Title: Taxonomic standardization of plant species names
Diff between Taxonstand versions 1.4 dated 2014-09-17 and 1.5 dated 2014-10-29
Description: Automated standardization of taxonomic names and removal of orthographic errors in plant species names using the The Plant List (TPL) website (www.theplantlist.org)
Author: Luis Cayuela and Jari Oksanen
Maintainer: Luis Cayuela
DESCRIPTION | 8 ++++----
MD5 | 4 ++--
R/TPL.R | 1 +
3 files changed, 7 insertions(+), 6 deletions(-)
Title: R Client for the Lagotto Altmetrics API Platform.
Diff between alm versions 0.3.0 dated 2014-10-15 and 0.3.1 dated 2014-10-29
Description: An R interface to the open source article level metrics API
created by the Public Library of Science (PLOS). A number of publishers are
using the open source app created by PLOS, so you can drop in a different
base URL to the functions in this package to get to not only PLOS data, but
data for Crossref, and more as the open source PLOS software is used.
rCharts is in Enhances; and can be used for creating interactive charts
(e.g., in the function plot_signposts in this package); obtain rCharts at
https://github.com/ramnathv/rCharts.
Author: Scott Chamberlain [aut, cre],
Carl Boettiger [aut],
Karthik Ram [aut],
Fenner Martin [aut]
Maintainer: Scott Chamberlain
alm-0.3.0/alm/inst/doc/alm_vignette.pdf |only
alm-0.3.0/alm/tests/test-all.R |only
alm-0.3.0/alm/vignettes/alm_vignette.html |only
alm-0.3.0/alm/vignettes/alm_vignette.md |only
alm-0.3.1/alm/DESCRIPTION | 13 ++---
alm-0.3.1/alm/MD5 | 29 +++++------
alm-0.3.1/alm/NEWS | 13 +++++
alm-0.3.1/alm/R/alm_events.R | 4 +
alm-0.3.1/alm/R/zzz.R | 11 ++--
alm-0.3.1/alm/README.md | 53 +++++++++------------
alm-0.3.1/alm/build/vignette.rds |binary
alm-0.3.1/alm/inst/doc/alm_vignette.html |only
alm-0.3.1/alm/tests/testthat/test-alm_datepub.R | 10 +--
alm-0.3.1/alm/tests/testthat/test-alm_events.R | 10 +--
alm-0.3.1/alm/tests/testthat/test-alm_ids.R | 10 +--
alm-0.3.1/alm/tests/testthat/test-alm_signposts.R | 6 --
alm-0.3.1/alm/tests/testthat/test-alm_title.R | 14 ++---
alm-0.3.1/alm/tests/testthat/test-plot_signposts.R | 6 --
18 files changed, 88 insertions(+), 91 deletions(-)
Title: Classes with reference semantics
Diff between R6 versions 2.0 dated 2014-08-19 and 2.0.1 dated 2014-10-29
Description: The R6 package allows the creation of classes with reference
semantics, similar to R's built-in reference classes. Compared to reference
classes, R6 classes are simpler and lighter-weight, and they are not built
on S4 classes so they do not require the methods package. These classes
allow public and private members, and they support inheritance, even when
the classes are defined in different packages.
Author: "Winston Chang" [aut, cre]
Maintainer: "Winston Chang"
DESCRIPTION | 8 -
LICENSE | 2
MD5 | 40 +++--
NAMESPACE | 2
NEWS | 9 +
R/aaa.R | 8 +
R/generator_funs.R |only
R/new.R |only
R/r6_class.R | 343 ++++-----------------------------------------
README.md | 11 -
build/vignette.rds |binary
inst/doc/Debugging.R |only
inst/doc/Debugging.Rmd |only
inst/doc/Debugging.html |only
inst/doc/Introduction.R | 21 ++
inst/doc/Introduction.Rmd | 31 ++++
inst/doc/Introduction.html | 36 ++++
inst/doc/Performance.R |only
inst/doc/Performance.Rmd |only
inst/doc/Performance.html |only
inst/doc/Portable.html | 4
man/R6Class.Rd | 42 ++++-
vignettes/Debugging.Rmd |only
vignettes/Introduction.Rmd | 31 ++++
vignettes/Performance.Rmd |only
vignettes/mystyle.css | 4
26 files changed, 237 insertions(+), 355 deletions(-)
Title: Tools for analyzing QTL experiments
Diff between qtl versions 1.33-7 dated 2014-08-12 and 1.34-16 dated 2014-10-29
Description: Analysis of experimental crosses to identify genes
(called quantitative trait loci, QTLs) contributing to variation in
quantitative traits.
Author: Karl W Broman
Maintainer: Karl W Broman
qtl-1.33-7/qtl/inst/README.txt |only
qtl-1.34-16/qtl/DESCRIPTION | 14
qtl-1.34-16/qtl/MD5 | 446 -
qtl-1.34-16/qtl/NAMESPACE | 19
qtl-1.34-16/qtl/R/add.cim.covar.R | 88
qtl-1.34-16/qtl/R/add_threshold.R | 176
qtl-1.34-16/qtl/R/addmarker.R | 90
qtl-1.34-16/qtl/R/addqtl.R | 2466 +++----
qtl-1.34-16/qtl/R/argmax.geno.R | 332 -
qtl-1.34-16/qtl/R/arithscan.R | 732 +-
qtl-1.34-16/qtl/R/bcsft.R | 512 -
qtl-1.34-16/qtl/R/calc.genoprob.R | 742 +-
qtl-1.34-16/qtl/R/calc.pairprob.R | 370 -
qtl-1.34-16/qtl/R/cim.R | 350 -
qtl-1.34-16/qtl/R/compareorder.R | 94
qtl-1.34-16/qtl/R/countXO.R | 118
qtl-1.34-16/qtl/R/discan.R | 546 -
qtl-1.34-16/qtl/R/droponemarker.R | 132
qtl-1.34-16/qtl/R/effectplot.R | 1409 ++--
qtl-1.34-16/qtl/R/effectscan.R | 588 -
qtl-1.34-16/qtl/R/errorlod.R | 420 -
qtl-1.34-16/qtl/R/est.map.R | 550 -
qtl-1.34-16/qtl/R/est.rf.R | 698 +-
qtl-1.34-16/qtl/R/fitqtl.R | 2140 +++---
qtl-1.34-16/qtl/R/fitstahl.R | 614 -
qtl-1.34-16/qtl/R/inferFounderHap.R | 182
qtl-1.34-16/qtl/R/interpPositions.R | 90
qtl-1.34-16/qtl/R/makeqtl.R | 1058 +--
qtl-1.34-16/qtl/R/map_construction.R | 448 -
qtl-1.34-16/qtl/R/markerlrt.R | 52
qtl-1.34-16/qtl/R/mqmaugment.R | 362 -
qtl-1.34-16/qtl/R/mqmcircleplot.R | 387 -
qtl-1.34-16/qtl/R/mqmcofactors.R | 242
qtl-1.34-16/qtl/R/mqmpermutation.R | 384 -
qtl-1.34-16/qtl/R/mqmplots.R | 947 +-
qtl-1.34-16/qtl/R/mqmscan.R | 821 +-
qtl-1.34-16/qtl/R/mqmscanall.R | 261
qtl-1.34-16/qtl/R/mqmsnow.R | 110
qtl-1.34-16/qtl/R/mqmutil.R | 397 -
qtl-1.34-16/qtl/R/phyloqtl_scan.R | 544 -
qtl-1.34-16/qtl/R/phyloqtl_sim.R | 176
qtl-1.34-16/qtl/R/phyloqtl_util.R | 330 -
qtl-1.34-16/qtl/R/pickMarkerSubset.R | 70
qtl-1.34-16/qtl/R/plot.R | 2878 ++++-----
qtl-1.34-16/qtl/R/plot.scanone.R | 506 -
qtl-1.34-16/qtl/R/plot.scantwo.R | 804 +-
qtl-1.34-16/qtl/R/plotModel.R | 198
qtl-1.34-16/qtl/R/plotperm.R | 252
qtl-1.34-16/qtl/R/pull_stuff.R | 452 -
qtl-1.34-16/qtl/R/qtlcart_io.R | 680 +-
qtl-1.34-16/qtl/R/read.cross.R | 859 +-
qtl-1.34-16/qtl/R/read.cross.csv.R | 456 -
qtl-1.34-16/qtl/R/read.cross.csvs.R | 614 -
qtl-1.34-16/qtl/R/read.cross.gary.R | 276
qtl-1.34-16/qtl/R/read.cross.karl.R | 252
qtl-1.34-16/qtl/R/read.cross.mm.R | 560 -
qtl-1.34-16/qtl/R/read.cross.mq.R | 298
qtl-1.34-16/qtl/R/read.cross.qtx.R | 362 -
qtl-1.34-16/qtl/R/read.cross.tidy.R |only
qtl-1.34-16/qtl/R/readMWril.R | 518 -
qtl-1.34-16/qtl/R/refineqtl.R | 942 +-
