Title: Classification Based on Association Rules
Description: Provides a function to build an association rule-based classifier for data frames, and to classify incoming data frames using such a classifier.
Author: Ian Johnson [aut, cre, cph], Michael Hahsler [ctb]
Maintainer: Ian Johnson <ianjjohnson@icloud.com>
Diff between arulesCBA versions 1.1.1 dated 2017-04-03 and 1.1.2 dated 2017-07-26
DESCRIPTION | 8 ++++---- MD5 | 24 +++++++++++++----------- NAMESPACE | 2 +- R/CBA.R | 2 +- R/CBAInternal.R | 27 +++++++++++++++++++++------ R/CBA_ruleset.R | 2 +- R/bCBA.R | 4 ++-- R/wCBA.R |only README.md | 2 +- inst/doc/arulesCBA.pdf |binary man/CBA.Rd | 2 +- man/bCBA.Rd | 2 +- man/wCBA.Rd |only src/weighted.c | 3 ++- 14 files changed, 48 insertions(+), 30 deletions(-)
Title: Exports Reproducible Summary Tables to Multi-Tab Spreadsheet
Files (.xls or .xlsx)
Description: A collection of time-saving wrappers for reproducible export of
summary tables commonly used in scientific articles, to .xls/.xlsx multi-tab spreadsheets, while controlling spreadsheet layout. Powered by 'XLConnect'/'rJava' utilities.
Author: Assaf P. Oron [cre, aut]
Maintainer: Assaf P. Oron <assaf.oron@seattlechildrens.org>
Diff between table1xls versions 0.3.2 dated 2016-07-18 and 0.4.0 dated 2017-07-26
DESCRIPTION | 18 ++++++------ MD5 | 46 ++++++++++++++++--------------- NAMESPACE | 1 NEWS | 15 ++++++++++ R/XLgeneric.r | 1 R/XLoneWay.r | 36 ++++++++++++++++++------ R/XLtable1.r |only R/exploratoryUtils.r | 68 +++++++++++++++++++++++++++++++++++++--------- R/regressionSummaries.r | 28 ++++++++++++++---- R/utilities.r | 41 +++++++++++++++++++++++---- README.md | 24 +++++++++++++--- inst/examples/Ex1way.r | 3 +- inst/examples/Ex2way.r | 11 ++++--- inst/examples/ExRegress.r | 17 +++++++---- inst/examples/ExTable1.r |only man/XLaddText.Rd | 3 -- man/XLgeneric.Rd | 9 ++---- man/XLoneWay.Rd | 39 ++++++++++++++++++-------- man/XLregresSummary.Rd | 29 +++++++++++-------- man/XLtable1.Rd |only man/XLtwoWay.Rd | 39 ++++++++++++++++++-------- man/XLunivariate.Rd | 27 +++++++++++------- man/XLwriteOpen.Rd | 13 ++++---- man/niceRound.Rd |only man/rangeString.Rd | 13 ++++---- man/table1xls-package.Rd | 6 ++-- 26 files changed, 338 insertions(+), 149 deletions(-)
Title: Reads in 'Neuroimaging' 'GIFTI' Files with Geometry Information
Description: Functions to read in the geometry format under the
'Neuroimaging' 'Informatics' Technology Initiative ('NIfTI'), called
'GIFTI' <https://www.nitrc.org/projects/gifti/>.
These files contain surfaces of brain imaging data.
