Title: Visualization of Regression Models
Description: Provides a convenient interface for constructing plots to visualize the fit of regression models arising from a wide variety of models in R ('lm', 'glm', 'coxph', 'rlm', 'gam', 'locfit', 'lmer', 'randomForest', etc.)
Author: Patrick Breheny, Woodrow Burchett
Maintainer: Patrick Breheny <patrick-breheny@uiowa.edu>
Diff between visreg versions 2.4-0 dated 2017-06-09 and 2.4-1 dated 2017-06-23
DESCRIPTION | 12 +-- MD5 | 41 +++++----- NEWS | 12 +++ R/abbrNum.R |only R/ggFactorPlot.R | 61 +++++++++------- R/parseFormula.R | 1 R/plot.visreg.R | 8 +- R/printCond.R | 6 + R/setupF.R | 11 +- R/setupX.R | 24 +++++- R/visreg.R | 10 +- R/visreg2d.R | 2 R/visregLatticePlot.R | 8 +- README.md | 37 +++++++++ inst/doc/quick-start.Rnw | 2 inst/doc/quick-start.pdf |binary inst/tests/ggplot.R | 12 ++- inst/tests/visreg-contrast.R | 27 +++++-- man/plot.visreg.Rd | 65 ++++++++++------- man/visreg.Rd | 163 ++++++++++++++++++++----------------------- man/visreg2d.Rd | 77 +++++++++++--------- vignettes/quick-start.Rnw | 2 22 files changed, 352 insertions(+), 229 deletions(-)
Title: Lake Physics Tools
Description: Standardized methods for calculating common important derived
physical features of lakes including water density based based on
temperature, thermal layers, thermocline depth, lake number, Wedderburn
number, Schmidt stability and others.
Author: Luke Winslow, Jordan Read, Richard Woolway, Jennifer Brentrup, Taylor
Leach, Jake Zwart
Maintainer: Luke Winslow <lawinslow@gmail.com>
Diff between rLakeAnalyzer versions 1.8.3 dated 2016-05-20 and 1.8.7 dated 2017-06-23
DESCRIPTION | 7 MD5 | 70 +++--- NAMESPACE | 2 R/center.buoyancy.R | 90 ++++---- R/epi.temperature.R |only R/helper.functions.R | 44 +++ R/hypo.temperature.R |only R/internal.energy.R | 174 +++++++-------- R/lake.number.plot.R | 146 ++++++------- R/layer.temperature.R | 142 ++++++------ R/schmidt.plot.R | 142 ++++++------ R/schmidt.stability.R | 141 ++++++------ R/water.density.R | 150 ++++++------- R/whole.lake.temperature.R |only R/wtr.heatmap.layers.R | 162 +++++++------- R/wtr.lineseries.R | 200 ++++++++--------- R/wtr.plot.temp.R | 242 ++++++++++----------- build/vignette.rds |binary inst/extdata/Sparkling.daily.wnd | 402 ++++++++++++++++++------------------ inst/extdata/Sparkling.daily.wtr | 402 ++++++++++++++++++------------------ inst/extdata/Sparkling.sthermod.tsv | 402 ++++++++++++++++++------------------ inst/extdata/sparkling.thermod.tsv | 402 ++++++++++++++++++------------------ man/buoyancy.freq.Rd | 114 +++++----- man/center.buoyancy.Rd | 108 ++++----- man/epi.temperature.Rd |only man/get.offsets.Rd | 60 ++--- man/hypo.temperature.Rd |only man/internal.energy.Rd | 84 +++---- man/layer.temperature.Rd | 94 ++++---- man/meta.depths.Rd | 35 +-- man/schmidt.stability.Rd | 2 man/thermo.depth.Rd | 23 +- man/ts.buoyancy.freq.Rd | 134 ++++++------ man/ts.center.buoyancy.Rd | 126 +++++------ man/ts.wedderburn.number.Rd | 152 ++++++------- man/whole.lake.temperature.Rd |only man/wtr.plot.temp.Rd | 8 tests/testthat.R | 4 tests/testthat/test-thermo.depth.R | 34 +-- 39 files changed, 2177 insertions(+), 2121 deletions(-)
Title: Functions to Support Extension Education Program Evaluation
Description: Functions and datasets to support "Summary and Analysis of
Extension Education Program Evaluation in R" and "An R
Companion for the Handbook of Biological Statistics".
Vignettes are available at <http://rcompanion.org>.
Author: Salvatore Mangiafico [aut, cre]
Maintainer: Salvatore Mangiafico <mangiafico@njaes.rutgers.edu>
Diff between rcompanion versions 1.5.6 dated 2017-04-21 and 1.5.7 dated 2017-06-23
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/nagelkerke.r | 4 +--- 3 files changed, 7 insertions(+), 9 deletions(-)
Title: Liu Regression with Liu Biasing Parameters and Statistics
Description: Linear Liu regression coefficient's estimation and testing with
different Liu related measures such as MSE, R-squared etc.
Author: Muhammad Imdadullah, Dr. Muhammad Aslam
Maintainer: Muhammad Imdadullah <mimdadasad@gmail.com>
Diff between liureg versions 1.0 dated 2017-03-08 and 1.01 dated 2017-06-23
DESCRIPTION | 9 +++--- MD5 | 13 +++++---- R/plot.R | 65 +++++++++++++++++++++++++++++++++++++++++-------- R/plot.bias.R | 69 +++++++++++++++++++++++++++++++++++++++++++++-------- R/plot.info.R | 57 ++++++++++++++++++++++++++++++++++++------- R/summary.R | 12 ++++++--- inst |only man/summary.liu.Rd | 2 - 8 files changed, 182 insertions(+), 45 deletions(-)
Title: Weighted Regression for Water Quality Evaluation in Tidal Waters
Description: An adaptation for estuaries (tidal waters) of weighted regression
on time, discharge, and season to evaluate trends in water quality time series.
Author: Marcus W. Beck [aut, cre]
Maintainer: Marcus W. Beck <mbafs2012@gmail.com>
Diff between WRTDStidal versions 1.0.1 dated 2016-11-07 and 1.1.0 dated 2017-06-23
WRTDStidal-1.0.1/WRTDStidal/README.md |only WRTDStidal-1.1.0/WRTDStidal/DESCRIPTION | 14 - WRTDStidal-1.1.0/WRTDStidal/MD5 | 131 ++++++++--------- WRTDStidal-1.1.0/WRTDStidal/NAMESPACE | 8 + WRTDStidal-1.1.0/WRTDStidal/R/all_sims.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/createsrch.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/dec_time.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/dynaplot.R | 5 WRTDStidal-1.1.0/WRTDStidal/R/fitmoplot.R | 13 - WRTDStidal-1.1.0/WRTDStidal/R/getwts.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/globalVariables.R | 4 WRTDStidal-1.1.0/WRTDStidal/R/gradcols.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/gridplot.R | 73 +++++---- WRTDStidal-1.1.0/WRTDStidal/R/lnres_err.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/nobsplot.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/winsrch_grid.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/wrtds.R | 4 WRTDStidal-1.1.0/WRTDStidal/R/wrtdscv.R | 2 WRTDStidal-1.1.0/WRTDStidal/R/wrtdsperf.R | 4 WRTDStidal-1.1.0/WRTDStidal/R/wrtdstrnd_sk.R |only WRTDStidal-1.1.0/WRTDStidal/man/aiccrq.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/all_sims.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/annual_agg.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/chldat.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/chllab.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/chngest.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/createsrch.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/daydat.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/dec_time.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/dynaplot.Rd | 6 WRTDStidal-1.1.0/WRTDStidal/man/fill_grd.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/fillpo.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/fitmoplot.Rd | 6 WRTDStidal-1.1.0/WRTDStidal/man/fitplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/getwts.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/goodfit.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/gradcols.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/gridplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/lnQ_sim.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/lnres_err.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/lnres_sim.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/modfit.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/nobsplot.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/obsplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/prdnrmplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/resnorm.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/respred.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/resscls.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/samp_sim.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/seasplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/seasyrplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/sliceplot.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidal.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidalmean.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidfit.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidfitmean.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidobj.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/tidobjmean.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/winsrch_constrOptim.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/winsrch_grid.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/winsrch_optim.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/wrtds.Rd | 5 WRTDStidal-1.1.0/WRTDStidal/man/wrtdscv.Rd | 3 WRTDStidal-1.1.0/WRTDStidal/man/wrtdsperf.Rd | 5 WRTDStidal-1.1.0/WRTDStidal/man/wrtdsrsd.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/wrtdstrnd.Rd | 1 WRTDStidal-1.1.0/WRTDStidal/man/wrtdstrnd_sk.Rd |only WRTDStidal-1.1.0/WRTDStidal/man/wtsplot.Rd | 1 68 files changed, 170 insertions(+), 189 deletions(-)
Title: Utility Functions for Developing Web Applications
Description: High performance in-memory http request parser for application/json,
multipart/form-data, and application/x-www-form-urlencoded. Includes live demo
of hosting and parsing multipart forms with either 'httpuv' or 'Rhttpd'.