qtl-1.34-16/qtl/R/replacemap.R | 462 -
qtl-1.34-16/qtl/R/ril48_reorg.R | 396 -
qtl-1.34-16/qtl/R/ripple.R | 544 -
qtl-1.34-16/qtl/R/scanone.R | 2014 +++---
qtl-1.34-16/qtl/R/scanoneboot.R | 164
qtl-1.34-16/qtl/R/scanonevar.R |only
qtl-1.34-16/qtl/R/scanqtl.R | 792 +-
qtl-1.34-16/qtl/R/scantwo.R | 3279 +++++-----
qtl-1.34-16/qtl/R/scantwopermhk.R |only
qtl-1.34-16/qtl/R/sim.geno.R | 348 -
qtl-1.34-16/qtl/R/sim_ril.R | 378 -
qtl-1.34-16/qtl/R/simulate.R | 1366 ++--
qtl-1.34-16/qtl/R/stepwiseqtl.R | 1601 ++---
qtl-1.34-16/qtl/R/stepwiseqtlX.R |only
qtl-1.34-16/qtl/R/summary.cross.R | 1128 +--
qtl-1.34-16/qtl/R/summary.scanone.R | 1978 +++---
qtl-1.34-16/qtl/R/summary.scantwo.R | 1905 +++---
qtl-1.34-16/qtl/R/summary.scantwo.old.R | 570 -
qtl-1.34-16/qtl/R/transformPheno.R | 42
qtl-1.34-16/qtl/R/tryallpositions.R | 698 +-
qtl-1.34-16/qtl/R/util.R | 6977 +++++++++++-----------
qtl-1.34-16/qtl/R/vbscan.R | 300
qtl-1.34-16/qtl/R/write.cross.R | 732 +-
qtl-1.34-16/qtl/R/write.cross.mq.R | 22
qtl-1.34-16/qtl/R/write.cross.qtab.R | 222
qtl-1.34-16/qtl/R/xchr.R | 1680 ++---
qtl-1.34-16/qtl/inst/BUGS.txt | 67
qtl-1.34-16/qtl/inst/INSTALL_ME.txt | 13
qtl-1.34-16/qtl/inst/README.md |only
qtl-1.34-16/qtl/inst/STATUS.txt | 51
qtl-1.34-16/qtl/inst/TODO.txt | 1
qtl-1.34-16/qtl/inst/doc/MQM-tour.R | 68
qtl-1.34-16/qtl/inst/doc/MQM-tour.pdf |only
qtl-1.34-16/qtl/inst/doc/Sources/MQM/MQM-tour.Rnw | 334 -
qtl-1.34-16/qtl/inst/doc/rqtltour.pdf |binary
qtl-1.34-16/qtl/man/c.scantwoperm.Rd | 5
qtl-1.34-16/qtl/man/calc.penalties.Rd | 13
qtl-1.34-16/qtl/man/cbind.scantwoperm.Rd |only
qtl-1.34-16/qtl/man/est.map.Rd | 12
qtl-1.34-16/qtl/man/fill.geno.Rd | 41
qtl-1.34-16/qtl/man/map2table.Rd |only
qtl-1.34-16/qtl/man/plot.scantwoperm.Rd | 13
qtl-1.34-16/qtl/man/pull.map.Rd | 2
qtl-1.34-16/qtl/man/read.cross.Rd | 97
qtl-1.34-16/qtl/man/readMWril.Rd | 2
qtl-1.34-16/qtl/man/scanonevar.Rd |only
qtl-1.34-16/qtl/man/scantwo.Rd | 51
qtl-1.34-16/qtl/man/scantwopermhk.Rd |only
qtl-1.34-16/qtl/man/stepwiseqtl.Rd | 39
qtl-1.34-16/qtl/man/subset.scantwoperm.Rd | 6
qtl-1.34-16/qtl/man/summary.scantwoperm.Rd | 16
qtl-1.34-16/qtl/man/write.cross.Rd | 8
qtl-1.34-16/qtl/src/countXO.c | 89
qtl-1.34-16/qtl/src/countXO.h | 49
qtl-1.34-16/qtl/src/discan.c | 285
qtl-1.34-16/qtl/src/discan.h | 45
qtl-1.34-16/qtl/src/discan_covar.c | 545 -
qtl-1.34-16/qtl/src/effectscan.c | 288
qtl-1.34-16/qtl/src/effectscan.h | 22
qtl-1.34-16/qtl/src/fill_geno_nodblXO.c | 52
qtl-1.34-16/qtl/src/fill_geno_nodblXO.h | 8
qtl-1.34-16/qtl/src/findDupMarkers_notexact.c | 79
qtl-1.34-16/qtl/src/findDupMarkers_notexact.h | 21
qtl-1.34-16/qtl/src/fitqtl_hk.c | 418 -
qtl-1.34-16/qtl/src/fitqtl_hk.h | 26
qtl-1.34-16/qtl/src/fitqtl_hk_binary.c | 596 -
qtl-1.34-16/qtl/src/fitqtl_hk_binary.h | 50
qtl-1.34-16/qtl/src/fitqtl_imp.c | 724 +-
qtl-1.34-16/qtl/src/fitqtl_imp.h | 24
qtl-1.34-16/qtl/src/fitqtl_imp_binary.c | 794 +-
qtl-1.34-16/qtl/src/fitqtl_imp_binary.h | 52
qtl-1.34-16/qtl/src/forwsel.c | 456 -
qtl-1.34-16/qtl/src/forwsel.h | 28
qtl-1.34-16/qtl/src/hmm_4way.c | 992 +--
qtl-1.34-16/qtl/src/hmm_4way.h | 62
qtl-1.34-16/qtl/src/hmm_bc.c | 218
qtl-1.34-16/qtl/src/hmm_bc.h | 46
qtl-1.34-16/qtl/src/hmm_bci.c | 658 +-
qtl-1.34-16/qtl/src/hmm_bci.h | 52
qtl-1.34-16/qtl/src/hmm_bcsft.c | 2730 ++++----
qtl-1.34-16/qtl/src/hmm_bcsft.h | 46
qtl-1.34-16/qtl/src/hmm_bgmagic16.c | 192
qtl-1.34-16/qtl/src/hmm_bgmagic16.h | 50
qtl-1.34-16/qtl/src/hmm_f2.c | 532 -
qtl-1.34-16/qtl/src/hmm_f2.h | 56
qtl-1.34-16/qtl/src/hmm_f2i.c | 462 -
qtl-1.34-16/qtl/src/hmm_f2i.h | 42
qtl-1.34-16/qtl/src/hmm_main.c | 1648 ++---
qtl-1.34-16/qtl/src/hmm_main.h | 220
qtl-1.34-16/qtl/src/hmm_ri4self.c | 238
qtl-1.34-16/qtl/src/hmm_ri4self.h | 56
qtl-1.34-16/qtl/src/hmm_ri4sib.c | 236
qtl-1.34-16/qtl/src/hmm_ri4sib.h | 54
qtl-1.34-16/qtl/src/hmm_ri8self.c | 362 -
qtl-1.34-16/qtl/src/hmm_ri8self.h | 57
qtl-1.34-16/qtl/src/hmm_ri8selfIRIP1.c |only
qtl-1.34-16/qtl/src/hmm_ri8selfIRIP1.h |only
qtl-1.34-16/qtl/src/hmm_ri8sib.c | 238
qtl-1.34-16/qtl/src/hmm_ri8sib.h | 56
qtl-1.34-16/qtl/src/hmm_util.c | 368 -
qtl-1.34-16/qtl/src/hmm_util.h | 32
qtl-1.34-16/qtl/src/inferFounderHap.c | 248
qtl-1.34-16/qtl/src/inferFounderHap.h | 38
qtl-1.34-16/qtl/src/info.c | 59
qtl-1.34-16/qtl/src/info.h | 25
qtl-1.34-16/qtl/src/lapackutil.c | 76
qtl-1.34-16/qtl/src/lapackutil.h | 14
qtl-1.34-16/qtl/src/markerlrt.c | 110
qtl-1.34-16/qtl/src/markerlrt.h | 12
qtl-1.34-16/qtl/src/mqmaugment.cpp | 124
qtl-1.34-16/qtl/src/mqmdatatypes.cpp | 34
qtl-1.34-16/qtl/src/mqmdatatypes.h | 9
qtl-1.34-16/qtl/src/mqmeliminate.cpp | 5
qtl-1.34-16/qtl/src/mqmmapqtl.cpp | 34
qtl-1.34-16/qtl/src/mqmmixture.cpp | 23
qtl-1.34-16/qtl/src/mqmregression.cpp | 15
qtl-1.34-16/qtl/src/mqmscan.cpp | 52
qtl-1.34-16/qtl/src/pickMarkerSubset.c | 166
qtl-1.34-16/qtl/src/pickMarkerSubset.h | 17
qtl-1.34-16/qtl/src/ril48_reorg.c | 126
qtl-1.34-16/qtl/src/ril48_reorg.h | 30
qtl-1.34-16/qtl/src/ripple.c | 855 +-
qtl-1.34-16/qtl/src/ripple.h | 77
qtl-1.34-16/qtl/src/scanone_ehk.c | 542 -
qtl-1.34-16/qtl/src/scanone_ehk.h | 42
qtl-1.34-16/qtl/src/scanone_em.c | 309
qtl-1.34-16/qtl/src/scanone_em.h | 45
qtl-1.34-16/qtl/src/scanone_em_covar.c | 478 -
qtl-1.34-16/qtl/src/scanone_em_covar.h | 83
qtl-1.34-16/qtl/src/scanone_hk.c | 390 -
qtl-1.34-16/qtl/src/scanone_hk.h | 34
qtl-1.34-16/qtl/src/scanone_hk_binary.c | 310
qtl-1.34-16/qtl/src/scanone_hk_binary.h | 40
qtl-1.34-16/qtl/src/scanone_imp.c | 814 +-
qtl-1.34-16/qtl/src/scanone_imp.h | 56
qtl-1.34-16/qtl/src/scanone_mr.c | 262
qtl-1.34-16/qtl/src/scanone_mr.h | 112
qtl-1.34-16/qtl/src/scanone_np.c | 76
qtl-1.34-16/qtl/src/scanone_np.h | 32
qtl-1.34-16/qtl/src/scantwo_binary_em.c | 1583 ++--
qtl-1.34-16/qtl/src/scantwo_binary_em.h | 109
qtl-1.34-16/qtl/src/scantwo_binary_hk.c | 1118 +--
qtl-1.34-16/qtl/src/scantwo_binary_hk.h | 96
qtl-1.34-16/qtl/src/scantwo_em.c | 1477 ++--
qtl-1.34-16/qtl/src/scantwo_em.h | 149
qtl-1.34-16/qtl/src/scantwo_hk.c | 1128 +--
qtl-1.34-16/qtl/src/scantwo_hk.h | 92
qtl-1.34-16/qtl/src/scantwo_imp.c | 1046 +--
qtl-1.34-16/qtl/src/scantwo_imp.h | 54
qtl-1.34-16/qtl/src/scantwo_mr.c | 870 +-
qtl-1.34-16/qtl/src/scantwo_mr.h | 92
qtl-1.34-16/qtl/src/scantwopermhk.c |only
qtl-1.34-16/qtl/src/scantwopermhk.h |only