Author: John Muschelli
Maintainer: John Muschelli <muschellij2@gmail.com>
Diff between gifti versions 0.7.1 dated 2017-05-05 and 0.7.4 dated 2017-07-26
DESCRIPTION | 16 +++++------ MD5 | 43 ++++++++++++++++-------------- NAMESPACE | 5 +++ NEWS.md |only R/data_decoder.R | 4 +- R/data_encoder.R | 4 +- R/decompress_gii.R |only R/download_gifti_data.R | 54 ++++++++++++++++++++++---------------- R/gifti_list.R | 8 ++++- R/is_gifti.R | 6 +++- R/read_gifti.R | 20 +++++++++++--- README.md | 18 +++++++++++- build/vignette.rds |binary inst/doc/Reading_GIFTI_Files.R | 53 +++++++++++++++++++++++++++++++------ inst/doc/Reading_GIFTI_Files.Rmd | 52 ++++++++++++++++++++++++++++++++---- inst/doc/Reading_GIFTI_Files.html | 20 +++++--------- man/data_decoder.Rd | 4 +- man/data_encoder.Rd | 4 +- man/decompress_gii.Rd |only man/gifti_list.Rd | 4 +- man/have_gifti_test_data.Rd | 2 - man/is.gifti.Rd | 3 ++ man/readgii.Rd | 10 ++++--- vignettes/Reading_GIFTI_Files.Rmd | 52 ++++++++++++++++++++++++++++++++---- 24 files changed, 279 insertions(+), 103 deletions(-)
Title: Linkage Map Construction using the MSTmap Algorithm
Description: Functions for Accurate and Speedy linkage map construction, manipulation and diagnosis of Doubled Haploid, Backcross and Recombinant Inbred 'R/qtl' objects. This includes extremely fast linkage map clustering and optimal marker ordering using 'MSTmap' (see Wu et al.,2008).
Author: Julian Taylor <julian.taylor@adelaide.edu.au>, David Butler
<dbutler@uow.edu.au>.
Maintainer: Julian Taylor <julian.taylor@adelaide.edu.au>
Diff between ASMap versions 1.0-0 dated 2017-07-11 and 1.0-1 dated 2017-07-26
DESCRIPTION | 8 ++++---- MD5 | 8 ++++---- R/mstmap13.R | 3 +-- inst/NEWS.Rd | 2 +- man/ASMap-package.Rd | 4 ++-- 5 files changed, 12 insertions(+), 13 deletions(-)
Title: Computerized Adaptive Testing with Multidimensional Item
Response Theory
Description: Provides tools to generate an HTML interface for creating adaptive
and non-adaptive educational and psychological tests using the shiny
package. Suitable for applying unidimensional and multidimensional
computerized adaptive tests (CAT) using item response theory methodology and for
creating simple questionnaires forms to collect response data directly in R.
Additionally, optimal test designs (e.g., "shadow testing") are supported
for tests which contain a large number of item selection constraints.
Finally, package contains tools useful for performing Monte Carlo simulations
for studying the behavior of computerized adaptive test banks.
Author: Phil Chalmers [aut, cre]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirtCAT versions 1.5 dated 2017-05-04 and 1.6.1 dated 2017-07-26
DESCRIPTION | 10 ++--- MD5 | 69 ++++++++++++++++++------------------- NEWS.md | 9 ++++ R/DesignClass.R | 7 ++- R/PersonClass.R | 6 +-- R/TestClass.R | 4 +- R/computeCriteria.R | 11 +++++ R/createShinyGUI.R | 6 ++- R/extract.mirtCAT.R | 9 ++++ R/findNextCATItem.R | 27 +++++++++++--- R/generate.mirt_object.R | 9 ++++ R/generate_pattern.R | 9 ++++ R/getPerson.R | 9 ++++ R/mirtCAT-package.R | 6 ++- R/mirtCAT.R | 6 ++- R/mirtCAT_preamble.R | 11 ++++- R/run_pattern.R | 13 +++--- R/selection_criteria.R | 28 +++++++++------ R/updateDesign.R | 11 +++++ R/util.R | 10 +++-- R/zzz-methods.R | 27 ++++++++++++++ build/partial.rdb |only build/vignette.rds |binary man/computeCriteria.Rd | 9 ++++ man/createShinyGUI.Rd | 6 ++- man/extract.mirtCAT.Rd | 9 ++++ man/findNextItem.Rd | 8 ++++ man/generate.mirt_object.Rd | 9 ++++ man/generate_pattern.Rd | 9 ++++ man/getPerson.Rd | 9 ++++ man/mirtCAT-package.Rd | 6 ++- man/mirtCAT.Rd | 30 +++++++++++++++- man/mirtCAT_preamble.Rd | 6 ++- man/updateDesign.Rd | 9 ++++ tests/tests/test-mirtCAT_multi.R | 2 - tests/tests/test-mirtCAT_ordered.R | 1 36 files changed, 326 insertions(+), 84 deletions(-)
Title: Model Confidence Set Procedure
Description: Perform the model confidence set procedure of Hansen et al (2011).