Author: Jeroen Ooms
Maintainer: Jeroen Ooms <jeroen@berkeley.edu>
Diff between webutils versions 0.5 dated 2017-04-28 and 0.6 dated 2017-06-23
DESCRIPTION | 14 +++++++------- MD5 | 9 +++++---- NEWS | 4 ++++ R/parse_query.R | 15 ++++++++------- R/util.R | 6 ++++++ tests/testthat/test-encoding.R |only 6 files changed, 30 insertions(+), 18 deletions(-)
Title: Simple Features for R
Description: Support for simple features, a standardized way to encode spatial vector data. Binds
to GDAL for reading and writing data, to GEOS for geometrical operations, and to Proj.4 for projection
conversions and datum transformations.
Author: Edzer Pebesma [aut, cre],
Roger Bivand [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Michael Sumner [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb],
Etienne Racine [ctb]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 0.5-0 dated 2017-06-15 and 0.5-1 dated 2017-06-23
DESCRIPTION | 10 +- MD5 | 45 ++++----- NAMESPACE | 1 NEWS.md | 34 +++++++ R/geom.R | 15 ++- R/sf.R | 8 + R/tidyverse.R | 6 - configure | 23 ++-- configure.ac | 22 ++-- inst/doc/sf1.html | 13 +- inst/doc/sf2.html | 11 +- inst/docker/custom |only man/dplyr.Rd | 2 man/geos_binary_ops.Rd | 3 man/geos_binary_pred.Rd | 8 + man/sf.Rd | 4 man/st_as_sfc.Rd | 4 src/gdal.cpp | 12 +- src/gdal_read.cpp | 2 src/geos.cpp | 226 +++++++++++++++++++++++++++--------------------- tests/dplyr.R | 7 + tests/dplyr.Rout.save | 9 + tests/geos.R | 16 +-- tests/geos.Rout.save | 72 ++++++--------- 24 files changed, 328 insertions(+), 225 deletions(-)
Title: R Graphics Devices for Vector Graphics Output
Description: Vector Graphics devices for 'SVG', 'DrawingML' for Microsoft Word,
PowerPoint and Excel. Functions extending package 'officer' are provided to
embed 'DrawingML' graphics into 'Microsoft PowerPoint' documents.
Author: David Gohel [aut, cre],
Bob Rudis [ctb] (the javascript code used by function set_attr),
Francois Brunetti [ctb] (clipping algorithms)
Maintainer: David Gohel <david.gohel@ardata.fr>
Diff between rvg versions 0.1.3 dated 2017-03-12 and 0.1.4 dated 2017-06-23
DESCRIPTION | 10 +++--- MD5 | 26 ++++++++-------- NAMESPACE | 2 + NEWS | 5 +++ R/RcppExports.R | 16 ++++----- R/body_add_vg.R | 10 ++++++ R/ph_with_vg.R | 86 ++++++++++++++++++++++++++++++++++++++++++----------- README.md | 6 +-- man/body_add_vg.Rd | 11 ++++++ man/ph_with_vg.Rd | 10 ++++++ src/docx.cpp | 2 - src/dsvg.cpp | 2 - src/pptx.cpp | 2 - src/xlsx.cpp | 2 - 14 files changed, 140 insertions(+), 50 deletions(-)
Title: Download or Upload 'Socrata' Data Sets
Description: Provides easier interaction with
Socrata open data portals <http://dev.socrata.com>.
Users can provide a 'Socrata' data set resource URL,
or a 'Socrata' Open Data API (SoDA) web query,
or a 'Socrata' "human-friendly" URL,
returns an R data frame. Converts dates to 'POSIX'
format and manages throttling by 'Socrata'.
Users can upload data to Socrata portals directly
from R.
Author: Hugh Devlin, Ph. D., Tom Schenk, Jr., and John Malc
Maintainer: "Tom Schenk Jr." <developers@cityofchicago.org>
Diff between RSocrata versions 1.7.2-12 dated 2017-04-19 and 1.7.3-2 dated 2017-06-23
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- tests/testthat/test-all.R | 16 ++++++---------- 3 files changed, 12 insertions(+), 16 deletions(-)
Title: Calculate Accurate Precision-Recall and ROC (Receiver Operator
Characteristics) Curves
Description: Accurate calculations and visualization of precision-recall and ROC (Receiver Operator Characteristics)
curves.
Author: Takaya Saito [aut, cre],
Marc Rehmsmeier [aut]
Maintainer: Takaya Saito <takaya.saito@outlook.com>
Diff between precrec versions 0.7.1 dated 2017-04-07 and 0.8.0 dated 2017-06-23
precrec-0.7.1/precrec/tests/testthat/test_pl2_1_pl_main_basic.R |only precrec-0.8.0/precrec/DESCRIPTION | 10 precrec-0.8.0/precrec/MD5 | 122 ++--- precrec-0.8.0/precrec/NAMESPACE | 3 precrec-0.8.0/precrec/NEWS.md | 6 precrec-0.8.0/precrec/R/RcppExports.R | 32 - precrec-0.8.0/precrec/R/etc_utils.R | 25 + precrec-0.8.0/precrec/R/etc_utils_autoplot.R | 73 ++- precrec-0.8.0/precrec/R/etc_utils_dataframe.R | 54 ++ precrec-0.8.0/precrec/R/etc_utils_fortify.R | 27 + precrec-0.8.0/precrec/R/etc_utils_plot.R | 47 +- precrec-0.8.0/precrec/R/etc_utils_validate_args.R | 3 precrec-0.8.0/precrec/R/g_autoplot.R | 56 +- precrec-0.8.0/precrec/R/g_dataframe.R | 76 ++- precrec-0.8.0/precrec/R/g_fortify.R | 40 + precrec-0.8.0/precrec/R/g_plot.R | 44 + precrec-0.8.0/precrec/R/g_print.R | 32 + precrec-0.8.0/precrec/R/main_evalmod.R | 112 ++++- precrec-0.8.0/precrec/R/mm1_create_mmdat.R | 119 ++++- precrec-0.8.0/precrec/R/mm3_reformat_data.R | 84 ++- precrec-0.8.0/precrec/R/pl1_pipeline_main.R | 18 precrec-0.8.0/precrec/R/pl2_pipeline_main_aucroc.R |only precrec-0.8.0/precrec/R/pl2_pipeline_main_basic.R | 5 precrec-0.8.0/precrec/R/pl2_pipeline_main_rocprc.R | 5 precrec-0.8.0/precrec/R/pl3_calc_auc_with_u.R |only precrec-0.8.0/precrec/R/pl3_create_confmats.R | 3 precrec-0.8.0/precrec/R/pl4_calc_measures.R | 3 precrec-0.8.0/precrec/R/pl5_create_curves.R | 6 precrec-0.8.0/precrec/R/precrec.R | 3 precrec-0.8.0/precrec/README.md | 2 precrec-0.8.0/precrec/inst/doc/introduction.R | 38 + precrec-0.8.0/precrec/inst/doc/introduction.Rmd | 86 +++ precrec-0.8.0/precrec/inst/doc/introduction.html | 224 ++++++---- precrec-0.8.0/precrec/man/as.data.frame.Rd | 52 +- precrec-0.8.0/precrec/man/autoplot.Rd | 26 - precrec-0.8.0/precrec/man/evalmod.Rd | 65 ++ precrec-0.8.0/precrec/man/fortify.Rd | 24 - precrec-0.8.0/precrec/man/mmdata.Rd | 18 precrec-0.8.0/precrec/man/plot.Rd | 12 precrec-0.8.0/precrec/src/RcppExports.cpp | 41 + precrec-0.8.0/precrec/src/calc_uauc.cpp |only precrec-0.8.0/precrec/src/calc_uauc_frank.cpp |only precrec-0.8.0/precrec/src/conv_vec.cpp | 4 precrec-0.8.0/precrec/src/create_prc_curve.cpp | 2 precrec-0.8.0/precrec/src/create_roc_curve.cpp | 2 precrec-0.8.0/precrec/src/get_score_ranks.cpp | 66 -- precrec-0.8.0/precrec/src/precrec_init.c | 44 + precrec-0.8.0/precrec/src/sort_indices_by_scores.cpp |only precrec-0.8.0/precrec/src/sort_indices_by_scores.h |only precrec-0.8.0/precrec/tests/testthat/test_g_autoplot2_curves.R | 117 +++++ precrec-0.8.0/precrec/tests/testthat/test_g_autoplot3_points.R | 118 +++++ precrec-0.8.0/precrec/tests/testthat/test_g_datamatrix1_curves.R | 95 ++++ precrec-0.8.0/precrec/tests/testthat/test_g_datamatrix2_points.R | 96 ++++ precrec-0.8.0/precrec/tests/testthat/test_g_datamatrix3_aucroc.R |only precrec-0.8.0/precrec/tests/testthat/test_g_fortify2_curves.R | 52 ++ precrec-0.8.0/precrec/tests/testthat/test_g_fortify3_points.R | 51 ++ precrec-0.8.0/precrec/tests/testthat/test_g_plot2_curves.R | 105 ++++ precrec-0.8.0/precrec/tests/testthat/test_g_plot3_points.R | 110 ++++ precrec-0.8.0/precrec/tests/testthat/test_g_print.R | 9 precrec-0.8.0/precrec/tests/testthat/test_main_evalmod.R | 58 ++ precrec-0.8.0/precrec/tests/testthat/test_mm1_1_mmdata.R | 23 - precrec-0.8.0/precrec/tests/testthat/test_mm3_3_reformat_data_main.R | 11 precrec-0.8.0/precrec/tests/testthat/test_pl1_1_pl_main.R | 24 - precrec-0.8.0/precrec/tests/testthat/test_pl2_2_pl_main_basic.R |only precrec-0.8.0/precrec/tests/testthat/test_pl2_3_pl_main_aucroc.R |only precrec-0.8.0/precrec/tests/testthat/test_pl3_2_calc_auc_with_u.R |only precrec-0.8.0/precrec/tests/testthat/test_uc1_usecases.R |only precrec-0.8.0/precrec/vignettes/introduction.Rmd | 86 +++ 68 files changed, 2194 insertions(+), 475 deletions(-)
Title: Lightweight Biology Software Installer
Description: Can be used to install and download massive bioinformatics analysis softwares and databases, such as NGS reads mapping tools with its required databases.
Author: Jianfeng Li [aut, cre]
Maintainer: Jianfeng Li <lee_jianfeng@sjtu.edu.cn>
Diff between BioInstaller versions 0.1.1 dated 2017-05-25 and 0.1.2 dated 2017-06-23
BioInstaller-0.1.1/BioInstaller/inst/extdata/html |only BioInstaller-0.1.2/BioInstaller/ChangeLog | 39 BioInstaller-0.1.2/BioInstaller/DESCRIPTION | 16 BioInstaller-0.1.2/BioInstaller/MD5 | 51 BioInstaller-0.1.2/BioInstaller/NAMESPACE | 3 BioInstaller-0.1.2/BioInstaller/R/BioInstaller.R | 4 BioInstaller-0.1.2/BioInstaller/R/active.R | 12 BioInstaller-0.1.2/BioInstaller/R/install.R | 135 +- BioInstaller-0.1.2/BioInstaller/R/install_utils.R | 22 BioInstaller-0.1.2/BioInstaller/R/utils_function.R | 58 - BioInstaller-0.1.2/BioInstaller/R/versions.R | 22 BioInstaller-0.1.2/BioInstaller/README.md | 10 BioInstaller-0.1.2/BioInstaller/build |only BioInstaller-0.1.2/BioInstaller/inst/doc |only BioInstaller-0.1.2/BioInstaller/inst/extdata/github.toml | 177 ++- BioInstaller-0.1.2/BioInstaller/inst/extdata/nongithub.toml | 78 - BioInstaller-0.1.2/BioInstaller/inst/extdata/nongithub_databases_blast.toml |only BioInstaller-0.1.2/BioInstaller/inst/extdata/nongithub_databases_meta.toml |only BioInstaller-0.1.2/BioInstaller/inst/extdata/parse_version.R | 567 ++++------ BioInstaller-0.1.2/BioInstaller/man/install.bioinfo.Rd | 14 BioInstaller-0.1.2/BioInstaller/man/install.github.Rd | 15 BioInstaller-0.1.2/BioInstaller/man/install.nongithub.Rd | 17 BioInstaller-0.1.2/BioInstaller/tests/testthat/test_active.R | 9 BioInstaller-0.1.2/BioInstaller/tests/testthat/test_install_uilts.R | 19 BioInstaller-0.1.2/BioInstaller/tests/testthat/test_utils.R | 29 BioInstaller-0.1.2/BioInstaller/tests/testthat/test_versions.R |only BioInstaller-0.1.2/BioInstaller/vignettes |only 27 files changed, 745 insertions(+), 552 deletions(-)
Title: Importing and Analysing Snp and Silicodart Data Generated by
Genome-Wide Restriction Fragment Analysis
Description: Functions are provided that facilitate the import and analysis of
snp and silicodart (presence/absence) data. The main focus is on data generated
by DarT (Diversity Arrays Technology). However, once SNP or related fragment
presence/absence data from any source is imported into a genlight object many
of the functions can be used. Functions are available for input and output of
snp and silicodart data, for reporting on and filtering on various criteria
(e.g. CallRate, Heterozygosity, Reproducibility, maximum allele frequency).
Advanced filtering is based on Linkage Disequilibrium and HWE. Other functions
are available for visualization after PCoA, or to facilitate transfer of data
between genlight/genind objects and newhybrids, related, phylip packages etc.