qtl-1.34-16/qtl/src/simulate.c | 221
qtl-1.34-16/qtl/src/simulate.h | 18
qtl-1.34-16/qtl/src/simulate_ril.c | 883 +-
qtl-1.34-16/qtl/src/simulate_ril.h | 91
qtl-1.34-16/qtl/src/stahl_mf.c | 84
qtl-1.34-16/qtl/src/stahl_mf.h | 28
qtl-1.34-16/qtl/src/summary_scantwo.c | 307
qtl-1.34-16/qtl/src/summary_scantwo.h | 63
qtl-1.34-16/qtl/src/test_bcsft.c | 116
qtl-1.34-16/qtl/src/util.c | 1002 +--
qtl-1.34-16/qtl/src/util.h | 18
qtl-1.34-16/qtl/src/vbscan.c | 510 -
qtl-1.34-16/qtl/src/vbscan.h | 20
qtl-1.34-16/qtl/tests/test_mapqtl_io.Rout.save | 5
qtl-1.34-16/qtl/tests/test_scanonevar.R |only
qtl-1.34-16/qtl/tests/test_scanonevar.Rout.save |only
qtl-1.34-16/qtl/tests/test_tidyIO.R |only
qtl-1.34-16/qtl/tests/test_tidyIO.Rout.save |only
qtl-1.34-16/qtl/tests/testthat |only
qtl-1.34-16/qtl/tests/testthat.R |only
234 files changed, 45882 insertions(+), 45277 deletions(-)
Title: Provides datasets for Introduction to Statistical Data Analysis
for the Life Sciences
Diff between isdals versions 2.0-1 dated 2013-10-01 and 2.0-4 dated 2014-10-29
Description: Provides datasets for Introduction to Statistical Data Analysis for the Life Sciences
Author: Claus Ekstrom
Maintainer: Claus Ekstrom
isdals-2.0-1/isdals/man/isdals-package.Rd |only
isdals-2.0-4/isdals/DESCRIPTION | 6 ++--
isdals-2.0-4/isdals/MD5 | 39 ++++++++++++++++++++++++------
isdals-2.0-4/isdals/data/OORdata.rda |only
isdals-2.0-4/isdals/data/dioxin.rda |only
isdals-2.0-4/isdals/data/eels.rda |only
isdals-2.0-4/isdals/data/inhibitor.rda |only
isdals-2.0-4/isdals/data/jellyfish.rda |only
isdals-2.0-4/isdals/data/listeria.rda |only
isdals-2.0-4/isdals/data/picloram.rda |only
isdals-2.0-4/isdals/data/puromycin.rda |only
isdals-2.0-4/isdals/data/riis.rda |only
isdals-2.0-4/isdals/data/ryegrass.rda |only
isdals-2.0-4/isdals/data/soap.rda |only
isdals-2.0-4/isdals/data/tetra.rda |only
isdals-2.0-4/isdals/data/urinary.rda |only
isdals-2.0-4/isdals/man/OORdata.Rd |only
isdals-2.0-4/isdals/man/birthweight.Rd | 2 -
isdals-2.0-4/isdals/man/dioxin.Rd |only
isdals-2.0-4/isdals/man/eels.Rd |only
isdals-2.0-4/isdals/man/fev.Rd | 2 -
isdals-2.0-4/isdals/man/hormone.Rd | 3 --
isdals-2.0-4/isdals/man/inhibitor.Rd |only
isdals-2.0-4/isdals/man/jellyfish.Rd |only
isdals-2.0-4/isdals/man/listeria.Rd |only
isdals-2.0-4/isdals/man/picloram.Rd |only
isdals-2.0-4/isdals/man/puromycin.Rd |only
isdals-2.0-4/isdals/man/riis.Rd |only
isdals-2.0-4/isdals/man/ryegrass.Rd |only
isdals-2.0-4/isdals/man/seal.Rd | 2 -
isdals-2.0-4/isdals/man/soap.Rd |only
isdals-2.0-4/isdals/man/tetra.Rd |only
isdals-2.0-4/isdals/man/urinary.Rd |only
isdals-2.0-4/isdals/man/vitamina.Rd | 4 +--
34 files changed, 41 insertions(+), 17 deletions(-)
Title: Rmetrics - Markets and Basic Statistics
Diff between fBasics versions 3010.86 dated 2013-05-01 and 3011.87 dated 2014-10-29
Description: Environment for teaching
"Financial Engineering and Computational Finance".
Author: Rmetrics Core Team,
Diethelm Wuertz [aut],
Tobias Setz [cre],
Yohan Chalabi [ctb]
Maintainer: Tobias Setz
fBasics-3010.86/fBasics/R/utils-unitTest.R |only
fBasics-3010.86/fBasics/inst/COPYRIGHT.html |only
fBasics-3011.87/fBasics/DESCRIPTION | 41
fBasics-3011.87/fBasics/MD5 | 91
fBasics-3011.87/fBasics/NAMESPACE | 469 ---
fBasics-3011.87/fBasics/R/00fBasics-Package.R | 13
fBasics-3011.87/fBasics/R/builtin-ssdenGss.R | 1700 -------------
fBasics-3011.87/fBasics/R/dist-ght.R | 390 +-
fBasics-3011.87/fBasics/R/dist-sght.R | 330 +-
fBasics-3011.87/fBasics/R/dist-ssd.R | 209 -
fBasics-3011.87/fBasics/R/dist-ssdFit.R | 158 -
fBasics-3011.87/fBasics/R/dist-stableFit.R | 48
fBasics-3011.87/fBasics/R/gui-sliderMenu.R | 558 ++--
fBasics-3011.87/fBasics/R/gui-stableSlider.R | 38
fBasics-3011.87/fBasics/R/gui-stylizedFacts.R | 17
fBasics-3011.87/fBasics/R/matrix-hilbert.R | 11
fBasics-3011.87/fBasics/R/matrix-norm.R | 22
fBasics-3011.87/fBasics/R/stats-interpAkima.R | 317 +-
fBasics-3011.87/fBasics/R/stats-interpKrige.R | 190 -
fBasics-3011.87/fBasics/R/stats-interpLinear.R | 301 +-
fBasics-3011.87/fBasics/R/utils-as.matrix.ts.R | 11
fBasics-3011.87/fBasics/R/utils-baseMethods.R | 11
fBasics-3011.87/fBasics/R/utils-characterTable.R | 11
fBasics-3011.87/fBasics/R/utils-colIds.R | 11
fBasics-3011.87/fBasics/R/utils-colorLocator.R | 11
fBasics-3011.87/fBasics/R/utils-colorPalettes.R | 11
fBasics-3011.87/fBasics/R/utils-colorTable.R | 11
fBasics-3011.87/fBasics/R/utils-getS4.R | 321 +-
fBasics-3011.87/fBasics/R/zzz.R | 51
fBasics-3011.87/fBasics/data |only
fBasics-3011.87/fBasics/inst/unitTests/runit.akimaInterp.R | 11
fBasics-3011.87/fBasics/inst/unitTests/runit.colStats.R | 11
fBasics-3011.87/fBasics/inst/unitTests/runit.rgb.R | 124
fBasics-3011.87/fBasics/man/00fBasics-package.Rd | 1269 +++------
fBasics-3011.87/fBasics/man/data-examples.Rd |only
fBasics-3011.87/fBasics/man/matrix-norm.Rd | 22
fBasics-3011.87/fBasics/man/plot-acfPlot.Rd | 6
fBasics-3011.87/fBasics/man/plot-boxPlot.Rd | 8
fBasics-3011.87/fBasics/man/plot-histPlot.Rd | 11
fBasics-3011.87/fBasics/man/plot-qqPlot.Rd | 7
fBasics-3011.87/fBasics/man/plot-scalinglawPlot.Rd | 10
fBasics-3011.87/fBasics/man/plot-seriesPlot.Rd | 2
fBasics-3011.87/fBasics/man/utils-getS4.Rd | 233 -
fBasics-3011.87/fBasics/man/utils-printControl.Rd | 108
44 files changed, 2362 insertions(+), 4812 deletions(-)
Title: Methods for likelihood-based dimension reduction in regression
Diff between ldr versions 1.3.2 dated 2014-06-27 and 1.3.3 dated 2014-10-29
Description: Functions, methods, and data sets for fitting likelihood-based dimension reduction in regression, using principal fitted components (pfc), likelihood acquired directions (lad), covariance reducing models (core).
Author: Kofi Placid Adragni, Andrew Raim
Maintainer: Kofi Placid Adragni
DESCRIPTION | 10 +++++-----
MD5 | 6 +++---
NAMESPACE | 28 ++++++++++++++--------------
inst/CITATION | 26 ++++++++++++++++++++------
4 files changed, 42 insertions(+), 28 deletions(-)
Title: Differential Analysis of RNA-Seq Data with Poisson Mixture
Models
Diff between HTSDiff versions 1.0.2 dated 2014-07-28 and 1.0.5 dated 2014-10-29
Description: This package implements a Poisson mixture model to identify differentially expressed genes from RNA-seq data.
