Title: Seamless R and C++ Integration
Description: The 'Rcpp' package provides R functions as well as C++ classes which
offer a seamless integration of R and C++. Many R data types and objects can be
mapped back and forth to C++ equivalents which facilitates both writing of new
code as well as easier integration of third-party libraries. Documentation
about 'Rcpp' is provided by several vignettes included in this package, via the
'Rcpp Gallery' site at <http://gallery.rcpp.org>, the paper by Eddelbuettel and
Francois (2011, JSS), and the book by Eddelbuettel (2013, Springer); see
'citation("Rcpp")' for details on these last two.
Author: Dirk Eddelbuettel, Romain Francois, JJ Allaire, Kevin Ushey,
Qiang Kou, Douglas Bates and John Chambers
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between Rcpp versions 0.12.2 dated 2015-11-15 and 0.12.3 dated 2016-01-10
ChangeLog | 62 ++++++++++++ DESCRIPTION | 8 - MD5 | 74 +++++++-------- README.md | 14 +- build/Rcpp.pdf |binary build/vignette.rds |binary inst/NEWS.Rd | 32 ++++++ inst/doc/Rcpp-FAQ.pdf |binary inst/doc/Rcpp-attributes.pdf |binary inst/doc/Rcpp-extending.pdf |binary inst/doc/Rcpp-introduction.pdf |binary inst/doc/Rcpp-modules.pdf |binary inst/doc/Rcpp-package.pdf |binary inst/doc/Rcpp-quickref.pdf |binary inst/doc/Rcpp-sugar.pdf |binary inst/doc/Rcpp-unitTests.pdf |binary inst/doc/Rcpp.bib | 8 - inst/include/Rcpp/Module.h | 15 ++- inst/include/Rcpp/String.h | 28 +++++ inst/include/Rcpp/Vector.h | 2 inst/include/Rcpp/config.h | 4 inst/include/Rcpp/internal/Proxy_Iterator.h | 2 inst/include/Rcpp/macros/interface.h | 11 ++ inst/include/Rcpp/vector/Matrix.h | 44 ++++++++- inst/include/Rcpp/vector/MatrixColumn.h | 41 ++++++++ inst/include/Rcpp/vector/MatrixRow.h | 121 +++++++++++++++++++++++++ inst/include/Rcpp/vector/const_generic_proxy.h | 2 inst/include/Rcpp/vector/const_string_proxy.h | 2 inst/include/Rcpp/vector/proxy.h | 7 + inst/include/Rcpp/vector/traits.h | 2 inst/unitTests/cpp/Matrix.cpp | 73 +++++++++++++++ inst/unitTests/cpp/Vector.cpp | 18 +++ inst/unitTests/cpp/wrap.cpp | 23 ++++ inst/unitTests/runit.Matrix.R | 39 ++++++++ inst/unitTests/runit.Vector.R | 12 ++ inst/unitTests/runit.wrap.R | 12 ++ src/attributes.cpp | 17 +++ vignettes/Rcpp.bib | 8 - 38 files changed, 610 insertions(+), 71 deletions(-)
Title: Somoclu
Description: Somoclu is a massively parallel implementation of self-organizing maps. It exploits multicore CPUs and it can be accelerated by CUDA. The topology of the map can be planar or toroid and the grid of neurons can be rectangular or hexagonal .