Author: Leopoldo Catania & Mauro Bernardi
Maintainer: Leopoldo Catania <leopoldo.catania@gmail.com>
Diff between MCS versions 0.1.1 dated 2015-03-22 and 0.1.2 dated 2017-07-26
DESCRIPTION | 6 - MD5 | 7 +- NAMESPACE | 6 + R/MCS.R | 185 ++++++++++++++++++++++++++++++------------------------------ THANKS |only 5 files changed, 104 insertions(+), 100 deletions(-)
Title: Interactive Exploration of Contour Data
Description: Interactive tools to explore topographic-like data
sets. Such data sets take the form of a matrix in which the rows and
columns provide location/frequency information, and the matrix elements
contain altitude/response information. Such data is found in cartography,
2D spectroscopy and chemometrics. The functions in this package create
interactive web pages showing the contoured data, possibly with
slices from the original matrix parallel to each dimension. The interactive
behavior is created using the 'D3.js' 'JavaScript' library by Mike Bostock.
Author: Bryan A. Hanson [aut, cre],
Kristina R. Mulry [ctb],
Mike Bostock [cph, ctb] (author of the d3.js library, http://d3js.org)
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between exCon versions 0.2.1 dated 2017-01-11 and 0.2.5 dated 2017-07-26
DESCRIPTION | 12 ++++++------ MD5 | 8 ++++---- NEWS | 3 +++ man/exCon-package.Rd | 1 - man/exCon.Rd | 4 +++- 5 files changed, 16 insertions(+), 12 deletions(-)
Title: Compositional Data Analysis
Description: Regression, classification, contour plots, hypothesis testing and fitting of distributions for compositional data are some of the functions included.
Author: Michail Tsagris [aut, cre], Giorgos Athineou [aut]
Maintainer: Michail Tsagris <mtsagris@yahoo.gr>
Diff between Compositional versions 2.4 dated 2017-05-29 and 2.5 dated 2017-07-26
DESCRIPTION | 10 +- MD5 | 99 ++++++++++----------- NAMESPACE | 10 +- R/alfa.R | 8 - R/alfa.knn.R | 27 +++-- R/alfa.pcr.R | 1 R/alfa.reg.R | 72 ++++++--------- R/alfa.tune.R | 4 R/alfaknn.tune.R | 25 ----- R/alfareg.tune.R | 14 +-- R/alr.R |only R/alrinv.R |only R/comp.den.R | 2 R/comp.knn.R | 200 ++++++++++++++++++++----------------------- R/compknn.tune.R | 37 +------ R/diri.reg.R | 20 +--- R/diri.reg2.R | 15 +-- R/eel.test1.R | 4 R/eel.test2.R | 11 -- R/el.test2.R | 2 R/frechet.R | 4 R/glm.pcr.R | 18 ++- R/glmpcr.tune.R | 59 ++++++------ R/hotel1T2.R | 4 R/hotel2T2.R | 4 R/james.R | 6 - R/kl.compreg.R | 8 - R/maov.R | 2 R/maovjames.R | 2 R/multivreg.R | 12 +- R/multivt.R | 4 R/norm.contour.R | 2 R/ols.compreg.R | 6 - R/pcr.R | 9 - R/pcr.tune.R | 27 +---- R/rda.R | 7 - R/rda.tune.R | 40 ++++---- R/ridge.reg.R | 2 R/ridge.tune.R | 17 +-- R/ternary.R | 2 man/Compositional-package.Rd | 4 man/alfa.rda.Rd | 3 man/alfa.reg.Rd | 2 man/alfarda.tune.Rd | 6 - man/alfareg.tune.Rd | 20 ++-- man/alr.Rd |only man/comp.knn.Rd | 4 man/compknn.tune.Rd | 4 man/eel.test2.Rd | 3 man/kl.compreg.Rd | 3 man/rda.Rd | 2 man/rda.tune.Rd | 2 52 files changed, 386 insertions(+), 463 deletions(-)
Title: Tools for Designing and Weighting Survey Samples
Description: Contains functions for sample size calculation for survey samples using stratified or clustered one-, two-, and three-stage sample designs. Other functions compute variance components for multistage designs and sample sizes in two-phase designs. A number of example data sets are included.