Author: Andrea Rau, Marie-Laure Martin-Magniette, Cathy Maugis-Rabusseau
Maintainer: Andrea Rau
DESCRIPTION | 14 +-
MD5 | 33 ++---
R/HTSDiff.R | 12 +
R/nullModelLogLike.R | 2
R/syntheticData.R | 2
R/zzz.R |only
build/vignette.rds |binary
inst/CITATION | 3
inst/NEWS | 15 ++
inst/doc/HTSDiff.R | 99 +++++++++++++++
inst/doc/HTSDiff.Rnw | 300 +++++++++++++++++++++++++++++++++++++-----------
inst/doc/HTSDiff.pdf |binary
man/HTSDiff-package.Rd | 9 -
man/HTSDiff.Rd | 5
man/nullModelLogLike.Rd | 3
man/syntheticData.Rd | 2
vignettes/HTSDiff.Rnw | 300 +++++++++++++++++++++++++++++++++++++-----------
vignettes/HTSDiff.bib | 134 ++++++++++++++++++++-
18 files changed, 750 insertions(+), 183 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2010-05-30 0.0.1
Title: Periodogram Peaks in Correlated Time Series
Diff between peacots versions 1.0 dated 2014-06-05 and 1.1 dated 2014-10-29
Description: Calculates the periodogram of a time series, maximum-likelihood fits an Ornstein-Uhlenbeck state space (OUSS) null model and evaluates the statistical significance of periodogram peaks against the OUSS null hypothesis. The OUSS is a parsimonious model for stochastically fluctuating variables with linear stabilizing forces, subject to uncorrelated measurement errors. Contrary to the classical white noise null model for detecting cyclicity, the OUSS model can account for temporal correlations typically occurring in ecological and geological time series.
Author: Stilianos Louca
Maintainer: Stilianos Louca
peacots-1.0/peacots/R/significanceOfGlobalPeak.R |only
peacots-1.1/peacots/DESCRIPTION | 8 -
peacots-1.1/peacots/MD5 | 55 +++++-----
peacots-1.1/peacots/NAMESPACE | 2
peacots-1.1/peacots/R/LombScarglePeriodogram.R | 102 +++++++++++--------
peacots-1.1/peacots/R/evaluate.pm.R | 84 +++++++++------
peacots-1.1/peacots/R/evaluate.pm.wn.R | 4
peacots-1.1/peacots/R/generate_ouss.R | 33 ++++--
peacots-1.1/peacots/R/interpolateWithinGrid.R | 87 +++++++++-------
peacots-1.1/peacots/R/interpolateWithinGrid2D.R |only
peacots-1.1/peacots/R/mlfit_ouss.R | 16 +-
peacots-1.1/peacots/R/nll_ps_ouss.R | 4
peacots-1.1/peacots/R/nll_ps_ouss_gradient.R | 10 -
peacots-1.1/peacots/R/peakSignificance.R |only
peacots-1.1/peacots/R/power_o_to_sigma.R |only
peacots-1.1/peacots/R/ps_ouss.R | 29 ++++-
peacots-1.1/peacots/R/ps_ouss_asymptotic.R |only
peacots-1.1/peacots/R/ps_ouss_gradient_wrt_lambda.R | 15 ++
peacots-1.1/peacots/R/ps_ouss_gradient_wrt_power_e.R | 2
peacots-1.1/peacots/R/ps_ouss_gradient_wrt_power_o.R | 10 +
peacots-1.1/peacots/R/runExample.R | 25 +++-
peacots-1.1/peacots/R/sigma_to_power_o.R |only
peacots-1.1/peacots/R/significanceOfLocalPeak.R | 6 -
peacots-1.1/peacots/man/evaluate.pm.Rd | 25 ++--
peacots-1.1/peacots/man/evaluate.pm.wn.Rd | 2
peacots-1.1/peacots/man/generate_ouss.Rd | 13 ++
peacots-1.1/peacots/man/peacots-package.Rd | 32 +++--
peacots-1.1/peacots/man/plotReport.Rd | 10 +
peacots-1.1/peacots/man/ps_ouss.Rd | 42 +++++--
peacots-1.1/peacots/man/ps_ouss_asymptotic.Rd |only
peacots-1.1/peacots/man/runExample.Rd | 1
peacots-1.1/peacots/man/significanceOfLocalPeak.Rd | 27 ++---
32 files changed, 407 insertions(+), 237 deletions(-)
Title: An R Pandoc Writer
Diff between pander versions 0.5.0 dated 2014-10-28 and 0.5.1 dated 2014-10-29
Description: Contains some functions catching all messages, stdout and other
useful information while evaluating R code and other helpers to return user
specified text elements (like: header, paragraph, table, image, lists etc.)
in Pandoc's markdown or several type of R objects similarly automatically
transformed to markdown format. Also capable of exporting/converting (the
resulting) complex Pandoc documents to e.g. HTML, PDF, docx or odt. This
latter reporting feature is supported in brew syntax or with a custom
reference class with a smarty caching backend.
Author: Gergely Daróczi
Maintainer: Gergely Daróczi
DESCRIPTION | 12 +++---
MD5 | 20 +++++-----
NAMESPACE | 100 ++++++++++++++++++++++++++--------------------------
NEWS | 24 +++++++-----
R/R5.R | 4 +-
R/S3.R | 98 +++++++++++++++++++++++++-------------------------
R/options.R | 2 -
R/pandoc.R | 30 +++++++++++++++
README.md | 30 +++++++--------
inst/README.brew | 26 ++++++-------
man/Pandoc-class.Rd | 4 +-
11 files changed, 192 insertions(+), 158 deletions(-)
Title: Tools for Graphical Inference
Diff between nullabor versions 0.2.1 dated 2012-07-23 and 0.3.0 dated 2014-10-29
Description: Tools for visual inference. Generate null data sets
and null plots using permutation and simulation. Calculate distance metrics
for a lineup, and examine the distributions of metrics.
Author: Hadley Wickham
Maintainer: Di Cook
nullabor-0.2.1/nullabor/NEWS |only
nullabor-0.3.0/nullabor/DESCRIPTION | 26 ++++---
nullabor-0.3.0/nullabor/MD5 | 64 +++++++++++-------
nullabor-0.3.0/nullabor/NAMESPACE | 25 ++++++-
nullabor-0.3.0/nullabor/R/distances.r |only
nullabor-0.3.0/nullabor/R/distmet.r |only
nullabor-0.3.0/nullabor/R/encryption.r | 14 ++--
nullabor-0.3.0/nullabor/R/lal.r | 6 -
nullabor-0.3.0/nullabor/R/method-dist.r | 39 +++++------
nullabor-0.3.0/nullabor/R/method-model.r | 58 ++++++++--------
nullabor-0.3.0/nullabor/R/method-permute.r | 14 ++--
nullabor-0.3.0/nullabor/R/opt_diff.r |only
nullabor-0.3.0/nullabor/R/protocols.r | 91 ++++++++++++--------------
nullabor-0.3.0/nullabor/build |only
nullabor-0.3.0/nullabor/demo/lakers.r | 20 +++--
nullabor-0.3.0/nullabor/inst |only
nullabor-0.3.0/nullabor/man/add_true.Rd | 5 -
nullabor-0.3.0/nullabor/man/bin_dist.Rd |only
nullabor-0.3.0/nullabor/man/box_dist.Rd |only
nullabor-0.3.0/nullabor/man/calc_diff.Rd |only
nullabor-0.3.0/nullabor/man/calc_mean_dist.Rd |only
nullabor-0.3.0/nullabor/man/decrypt.Rd | 14 ++--
nullabor-0.3.0/nullabor/man/distmet.Rd |only
nullabor-0.3.0/nullabor/man/distplot.Rd |only
nullabor-0.3.0/nullabor/man/find_plot_data.Rd | 16 ++--
nullabor-0.3.0/nullabor/man/lal.Rd | 6 -
nullabor-0.3.0/nullabor/man/lineup.Rd | 55 ++++++---------
nullabor-0.3.0/nullabor/man/null_dist.Rd | 24 +++---
nullabor-0.3.0/nullabor/man/null_gen.Rd |only
nullabor-0.3.0/nullabor/man/null_lm.Rd | 29 +++-----
nullabor-0.3.0/nullabor/man/null_permute.Rd | 12 +--
nullabor-0.3.0/nullabor/man/opt_bin_diff.Rd |only
nullabor-0.3.0/nullabor/man/reg_dist.Rd |only
nullabor-0.3.0/nullabor/man/resid_boot.Rd | 9 +-
nullabor-0.3.0/nullabor/man/resid_pboot.Rd | 9 +-
nullabor-0.3.0/nullabor/man/resid_rotate.Rd | 9 +-
nullabor-0.3.0/nullabor/man/resid_sigma.Rd | 11 +--
nullabor-0.3.0/nullabor/man/rorschach.Rd | 28 +++-----
nullabor-0.3.0/nullabor/man/sep_dist.Rd |only
nullabor-0.3.0/nullabor/man/uni_dist.Rd |only
nullabor-0.3.0/nullabor/vignettes |only
41 files changed, 307 insertions(+), 277 deletions(-)
Title: Straightforward BibTeX and BibLaTeX Bibliography Management
Diff between RefManageR versions 0.8.34 dated 2014-08-19 and 0.8.40 dated 2014-10-29
Description: RefManageR provides tools for importing and working with
bibliographic references. It greatly enhances the bibentry class by
providing a class BibEntry which stores BibTeX and BibLaTeX references,
supports UTF-8 encoding, and can be easily searched by any field, by date
ranges, and by various formats for name lists (author by last names,
translator by full names, etc.). Entries can be updated, combined, sorted,
printed in a number of styles, and exported. BibTeX and BibLaTeX .bib files
can be read into R and converted to BibEntry objects. Interfaces to NCBI's
Entrez, CrossRef, and Zotero are provided for importing references and
references can be created from locally stored PDFs using Poppler. Includes
functions for citing and generating a bibliography with hyperlinks for
documents prepared with RMarkdown or RHTML.