Author: Peter Wittek [aut], Shichao Gao [cre]
Maintainer: Shichao Gao <xgdgsc@gmail.com>
Diff between Rsomoclu versions 1.5.0.1 dated 2015-12-01 and 1.6 dated 2016-01-10
DESCRIPTION | 10 +++++----- MD5 | 21 +++++++++++---------- NAMESPACE | 3 +++ R/Rsomoclu.R | 24 +++++++++++++++++++++++- data/rgbs.txt.gz |binary man/Rsomoclu.kohonen.Rd |only man/Rsomoclu.train.Rd | 10 +++++++++- src/Makefile.in | 8 ++++---- src/Rsomoclu.cpp | 28 ++++++++++++++++------------ src/configure | 20 ++++++++++---------- src/training.cpp | 4 +++- tests/R_interface_test.R | 9 +++++++++ 12 files changed, 93 insertions(+), 44 deletions(-)
Title: Causal Inference Test
Description: A likelihood-based hypothesis testing approach is implemented for assessing causal mediation. For example, it could be used to test for mediation of a known causal association between a DNA variant, the 'instrumental variable', and a clinical outcome or phenotype by gene expression or DNA methylation, the potential mediator. Another example would be testing mediation of the effect of a drug on a clinical outcome by the molecular target. The hypothesis test generates a p-value or permutation-based FDR value with confidence intervals to quantify uncertainty in the causal inference. The outcome can be represented by either a continuous or binary variable, the potential mediator is continuous, and the instrumental variable can be continuous or binary and is not limited to a single variable but may be a design matrix representing multiple variables.
Author: Joshua Millstein
Maintainer: Joshua Millstein <joshua.millstein@usc.edu>
Diff between cit versions 1.8 dated 2016-01-09 and 1.9 dated 2016-01-10
DESCRIPTION | 9 ++++----- MD5 | 5 +++-- man/cit-package.Rd | 4 ++-- src/Makevars.win |only 4 files changed, 9 insertions(+), 9 deletions(-)
Title: Species Distribution Modeling
Description: Functions for species distribution modeling, that is, predicting entire geographic distributions form occurrences at a number of sites.
Author: Robert J. Hijmans, Steven Phillips, John Leathwick and Jane Elith
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between dismo versions 1.0-12 dated 2015-03-15 and 1.0-15 dated 2016-01-10
DESCRIPTION | 10 ++-- MD5 | 104 ++++++++++++++++++++++++------------------------ NAMESPACE | 5 +- R/Mahalanobis.R | 2 R/Mahalanobis.predict.R | 2 R/bioclim.R | 2 R/bioclim.plot.R | 2 R/bioclim.predict.R | 6 +- R/circles.R | 33 ++++++++++----- R/circles.predict.R | 11 ++--- R/convHull.R | 2 R/dcEvaluate.R | 8 +-- R/density.R | 2 R/diversity.R | 6 +- R/domain.R | 2 R/domain.predict.R | 2 R/ecocrop.R | 2 R/ecolim.R | 4 - R/errorDetect.R | 2 R/evaluate.R | 10 ++-- R/gbif.R | 70 ++++++++++++++++++-------------- R/gbm.fixed.R | 2 R/gbm.interactions.R | 7 +-- R/gbm.perspec.R | 4 - R/gbm.plot.R | 6 +- R/gbm.plot.fits.R | 6 +- R/gbm.simplify.R | 23 ++++------ R/gbm.step.R | 2 R/geoDist.R | 2 R/geocode.R | 5 +- R/gmap.R | 6 +- R/gridSample.R | 4 - R/hullls.R | 2 R/kauc.R | 2 R/maxent.R | 8 +-- R/maxent.predict.R | 4 - R/mess.R | 6 +- R/nicheEquivelancy.R | 6 +- R/nullRandom.R | 14 +++--- R/pairs.R | 9 ++-- R/pointValues.R | 4 - R/precision.R | 4 - R/randomPoints.R | 6 +- R/response.R | 6 +- R/voronoi.R | 2 R/voronoiHull.R | 6 +- build/vignette.rds |binary inst/doc/brt.pdf |binary inst/doc/sdm.R | 6 +- inst/doc/sdm.Rnw | 12 +---- inst/doc/sdm.pdf |binary man/circles.Rd | 23 ++++------ vignettes/sdm.Rnw | 12 +---- 53 files changed, 250 insertions(+), 236 deletions(-)
Title: A Collection of Handy, Useful Functions
Description: A set of little functions that have been found useful to do little
odds and ends such as plotting the results of K-means clustering, substituting
special text characters, viewing parts of a data.frame, constructing formulas
from text and building design and response matrices.