Author: Bernd Gruber [aut, cre],
Arthur Georges [aut],
Peter J. Unmack [ctb],
Oliver Berry [ctb]
Maintainer: Bernd Gruber <bernd.gruber@canberra.edu.au>
Diff between dartR versions 0.79 dated 2017-06-23 and 0.80 dated 2017-06-23
DESCRIPTION | 10 +- MD5 | 132 +++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/IntroTutorial_dartR.R | 16 ++-- inst/doc/IntroTutorial_dartR.Rmd | 16 ++-- inst/doc/IntroTutorial_dartR.pdf |binary man/dart2genlight.Rd | 1 man/filter.dart.Rd | 1 man/gi.hwe.pop.Rd | 1 man/gi.outflank.Rd | 1 man/gi.report.ld.Rd | 1 man/gi2gl.Rd | 1 man/gl.collapse.Rd | 1 man/gl.collapse.recursive.Rd | 1 man/gl.dist.Rd | 1 man/gl.edit.recode.ind.Rd | 1 man/gl.edit.recode.pop.Rd | 1 man/gl.filter.callrate.Rd | 1 man/gl.filter.cloneid.Rd | 1 man/gl.filter.dups.Rd | 1 man/gl.filter.hamming.Rd | 1 man/gl.filter.hwe.Rd | 1 man/gl.filter.monomorphs.Rd | 1 man/gl.filter.repavg.Rd | 1 man/gl.fixed.diff.Rd | 7 -- man/gl.gene.freq.Rd | 1 man/gl.make.recode.ind.Rd | 1 man/gl.make.recode.pop.Rd | 1 man/gl.pcoa.Rd | 1 man/gl.pcoa.plot.3d.Rd | 1 man/gl.pcoa.plot.Rd | 1 man/gl.pcoa.pop.Rd | 1 man/gl.pcoa.scree.Rd | 1 man/gl.percent.freq.Rd | 1 man/gl.read.dart.Rd | 1 man/gl.read.dart.arthur.Rd | 1 man/gl.read.silicodart.Rd | 1 man/gl.recode.ind.Rd | 7 -- man/gl.recode.pop.Rd | 7 -- man/gl.report.bases.Rd | 1 man/gl.report.callrate.Rd | 1 man/gl.report.dups.Rd | 1 man/gl.report.hamming.Rd | 1 man/gl.report.heterozygosity.Rd | 1 man/gl.report.hwe.Rd | 1 man/gl.report.monomorphs.Rd | 1 man/gl.report.repavg.Rd | 1 man/gl.subsample.loci.Rd | 1 man/gl.tree.nj.Rd | 1 man/gl.write.csv.Rd | 1 man/gl2demerelate.Rd | 1 man/gl2fasta.Rd | 1 man/gl2faststructure.Rd | 1 man/gl2gds.Rd | 1 man/gl2gi.Rd | 1 man/gl2nhyb.Rd | 1 man/gl2phylip.Rd | 1 man/is.fixed.Rd | 7 -- man/prob.hwe.Rd | 1 man/read.dart.Rd | 1 man/testset.gl.Rd | 1 man/testset_SNPs_2Row.Rd | 1 man/testset_metadata.Rd | 1 man/testset_pop_recode.Rd | 1 man/utils.hamming.Rd | 1 man/utils.hwe.Rd | 1 vignettes/IntroTutorial_dartR.Rmd | 16 ++-- 67 files changed, 107 insertions(+), 167 deletions(-)
Title: An Interface to Google's 'BigQuery' 'API'
Description: Easily talk to Google's 'BigQuery' database from R.
Author: Hadley Wickham [aut, cre],
RStudio [cph]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between bigrquery versions 0.3.0 dated 2016-06-28 and 0.4.0 dated 2017-06-23
bigrquery-0.3.0/bigrquery/R/upload.r |only bigrquery-0.3.0/bigrquery/man/bigrquery.Rd |only bigrquery-0.4.0/bigrquery/DESCRIPTION | 26 - bigrquery-0.4.0/bigrquery/LICENSE |only bigrquery-0.4.0/bigrquery/MD5 | 115 +++--- bigrquery-0.4.0/bigrquery/NAMESPACE | 19 - bigrquery-0.4.0/bigrquery/NEWS.md | 63 +++ bigrquery-0.4.0/bigrquery/R/auth.r | 29 + bigrquery-0.4.0/bigrquery/R/bigrquery.r | 20 - bigrquery-0.4.0/bigrquery/R/camelCase.R |only bigrquery-0.4.0/bigrquery/R/datasets.r | 66 +-- bigrquery-0.4.0/bigrquery/R/dbi-connection.r | 61 ++- bigrquery-0.4.0/bigrquery/R/dbi-driver.r | 38 +- bigrquery-0.4.0/bigrquery/R/dbi-result.r | 23 - bigrquery-0.4.0/bigrquery/R/dplyr-compat.R |only bigrquery-0.4.0/bigrquery/R/dplyr.r | 184 ++++------ bigrquery-0.4.0/bigrquery/R/id.R | 12 bigrquery-0.4.0/bigrquery/R/job-extract.R |only bigrquery-0.4.0/bigrquery/R/job-query.R |only bigrquery-0.4.0/bigrquery/R/job-upload.r |only bigrquery-0.4.0/bigrquery/R/jobs.r | 131 +------ bigrquery-0.4.0/bigrquery/R/projects.r | 10 bigrquery-0.4.0/bigrquery/R/query.r | 70 ++- bigrquery-0.4.0/bigrquery/R/request.r | 110 +++++ bigrquery-0.4.0/bigrquery/R/tabledata.r | 142 ++++--- bigrquery-0.4.0/bigrquery/R/tables.r | 123 +++--- bigrquery-0.4.0/bigrquery/R/utils.r | 33 + bigrquery-0.4.0/bigrquery/R/zzz.r | 7 bigrquery-0.4.0/bigrquery/man/DBI.Rd | 111 +++--- bigrquery-0.4.0/bigrquery/man/bigrquery-package.Rd |only bigrquery-0.4.0/bigrquery/man/copy_table.Rd | 9 bigrquery-0.4.0/bigrquery/man/dbi_driver.Rd | 9 bigrquery-0.4.0/bigrquery/man/delete_dataset.Rd | 3 bigrquery-0.4.0/bigrquery/man/delete_table.Rd | 7 bigrquery-0.4.0/bigrquery/man/format_dataset.Rd | 1 bigrquery-0.4.0/bigrquery/man/format_table.Rd | 1 bigrquery-0.4.0/bigrquery/man/get_access_cred.Rd | 12 bigrquery-0.4.0/bigrquery/man/get_dataset.Rd | 9 bigrquery-0.4.0/bigrquery/man/get_job.Rd | 10 bigrquery-0.4.0/bigrquery/man/get_table.Rd | 24 - bigrquery-0.4.0/bigrquery/man/insert_dataset.Rd | 11 bigrquery-0.4.0/bigrquery/man/insert_extract_job.Rd |only bigrquery-0.4.0/bigrquery/man/insert_query_job.Rd | 20 - bigrquery-0.4.0/bigrquery/man/insert_table.Rd |only bigrquery-0.4.0/bigrquery/man/insert_upload_job.Rd | 14 bigrquery-0.4.0/bigrquery/man/list_datasets.Rd | 9 bigrquery-0.4.0/bigrquery/man/list_projects.Rd | 10 bigrquery-0.4.0/bigrquery/man/list_tabledata.Rd | 30 - bigrquery-0.4.0/bigrquery/man/list_tables.Rd | 16 bigrquery-0.4.0/bigrquery/man/parse_dataset.Rd | 1 bigrquery-0.4.0/bigrquery/man/parse_table.Rd | 1 bigrquery-0.4.0/bigrquery/man/query_exec.Rd | 26 - bigrquery-0.4.0/bigrquery/man/src_bigquery.Rd | 30 - bigrquery-0.4.0/bigrquery/man/update_dataset.Rd | 13 bigrquery-0.4.0/bigrquery/man/wait_for.Rd | 6 bigrquery-0.4.0/bigrquery/src |only bigrquery-0.4.0/bigrquery/tests/testthat/helper-DBItest.R |only bigrquery-0.4.0/bigrquery/tests/testthat/helper-auth.R | 8 bigrquery-0.4.0/bigrquery/tests/testthat/helper-test-datasets.R |only bigrquery-0.4.0/bigrquery/tests/testthat/service-token.json.enc |only bigrquery-0.4.0/bigrquery/tests/testthat/test-DBItest.R | 147 +++---- bigrquery-0.4.0/bigrquery/tests/testthat/test-camelCase.R |only bigrquery-0.4.0/bigrquery/tests/testthat/test-datasets.r | 14 bigrquery-0.4.0/bigrquery/tests/testthat/test-query_exec.R |only bigrquery-0.4.0/bigrquery/tests/testthat/test-sql.R |only bigrquery-0.4.0/bigrquery/tests/testthat/test-tables.r | 28 + bigrquery-0.4.0/bigrquery/tests/testthat/test-upload.r | 19 - 67 files changed, 1087 insertions(+), 794 deletions(-)
Title: Bayesian Multilevel Mediation
Description: Easy estimation of Bayesian multilevel mediation models with Stan.