Author: Mathew W. McLean [aut, cre]
Maintainer: Mathew W. McLean
DESCRIPTION | 8 -
MD5 | 110 ++++++++---------
NAMESPACE | 2
R/04InternalFunctions.R | 260 +++++++++++++++++++++++++-----------------
R/05makeBibLatex.R | 4
R/07makeBibLatexAuthoryear.R | 4
R/08asBibEntry.R | 34 ++---
R/GetDOIs.R | 57 ++++++++-
R/ReadCrossRef.R | 1
R/ReadZotero.R | 39 +++---
R/format.R | 2
R/relist.R | 10 -
R/unlist.R | 17 +-
inst/NEWS | 22 +++
inst/Rmd/TestAlphabetic.Rmd | 3
inst/doc/manual.pdf |binary
man/BibEntry.Rd | 193 ++++++++++++-------------------
man/BibOptions.Rd | 220 +++++++++++++++--------------------
man/Cite.Rd | 70 ++++-------
man/FindBibEntry.Rd | 1
man/GetBibEntryWithDOI.Rd | 19 +--
man/GetDOIs.Rd | 22 +--
man/GetPubMedByID.Rd | 27 +---
man/GetPubMedRelated.Rd | 50 +++-----
man/LookupPubMedID.Rd | 33 ++---
man/MatchDate.Rd | 1
man/MatchName.Rd | 1
man/ReadBib.Rd | 26 +---
man/ReadCrossRef.Rd | 50 +++-----
man/ReadGS.Rd | 71 ++++-------
man/ReadPDFs.Rd | 77 ++++--------
man/ReadPubMed.Rd | 56 ++++-----
man/ReadZotero.Rd | 66 +++++-----
man/RefManageR-package.Rd | 108 ++++++-----------
man/SearchBib.Rd | 93 +++++----------
man/UpdateFieldName.Rd | 13 --
man/WriteBib.Rd | 37 ++---
man/as.BibEntry.Rd | 18 +-
man/as.data.frame.BibEntry.Rd | 17 +-
man/c.BibEntry.Rd | 16 +-
man/cash-.BibEntry.Rd | 28 +---
man/cash-set-.BibEntry.Rd | 28 +---
man/format_author.Rd | 4
man/head.BibEntry.Rd | 30 +---
man/levels.BibEntry.Rd | 16 +-
man/merge.BibEntry.Rd | 38 ++----
man/names.BibEntry.Rd | 12 -
man/open.BibEntry.Rd | 33 ++---
man/print.BibEntry.Rd | 72 ++++-------
man/sort.BibEntry.Rd | 86 ++++++-------
man/sub-sub-.BibEntry.Rd | 36 ++---
man/sub-subset-.BibEntry.Rd | 26 +---
man/subset-.BibEntry.Rd | 37 ++---
man/toBiblatex.Rd | 117 ++++++++----------
man/toRd.BibEntry.Rd | 20 +--
man/unlist.BibEntry.Rd | 27 +---
56 files changed, 1149 insertions(+), 1319 deletions(-)
Title: Machine Learning in R.
Diff between mlr versions 2.1 dated 2014-07-21 and 2.2 dated 2014-10-29
Description: Interface to a large number of classification and regression
techniques, including machine-readable parameter descriptions. There is
also an experimental extension for survival analysis, clustering and
general, example-specific cost-sensitive learning. Generic resampling,
including cross-validation, bootstrapping and subsampling. Hyperparameter
tuning with modern optimization techniques, for single- and multi-objective
problems. Filter and wrapper methods for feature selection. Extension of
basic learners with additional operations common in machine learning, also
allowing for easy nested resampling. Most operations can be parallelized.
Author: Bernd Bischl [aut, cre],
Michel Lang [aut],
Jakob Richter [aut],
Jakob Bossek [aut],
Leonard Judt [aut],
Tobias Kuehn [aut],
Erich Studerus [aut],
Lars Kotthoff [aut]
Maintainer: Bernd Bischl
mlr-2.1/mlr/R/PreprocWrapperPCA.R |only
mlr-2.1/mlr/R/PreprocWrapperRemoveOutliers.R |only
mlr-2.1/mlr/R/checkTaskLearner.R |only
mlr-2.1/mlr/R/getAggrPerformances.R |only
mlr-2.1/mlr/R/getFilterResult.R |only
mlr-2.1/mlr/R/getPerformances.R |only
mlr-2.1/mlr/R/getPredictions.R |only
mlr-2.1/mlr/R/listFilterMethods.R |only
mlr-2.1/mlr/data/mlr.bh.RData |only
mlr-2.1/mlr/data/mlr.iris.RData |only
mlr-2.1/mlr/data/mlr.sonar.RData |only
mlr-2.1/mlr/man/getAggrPerformances.Rd |only
mlr-2.1/mlr/man/getFilterResult.Rd |only
mlr-2.1/mlr/man/getPerformances.Rd |only
mlr-2.1/mlr/man/getPredictions.Rd |only
mlr-2.1/mlr/man/mlr.bh.Rd |only
mlr-2.1/mlr/man/mlr.iris.Rd |only
mlr-2.1/mlr/man/mlr.sonar.Rd |only
mlr-2.1/mlr/tests/run-all.R |only
mlr-2.1/mlr/tests/testthat/test_Impute.R |only
mlr-2.1/mlr/tests/testthat/test_base_parallel.R |only
mlr-2.1/mlr/tests/testthat/test_learners.R |only
mlr-2.1/mlr/tests/testthat/test_preproc_PreprocWrapper.R |only
mlr-2.1/mlr/tests/testthat/test_preproc_PreprocWrapperPCA.R |only
mlr-2.1/mlr/tests/testthat/test_preproc_PreprocWrapperRemoveOutliers.R |only
mlr-2.1/mlr/tests/testthat/test_preproc_removeConstantFeatures.R |only
mlr-2.1/mlr/tests/testthat/test_regr_kmforrester.R |only
mlr-2.1/mlr/tests/testthat/test_resample.R |only
mlr-2.1/mlr/tests/testthat/test_tune.R |only
mlr-2.2/mlr/DESCRIPTION | 41
mlr-2.2/mlr/MD5 | 793 +++++-----
mlr-2.2/mlr/NAMESPACE | 96 -
mlr-2.2/mlr/NEWS | 92 +
mlr-2.2/mlr/R/BaggingWrapper.R | 9
mlr-2.2/mlr/R/BaseEnsemble.R |only
mlr-2.2/mlr/R/BaseEnsemble_operators.R |only
mlr-2.2/mlr/R/BaseWrapper_operators.R | 3
mlr-2.2/mlr/R/BenchmarkResult_operators.R |only
mlr-2.2/mlr/R/ChainModel.R | 2
mlr-2.2/mlr/R/ClassifTask.R | 30
mlr-2.2/mlr/R/ClusterTask.R | 4
mlr-2.2/mlr/R/CostSensClassifWrapper.R | 3
mlr-2.2/mlr/R/CostSensRegrWrapper.R | 8
mlr-2.2/mlr/R/CostSensWeightedPairsLearner.R | 1
mlr-2.2/mlr/R/DownsampleWrapper.R | 1
mlr-2.2/mlr/R/FeatSelWrapper.R | 5
mlr-2.2/mlr/R/Filter.R |only
mlr-2.2/mlr/R/FilterWrapper.R | 69
mlr-2.2/mlr/R/HoldoutInstance_make_fixed.R | 1
mlr-2.2/mlr/R/Impute.R | 89 -
mlr-2.2/mlr/R/ImputeMethods.R | 49
mlr-2.2/mlr/R/ImputeWrapper.R | 1
mlr-2.2/mlr/R/Learner.R | 10
mlr-2.2/mlr/R/Measure.R | 15
mlr-2.2/mlr/R/Measure_custom_resampled.R | 2
mlr-2.2/mlr/R/Measure_make_cost.R | 8
mlr-2.2/mlr/R/ModelMultiplexer.R | 55
mlr-2.2/mlr/R/ModelMultiplexerParamSet.R | 7
mlr-2.2/mlr/R/MulticlassWrapper.R |only
mlr-2.2/mlr/R/OverBaggingWrapper.R | 4
mlr-2.2/mlr/R/OverUnderSampling.R | 8
mlr-2.2/mlr/R/OverUndersampleWrapper.R | 1
mlr-2.2/mlr/R/Prediction.R | 60
mlr-2.2/mlr/R/Prediction_operators.R | 22
mlr-2.2/mlr/R/PreprocWrapper.R | 3
mlr-2.2/mlr/R/RLearner.R | 38
mlr-2.2/mlr/R/RLearner_classif_IBk.R | 9
mlr-2.2/mlr/R/RLearner_classif_J48.R | 9
mlr-2.2/mlr/R/RLearner_classif_JRip.R | 9
mlr-2.2/mlr/R/RLearner_classif_LiblineaRBinary.R | 7
mlr-2.2/mlr/R/RLearner_classif_LiblineaRLogReg.R | 7
mlr-2.2/mlr/R/RLearner_classif_LiblineaRMultiClass.R | 7
mlr-2.2/mlr/R/RLearner_classif_OneR.R | 9
mlr-2.2/mlr/R/RLearner_classif_PART.R | 9
mlr-2.2/mlr/R/RLearner_classif_ada.R | 6
mlr-2.2/mlr/R/RLearner_classif_bartMachine.R |only
mlr-2.2/mlr/R/RLearner_classif_blackboost.R | 21
mlr-2.2/mlr/R/RLearner_classif_boosting.R | 11
mlr-2.2/mlr/R/RLearner_classif_cforest.R | 20
mlr-2.2/mlr/R/RLearner_classif_ctree.R | 11
mlr-2.2/mlr/R/RLearner_classif_fnn.R | 5
mlr-2.2/mlr/R/RLearner_classif_gbm.R | 16