Author: Jared P. Lander
Maintainer: Jared P. Lander <packages@jaredlander.com>
Diff between useful versions 1.1.9 dated 2015-09-22 and 1.2.0 dated 2016-01-10
DESCRIPTION | 16 ++-- LICENSE | 2 MD5 | 129 +++++++++++++++++++------------------- NAMESPACE | 4 - NEWS.md |only R/formatters.r | 11 +-- R/subMultiple.r | 6 + R/tsPlot.r | 12 +-- README.md | 2 man/ComputeHartigan.Rd | 3 man/FitKMeans.Rd | 4 - man/ForceDataFrame.Rd | 2 man/MapToInterval.Rd | 4 - man/PlotHartigan.Rd | 4 - man/WhichCorner.Rd | 3 man/binary.flip.Rd | 4 - man/bottomleft.Rd | 4 - man/bottomright.Rd | 4 - man/build.formula.Rd | 4 - man/build.x.Rd | 20 ++--- man/build.y.Rd | 3 man/cart2pol.Rd | 4 - man/classdf.Rd | 2 man/colsToFront.Rd | 5 - man/compare.list.Rd | 4 - man/constant.Rd | 3 man/corner.Rd | 4 - man/find.case.Rd | 2 man/fortify.acf.Rd | 4 - man/fortify.kmeans.Rd | 4 - man/fortify.ts.Rd | 4 - man/indexToPosition.Rd | 3 man/interval.check.Rd | 3 man/left.Rd | 4 - man/lower.case.Rd | 2 man/mixed.case.Rd | 2 man/moveToFront.Rd | 5 - man/multiple.Rd | 8 +- man/multiple.comma.Rd | 6 + man/multiple.dollar.Rd | 6 + man/multiple.identity.Rd | 6 + man/multiple_format.Rd | 8 +- man/numeric.case.Rd | 4 - man/plot.Rd | 2 man/plot.acf.Rd | 4 - man/plot.kmeans.Rd | 4 - man/plotTimesSeries.Rd | 4 - man/pol2cart.Rd | 12 ++- man/positionToIndex.Rd | 3 man/reclass.Rd | 5 - man/right.Rd | 4 - man/shift.column.Rd | 4 - man/simple.impute.Rd | 3 man/simple.impute.data.frame.Rd | 3 man/simple.impute.default.Rd | 3 man/simple.impute.tbl_df.Rd | 3 man/subMultiple.Rd | 15 ++-- man/subOut.Rd | 4 - man/subSpecials.Rd | 8 +- man/topleft.Rd | 4 - man/topright.Rd | 4 - man/ts.plotter.Rd | 4 - man/upper.case.Rd | 2 man/useful.Rd | 2 man/vplayout.Rd | 8 +- tests/testthat/test-subMultiple.R | 4 + 66 files changed, 261 insertions(+), 182 deletions(-)
Title: Student Growth Percentiles & Percentile Growth Trajectories
Description: Functions to calculate student growth percentiles and percentile growth projections/trajectories for students using large scale,
longitudinal assessment data. Functions use quantile regression to estimate the conditional density associated
with each student's achievement history. Percentile growth projections/trajectories are calculated using the coefficient matrices derived from
the quantile regression analyses and specify what percentile growth is required for students to reach future achievement targets.