Author: Matti Vuorre [aut, cre]
Maintainer: Matti Vuorre <mv2521@columbia.edu>
Diff between bmlm versions 1.2.10 dated 2017-02-17 and 1.3.0 dated 2017-06-23
DESCRIPTION | 8 - MD5 | 22 ++- NAMESPACE | 4 NEWS.md | 4 R/mlm_plot.R | 256 ++++++++++++++++++++++++++++++++++++++++++++-- README.md | 24 ++-- inst/CITATION | 6 - man/mlm_spaghetti_plot.Rd |only src/Makevars | 4 src/Makevars.win | 3 src/include/models.hpp | 154 ++++++++++++++++++++++++--- src/init.cpp |only tools/make_cpp.R | 6 - 13 files changed, 434 insertions(+), 57 deletions(-)
Title: Optimization of Sample Configurations using Spatial Simulated
Annealing
Description: Methods to optimize sample configurations using spatial simulated annealing. Multiple objective
functions are implemented for various purposes, such as variogram estimation, spatial trend estimation
and spatial interpolation. A general purpose spatial simulated annealing function enables the user to
define his/her own objective function. Solutions for augmenting existing sample configurations and solving
multi-objective optimization problems are available as well.
Author: Alessandro Samuel-Rosa [aut, cre],
Lucia Helena Cunha dos Anjos [ths],
Gustavo de Mattos Vasques [ths],
Gerard B M Heuvelink [ths],
Edzer Pebesma [ctb],
Jon Skoien [ctb],
Joshua French [ctb],
Pierre Roudier [ctb],
Dick Brus [ctb],
Murray Lark [ctb]
Maintainer: Alessandro Samuel-Rosa <alessandrosamuelrosa@gmail.com>
Diff between spsann versions 2.0-0 dated 2016-03-15 and 2.1-0 dated 2017-06-23
DESCRIPTION | 21 +++++------ MD5 | 80 +++++++++++++++++++++--------------------- NEWS.md | 9 ++++ R/AAA.R | 2 - R/RcppExports.R | 2 - R/SPSANNtools.R | 11 ++++- R/ZZZ.R | 6 +-- R/optimACDC.R | 13 +++--- R/optimCLHS.R | 13 +++--- R/optimCORR.R | 2 - R/optimDIST.R | 39 ++++++++++++-------- R/optimMKV.R | 4 +- R/optimMSSD.R | 11 +++-- R/optimPPL.R | 39 ++++++++++++++------ R/optimSPAN.R | 91 +++++++++++++++++++++--------------------------- R/optimUSER.R | 2 - R/plot-method.R | 30 +++++++++++---- R/prepare-acdc-covars.R | 5 ++ R/prepare-clhs-covars.R | 2 - R/prepare-output.R | 5 +- R/prepare-points.R | 33 ++++++++++++++++- R/spJitter.R | 9 +--- README.md | 6 ++- build/vignette.rds |binary inst/doc/spsann.pdf |binary man/SPSANNtools.Rd | 3 - man/minmaxPareto.Rd | 11 ++--- man/optimACDC.Rd | 74 +++++++++++++++++++++------------------ man/optimCLHS.Rd | 68 ++++++++++++++++++++--------------- man/optimCORR.Rd | 72 +++++++++++++++++++++---------------- man/optimDIST.Rd | 72 +++++++++++++++++++++---------------- man/optimMKV.Rd | 62 ++++++++++++++++++-------------- man/optimMSSD.Rd | 62 ++++++++++++++++++-------------- man/optimPPL.Rd | 67 ++++++++++++++++++++--------------- man/optimSPAN.Rd | 76 ++++++++++++++++++++++------------------ man/optimUSER.Rd | 55 ++++++++++++++++------------- man/plot-method.Rd | 3 - man/scheduleSPSANN.Rd | 7 +-- man/spJitter.Rd | 16 ++------ man/spsann-package.Rd | 4 +- src/RcppExports.cpp | 47 +++++++++++++++--------- 41 files changed, 643 insertions(+), 491 deletions(-)
Title: Moran's Eigenvector-Based Spatial Regression Models
Description: Functions for estimating fixed and random effects
eigenvector spatial filtering models.
Author: Daisuke Murakami
Maintainer: Daisuke Murakami <murakami_daisuke_t@yahoo.co.jp>
Diff between spmoran versions 0.1.0 dated 2017-03-12 and 0.1.1 dated 2017-06-23
spmoran-0.1.0/spmoran/vignettes/vignette.Rmd |only spmoran-0.1.1/spmoran/DESCRIPTION | 10 +- spmoran-0.1.1/spmoran/MD5 | 33 ++++---- spmoran-0.1.1/spmoran/NAMESPACE | 10 +- spmoran-0.1.1/spmoran/R/esf.R | 13 --- spmoran-0.1.1/spmoran/R/meigen.R | 8 + spmoran-0.1.1/spmoran/R/meigen_f.R | 20 ++-- spmoran-0.1.1/spmoran/R/plot_qr.R |only spmoran-0.1.1/spmoran/R/resf.R | 58 +++++++------- spmoran-0.1.1/spmoran/R/resf_qr.R |only spmoran-0.1.1/spmoran/R/resf_vc.R | 111 +++++++++++---------------- spmoran-0.1.1/spmoran/build/vignette.rds |binary spmoran-0.1.1/spmoran/inst/doc/vignette.pdf |binary spmoran-0.1.1/spmoran/man/esf.Rd | 13 ++- spmoran-0.1.1/spmoran/man/meigen.Rd | 5 - spmoran-0.1.1/spmoran/man/meigen_f.Rd | 3 spmoran-0.1.1/spmoran/man/plot_qr.Rd |only spmoran-0.1.1/spmoran/man/resf.Rd | 6 - spmoran-0.1.1/spmoran/man/resf_qr.Rd |only spmoran-0.1.1/spmoran/man/resf_vc.Rd | 16 ++- 20 files changed, 161 insertions(+), 145 deletions(-)
Title: R Interface to Python
Description: R interface to Python modules, classes, and functions. When calling
into Python R data types are automatically converted to their equivalent Python
types. When values are returned from Python to R they are converted back to R
types. Compatible with all versions of Python >= 2.7.
Author: JJ Allaire [aut, cre],
Kevin Ushey [ctb],
RStudio [cph, fnd],
Yuan Tang [aut, cph],
Dirk Eddelbuettel [ctb, cph],
Bryan Lewis [ctb, cph],
Marcus Geelnard [aut, cph] (TinyThread library,
http://tinythreadpp.bitsnbites.eu/)
Maintainer: JJ Allaire <jj@rstudio.com>
Diff between reticulate versions 0.8 dated 2017-05-22 and 0.9 dated 2017-06-23
DESCRIPTION | 6 +- MD5 | 62 ++++++++++---------- NAMESPACE | 4 + NEWS.md | 24 ++++++++ R/RcppExports.R | 4 + R/config.R | 98 ++++++++++++++++++--------------- R/help.R | 13 ++++ R/output.R |only R/package.R | 12 +++- R/python.R | 48 +++++++++++----- R/use_python.R | 9 +++ inst/doc/arrays.html | 58 +++++++++---------- inst/doc/introduction.R | 14 ++++ inst/doc/introduction.Rmd | 34 +++++++++++ inst/doc/introduction.html | 44 +++++++++++--- inst/doc/package.Rmd | 8 ++ inst/doc/package.html | 24 +++++--- inst/doc/versions.R | 3 + inst/doc/versions.Rmd | 7 ++ inst/doc/versions.html | 4 + inst/python/rpytools/output.py | 34 +++++++++++ inst/python/rpytools/output.pyc |binary man/conda-tools.Rd | 3 + man/iterate.Rd | 21 ++++--- man/py_help.Rd |only man/py_versions_windows.Rd | 4 - src/RcppExports.cpp | 13 ++++ src/interrupt.cpp | 2 src/python.cpp | 22 +++++++ tests/testthat/test-python-iterators.R | 34 +++++++++++ vignettes/introduction.Rmd | 34 +++++++++++ vignettes/package.Rmd | 8 ++ vignettes/versions.Rmd | 7 ++ 33 files changed, 500 insertions(+), 158 deletions(-)
Title: The Moving Epidemic Method Web Application
Description: Web application created in the Shiny framework for the 'mem' R package.
