/tests/testthat/test-hidden.R | 10 shinyjs-0.0.6.0/shinyjs/vignettes/overview.Rmd | 357 ++++++--- 51 files changed, 1242 insertions(+), 656 deletions(-)
Title: Repeated Function Evaluation for Sensitivity Analysis
Description: Simplified scenario testing and sensitivity analysis with R via a
generalized function for one-factor-at-a-time (OFAT) sensitivity analysis,
evaluation of parameter sets and (sampled) parameter permutations. Options
for formatting output and parallel processing are also provided.
Author: Michael C Koohafkan [aut, cre]
Maintainer: Michael C Koohafkan <michael.koohafkan@gmail.com>
Diff between reval versions 1.0 dated 2015-03-26 and 2.0.0 dated 2015-05-26
DESCRIPTION | 8 ++-- MD5 | 19 +++++---- NAMESPACE | 2 - R/reval.r | 92 +++++++++++++++++++++++++++-------------------- build/vignette.rds |binary inst/doc/quickstart.R | 4 +- inst/doc/quickstart.Rmd | 4 +- inst/doc/quickstart.html | 4 +- man/evalmany.Rd | 42 +++++++++++++-------- man/reval-package.Rd |only vignettes/quickstart.Rmd | 4 +- 11 files changed, 103 insertions(+), 76 deletions(-)
Title: Algorithms and Framework for Nonnegative Matrix Factorization
(NMF)
Description: Provides a framework to perform Non-negative Matrix
Factorization (NMF). The package implements a set of already published algorithms
and seeding methods, and provides a framework to test, develop and plug
new/custom algorithms. Most of the built-in algorithms have been optimized
in C++, and the main interface function provides an easy way of performing
parallel computations on multicore machines.
Author: Renaud Gaujoux, Cathal Seoighe
Maintainer: Renaud Gaujoux <renaud@tx.technion.ac.il>
Diff between NMF versions 0.20.5 dated 2014-03-18 and 0.20.6 dated 2015-05-26
DESCRIPTION | 20 ++++++++++---------- MD5 | 30 +++++++++++++++--------------- NEWS | 7 +++++++ R/Bioc-layer.R | 3 ++- R/aheatmap.R | 4 +++- R/algorithms-lsnmf.R | 7 ++++--- R/algorithms-pe-nmf.R | 2 +- R/atracks.R | 2 ++ R/nmf-package.R | 3 ++- R/parallel.R | 26 +++++++++++++++++--------- R/run.R | 5 +++-- R/seed-ica.R | 5 +++-- R/utils.R | 16 ++++++++++++++++ build/vignette.rds |binary inst/doc/consensus.pdf |binary man/esGolub.Rd | 2 +- 16 files changed, 86 insertions(+), 46 deletions(-)
Title: Model Based Clustering, Classification and Discriminant Analysis
Using the Mixture of Generalized Hyperbolic Distributions
Description: Carries out model-based clustering, classification and discriminant analysis using five different models. The models are all based on the generalized hyperbolic distribution.The first model 'MGHD' is the classical mixture of generalized hyperbolic distributions. The 'MGHFA' is the mixture of generalized hyperbolic factor analyzers for high dimensional data sets. The 'MSGHD', mixture of multiple scaled generalized hyperbolic distributions. The 'cMSGHD' is a 'MSGHD' with convex contour plots. The 'MCGHD', mixture of coalesced generalized hyperbolic distributions is a new more flexible model.
Author: Cristina Tortora, Ryan P. Browne, Brian C. Franczak and Paul D. McNicholas.
Maintainer: Cristina Tortora <ctortora@math.mcmaster.ca>
Diff between MixGHD versions 1.5 dated 2015-04-30 and 1.6 dated 2015-05-26
MixGHD-1.5/MixGHD/man/MixGHD-package.Rd |only MixGHD-1.6/MixGHD/DESCRIPTION | 6 MixGHD-1.6/MixGHD/MD5 | 5 MixGHD-1.6/MixGHD/R/GHD.R | 1418 ++++++++++++++++---------------- 4 files changed, 719 insertions(+), 710 deletions(-)
Title: Kernel Factory: An Ensemble of Kernel Machines
Description: Binary classification based on an ensemble of kernel machines ("Ballings, M. and Van den Poel, D. (2013), Kernel Factory: An Ensemble of Kernel Machines. Expert Systems With Applications, 40(8), 2904-2913"). Kernel factory is an ensemble method where each base classifier (random forest) is fit on the kernel matrix of a subset of the training data.
Author: Michel Ballings, Dirk Van den Poel
Maintainer: Michel Ballings <Michel.Ballings@GMail.com>
Diff between kernelFactory versions 0.2.1 dated 2015-05-22 and 0.2.2 dated 2015-05-26
DESCRIPTION | 8 - MD5 | 10 - R/kernelFactory.R | 35 +++- R/predict.kernelFactory.R | 328 +++++++++++++++++++++++----------------------- inst/NEWS | 5 man/kernelFactory.Rd | 9 - 6 files changed, 209 insertions(+), 186 deletions(-)
Title: Crunch.io Data Tools
Description: The Crunch.io service (http://crunch.io/) provides a cloud-based
data store and analytic engine, as well as an intuitive web interface.
Using this package, analysts can interact with and manipulate Crunch
datasets from within R. Importantly, this allows technical researchers to
collaborate naturally with team members, managers, and clients who prefer a
point-and-click interface.