Author: Damian W. Betebenner [aut, cre],
Adam R. Van Iwaarden [aut],
Ben Domingue [aut],
Yi Shang [aut],
Jonathan Weeks [ctb],
John Stewart [ctb],
Jinnie Choi [ctb],
Xin Wei [ctb],
Hi Shin Shim [ctb],
Xiaoyuan Tan [ctb] (Arizona Department of Education),
Carrie Giovannini [ctb] (Arizona Department of Education),
Sarah Polasky [ctb] (Arizona State University),
Rebecca Gau [ctb] (Arizona Charter School Association),
Jeffrey Dean [ctb] (University of Arkansas),
William Bonk [ctb] (Colorado Department of Education),
Marie Huchton [ctb] (Colorado Department of Education),
Allison Timberlake [ctb] (Georgia Department of Education),
Qi Qin [ctb] (Georgia Department of Education),
Melissa Fincher [ctb] (Georgia Department of Education),
Kiran Athota [ctb] (Georgia Department of Education),
Travis Allen [ctb] (Georgia Department of Education),
Glenn Hirata [ctb] (Hawaii Department of Education),
Glenn Nochi [ctb] (Hawaii Department of Education),
Joshua Lee [ctb] (Hawaii Department of Education),
Ayaka Nukui [ctb] (Idaho Department of Education),
Carissa Miller [ctb] (Idaho Department of Education),
Matthew Raimondi [ctb] (Elgin Area School District U46 (Illinois)),
Wes Bruce [ctb] (Indiana Department of Education),
Robert Hochsegang [ctb] (Indiana Department of Education),
Tony Moss [ctb] (Kansas State Department of Education),
Xuewen Sheng [ctb] (Kansas State Department of Education),
Kathy Flanagan [ctb] (Massachusetts Department of Elementary and Secondary Education),
Robert Lee [ctb] (Massachusetts Department of Elementary and Secondary Education),
Ji Zeng [ctb] (Michigan Department of Education),
Steve Viger [ctb] (Michigan Department of Education),
Joe DeCastra [ctb] (Mississippi Department of Education),
Ken Thompson [ctb] (Mississippi Department of Education),
Soo Yeon Cho [ctb] (Missouri Department of Education),
Jeff Halsell [ctb] (Clark County School District, Nevada),
Selcuk Ozdemir [ctb] (Washoe County School District, Nevada),
Roger Silva [ctb] (Nevada Department of Education),
Deb Wiswell [ctb] (New Hampshire Department of Education),
Katya Levitan-Reiner [ctb] (New Haven Public Schools),
Catherine McCaslin [ctb] (New Haven Public Schools),
Joshua Marland [ctb] (New York Education Department),
W Joshua Rew [ctb] (Oregon Department of Education),
Jason Becker [ctb] (Rhode Island Department of Education),
Jessica Bailey [ctb] (Rhode Island Department of Education),
Ana Karantonis [ctb] (Rhode Island Department of Education),
Deborah Jonas [ctb] (Virginia Department of Education),
Juan D'Brot [ctb] (West Virginia Department of Education),
Nate Hixson [ctb] (West Virginia Department of Education),
Deb Came [ctb] (Washington Office of Superintendent of Public Instruction),
Ashley Colburn [ctb] (Washington Office of Superintendent of Public Instruction),
Nick Hassell [ctb] (Washington Office of Superintendent of Public Instruction),
Krissy Johnson [ctb] (Washington Office of Superintendent of Public Instruction),
Daniel Bush [ctb] (Wisconsin Department of Education),
Justin Meyer [ctb] (Wisconsin Department of Education),
Joseph Newton [ctb] (Wisconsin Department of Education),
Nick Stroud [ctb] (Wisconsin Department of Education),
John Paul [ctb] (Wyoming Department of Education),
Michael Flicek [ctb] (Michael Flicek Projects LLC working with Wyoming Department of Education),
Phyllis Clay [ctb] (Albuquerque Public Schools),
Peter Kinyua [ctb] (Albuquerque Public Schools),
Brendan Houng [ctb] (University of Melbourne, Australia, NAPLAN),