Author: Richard Valliant, Jill A. Dever, Frauke Kreuter
Maintainer: Richard Valliant <rvallian@umd.edu>
Diff between PracTools versions 0.5 dated 2017-07-11 and 0.6 dated 2017-07-26
PracTools-0.5/PracTools/cleanup |only PracTools-0.6/PracTools/DESCRIPTION | 8 ++++---- PracTools-0.6/PracTools/MD5 | 3 +-- 3 files changed, 5 insertions(+), 6 deletions(-)
Title: Robust Covariance Matrix Estimators
Description: Model-robust standard error estimators for cross-sectional, time series, clustered, panel, and longitudinal data.
Author: Achim Zeileis [aut, cre],
Thomas Lumley [aut],
Susanne Berger [ctb],
Nathaniel Graham [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between sandwich versions 2.3-4 dated 2015-09-24 and 2.4-0 dated 2017-07-26
DESCRIPTION | 29 MD5 | 50 + NAMESPACE | 83 +- NEWS | 11 R/bread.R | 15 R/vcovBS.R |only R/vcovCL.R |only R/vcovHAC.R | 2 R/vcovHC.R | 4 R/vcovPC.R |only R/vcovPL.R |only build/partial.rdb |only build/vignette.rds |binary data/InstInnovation.rda |only data/Investment.rda |binary data/PetersenCL.rda |only data/PublicSchools.rda |binary inst/doc/sandwich-CL.R |only inst/doc/sandwich-CL.Rnw |only inst/doc/sandwich-CL.pdf |only inst/doc/sandwich-OOP.pdf |binary inst/doc/sandwich.pdf |binary inst/doc/sim-CL.R |only inst/doc/sim-CL.rda |only man/InstInnovation.Rd |only man/PetersenCL.Rd |only man/bread.Rd | 14 man/vcovBS.Rd |only man/vcovCL.Rd |only man/vcovPC.Rd |only man/vcovPL.Rd |only tests/Examples/sandwich-Ex.Rout.save | 272 ++++++++ vignettes/.install_extras |only vignettes/hac.bib | 1077 +++++++++++++++++++++++------------ vignettes/sandwich-CL.Rnw |only vignettes/sandwich-CL.Rout.save |only vignettes/sim-CL.R |only vignettes/sim-CL.rda |only 38 files changed, 1148 insertions(+), 409 deletions(-)
Title: Spectroscopy Related Utilities
Description: Utility functions for spectroscopy. 1. Functions to simulate
spectra for use in teaching or testing. 2. Functions to process files created by
'LoggerPro' and 'SpectraSuite' software.
Author: Bryan A. Hanson DePauw University, Greencastle Indiana USA
Maintainer: Bryan A. Hanson <hanson@depauw.edu>
Diff between SpecHelpers versions 0.2.2 dated 2016-01-26 and 0.2.7 dated 2017-07-26
DESCRIPTION | 10 +++++----- MD5 | 44 ++++++++++++++++++++++---------------------- NAMESPACE | 1 + NEWS | 4 ++++ R/plotNMRspec.R | 2 +- R/qMS.R | 6 +++--- man/CIExyz.Rd | 7 +++---- man/SpecHelpers-package.Rd | 3 +-- man/avgLambda.Rd | 7 +++---- man/emSpectrum.Rd | 2 +- man/gatherCsv.Rd | 7 +++---- man/gatherSpecFiles.Rd | 1 - man/gaussCurve.Rd | 7 +++---- man/getGamutValues.Rd | 8 ++++---- man/jSeq.Rd | 7 +++---- man/lorentzCurve.Rd | 7 +++---- man/makeSpec.Rd | 7 +++---- man/plot2DNMRspec.Rd | 7 +++---- man/plotCIEchrom.Rd | 8 ++++---- man/plotNMRspec.Rd | 8 ++++---- man/prepCIEgradient.Rd | 7 +++---- man/qMS.Rd | 1 - man/txt2csv.Rd | 9 ++++----- 23 files changed, 81 insertions(+), 89 deletions(-)
Title: Ordinal Forests: Prediction and Variable Ranking with Ordinal
Target Variables
Description: Ordinal forests (OF) are a method for ordinal regression with high-dimensional and low-dimensional
data that is able to predict the values of the ordinal target variable for new observations
based on a training dataset. Using a (permutation-based) variable importance measure it is moreover
possible to rank the covariates with respect to their importances in the prediction of the values
of the ordinal target variable.