mlr-2.2/mlr/R/RLearner_classif_geoDA.R | 9
mlr-2.2/mlr/R/RLearner_classif_glmboost.R | 21
mlr-2.2/mlr/R/RLearner_classif_glmnet.R | 46
mlr-2.2/mlr/R/RLearner_classif_kknn.R | 7
mlr-2.2/mlr/R/RLearner_classif_knn.R | 7
mlr-2.2/mlr/R/RLearner_classif_ksvm.R | 13
mlr-2.2/mlr/R/RLearner_classif_lda.R | 7
mlr-2.2/mlr/R/RLearner_classif_linDA.R | 9
mlr-2.2/mlr/R/RLearner_classif_logreg.R | 13
mlr-2.2/mlr/R/RLearner_classif_lqa.R |only
mlr-2.2/mlr/R/RLearner_classif_lssvm.R | 13
mlr-2.2/mlr/R/RLearner_classif_lvq1.R | 13
mlr-2.2/mlr/R/RLearner_classif_mda.R | 11
mlr-2.2/mlr/R/RLearner_classif_multinom.R | 9
mlr-2.2/mlr/R/RLearner_classif_naiveBayes.R | 7
mlr-2.2/mlr/R/RLearner_classif_nnet.R | 9
mlr-2.2/mlr/R/RLearner_classif_plr.R | 9
mlr-2.2/mlr/R/RLearner_classif_plsDA.R | 9
mlr-2.2/mlr/R/RLearner_classif_plsdaCaret.R | 8
mlr-2.2/mlr/R/RLearner_classif_qda.R | 7
mlr-2.2/mlr/R/RLearner_classif_quaDA.R | 9
mlr-2.2/mlr/R/RLearner_classif_randomForest.R | 8
mlr-2.2/mlr/R/RLearner_classif_randomForestSRC.R |only
mlr-2.2/mlr/R/RLearner_classif_rda.R | 7
mlr-2.2/mlr/R/RLearner_classif_rpart.R | 9
mlr-2.2/mlr/R/RLearner_classif_rrlda.R | 7
mlr-2.2/mlr/R/RLearner_classif_sda.R |only
mlr-2.2/mlr/R/RLearner_classif_svm.R | 7
mlr-2.2/mlr/R/RLearner_cluster_DBScan.R |only
mlr-2.2/mlr/R/RLearner_cluster_EM.R | 8
mlr-2.2/mlr/R/RLearner_cluster_FarthestFirst.R |only
mlr-2.2/mlr/R/RLearner_cluster_SimpleKMeans.R | 8
mlr-2.2/mlr/R/RLearner_cluster_XMeans.R | 9
mlr-2.2/mlr/R/RLearner_cluster_cmeans.R |only
mlr-2.2/mlr/R/RLearner_cluster_kmeans.R |only
mlr-2.2/mlr/R/RLearner_regr_IBk.R | 12
mlr-2.2/mlr/R/RLearner_regr_blackBoost.R | 15
mlr-2.2/mlr/R/RLearner_regr_cforest.R | 21
mlr-2.2/mlr/R/RLearner_regr_crs.R | 11
mlr-2.2/mlr/R/RLearner_regr_ctree.R |only
mlr-2.2/mlr/R/RLearner_regr_earth.R | 7
mlr-2.2/mlr/R/RLearner_regr_fnn.R | 5
mlr-2.2/mlr/R/RLearner_regr_gbm.R | 9
mlr-2.2/mlr/R/RLearner_regr_glmnet.R | 38
mlr-2.2/mlr/R/RLearner_regr_kknn.R | 7
mlr-2.2/mlr/R/RLearner_regr_km.R | 7
mlr-2.2/mlr/R/RLearner_regr_ksvm.R | 9
mlr-2.2/mlr/R/RLearner_regr_lm.R | 9
mlr-2.2/mlr/R/RLearner_regr_mars.R | 7
mlr-2.2/mlr/R/RLearner_regr_mob.R | 22
mlr-2.2/mlr/R/RLearner_regr_nnet.R | 9
mlr-2.2/mlr/R/RLearner_regr_pcr.R | 7
mlr-2.2/mlr/R/RLearner_regr_penalized_lasso.R | 7
mlr-2.2/mlr/R/RLearner_regr_penalized_ridge.R | 7
mlr-2.2/mlr/R/RLearner_regr_plsr.R |only
mlr-2.2/mlr/R/RLearner_regr_randomForest.R | 25
mlr-2.2/mlr/R/RLearner_regr_randomForestSRC.R |only
mlr-2.2/mlr/R/RLearner_regr_rpart.R | 9
mlr-2.2/mlr/R/RLearner_regr_rsm.R | 7
mlr-2.2/mlr/R/RLearner_regr_rvm.R | 13
mlr-2.2/mlr/R/RLearner_regr_svm.R | 7
mlr-2.2/mlr/R/RLearner_surv_CoxBoost.R | 38
mlr-2.2/mlr/R/RLearner_surv_cforest.R | 17
mlr-2.2/mlr/R/RLearner_surv_coxph.R | 11
mlr-2.2/mlr/R/RLearner_surv_cvglmnet.R |only
mlr-2.2/mlr/R/RLearner_surv_glmboost.R | 21
mlr-2.2/mlr/R/RLearner_surv_glmnet.R | 59
mlr-2.2/mlr/R/RLearner_surv_optimCoxBoostPenalty.R |only
mlr-2.2/mlr/R/RLearner_surv_penalized.R | 9
mlr-2.2/mlr/R/RLearner_surv_randomForestSRC.R | 18
mlr-2.2/mlr/R/RegrTask.R | 4
mlr-2.2/mlr/R/ResamplePrediction.R | 4
mlr-2.2/mlr/R/SMOTEWrapper.R | 38
mlr-2.2/mlr/R/StackedLearner.R |only
mlr-2.2/mlr/R/SupervisedTask.R | 6
mlr-2.2/mlr/R/SurvTask.R | 75
mlr-2.2/mlr/R/Task.R | 10
mlr-2.2/mlr/R/TaskDesc.R | 10
mlr-2.2/mlr/R/Task_operators.R | 109 +
mlr-2.2/mlr/R/TuneControlMBO.R | 2
mlr-2.2/mlr/R/TuneMultiCritControl.R | 2
mlr-2.2/mlr/R/TuneMultiCritResult.R | 1
mlr-2.2/mlr/R/TuneWrapper.R | 1
mlr-2.2/mlr/R/WeightedClassesWrapper.R | 1
mlr-2.2/mlr/R/WrappedModel.R | 2
mlr-2.2/mlr/R/aggregations.R | 8
mlr-2.2/mlr/R/analyzeFeatSelResult.R | 8
mlr-2.2/mlr/R/benchmark.R | 34
mlr-2.2/mlr/R/capLargeValues.R |only
mlr-2.2/mlr/R/checkColumnNames.R | 3
mlr-2.2/mlr/R/checkLearner.R | 2
mlr-2.2/mlr/R/checkLearnerBeforeTrain.R |only
mlr-2.2/mlr/R/checkMeasures.R | 2
mlr-2.2/mlr/R/convertX.R | 10
mlr-2.2/mlr/R/createDummyFeatures.R | 18
mlr-2.2/mlr/R/datasets.R | 111 +
mlr-2.2/mlr/R/dropFeatures.R | 1
mlr-2.2/mlr/R/evalOptimizationState.R | 6
mlr-2.2/mlr/R/filterFeatures.R | 89 -
mlr-2.2/mlr/R/getConfMatrix.R | 25
mlr-2.2/mlr/R/getFailuremodelMsg.R | 6
mlr-2.2/mlr/R/getFeatSelResult.R | 26
mlr-2.2/mlr/R/getFilterValues.R | 105 -
mlr-2.2/mlr/R/getHyperPars.R | 4
mlr-2.2/mlr/R/getTaskConstructorForLearner.R |only
mlr-2.2/mlr/R/getTuneResult.R | 26
mlr-2.2/mlr/R/helpers.R | 25
mlr-2.2/mlr/R/isFailureModel.R | 14
mlr-2.2/mlr/R/joinClassLevels.R |only
mlr-2.2/mlr/R/learners.R | 116 -
mlr-2.2/mlr/R/listLearners.R | 10
mlr-2.2/mlr/R/measures.R | 276 +--
mlr-2.2/mlr/R/mergeSmallFactorLevels.R |only
mlr-2.2/mlr/R/normalizeFeatures.R | 43
mlr-2.2/mlr/R/performance.R | 33
mlr-2.2/mlr/R/plotFilterValues.R | 18
mlr-2.2/mlr/R/plotLearnerPrediction.R | 47
mlr-2.2/mlr/R/plotThreshVsPerf.R | 2
mlr-2.2/mlr/R/plotTuneMultiCritResult.R | 1
mlr-2.2/mlr/R/predict.R | 35
mlr-2.2/mlr/R/removeConstantFeatures.R | 56
mlr-2.2/mlr/R/resample.R | 34
mlr-2.2/mlr/R/resample_convenience.R | 14
mlr-2.2/mlr/R/selectFeaturesExhaustive.R | 6
mlr-2.2/mlr/R/selectFeaturesGA.R | 20
mlr-2.2/mlr/R/selectFeaturesRandom.R | 6
mlr-2.2/mlr/R/selectFeaturesSequential.R | 8
mlr-2.2/mlr/R/setHyperPars.R | 23
mlr-2.2/mlr/R/setPredictType.R | 3
mlr-2.2/mlr/R/setThreshold.R | 11
mlr-2.2/mlr/R/showHyperPars.R | 2
mlr-2.2/mlr/R/smote.R | 101 +
mlr-2.2/mlr/R/summarizeColumns.R |only
mlr-2.2/mlr/R/summarizeLevels.R |only
mlr-2.2/mlr/R/train.R | 25
mlr-2.2/mlr/R/tuneCMAES.R | 2
mlr-2.2/mlr/R/tuneGenSA.R | 2
mlr-2.2/mlr/R/tuneIrace.R | 29
mlr-2.2/mlr/R/tuneMBO.R | 2
mlr-2.2/mlr/R/tuneMultiCritNSGA2.R | 2
mlr-2.2/mlr/R/tuneParamsMultiCrit.R | 4
mlr-2.2/mlr/R/tuneThreshold.R | 4
mlr-2.2/mlr/R/tunerFitnFun.R | 8
mlr-2.2/mlr/R/utils_imbalancy.R | 20
mlr-2.2/mlr/R/utils_opt.R | 31
mlr-2.2/mlr/R/zzz.R | 4
mlr-2.2/mlr/data/agri.task.RData |only
mlr-2.2/mlr/data/bc.task.RData |only
mlr-2.2/mlr/data/bh.task.RData |only
mlr-2.2/mlr/data/costiris.task.RData |only
mlr-2.2/mlr/data/iris.task.RData |only
mlr-2.2/mlr/data/lung.task.RData |only
mlr-2.2/mlr/data/mtcars.task.RData |only
mlr-2.2/mlr/data/pid.task.RData |only
mlr-2.2/mlr/data/sonar.task.RData |only
mlr-2.2/mlr/data/wpbc.task.RData |only
mlr-2.2/mlr/inst/makeData.R | 76
mlr-2.2/mlr/man/Aggregation.Rd | 2