Leslie Rosale [ctb] (Ministry of Education, Guatemala),
Nathan Wall [ctb] (eMetric working with Nevada Department of Education and South Dakota Department of Education),
Narek Sahakyan [ctb] (World Class Instruction and Design (WIDA))
Maintainer: Damian W. Betebenner <dbetebenner@nciea.org>
Diff between SGP versions 1.2-0.0 dated 2014-01-28 and 1.4-0.0 dated 2016-01-10
DESCRIPTION | 79 - MD5 | 182 +-- NAMESPACE | 18 R/abcSGP.R | 61 - R/analyzeSGP.R | 1893 ++++++++++++++++++++++++------------ R/as.splineMatrix.R | 6 R/baselineSGP.R | 95 + R/bubblePlot.R | 268 ++--- R/bubblePlot_Styles.R | 128 +- R/capwords.R | 45 R/checkConfig.R | 4 R/checkSGP.R | 129 +- R/checksplineMatrix.R | 8 R/combineSGP.R | 330 +++--- R/convertScaleScore.R |only R/convertTime.R |only R/createKnotsBoundaries.R | 22 R/createLongCutscores.R |only R/createUniqueLongData.R |only R/csemScoreSimulator.R | 53 - R/ddcast.R |only R/equateSGP.R |only R/getAchievementLevel.R | 66 + R/getCohortDataInfo.R | 17 R/getHighNeedStatus.R | 4 R/getJSON.R |only R/getKnotsBoundaries.R | 111 +- R/getMaxOrderForProgression.R | 20 R/getMyLabel.R |only R/getNewCutscores.R |only R/getPanelData.R | 461 +++++++- R/getPanelDataVnames.R | 79 + R/getPercentileTableNames.R | 22 R/getPreferredSGP.R | 31 R/getSGPBaselineConfig.R | 7 R/getSGPConfig.R | 547 ++++++++++ R/getSGPtNames.R |only R/getStateAbbreviation.R | 11 R/getTableNameYear.R |only R/getTargetAchievementLevels.R |only R/getTargetInitialStatus.R | 58 - R/getTargetName.R | 32 R/getTargetSGP.R | 166 ++- R/getTargetSGPContentArea.R | 17 R/getTargetSGPLevel.R |only R/getTargetScaleScore.R | 266 +++-- R/getTimeShiftIndex.R |only R/getVersion.R |only R/getYearsContentAreasGrades.R | 25 R/getsplineMatrices.R | 6 R/gofSGP.R | 366 +++++-- R/growthAchievementPlot.R | 382 +++---- R/is.SGP.R | 4 R/is.splineMatrix.R | 4 R/linkagePlot.R |only R/mergeSGP.R | 6 R/outputSGP.R | 561 ++++++---- R/piecewiseTransform.R |only R/prepareSGP.R | 151 +- R/rliSGP.R |only R/splineMatrix-class.R | 4 R/sqliteSGP.R | 153 +- R/startParallel.R | 67 - R/stopParallel.R | 9 R/studentGrowthPercentiles.R | 1136 +++++++++++++--------- R/studentGrowthPlot.R | 1788 ++++++++++++++++++++-------------- R/studentGrowthPlot_Styles.R | 1984 ++++++++++++++++++++------------------ R/studentGrowthProjections.R | 648 +++++++++--- R/summarizeSGP.R | 511 ++++----- R/summarizeSGP_Utilities.R |only R/testSGP.R | 2053 ++++++++++++++++++++++++++++------------ R/transformScaleScore.R |only R/unfoldstudentGrowthPlots.R |only R/unique.splineMatrix.R | 8 R/updateSGP.R | 289 ++++- R/visualizeSGP.R | 523 ++++++---- R/yearIncrement.R | 10 R/zzz.R | 2 data/SGPstateData.rda |binary inst/CITATION | 16 inst/NEWS | 25 man/SGP-class.Rd | 2 man/SGP-package.Rd | 20 man/SGPstateData.Rd | 3 man/abcSGP.Rd | 105 +- man/analyzeSGP.Rd | 133 +- man/baselineSGP.Rd | 12 man/bubblePlot_Styles.Rd | 3 man/capwords.Rd | 4 man/combineSGP.Rd | 22 man/gofSGP.Rd | 4 man/growthAchievementPlot.Rd | 54 - man/outputSGP.Rd | 11 man/prepareSGP.Rd | 6 man/rliSGP.Rd |only man/studentGrowthPercentiles.Rd | 372 +++---- man/studentGrowthPlot.Rd | 16 man/studentGrowthPlot_Styles.Rd | 13 man/studentGrowthProjections.Rd | 75 + man/summarizeSGP.Rd | 14 man/testSGP.Rd | 37 man/updateSGP.Rd | 85 + man/visualizeSGP.Rd | 15 103 files changed, 10827 insertions(+), 6146 deletions(-)
Title: Extra Themes, Scales and Geoms for 'ggplot2'
Description: Some extra themes, geoms, and scales for 'ggplot2'.