OF will be presented in an upcoming technical report by Hornung et al..
The main functions of the package are: ordfor() (construction of OF) and predict.ordfor()
(prediction of the target variable values of new observations).
Author: Roman Hornung
Maintainer: Roman Hornung <hornung@ibe.med.uni-muenchen.de>
Diff between ordinalForest versions 1.0 dated 2017-04-13 and 2.0 dated 2017-07-26
ordinalForest-1.0/ordinalForest/R/plot.ordfor.R |only ordinalForest-1.0/ordinalForest/man/plot.ordfor.Rd |only ordinalForest-2.0/ordinalForest/DESCRIPTION | 35 ordinalForest-2.0/ordinalForest/MD5 | 71 + ordinalForest-2.0/ordinalForest/NAMESPACE | 11 ordinalForest-2.0/ordinalForest/R/RcppExports.R |only ordinalForest-2.0/ordinalForest/R/ordfor.R | 450 +++++------ ordinalForest-2.0/ordinalForest/R/ordinalForest-package.R | 29 ordinalForest-2.0/ordinalForest/R/perfm.R | 7 ordinalForest-2.0/ordinalForest/R/predict.R |only ordinalForest-2.0/ordinalForest/R/predict.ordfor.R | 103 +- ordinalForest-2.0/ordinalForest/R/print.ordfor.R | 69 - ordinalForest-2.0/ordinalForest/R/rangerordfor.R |only ordinalForest-2.0/ordinalForest/R/simulateborders.R | 120 +- ordinalForest-2.0/ordinalForest/R/youdenindex.R | 6 ordinalForest-2.0/ordinalForest/inst |only ordinalForest-2.0/ordinalForest/man/hearth.Rd | 1 ordinalForest-2.0/ordinalForest/man/ordfor.Rd | 153 +-- ordinalForest-2.0/ordinalForest/man/ordinalForest-package.Rd | 32 ordinalForest-2.0/ordinalForest/man/perfm.Rd | 10 ordinalForest-2.0/ordinalForest/man/predict.ordfor.Rd | 13 ordinalForest-2.0/ordinalForest/src |only 22 files changed, 567 insertions(+), 543 deletions(-)
Title: Annotate Statistical Tests for 'ggplot2'
Description: Automatically performs desired statistical tests (e.g. wilcox.test(), t.test()) to compare between groups,
and adds the resulting p-values to the plot with an annotation bar.
Visualizing group differences are frequently performed by boxplots, bar plots, etc.
Statistical test results are often needed to be annotated on these plots.
This package provides a convenient function that works on 'ggplot2' objects,
performs the desired statistical test between groups of interest and annotates the test results on the plot.
Author: Jun Cheng [aut, cre]
Maintainer: Jun Cheng <s6juncheng@gmail.com>
Diff between ggpval versions 0.1.0 dated 2017-06-12 and 0.2.0 dated 2017-07-26
DESCRIPTION | 16 - MD5 | 28 +- NEWS.md |only R/add_pval_ggplot.R | 114 +++++++--- build/vignette.rds |binary inst/doc/ggpval.R | 51 ++++ inst/doc/ggpval.Rmd | 92 ++++++-- inst/doc/ggpval.html | 359 ++++++++++++++++++++++++-------- inst/image/README-unnamed-chunk-3-1.png |binary inst/image/README-unnamed-chunk-4-1.png |binary inst/image/README-unnamed-chunk-5-1.png |binary inst/image/README-unnamed-chunk-6-1.png |only inst/image/README-unnamed-chunk-7-1.png |only inst/image/README-unnamed-chunk-8-1.png |only man/add_pval.Rd | 13 - tests/test-add_pval.R | 19 + vignettes/ggpval.Rmd | 92 ++++++-- 17 files changed, 617 insertions(+), 167 deletions(-)
Title: Removes the Cell-Cycle Effect from Single-Cell RNA-Sequencing
Data
Description: Implements a method for identifying and removing
the cell-cycle effect from scRNA-Seq data. The description of the
method is in Barron M. and Li J. (2016) <doi:10.1038/srep33892>. Identifying and removing
the cell-cycle effect from single-cell RNA-Sequencing data. Submitted.