Author: Jose E. Lozano [aut, cre]
Maintainer: Jose E. Lozano <lozalojo@gmail.com>
Diff between memapp versions 2.1 dated 2017-06-08 and 2.2 dated 2017-06-23
DESCRIPTION | 15 +++---- MD5 | 10 ++-- README.md | 15 +++---- inst/shinyapp/helpers.R | 48 +++++++++++++++-------- inst/shinyapp/server.R | 97 ++++++++++++++++++++++++++++-------------------- inst/shinyapp/ui.R | 35 +++++++++-------- 6 files changed, 128 insertions(+), 92 deletions(-)
Title: The Moving Epidemic Method R Package
Description: Tools to model influenza epidemics and to monitor influenza surveillance.
Author: Jose E. Lozano [aut, cre]
Maintainer: Jose E. Lozano <lozalojo@gmail.com>
Diff between mem versions 2.7 dated 2017-06-08 and 2.8 dated 2017-06-23
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++++---- NAMESPACE | 2 ++ R/epimem.R |only R/epitiming.R |only R/memmodel.R | 2 +- README.md | 22 +++++++++++----------- man/epimem.Rd |only man/epitiming.Rd |only 9 files changed, 27 insertions(+), 21 deletions(-)
Title: Import and Analysis of OMR Data from FormScanner
Description: Import data of tests and questionnaires from FormScanner. FormScanner is an open source software that converts scanned images to data using optical mark recognition (OMR) and it can be downloaded from <http://sourceforge.net/projects/formscanner/>. The spreadsheet file created by FormScanner is imported in a convenient format to perform the analyses provided by the package. These analyses include the conversion of multiple responses to binary (correct/incorrect) data, the computation of the number of corrected responses for each subject or item, scoring using weights,the computation and the graphical representation of the frequencies of the responses to each item and the report of the responses of a few subjects.
Author: Michela Battauz
Maintainer: Michela Battauz <michela.battauz@uniud.it>
Diff between fsia versions 1.1 dated 2016-12-07 and 1.1.1 dated 2017-06-23
DESCRIPTION | 12 ++++++------ MD5 | 10 +++++----- R/fsia.r | 10 +++++----- inst/NEWS | 12 ++---------- man/fsia-package.Rd | 14 +++++++------- man/report.Rd | 2 +- 6 files changed, 26 insertions(+), 34 deletions(-)
Title: Relational Event Models (REM)
Description: Calculate endogenous network effects in event sequences and fit relational event models (REM): Using network event sequences (where each tie between a sender and a target in a network is time-stamped), REMs can measure how networks form and evolve over time. Endogenous patterns such as popularity effects, inertia, similarities, cycles or triads can be calculated and analyzed over time.
Author: Laurence Brandenberger
Maintainer: Laurence Brandenberger <laurence.brandenberger@eawag.ch>
Diff between rem versions 1.1.2 dated 2016-02-19 and 1.2.8 dated 2017-06-23
rem-1.1.2/rem/man/remRate.Rd |only rem-1.2.8/rem/DESCRIPTION | 17 rem-1.2.8/rem/MD5 | 36 rem-1.2.8/rem/NAMESPACE | 12 rem-1.2.8/rem/R/RcppExports.R | 38 rem-1.2.8/rem/R/rem.R | 8479 ++++++++++++++---------------- rem-1.2.8/rem/R/temp.R | 399 + rem-1.2.8/rem/man/createRemDataset.Rd |only rem-1.2.8/rem/man/degreeStat.Rd | 117 rem-1.2.8/rem/man/eventSequence.Rd | 18 rem-1.2.8/rem/man/fourCycleStat.Rd | 139 rem-1.2.8/rem/man/inertiaStat.Rd | 98 rem-1.2.8/rem/man/reciprocityStat.Rd | 115 rem-1.2.8/rem/man/rem-package.Rd | 6 rem-1.2.8/rem/man/similarityStat.Rd | 124 rem-1.2.8/rem/man/timeToEvent.Rd |only rem-1.2.8/rem/man/triadStat.Rd | 115 rem-1.2.8/rem/src/RcppExports.cpp | 230 rem-1.2.8/rem/src/registerDynamicSymbol.c |only rem-1.2.8/rem/src/rem.cpp | 1937 +----- rem-1.2.8/rem/src/temp.cpp | 13 21 files changed, 5753 insertions(+), 6140 deletions(-)
Title: Network Meta-Analysis using Integrated Nested Laplace
Approximations
Description: Performs network meta-analysis using integrated nested Laplace approximations ('INLA'). Includes methods to assess the heterogeneity and inconsistency in the network. Contains more than ten different network meta-analysis data. 'INLA' package can be obtained from <http://www.r-inla.org>. We recommend the testing version.
Author: Burak Kuersad Guenhan [aut, cre]
Maintainer: Burak Kuersad Guenhan <burak.gunhan@med.uni-goettingen.de>
Diff between nmaINLA versions 0.1.0 dated 2017-06-20 and 0.1.1 dated 2017-06-23
DESCRIPTION | 10 ++-- MD5 | 10 ++-- inst/doc/nmaINLA.R | 116 +++++++++++++++++++++++++++++++++++--------------- inst/doc/nmaINLA.Rnw | 64 ++++++++++++++++++++++++--- inst/doc/nmaINLA.pdf |binary vignettes/nmaINLA.Rnw | 64 ++++++++++++++++++++++++--- 6 files changed, 204 insertions(+), 60 deletions(-)
Title: R API for MLJAR
Description: Provides an R API wrapper for 'mljar.com', a web service allowing for on-line training for machine learning models (see <https://mljar.com> for more information).
Author: Dominik Krzemiński <raymon92@gmail.com>
Maintainer: Piotr Płoński <contact@mljar.com>
Diff between mljar versions 0.1.0 dated 2017-06-01 and 0.1.1 dated 2017-06-23
mljar-0.1.0/mljar/tests/testthat/test_project.R |only mljar-0.1.1/mljar/DESCRIPTION | 6 mljar-0.1.1/mljar/MD5 | 28 ++-- mljar-0.1.1/mljar/NAMESPACE | 4 mljar-0.1.1/mljar/R/dataset.R | 11 + mljar-0.1.1/mljar/R/experiment.R | 40 +++--- mljar-0.1.1/mljar/R/main.R | 149 +++++++++++++++++------- mljar-0.1.1/mljar/R/params.R | 8 - mljar-0.1.1/mljar/R/projects.R | 45 ++++++- mljar-0.1.1/mljar/R/result.R | 49 +++++++ mljar-0.1.1/mljar/R/utils.R | 4 mljar-0.1.1/mljar/README.md | 6 mljar-0.1.1/mljar/man/get_all_models.Rd |only mljar-0.1.1/mljar/man/get_model.Rd |only mljar-0.1.1/mljar/man/get_results.Rd | 4 mljar-0.1.1/mljar/man/mljar_fit.Rd | 45 ++++--- mljar-0.1.1/mljar/man/print_all_projects.Rd |only 17 files changed, 290 insertions(+), 109 deletions(-)
Title: R Interface for H2O
Description: R scripting functionality for H2O, the open source
math engine for big data that computes parallel distributed
machine learning algorithms such as generalized linear models,
gradient boosting machines, random forests, and neural networks
(deep learning) within various cluster environments.