Provides 'ggplot2' themes and scales that replicate the look of plots
by Edward Tufte, Stephen Few, 'Fivethirtyeight', 'The Economist', 'Stata',
'Excel', and 'The Wall Street Journal', among others.
Provides 'geoms' for Tufte's box plot and range frame.
Author: Jeffrey B. Arnold [aut, cre],
Gergely Daroczi [ctb],
Bo Werth [ctb],
Brian Weitzner [ctb],
Joshua Kunst [ctb],
Baptise Auguie [ctb],
Bob Rudis [ctb],
Hadley Wickham [ctb, cph] (Code from the ggplot2 package.),
Justin Talbot [ctb] (Code from the labeling package)
Maintainer: Jeffrey B. Arnold <jeffrey.arnold@gmail.com>
Diff between ggthemes versions 3.0.0 dated 2015-12-20 and 3.0.1 dated 2016-01-10
ggthemes-3.0.0/ggthemes/data |only ggthemes-3.0.1/ggthemes/DESCRIPTION | 21 ggthemes-3.0.1/ggthemes/MD5 | 93 - ggthemes-3.0.1/ggthemes/NEWS | 7 ggthemes-3.0.1/ggthemes/R/banking.R | 41 ggthemes-3.0.1/ggthemes/R/base.R | 1 ggthemes-3.0.1/ggthemes/R/calc.R | 4 ggthemes-3.0.1/ggthemes/R/colorblind.R | 2 ggthemes-3.0.1/ggthemes/R/economist.R | 47 ggthemes-3.0.1/ggthemes/R/excel.R | 25 ggthemes-3.0.1/ggthemes/R/few.R | 11 ggthemes-3.0.1/ggthemes/R/fivethirtyeight.R | 10 ggthemes-3.0.1/ggthemes/R/gdocs.R | 1 ggthemes-3.0.1/ggthemes/R/geom-rangeframe.R | 1 ggthemes-3.0.1/ggthemes/R/geom-tufteboxplot.R | 4 ggthemes-3.0.1/ggthemes/R/ggthemes-data.R | 636 +++++++++- ggthemes-3.0.1/ggthemes/R/hc.R | 47 ggthemes-3.0.1/ggthemes/R/igray.R | 9 ggthemes-3.0.1/ggthemes/R/pander.R | 210 ++- ggthemes-3.0.1/ggthemes/R/scale-tufte.R | 140 -- ggthemes-3.0.1/ggthemes/R/shapes.R | 2 ggthemes-3.0.1/ggthemes/R/show.R | 3 ggthemes-3.0.1/ggthemes/R/solarized.R | 75 - ggthemes-3.0.1/ggthemes/R/stat-fivenumber.R | 3 ggthemes-3.0.1/ggthemes/R/stata.R | 130 +- ggthemes-3.0.1/ggthemes/R/tableau.R | 100 + ggthemes-3.0.1/ggthemes/R/theme-foundation.R | 16 ggthemes-3.0.1/ggthemes/R/theme-map.R | 18 ggthemes-3.0.1/ggthemes/R/tufte.R | 14 ggthemes-3.0.1/ggthemes/R/utils.R | 3 ggthemes-3.0.1/ggthemes/R/wsj.R | 59 ggthemes-3.0.1/ggthemes/inst/doc/ggthemes.html | 12 