mlr-2.2/mlr/man/BenchmarkResult.Rd | 23
mlr-2.2/mlr/man/FailureModel.Rd | 2
mlr-2.2/mlr/man/FeatSelControl.Rd | 50
mlr-2.2/mlr/man/FeatSelResult.Rd | 2
mlr-2.2/mlr/man/FilterValues.Rd | 7
mlr-2.2/mlr/man/LearnerProperties.Rd | 2
mlr-2.2/mlr/man/Prediction.Rd | 2
mlr-2.2/mlr/man/RLearner.Rd | 39
mlr-2.2/mlr/man/ResamplePrediction.Rd | 4
mlr-2.2/mlr/man/Task.Rd | 38
mlr-2.2/mlr/man/TaskDesc.Rd | 4
mlr-2.2/mlr/man/TuneControl.Rd | 32
mlr-2.2/mlr/man/TuneMultiCritControl.Rd | 12
mlr-2.2/mlr/man/TuneMultiCritResult.Rd | 2
mlr-2.2/mlr/man/TuneResult.Rd | 2
mlr-2.2/mlr/man/aggregations.Rd | 2
mlr-2.2/mlr/man/agri.task.Rd |only
mlr-2.2/mlr/man/analyzeFeatSelResult.Rd | 2
mlr-2.2/mlr/man/asROCRPrediction.Rd | 2
mlr-2.2/mlr/man/bc.task.Rd |only
mlr-2.2/mlr/man/benchmark.Rd | 16
mlr-2.2/mlr/man/bh.task.Rd |only
mlr-2.2/mlr/man/capLargeValues.Rd |only
mlr-2.2/mlr/man/configureMlr.Rd | 2
mlr-2.2/mlr/man/costiris.task.Rd |only
mlr-2.2/mlr/man/createDummyFeatures.Rd | 20
mlr-2.2/mlr/man/crossover.Rd | 2
mlr-2.2/mlr/man/downsample.Rd | 2
mlr-2.2/mlr/man/dropFeatures.Rd | 10
mlr-2.2/mlr/man/estimateResidualVariance.Rd | 2
mlr-2.2/mlr/man/filterFeatures.Rd | 44
mlr-2.2/mlr/man/getBMRAggrPerformances.Rd |only
mlr-2.2/mlr/man/getBMRFeatSelResults.Rd |only
mlr-2.2/mlr/man/getBMRFilteredFeatures.Rd |only
mlr-2.2/mlr/man/getBMRLearnerIds.Rd |only
mlr-2.2/mlr/man/getBMRPerformances.Rd |only
mlr-2.2/mlr/man/getBMRPredictions.Rd |only
mlr-2.2/mlr/man/getBMRTaskIds.Rd |only
mlr-2.2/mlr/man/getBMRTuneResults.Rd |only
mlr-2.2/mlr/man/getBaggingModels.Rd | 2
mlr-2.2/mlr/man/getConfMatrix.Rd | 27
mlr-2.2/mlr/man/getCostSensClassifModel.Rd | 2
mlr-2.2/mlr/man/getCostSensRegrModels.Rd | 2
mlr-2.2/mlr/man/getCostSensWeightedPairsModels.Rd | 2
mlr-2.2/mlr/man/getFailureModelMsg.Rd | 4
mlr-2.2/mlr/man/getFeatSelResult.Rd | 20
mlr-2.2/mlr/man/getFilterValues.Rd | 48
mlr-2.2/mlr/man/getFilteredFeatures.Rd | 8
mlr-2.2/mlr/man/getHyperPars.Rd | 2
mlr-2.2/mlr/man/getLearnerModel.Rd | 2
mlr-2.2/mlr/man/getMlrOptions.Rd | 2
mlr-2.2/mlr/man/getParamSet.Rd | 2
mlr-2.2/mlr/man/getProbabilities.Rd | 2
mlr-2.2/mlr/man/getStackedBaseLearnerPredictions.Rd |only
mlr-2.2/mlr/man/getTaskCosts.Rd | 2
mlr-2.2/mlr/man/getTaskData.Rd | 2
mlr-2.2/mlr/man/getTaskFeatureNames.Rd | 2
mlr-2.2/mlr/man/getTaskFormula.Rd | 2
mlr-2.2/mlr/man/getTaskNFeats.Rd | 6
mlr-2.2/mlr/man/getTaskTargets.Rd | 2
mlr-2.2/mlr/man/getTuneResult.Rd | 21
mlr-2.2/mlr/man/imputations.Rd | 14
mlr-2.2/mlr/man/impute.Rd | 25
mlr-2.2/mlr/man/iris.task.Rd |only
mlr-2.2/mlr/man/isFailureModel.Rd | 2
mlr-2.2/mlr/man/joinClassLevels.Rd |only
mlr-2.2/mlr/man/learnerArgsToControl.Rd | 2
mlr-2.2/mlr/man/learners.Rd | 116 -
mlr-2.2/mlr/man/listFilterMethods.Rd | 28
mlr-2.2/mlr/man/listLearners.Rd | 10
mlr-2.2/mlr/man/listMeasures.Rd | 2
mlr-2.2/mlr/man/lung.task.Rd |only
mlr-2.2/mlr/man/makeAggregation.Rd | 2
mlr-2.2/mlr/man/makeBaggingWrapper.Rd | 25
mlr-2.2/mlr/man/makeCostMeasure.Rd | 2
mlr-2.2/mlr/man/makeCostSensClassifWrapper.Rd | 19
mlr-2.2/mlr/man/makeCostSensRegrWrapper.Rd | 19
mlr-2.2/mlr/man/makeCostSensWeightedPairsWrapper.Rd | 2
mlr-2.2/mlr/man/makeCustomResampledMeasure.Rd | 18
mlr-2.2/mlr/man/makeDownsampleWrapper.Rd | 21
mlr-2.2/mlr/man/makeFeatSelWrapper.Rd | 21
mlr-2.2/mlr/man/makeFilter.Rd |only
mlr-2.2/mlr/man/makeFilterWrapper.Rd | 60
mlr-2.2/mlr/man/makeFixedHoldoutInstance.Rd | 5
mlr-2.2/mlr/man/makeImputeMethod.Rd | 2
mlr-2.2/mlr/man/makeImputeWrapper.Rd | 23
mlr-2.2/mlr/man/makeLearner.Rd | 13
mlr-2.2/mlr/man/makeMeasure.Rd | 12
mlr-2.2/mlr/man/makeModelMultiplexer.Rd | 2
mlr-2.2/mlr/man/makeModelMultiplexerParamSet.Rd | 4
mlr-2.2/mlr/man/makeMulticlassWrapper.Rd |only
mlr-2.2/mlr/man/makeOverBaggingWrapper.Rd | 21
mlr-2.2/mlr/man/makePreprocWrapper.Rd | 24
mlr-2.2/mlr/man/makeResampleDesc.Rd | 2
mlr-2.2/mlr/man/makeResampleInstance.Rd | 2
mlr-2.2/mlr/man/makeSMOTEWrapper.Rd | 40
mlr-2.2/mlr/man/makeStackedLearner.Rd |only
mlr-2.2/mlr/man/makeTuneWrapper.Rd | 21
mlr-2.2/mlr/man/makeUndersampleWrapper.Rd | 20
mlr-2.2/mlr/man/makeWeightedClassesWrapper.Rd | 22
mlr-2.2/mlr/man/makeWrappedModel.Rd | 2
mlr-2.2/mlr/man/measures.Rd | 151 -
mlr-2.2/mlr/man/mergeSmallFactorLevels.Rd |only
mlr-2.2/mlr/man/mtcars.task.Rd |only
mlr-2.2/mlr/man/normalizeFeatures.Rd | 23
mlr-2.2/mlr/man/oversample.Rd | 2
mlr-2.2/mlr/man/performance.Rd | 9
mlr-2.2/mlr/man/pid.task.Rd |only
mlr-2.2/mlr/man/plotFilterValues.Rd | 4
mlr-2.2/mlr/man/plotLearnerPrediction.Rd | 14
mlr-2.2/mlr/man/plotThreshVsPerf.Rd | 2
mlr-2.2/mlr/man/plotTuneMultiCritResult.Rd | 2
mlr-2.2/mlr/man/predict.WrappedModel.Rd | 4
mlr-2.2/mlr/man/predictLearner.Rd | 2
mlr-2.2/mlr/man/reimpute.Rd | 2
mlr-2.2/mlr/man/removeConstantFeatures.Rd | 23
mlr-2.2/mlr/man/removeHyperPars.Rd | 2
mlr-2.2/mlr/man/resample.Rd | 56
mlr-2.2/mlr/man/selectFeatures.Rd | 2
mlr-2.2/mlr/man/setAggregation.Rd | 2
mlr-2.2/mlr/man/setHyperPars.Rd | 4
mlr-2.2/mlr/man/setHyperPars2.Rd | 2
mlr-2.2/mlr/man/setId.Rd | 2
mlr-2.2/mlr/man/setPredictType.Rd | 3
mlr-2.2/mlr/man/setThreshold.Rd | 2
mlr-2.2/mlr/man/showHyperPars.Rd | 4
mlr-2.2/mlr/man/smote.Rd | 25
mlr-2.2/mlr/man/sonar.task.Rd |only
mlr-2.2/mlr/man/subsetTask.Rd | 2
mlr-2.2/mlr/man/summarizeColumns.Rd |only
mlr-2.2/mlr/man/summarizeLevels.Rd |only
mlr-2.2/mlr/man/train.Rd | 2
mlr-2.2/mlr/man/trainLearner.Rd | 2
mlr-2.2/mlr/man/tuneParams.Rd | 2
mlr-2.2/mlr/man/tuneParamsMultiCrit.Rd | 12
mlr-2.2/mlr/man/tuneThreshold.Rd | 2
mlr-2.2/mlr/man/wpbc.task.Rd |only
mlr-2.2/mlr/src/smote.c | 3
mlr-2.2/mlr/tests/run-base.R |only
mlr-2.2/mlr/tests/run-classif.R |only
mlr-2.2/mlr/tests/run-cluster.R |only
mlr-2.2/mlr/tests/run-featsel.R |only
mlr-2.2/mlr/tests/run-imbal.R |only
mlr-2.2/mlr/tests/run-learners.R |only
mlr-2.2/mlr/tests/run-parallel.R |only
mlr-2.2/mlr/tests/run-regr.R |only
mlr-2.2/mlr/tests/run-resample.R |only
mlr-2.2/mlr/tests/run-stack.R |only
mlr-2.2/mlr/tests/run-surv.R |only
mlr-2.2/mlr/tests/run-tune.R |only
mlr-2.2/mlr/tests/testthat/Rplots.pdf |only
mlr-2.2/mlr/tests/testthat/helper_fix_packages.R |only
mlr-2.2/mlr/tests/testthat/helper_helpers.R | 87 -
mlr-2.2/mlr/tests/testthat/helper_mock_learners.R | 13
mlr-2.2/mlr/tests/testthat/helper_objects.R | 15
mlr-2.2/mlr/tests/testthat/helper_zzz.R | 4