Author: The H2O.ai team
Maintainer: Tom Kraljevic <tomk@0xdata.com>
Diff between h2o versions 3.10.4.6 dated 2017-05-02 and 3.10.5.2 dated 2017-06-23
DESCRIPTION | 8 - MD5 | 127 +++++++++++-------- NAMESPACE | 24 +++ R/classes.R | 18 ++ R/communication.R | 71 +++++++---- R/connection.R | 16 ++ R/constants.R | 7 - R/deeplearning.R | 59 +-------- R/deepwater.R | 49 ++++--- R/export.R | 3 R/frame.R | 256 ++++++++++++++++++++++++++++++++++++++-- R/gbm.R | 31 +++- R/glm.R | 41 +++--- R/glrm.R | 6 R/import.R | 13 -- R/klime.R |only R/kmeans.R | 8 - R/kvstore.R | 30 +++- R/logging.R | 10 + R/models.R | 126 +++++++++++++++---- R/naivebayes.R | 43 ++++-- R/parse.R | 12 + R/pca.R | 4 R/predict.R |only R/randomforest.R | 31 +++- R/stackedensemble.R | 48 ++++--- R/svd.R | 4 R/w2vutils.R | 22 +++ R/word2vec.R | 4 R/xgboost.R |only inst/branch.txt | 2 inst/buildnum.txt | 2 man/H2OFrame-class.Rd |only man/aaa.Rd | 2 man/h2o-package.Rd | 6 man/h2o.bottomN.Rd |only man/h2o.coef.Rd | 4 man/h2o.coef_norm.Rd | 4 man/h2o.deepfeatures.Rd | 21 ++- man/h2o.deeplearning.Rd | 10 - man/h2o.deepwater.Rd | 36 +++-- man/h2o.deepwater.available.Rd | 6 man/h2o.distance.Rd |only man/h2o.downloadAllLogs.Rd | 9 + man/h2o.download_mojo.Rd | 7 - man/h2o.download_pojo.Rd | 7 - man/h2o.fillna.Rd |only man/h2o.flow.Rd |only man/h2o.gbm.Rd | 12 + man/h2o.glm.Rd | 27 ++-- man/h2o.glrm.Rd | 2 man/h2o.group_by.Rd | 27 +++- man/h2o.importFile.Rd | 7 - man/h2o.init.Rd | 6 man/h2o.klime.Rd |only man/h2o.kmeans.Rd | 4 man/h2o.list_all_extensions.Rd |only man/h2o.list_api_extensions.Rd |only man/h2o.list_core_extensions.Rd |only man/h2o.loadModel.Rd | 3 man/h2o.naiveBayes.Rd | 16 ++ man/h2o.partialPlot.Rd | 8 - man/h2o.pivot.Rd |only man/h2o.predict_json.Rd |only man/h2o.randomForest.Rd | 12 + man/h2o.saveModel.Rd | 3 man/h2o.stackedEnsemble.Rd | 11 - man/h2o.stringdist.Rd |only man/h2o.toFrame.Rd |only man/h2o.topN.Rd |only man/h2o.varimp_plot.Rd | 2 man/h2o.which_max.Rd |only man/h2o.which_min.Rd |only man/h2o.xgboost.Rd |only man/h2o.xgboost.available.Rd |only 75 files changed, 928 insertions(+), 399 deletions(-)
Title: Connect to ODBC Compatible Databases (using the DBI Interface)
Description: A DBI-compatible interface to ODBC databases.
Author: Jim Hester [aut, cre],
Hadley Wickham [aut],
lexicalunit [cph] (nanodbc library),
Google Inc. [cph] (cctz library),
RStudio [cph, fnd]
Maintainer: Jim Hester <james.hester@rstudio.com>
Diff between odbc versions 1.0.1 dated 2017-02-07 and 1.1.0 dated 2017-06-23
odbc-1.0.1/odbc/man/list_data_sources.Rd |only odbc-1.0.1/odbc/man/list_drivers.Rd |only odbc-1.0.1/odbc/src/nanodbc.cpp |only odbc-1.0.1/odbc/src/nanodbc.h |only odbc-1.1.0/odbc/DESCRIPTION | 29 odbc-1.1.0/odbc/MD5 | 130 +- odbc-1.1.0/odbc/NAMESPACE | 35 odbc-1.1.0/odbc/NEWS.md | 29 odbc-1.1.0/odbc/R/Connection.R | 209 ++-- odbc-1.1.0/odbc/R/DataTypes.R |only odbc-1.1.0/odbc/R/Driver.R | 58 + odbc-1.1.0/odbc/R/RcppExports.R | 60 - odbc-1.1.0/odbc/R/Result.R | 20 odbc-1.1.0/odbc/R/Table.R | 59 - odbc-1.1.0/odbc/R/Viewer.R |only odbc-1.1.0/odbc/R/odbc.R | 5 odbc-1.1.0/odbc/R/utils.R | 26 odbc-1.1.0/odbc/R/zzz.R | 17 odbc-1.1.0/odbc/README.md | 66 + odbc-1.1.0/odbc/build |only odbc-1.1.0/odbc/configure | 14 odbc-1.1.0/odbc/inst/COPYING | 208 ++++ odbc-1.1.0/odbc/man/OdbcConnection.Rd | 22 odbc-1.1.0/odbc/man/OdbcDriver.Rd | 7 odbc-1.1.0/odbc/man/OdbcResult.Rd | 24 odbc-1.1.0/odbc/man/dbConnect-OdbcDriver-method.Rd | 25 odbc-1.1.0/odbc/man/dbUnQuoteIdentifier.Rd |only odbc-1.1.0/odbc/man/odbc-package.Rd | 8 odbc-1.1.0/odbc/man/odbc-tables.Rd | 32 odbc-1.1.0/odbc/man/odbc.Rd | 2 odbc-1.1.0/odbc/man/odbcConnectionActions.Rd |only odbc-1.1.0/odbc/man/odbcConnectionIcon.Rd |only odbc-1.1.0/odbc/man/odbcDataType.Rd |only odbc-1.1.0/odbc/man/odbcListColumns.Rd |only odbc-1.1.0/odbc/man/odbcListDataSources.Rd |only odbc-1.1.0/odbc/man/odbcListDrivers.Rd |only odbc-1.1.0/odbc/man/odbcListObjectTypes.Rd |only odbc-1.1.0/odbc/man/odbcListObjects.Rd |only odbc-1.1.0/odbc/man/odbcPreviewObject.Rd |only odbc-1.1.0/odbc/man/odbcSetTransactionIsolationLevel.Rd |only odbc-1.1.0/odbc/man/test_roundtrip.Rd |only odbc-1.1.0/odbc/src/Iconv.cpp |only odbc-1.1.0/odbc/src/Iconv.h |only odbc-1.1.0/odbc/src/Makevars.in | 24 odbc-1.1.0/odbc/src/Makevars.win | 25 odbc-1.1.0/odbc/src/RcppExports.cpp | 74 + odbc-1.1.0/odbc/src/cctz |only odbc-1.1.0/odbc/src/condition.h |only odbc-1.1.0/odbc/src/connection.cpp | 95 +- odbc-1.1.0/odbc/src/integer64.h |only odbc-1.1.0/odbc/src/nanodbc |only odbc-1.1.0/odbc/src/odbc_connection.cpp | 56 + odbc-1.1.0/odbc/src/odbc_connection.h | 73 - odbc-1.1.0/odbc/src/odbc_result.cpp |only odbc-1.1.0/odbc/src/odbc_result.h | 739 +++------------- odbc-1.1.0/odbc/src/odbc_types.h | 5 odbc-1.1.0/odbc/src/r_types.h | 28 odbc-1.1.0/odbc/src/result.cpp | 37 odbc-1.1.0/odbc/src/sql_types.h |only odbc-1.1.0/odbc/tests/testthat/helper.R | 34 odbc-1.1.0/odbc/tests/testthat/test-MySQL.R | 52 - odbc-1.1.0/odbc/tests/testthat/test-PostgreSQL.R | 34 odbc-1.1.0/odbc/tests/testthat/test-SQLServer.R | 39 odbc-1.1.0/odbc/tests/testthat/test-drivers.R |only 64 files changed, 1342 insertions(+), 1058 deletions(-)
Title: Test Bench for the Comparison of Imputation Methods
Description: Provides a test bench for the comparison of missing data imputation
methods in uni-variate time series. Imputation methods are compared using
different error metrics. Proposed imputation methods and alternative error
metrics can be used.