ggthemes-3.0.1/ggthemes/man/bank_slopes.Rd | 12 ggthemes-3.0.1/ggthemes/man/geom_tufteboxplot.Rd | 2 ggthemes-3.0.1/ggthemes/man/hc_pal.Rd | 8 ggthemes-3.0.1/ggthemes/man/range_breaks.Rd | 2 ggthemes-3.0.1/ggthemes/man/scale_colour_gradient2_tableau.Rd | 17 ggthemes-3.0.1/ggthemes/man/scale_colour_gradient_tableau.Rd | 23 ggthemes-3.0.1/ggthemes/man/tableau_div_gradient_pal.Rd | 9 ggthemes-3.0.1/ggthemes/man/theme_economist.Rd | 3 ggthemes-3.0.1/ggthemes/man/theme_excel.Rd | 8 ggthemes-3.0.1/ggthemes/man/theme_foundation.Rd | 9 ggthemes-3.0.1/ggthemes/man/theme_pander.Rd | 19 ggthemes-3.0.1/ggthemes/man/theme_stata.Rd | 10 ggthemes-3.0.1/ggthemes/man/theme_wsj.Rd | 2 ggthemes-3.0.1/ggthemes/man/tremmel_shape_pal.Rd | 2 ggthemes-3.0.1/ggthemes/man/wsj_pal.Rd | 16 ggthemes-3.0.1/ggthemes/tests |only 48 files changed, 1389 insertions(+), 498 deletions(-)
Title: Desirability Functions for Ranking, Selecting, and Integrating
Data
Description: Functions for (1) ranking, selecting, and prioritising genes,
proteins, and metabolites from high dimensional biology experiments, (2)
multivariate hit calling in high content screens, and (3) combining data
from diverse sources.
Author: Stanley E. Lazic
Maintainer: Stanley E. Lazic <stan.lazic@cantab.net>
Diff between desiR versions 1.1 dated 2015-09-16 and 1.2 dated 2016-01-10
DESCRIPTION | 8 ++++---- MD5 | 21 ++++++++++++--------- R/d.low.R | 2 +- R/d.rank.R |only R/des.line.R | 13 ++++++++++--- inst/CITATION |only inst/doc/Gene_ranking.Rmd | 28 ++++++++++++++-------------- inst/doc/Gene_ranking.pdf |binary man/d.low.Rd | 2 +- man/d.rank.Rd |only man/des.line.Rd | 2 +- vignettes/Gene_ranking.Rmd | 28 ++++++++++++++-------------- vignettes/Gene_ranking.html | 34 +++++++++++++++++----------------- 13 files changed, 74 insertions(+), 64 deletions(-)
Title: Plots Coefficients from Fitted Models
Description: Plots the coefficients from model objects. This very quickly shows the user the point estimates and confidence intervals for fitted models.