Different from previous methods, ccRemover implements a mechanism that
formally tests whether a component is cell-cycle related or not, and thus
while it often thoroughly removes the cell-cycle effect, it preserves
other features/signals of interest in the data.
Author: Jun Li [aut, cre],
Martin Barron [aut]
Maintainer: Jun Li <jun.li@nd.edu>
Diff between ccRemover versions 1.0.1 dated 2017-05-18 and 1.0.2 dated 2017-07-26
DESCRIPTION | 6 +- MD5 | 10 ++-- inst/doc/ccRemover_tutorial.R | 1 inst/doc/ccRemover_tutorial.Rmd | 5 +- inst/doc/ccRemover_tutorial.html | 88 +++++++++++++++++++-------------------- vignettes/ccRemover_tutorial.Rmd | 5 +- 6 files changed, 59 insertions(+), 56 deletions(-)
Title: Bayesian Inference for Directed Acyclic Graphs (BiDAG): Software
for the Efficient Inference and Sampling of Bayesian Networks
Description: Implementation of a collection of MCMC methods for Bayesian structure learning
of directed acyclic graphs (DAGs), both from continuous and discrete data. For efficient
inference on larger DAGs, the space of DAGs is pruned according to the data. To filter
the search space, the algorithm employs a hybrid approach, combining constraint-based
learning with search and score. A reduced search space is initially defined on the basis
of a skeleton obtained by means of the PC-algorithm, and then iteratively improved with
search and score. Search and score is then performed following two approaches:
Order MCMC, or Partition MCMC.
The BGe score is implemented for continuous data and the BDe score is implemented
for binary data. The algorithms may provide the maximum a posteriori (MAP) graph or
a sample (a collection of DAGs) from the posterior distribution given the data.
Author: Polina Minkina [aut, cre], Jack Kuipers [aut]
Maintainer: Polina Minkina <polina.minkina@bsse.ethz.ch>
Diff between BiDAG versions 1.0.0 dated 2017-07-19 and 1.0.1 dated 2017-07-26
DESCRIPTION | 6 ++-- MD5 | 8 +++--- NAMESPACE | 1 R/iterativeMCMC.R | 72 +++++++++++++++++++++++++++++++++++++++--------------- R/main.R | 1 5 files changed, 62 insertions(+), 26 deletions(-)
Title: Censored Linear Mixture Regression Models
Description: Fit censored linear regression models where the random errors follow a finite mixture of Scale Mixture Normal distributions.
Fit censored linear models of finite mixture multivariate Student-t and Normal distributions.
Fit censored mixture regression models based on scale mixture of normal distributions.
Author: Luis Benites Sanchez[cre, aut], Victor Hugo Lachos[cre, aut],
Edgar J. Lopez Moreno[ctb]
Maintainer: Luis Benites Sanchez <lbenitesanchez@gmail.com>
Diff between CensMixReg versions 1.0 dated 2016-08-08 and 3.0 dated 2017-07-26