Author: Neeraj Bokde [aut],
Marcus W. Beck [cre, aut]
Maintainer: Marcus W. Beck <mbafs2012@gmail.com>
Diff between imputeTestbench versions 3.0.0 dated 2016-11-03 and 3.0.1 dated 2017-06-23
imputeTestbench-3.0.0/imputeTestbench/README.md |only imputeTestbench-3.0.1/imputeTestbench/DESCRIPTION | 17 ++-- imputeTestbench-3.0.1/imputeTestbench/MD5 | 30 +++---- imputeTestbench-3.0.1/imputeTestbench/R/globalVariables.R | 2 imputeTestbench-3.0.1/imputeTestbench/R/impute_errors.R | 33 ++++++-- imputeTestbench-3.0.1/imputeTestbench/R/plot_errors.R | 25 +++++- imputeTestbench-3.0.1/imputeTestbench/R/plot_impute.R | 48 ++++++++---- imputeTestbench-3.0.1/imputeTestbench/R/sample_dat.R | 51 ++++++++----- imputeTestbench-3.0.1/imputeTestbench/inst |only imputeTestbench-3.0.1/imputeTestbench/man/impute_errors.Rd | 31 ++++++- imputeTestbench-3.0.1/imputeTestbench/man/mae.Rd | 1 imputeTestbench-3.0.1/imputeTestbench/man/mape.Rd | 1 imputeTestbench-3.0.1/imputeTestbench/man/plot_errors.Rd | 26 +++++- imputeTestbench-3.0.1/imputeTestbench/man/plot_impute.Rd | 38 +++++++-- imputeTestbench-3.0.1/imputeTestbench/man/print.errprof.Rd | 1 imputeTestbench-3.0.1/imputeTestbench/man/rmse.Rd | 1 imputeTestbench-3.0.1/imputeTestbench/man/sample_dat.Rd | 22 ++++- 17 files changed, 227 insertions(+), 100 deletions(-)
More information about imputeTestbench at CRAN
Permanent link
Title: Arbitrary Bounding of Series and Time Series Objects
Description: Set of methods to constrain numerical series and time series within
arbitrary boundaries.
Author: Fran Urbano
Maintainer: Fran Urbano <viraltux@gmail.com>
Diff between corset versions 0.1-3 dated 2017-03-29 and 0.1-4 dated 2017-06-23
COPYING | 1348 +++++++++++++++++++++---------------------- DESCRIPTION | 6 MD5 | 26 NAMESPACE | 4 R/corset.R | 356 +++++------ R/corset.bezier.R | 134 ++-- R/corset.exp.R | 140 ++-- R/corset.naive.R | 60 - R/partialBezier.R | 118 +-- man/corset.Rd | 248 +++---- tests/testthat.R | 40 - tests/testthat/test-bezier.R | 1048 ++++++++++++++++----------------- tests/testthat/test-exp.R | 1052 ++++++++++++++++----------------- tests/testthat/test-naive.R | 532 ++++++++-------- 14 files changed, 2556 insertions(+), 2556 deletions(-)
Title: Visual Data Mining Tools for R
Description: This provides web-based visual data-mining tools by adding
interactive functions to 'ggplot2' graphics. Brushing and linking between the
multiple plots is one of the main feature of this package. Currently scatter
plots, histograms, parallel coordinate plots and choropleth maps are supported.
Author: Tomokazu Fujino
Maintainer: Tomokazu Fujino <fujino@fwu.ac.jp>
Diff between vdmR versions 0.2.3 dated 2016-12-05 and 0.2.4 dated 2017-06-23
DESCRIPTION | 14 +++++++------- MD5 | 32 ++++++++++++++++---------------- NAMESPACE | 1 - R/vcmap.R | 5 ++--- build/vignette.rds |binary inst/doc/vdmR-vignette.R | 4 ++-- inst/doc/vdmR-vignette.Rnw | 6 +++--- inst/doc/vdmR-vignette.pdf |binary man/kw2011.Rd | 1 - man/vcmap.Rd | 1 - man/vdmR-package.Rd | 3 +-- man/vhist.Rd | 1 - man/vlaunch.Rd | 1 - man/vpcp.Rd | 1 - man/vscat.Rd | 1 - man/vsfuk2012.Rd | 1 - vignettes/vdmR-vignette.Rnw | 6 +++--- 17 files changed, 34 insertions(+), 44 deletions(-)
Title: Inference for Model-Free Between-Group Parameters for Censored
Survival Data
Description: Performs inference of several model-free group contrast measures, which include difference/ratio of cumulative incidence rates at given time points, quantiles, and restricted mean survival times (RMST). Two kinds of covariate adjustment procedures (i.e., regression and augmentation) for inference of the metrics based on RMST are also included.
Author: Lu Tian, Hajime Uno, Miki Horiguchi
Maintainer: Miki Horiguchi <horiguchimiki@gmail.com>
Diff between surv2sampleComp versions 1.0-4 dated 2014-07-10 and 1.0-5 dated 2017-06-23
surv2sampleComp-1.0-4/surv2sampleComp/R/GG2-02-boot-ver003.R |only surv2sampleComp-1.0-4/surv2sampleComp/R/KM2-02-pert-ver005.R |only surv2sampleComp-1.0-4/surv2sampleComp/R/ainternalmedicine-ver001.R |only surv2sampleComp-1.0-4/surv2sampleComp/R/pbc.sample.R |only surv2sampleComp-1.0-4/surv2sampleComp/R/plot.surv2sample.R |only surv2sampleComp-1.0-4/surv2sampleComp/R/surv2sample-ver002.R |only surv2sampleComp-1.0-5/surv2sampleComp/DESCRIPTION | 23 +- surv2sampleComp-1.0-5/surv2sampleComp/MD5 | 24 +-- surv2sampleComp-1.0-5/surv2sampleComp/NAMESPACE | 29 ++- surv2sampleComp-1.0-5/surv2sampleComp/NEWS.md |only surv2sampleComp-1.0-5/surv2sampleComp/R/surv2sample-ver003.R |only surv2sampleComp-1.0-5/surv2sampleComp/man/pbc.sample.Rd | 21 +- surv2sampleComp-1.0-5/surv2sampleComp/man/plot.surv2sample.Rd | 37 +--- surv2sampleComp-1.0-5/surv2sampleComp/man/rmstaug.Rd | 75 ++++----- surv2sampleComp-1.0-5/surv2sampleComp/man/rmstreg.Rd | 79 ++++------ surv2sampleComp-1.0-5/surv2sampleComp/man/surv2sample.Rd | 76 ++++----- surv2sampleComp-1.0-5/surv2sampleComp/man/surv2sampleComp-package.Rd | 40 ++--- 17 files changed, 200 insertions(+), 204 deletions(-)
More information about surv2sampleComp at CRAN
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Title: Financial Jump Detection
Description: A fast simulation on stochastic volatility model, with jump tests, p-values pooling, and FDR adjustments.
Author: Kaiqiao Li [aut, cre],
Pei Fen Kuan [aut],
Kan He [ctb],
Lizhou Nie [ctb],
Wei Zhu [ctb]
Maintainer: Kaiqiao Li <kaiqiao.li@stonybrook.edu>
Diff between JumpTest versions 0.0.0.9 dated 2017-06-22 and 0.0.1 dated 2017-06-23
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ build/partial.rdb |binary inst/doc/JumpTest.Rmd | 6 +++--- inst/doc/JumpTest.html | 12 +++++++++--- vignettes/JumpTest.Rmd | 6 +++--- vignettes/JumpTest.bib | 23 +++++++++++++++++++++++ 7 files changed, 47 insertions(+), 18 deletions(-)