Author: Jared P. Lander
Maintainer: Jared P. Lander <packages@jaredlander.com>
Diff between coefplot versions 1.2.0 dated 2013-05-12 and 1.2.4 dated 2016-01-10
coefplot-1.2.0/coefplot/README |only coefplot-1.2.0/coefplot/inst |only coefplot-1.2.0/coefplot/man/collidev.Rd |only coefplot-1.2.0/coefplot/man/pos_dodgev.Rd |only coefplot-1.2.4/coefplot/DESCRIPTION | 22 coefplot-1.2.4/coefplot/LICENSE |only coefplot-1.2.4/coefplot/MD5 | 92 +-- coefplot-1.2.4/coefplot/NAMESPACE | 24 coefplot-1.2.4/coefplot/NEWS | 16 coefplot-1.2.4/coefplot/R/buildPlottingFrame.r | 6 coefplot-1.2.4/coefplot/R/coefPredMatching.r | 15 coefplot-1.2.4/coefplot/R/coefplot.r | 86 ++- coefplot-1.2.4/coefplot/R/dodging.r | 280 +++++----- coefplot-1.2.4/coefplot/R/extractCoef.r | 129 ++++ coefplot-1.2.4/coefplot/R/multiplot.r | 11 coefplot-1.2.4/coefplot/R/position.r |only coefplot-1.2.4/coefplot/README.md |only coefplot-1.2.4/coefplot/man/buildModelCI.Rd | 22 coefplot-1.2.4/coefplot/man/buildModelCI.default.Rd | 78 +- coefplot-1.2.4/coefplot/man/buildPlotting.default.Rd | 116 +--- coefplot-1.2.4/coefplot/man/coefplot.Rd | 46 - coefplot-1.2.4/coefplot/man/coefplot.data.frame.Rd |only coefplot-1.2.4/coefplot/man/coefplot.default.Rd | 163 ++--- coefplot-1.2.4/coefplot/man/coefplot.glm.Rd | 25 coefplot-1.2.4/coefplot/man/coefplot.lm.Rd | 25 coefplot-1.2.4/coefplot/man/coefplot.rxGlm.Rd | 26 coefplot-1.2.4/coefplot/man/coefplot.rxLinMod.Rd | 25 coefplot-1.2.4/coefplot/man/coefplot.rxLogit.Rd | 25 coefplot-1.2.4/coefplot/man/doRegex.Rd | 19 coefplot-1.2.4/coefplot/man/extract.coef.Rd | 23 coefplot-1.2.4/coefplot/man/extract.coef.cv.glmnet.Rd |only coefplot-1.2.4/coefplot/man/extract.coef.default.Rd | 24 coefplot-1.2.4/coefplot/man/extract.coef.glm.Rd | 22 coefplot-1.2.4/coefplot/man/extract.coef.glmnet.Rd |only coefplot-1.2.4/coefplot/man/extract.coef.lm.Rd | 22 coefplot-1.2.4/coefplot/man/extract.coef.maxLik.Rd |only coefplot-1.2.4/coefplot/man/extract.coef.rxGlm.Rd | 19 coefplot-1.2.4/coefplot/man/extract.coef.rxLinMod.Rd | 19 coefplot-1.2.4/coefplot/man/extract.coef.rxLogit.Rd | 19 coefplot-1.2.4/coefplot/man/get.assign.Rd | 16 coefplot-1.2.4/coefplot/man/get.assign.glm.Rd | 16 coefplot-1.2.4/coefplot/man/get.assign.lm.Rd | 16 coefplot-1.2.4/coefplot/man/getCoefsFromPredictors.Rd | 22 coefplot-1.2.4/coefplot/man/getCoefsFromPredictors.default.Rd | 29 - coefplot-1.2.4/coefplot/man/getCoefsFromPredictors.rxGlm.Rd | 28 - coefplot-1.2.4/coefplot/man/getCoefsFromPredictors.rxLinMod.Rd | 28 - coefplot-1.2.4/coefplot/man/getCoefsFromPredictors.rxLogit.Rd | 28 - coefplot-1.2.4/coefplot/man/getCoefsFromPredictorsRevo.Rd | 28 - coefplot-1.2.4/coefplot/man/matchCoefs.Rd | 19 coefplot-1.2.4/coefplot/man/matchCoefs.default.Rd | 17 coefplot-1.2.4/coefplot/man/multiplot.Rd | 206 ++----- coefplot-1.2.4/coefplot/man/position_dodgev.Rd | 55 + 52 files changed, 969 insertions(+), 938 deletions(-)