CensMixReg-1.0/CensMixReg/R/CensMixReg.R |only CensMixReg-1.0/CensMixReg/R/CensMixRegEM.R |only CensMixReg-1.0/CensMixReg/R/CensMmix.R |only CensMixReg-1.0/CensMixReg/R/CensMmixEM.R |only CensMixReg-1.0/CensMixReg/R/UtilityFunctions.R |only CensMixReg-1.0/CensMixReg/R/utilsFMtMC.R |only CensMixReg-1.0/CensMixReg/man/CensMixReg.Rd |only CensMixReg-1.0/CensMixReg/man/imm.fmcr.Rd |only CensMixReg-3.0/CensMixReg/DESCRIPTION | 15 CensMixReg-3.0/CensMixReg/MD5 | 32 - CensMixReg-3.0/CensMixReg/NAMESPACE | 16 CensMixReg-3.0/CensMixReg/R/algEM.fm.mc.R |only CensMixReg-3.0/CensMixReg/R/algEM.fm.smn.cr.R |only CensMixReg-3.0/CensMixReg/R/algEM.fmr.smn.cr.R |only CensMixReg-3.0/CensMixReg/R/fm.mc.R |only CensMixReg-3.0/CensMixReg/R/fm.smn.cr.R |only CensMixReg-3.0/CensMixReg/R/fmr.smn.cr.R |only CensMixReg-3.0/CensMixReg/R/functions.fm.mc.R |only CensMixReg-3.0/CensMixReg/R/functions.fm.smn.cr.R |only CensMixReg-3.0/CensMixReg/R/functions.fmr.smn.cr.R |only CensMixReg-3.0/CensMixReg/man/CensMixReg-package.Rd | 10 CensMixReg-3.0/CensMixReg/man/concentration.Rd | 7 CensMixReg-3.0/CensMixReg/man/fm.smn.cr.Rd |only CensMixReg-3.0/CensMixReg/man/fmr.smn.cr.Rd |only CensMixReg-3.0/CensMixReg/man/imm.fm.smn.cr.Rd |only CensMixReg-3.0/CensMixReg/man/initial.values.fm.smn.cr.Rd |only CensMixReg-3.0/CensMixReg/man/initial.values.fmr.smn.cr.Rd |only CensMixReg-3.0/CensMixReg/man/wage.rates.Rd | 248 +++++-------- 28 files changed, 145 insertions(+), 183 deletions(-)
Title: Statistical Procedures for Agricultural Research
Description: Original idea was presented in the thesis "A statistical analysis tool for agricultural research" to obtain the degree of Master on science, National Engineering University (UNI), Lima-Peru. Some experimental data for the examples come from the CIP and others research. Agricolae offers extensive functionality on experimental design especially for agricultural and plant breeding experiments, which can also be useful for other purposes. It supports planning of lattice, Alpha, Cyclic, Complete Block, Latin Square, Graeco-Latin Squares, augmented block, factorial, split and strip plot designs. There are also various analysis facilities for experimental data, e.g. treatment comparison procedures and several non-parametric tests comparison, biodiversity indexes and consensus cluster.
Author: Felipe de Mendiburu
Maintainer: Felipe de Mendiburu <fmendiburu@lamolina.edu.pe>
Diff between agricolae versions 1.2-4 dated 2016-06-13 and 1.2-5 dated 2017-07-26
DESCRIPTION | 13 + MD5 | 148 ++++++++++----------- NAMESPACE | 2 NEWS | 10 + R/HSD.test.R | 2 R/LSD.test.R | 4 R/Median.test.R | 2 R/PBIB.test.R | 4 R/REGW.test.R | 2 R/SNK.test.R | 2 R/bar.group.R | 3 R/consensus.R | 325 ++++++++++++++++++++++++++--------------------- R/correl.R | 1 R/design.alpha.R | 6 R/diffograph.R | 2 R/duncan.test.R | 19 ++ R/durbin.test.R | 6 R/friedman.R | 19 +- R/kruskal.R | 14 +- R/order.group.R | 32 ++++ R/order.stat.R | 6 R/plot.AMMI.R | 6 R/scheffe.test.R | 2 R/waerden.test.R | 7 - R/waller.test.R | 4 build/vignette.rds |binary data/CIC.rda |binary data/Chz2006.rda |binary data/ComasOxapampa.rda |binary data/DC.rda |binary data/Glycoalkaloids.rda |binary data/Hco2006.rda |binary data/LxT.rda |binary data/RioChillon.rda |binary data/clay.rda |binary data/corn.rda |binary data/cotton.rda |binary data/disease.rda |binary data/frijol.rda |binary data/genxenv.rda |binary data/grass.rda |binary data/greenhouse.rda |binary data/growth.rda |binary data/haynes.rda |binary data/heterosis.rda |binary