mlr-2.2/mlr/tests/testthat/test_base_BaseEnsemble.R |only
mlr-2.2/mlr/tests/testthat/test_base_BaseWrapper.R | 2
mlr-2.2/mlr/tests/testthat/test_base_FailureModel.R | 17
mlr-2.2/mlr/tests/testthat/test_base_Learner.R | 3
mlr-2.2/mlr/tests/testthat/test_base_MulticlassWrapper.R |only
mlr-2.2/mlr/tests/testthat/test_base_NoFeaturesModel.R | 2
mlr-2.2/mlr/tests/testthat/test_base_PreprocWrapper.R |only
mlr-2.2/mlr/tests/testthat/test_base_SupervisedTask.R | 9
mlr-2.2/mlr/tests/testthat/test_base_benchmark.R | 90 -
mlr-2.2/mlr/tests/testthat/test_base_capLargeValues.R |only
mlr-2.2/mlr/tests/testthat/test_base_chains.R | 81 -
mlr-2.2/mlr/tests/testthat/test_base_checkData.R | 6
mlr-2.2/mlr/tests/testthat/test_base_clustering.R | 40
mlr-2.2/mlr/tests/testthat/test_base_convertColumnNames.R |only
mlr-2.2/mlr/tests/testthat/test_base_costs.R | 3
mlr-2.2/mlr/tests/testthat/test_base_getTaskData.R | 2
mlr-2.2/mlr/tests/testthat/test_base_helpers.R | 8
mlr-2.2/mlr/tests/testthat/test_base_hyperpars.R | 5
mlr-2.2/mlr/tests/testthat/test_base_impute.R |only
mlr-2.2/mlr/tests/testthat/test_base_joinClassLevels.R |only
mlr-2.2/mlr/tests/testthat/test_base_measures.R | 13
mlr-2.2/mlr/tests/testthat/test_base_mergeSmallFactorLevels.R |only
mlr-2.2/mlr/tests/testthat/test_base_normalizeFeatures.R | 13
mlr-2.2/mlr/tests/testthat/test_base_orderedfactors.R |only
mlr-2.2/mlr/tests/testthat/test_base_performance.R | 5
mlr-2.2/mlr/tests/testthat/test_base_plotLearnerPrediction.R | 2
mlr-2.2/mlr/tests/testthat/test_base_predict.R | 26
mlr-2.2/mlr/tests/testthat/test_base_removeConstantFeatures.R |only
mlr-2.2/mlr/tests/testthat/test_base_resample.R |only
mlr-2.2/mlr/tests/testthat/test_base_summarizeColumns.R |only
mlr-2.2/mlr/tests/testthat/test_base_summarizeLevels.R |only
mlr-2.2/mlr/tests/testthat/test_base_tuning.R |only
mlr-2.2/mlr/tests/testthat/test_classif_bartMachine.R |only
mlr-2.2/mlr/tests/testthat/test_classif_boost.R | 26
mlr-2.2/mlr/tests/testthat/test_classif_glmnet.R | 13
mlr-2.2/mlr/tests/testthat/test_classif_kknn.R | 2
mlr-2.2/mlr/tests/testthat/test_classif_lda.R | 6
mlr-2.2/mlr/tests/testthat/test_classif_lqa.R |only
mlr-2.2/mlr/tests/testthat/test_classif_randomForestSRC.R |only
mlr-2.2/mlr/tests/testthat/test_classif_sda.R |only
mlr-2.2/mlr/tests/testthat/test_cluster_DBScan.R |only
mlr-2.2/mlr/tests/testthat/test_cluster_FarthestFirst.R |only
mlr-2.2/mlr/tests/testthat/test_cluster_SimpleKMeans.R | 35
mlr-2.2/mlr/tests/testthat/test_cluster_XMeans.R | 37
mlr-2.2/mlr/tests/testthat/test_cluster_cmeans.R |only
mlr-2.2/mlr/tests/testthat/test_cluster_kmeans.R |only
mlr-2.2/mlr/tests/testthat/test_featsel_FilterWrapper.R | 11
mlr-2.2/mlr/tests/testthat/test_featsel_extra_FilterWrapper.R |only
mlr-2.2/mlr/tests/testthat/test_featsel_filterFeatures.R | 38
mlr-2.2/mlr/tests/testthat/test_imbal_overundersample.R | 7
mlr-2.2/mlr/tests/testthat/test_imbal_smote.R | 38
mlr-2.2/mlr/tests/testthat/test_learners_all.R |only
mlr-2.2/mlr/tests/testthat/test_parallel_all.R |only
mlr-2.2/mlr/tests/testthat/test_regr_ctree.R |only
mlr-2.2/mlr/tests/testthat/test_regr_glmnet.R | 9
mlr-2.2/mlr/tests/testthat/test_regr_plsr.R |only
mlr-2.2/mlr/tests/testthat/test_regr_randomForestSRC.R |only
mlr-2.2/mlr/tests/testthat/test_resample_bs.R | 28
mlr-2.2/mlr/tests/testthat/test_resample_cv.R | 13
mlr-2.2/mlr/tests/testthat/test_resample_extra_bs.R |only
mlr-2.2/mlr/tests/testthat/test_resample_extra_cv.R |only
mlr-2.2/mlr/tests/testthat/test_resample_extra_repcv.R |only
mlr-2.2/mlr/tests/testthat/test_resample_extra_subsample.R |only
mlr-2.2/mlr/tests/testthat/test_resample_repcv.R | 6
mlr-2.2/mlr/tests/testthat/test_resample_subsample.R | 6
mlr-2.2/mlr/tests/testthat/test_resample_weights.R |only
mlr-2.2/mlr/tests/testthat/test_stack.R |only
mlr-2.2/mlr/tests/testthat/test_surv_cvglmnet.R |only
mlr-2.2/mlr/tests/testthat/test_surv_glmnet.R | 27
mlr-2.2/mlr/tests/testthat/test_tune_ModelMultiplexer.R | 37
mlr-2.2/mlr/tests/testthat/test_tune_tuneIraceR.R | 20
mlr-2.2/mlr/tests/testthat/test_tune_tuneParamsMultiCrit.R | 6
468 files changed, 3700 insertions(+), 2860 deletions(-)
Title: General Solvers for Initial Value Problems of Ordinary
Differential Equations (ODE), Partial Differential Equations
(PDE), Differential Algebraic Equations (DAE), and Delay
Differential Equations (DDE)
Diff between deSolve versions 1.10-9 dated 2014-06-25 and 1.11 dated 2014-10-29
Description: Functions that solve initial value problems of a system
of first-order ordinary differential equations (ODE), of
partial differential equations (PDE), of differential
algebraic equations (DAE), and of delay differential
equations. The functions provide an interface to the FORTRAN
functions lsoda, lsodar, lsode, lsodes of the ODEPACK
collection, to the FORTRAN functions dvode and daspk and a
C-implementation of solvers of the Runge-Kutta family with
fixed or variable time steps. The package contains routines
designed for solving ODEs resulting from 1-D, 2-D and 3-D
partial differential equations (PDE) that have been converted
to ODEs by numerical differencing.
Author: Karline Soetaert [aut],
Thomas Petzoldt [aut, cre],
R. Woodrow Setzer [aut],
odepack authors [cph]
Maintainer: Thomas Petzoldt
DESCRIPTION | 8
MD5 | 84 +--
NEWS | 7
R/DLLfunc.R | 79 ++-
R/checkevents.R | 5
R/daspk.R | 109 +++-
R/euler.R | 16
R/forcings.R | 7
R/functions.R | 13
R/iteration.R | 12
R/lsoda.R | 28 +
R/lsodar.R | 36 +
R/lsode.R | 34 +
R/lsodes.R | 805 ++++++++++++++++---------------
R/radau.R | 33 +
R/rk.R | 22
R/rk4.R | 15
R/vode.R | 25
R/zvode.R | 2
build/vignette.rds |binary
data/ccl4data.rda |binary
inst/doc/compiledCode.R | 23
inst/doc/compiledCode.Rnw | 198 +++++++
inst/doc/compiledCode.pdf |binary
inst/doc/deSolve.pdf |binary
inst/doc/dynload/radaudaedll.R | 2
man/deSolve.Rd | 4
man/lsodes.Rd | 1048 ++++++++++++++++++++---------------------
src/call_daspk.c | 24
src/call_euler.c | 4
src/call_lsoda.c | 33 -
src/call_radau.c | 23
src/call_rkAuto.c | 6
src/call_rkFixed.c | 7
src/call_rkImplicit.c | 1
src/call_zvode.c | 15
src/deSolve.h | 2
src/deSolve_utils.c | 4
src/errmsg.f | 8
src/forcings.c | 6
src/rk_auto.c | 2
src/rk_fixed.c | 5
vignettes/compiledCode.Rnw | 198 +++++++
43 files changed, 1867 insertions(+), 1086 deletions(-)