Author: Neal Richardson [aut, cre]
Maintainer: Neal Richardson <neal@crunch.io>
Diff between crunch versions 1.1.1 dated 2015-04-20 and 1.2.1 dated 2015-05-26
crunch-1.1.1/crunch/tests/testthat/api/datasets/dataset1/variables/old-hierarchical.json |only crunch-1.1.1/crunch/tests/testthat/api/datasets/dataset1/variables/old-nested-hierarchical.json |only crunch-1.1.1/crunch/tests/testthat/api/datasets/dataset1/variables/old-relative-and-nested-hierarchical.json |only crunch-1.1.1/crunch/tests/testthat/api/datasets/dataset1/variables/old-relative-hierarchical.json |only crunch-1.1.1/crunch/vignettes/economist.RData |only crunch-1.1.1/crunch/vignettes/hidden.png |only crunch-1.2.1/crunch/.Rinstignore |only crunch-1.2.1/crunch/DESCRIPTION | 10 crunch-1.2.1/crunch/MD5 | 282 ++--- crunch-1.2.1/crunch/NAMESPACE | 6 crunch-1.2.1/crunch/R/AllClasses.R | 27 crunch-1.2.1/crunch/R/AllGenerics.R | 7 crunch-1.2.1/crunch/R/append-dataset.R | 28 crunch-1.2.1/crunch/R/crest.R | 2 crunch-1.2.1/crunch/R/crunch.R | 2 crunch-1.2.1/crunch/R/cube-result.R | 7 crunch-1.2.1/crunch/R/dataset.R | 4 crunch-1.2.1/crunch/R/new-dataset.R | 17 crunch-1.2.1/crunch/R/ordering.R | 2 crunch-1.2.1/crunch/R/share.R | 75 + crunch-1.2.1/crunch/R/tuple.R | 2 crunch-1.2.1/crunch/R/variable-order-slots.R | 51 - 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Title: Interface for the 'Box.com API'
Description: An R interface for the remote file hosting service 'Box'
(https://www.box.com/). In addition to uploading and downloading files, this
package includes functions which mirror base R operations for local files,
(e.g. box_load(), box_save(), box_read(), box_setwd(), etc.), as well as 'git'
style functions for entire directories (e.g. box_fetch(), box_push()).
Author: Brendan Rocks [aut, cre]
Maintainer: Brendan Rocks <rocks.brendan@gmail.com>
Diff between boxr versions 0.2.5 dated 2015-04-15 and 0.2.6 dated 2015-05-26
DESCRIPTION | 12 MD5 | 58 +-- NAMESPACE | 62 +-- R/boxr__internal_misc.R | 386 ++++++++++++------------ R/boxr__internal_package_homepage.R |only R/boxr_auth.R | 575 ++++++++++++++++++------------------ R/zzz.R | 37 +- build/vignette.rds |binary inst/doc/boxr.R | 14 inst/doc/boxr.Rmd | 203 ++++++------ inst/doc/boxr.html | 473 +++++++++++++++++++---------- man/box_auth.Rd | 199 ++++++------ man/box_auth_on_attach.Rd | 80 ++--- man/box_delete_file.Rd | 98 +++--- man/box_dir_create.Rd | 56 +-- man/box_dir_diff.Rd | 306 +++++++++---------- man/box_dl.Rd | 170 +++++----- man/box_fetch.Rd | 190 +++++------ man/box_ls.Rd | 54 +-- man/box_previous_versions.Rd | 68 ++-- man/box_read.Rd | 134 ++++---- man/box_save.Rd | 110 +++--- man/box_setwd.Rd | 64 ++-- man/box_source.Rd | 48 +-- man/box_upload_new.Rd | 70 ++-- man/boxr-package.Rd |only man/boxr_options.Rd | 78 ++-- man/create_loc_dir_df.Rd | 42 +- man/dirTreeRecursive.Rd | 50 +-- man/downloadDirFiles.Rd | 64 ++-- vignettes/boxr.Rmd | 203 ++++++------ 31 files changed, 2043 insertions(+), 1861 deletions(-)
Title: Core Methods and Classes Used by 'aroma.*' Packages Part of the
Aroma Framework
Description: Core methods and classes used by higher-level aroma.* packages
part of the Aroma Project, e.g. aroma.affymetrix and aroma.cn.
Author: Henrik Bengtsson [aut, cre, cph],
Mark Robinson [ctb],
Ken Simpson [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between aroma.core versions 2.13.0 dated 2015-01-16 and 2.13.1 dated 2015-05-26
DESCRIPTION | 41 MD5 | 50 NAMESPACE | 842 ++++++------- NEWS | 23 R/AromaTabularBinaryFile.R | 7 R/AromaTransform.R | 33 R/AromaUnitTotalCnBinarySet.exportAromaUnitPscnBinarySet.R | 6 R/RawMirroredAlleleBFractions.R | 5 man/AromaMicroarrayDataSet.Rd | 2 man/AromaTabularBinarySet.Rd | 2 man/AromaUnitCallSet.Rd | 2 man/AromaUnitFracBCnBinarySet.Rd | 2 man/AromaUnitGenotypeCallSet.Rd | 2 man/AromaUnitPscnBinarySet.Rd | 2 man/AromaUnitSignalBinarySet.Rd | 2 man/AromaUnitTotalCnBinarySet.Rd | 2 man/CbsModel.Rd | 62 man/HaarSegModel.Rd | 54 man/PairedPSCNData.Rd | 2 man/ParametersInterface.Rd | 4 man/RawGenomicSignals.Rd | 10 man/RawMirroredAlleleBFractions.Rd | 26 man/UnitNamesFile.Rd | 2 man/aroma.core-package.Rd | 2 man/extractRawCopyNumbers.CopyNumberChromosomalModel.Rd | 7 tests/SegmentedCopyNumbers.R | 74 - 26 files changed, 705 insertions(+), 561 deletions(-)