data/huasahuasi.rda |binary data/markers.rda |binary data/melon.rda |binary data/natives.rda |binary data/pamCIP.rda |binary data/paracsho.rda |binary data/plots.rda |binary data/plrv.rda |binary data/potato.rda |binary data/ralstonia.rda |binary data/rice.rda |binary data/sinRepAmmi.rda |binary data/soil.rda |binary data/sweetpotato.rda |binary data/wilt.rda |binary data/yacon.rda |binary inst/doc/tutorial.R | 295 +++++++++++++++++++++--------------------- inst/doc/tutorial.Rnw | 273 +++++++++++++++++++++++++++------------ inst/doc/tutorial.pdf |binary man/PBIB.test.Rd | 21 +-- man/VanderWarden.Rd | 6 man/agricolae-package.Rd | 6 man/audps.Rd | 7 - man/consensus.Rd | 4 man/durbin.test.Rd | 3 man/friedman.Rd | 5 man/kruskal.Rd | 11 - man/order.stat.Rd | 4 man/plotAMMI.Rd | 4 vignettes/tutorial.Rnw | 273 +++++++++++++++++++++++++++------------ 75 files changed, 945 insertions(+), 608 deletions(-)
Title: Project MOSAIC Statistics and Mathematics Teaching Utilities
Description: Data sets and utilities from Project MOSAIC (<http://mosaic-web.org>) used
to teach mathematics, statistics, computation and modeling. Funded by the
NSF, Project MOSAIC is a community of educators working to tie together
aspects of quantitative work that students in science, technology,
engineering and mathematics will need in their professional lives, but
which are usually taught in isolation, if at all.
Author: Randall Pruim <rpruim@calvin.edu>, Daniel T. Kaplan
<kaplan@macalester.edu>, Nicholas J. Horton <nhorton@amherst.edu>
Maintainer: Randall Pruim <rpruim@calvin.edu>
Diff between mosaic versions 0.14.4 dated 2016-07-29 and 1.0.0 dated 2017-07-26
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mosaic-1.0.0/mosaic/NEWS.md |only mosaic-1.0.0/mosaic/R/aggregatingAux.R | 157 -- mosaic-1.0.0/mosaic/R/aggregatingMeta.R | 126 + mosaic-1.0.0/mosaic/R/ashplots.R |only mosaic-1.0.0/mosaic/R/bargraph.R | 14 mosaic-1.0.0/mosaic/R/cor-test.R |only mosaic-1.0.0/mosaic/R/dpqrdist.R | 331 +++-- mosaic-1.0.0/mosaic/R/ediff.R | 15 mosaic-1.0.0/mosaic/R/groupwiseModels.R | 387 +++--- mosaic-1.0.0/mosaic/R/mPlots.R | 639 +++++----- mosaic-1.0.0/mosaic/R/maps2.R | 2 mosaic-1.0.0/mosaic/R/mm.R | 57 mosaic-1.0.0/mosaic/R/mosaic-package.R | 10 mosaic-1.0.0/mosaic/R/mplot.R | 20 mosaic-1.0.0/mosaic/R/plotDist.R | 104 - mosaic-1.0.0/mosaic/R/plotFun.R | 6 mosaic-1.0.0/mosaic/R/prop.test.R | 2 mosaic-1.0.0/mosaic/R/props-counts.R |only mosaic-1.0.0/mosaic/R/reexports.R | 10 mosaic-1.0.0/mosaic/R/resample.R | 61 mosaic-1.0.0/mosaic/R/smoothers.R | 4 mosaic-1.0.0/mosaic/R/tally.R | 66 - mosaic-1.0.0/mosaic/R/ttest.R | 126 + mosaic-1.0.0/mosaic/R/utils.R | 55 mosaic-1.0.0/mosaic/R/value.R | 14 mosaic-1.0.0/mosaic/R/xchisq.test.R | 20 mosaic-1.0.0/mosaic/R/xhistogram.R | 37 mosaic-1.0.0/mosaic/R/xpnorm.R | 256 ++-- mosaic-1.0.0/mosaic/R/xqqmath.R | 4 mosaic-1.0.0/mosaic/R/zzz.R | 6 mosaic-1.0.0/mosaic/README.md | 2 mosaic-1.0.0/mosaic/build/vignette.rds |binary mosaic-1.0.0/mosaic/inst/CITATION |only mosaic-1.0.0/mosaic/inst/doc/GraphicsWithMosaic.Rmd | 8 mosaic-1.0.0/mosaic/inst/doc/GraphicsWithMosaic.html | 88 - mosaic-1.0.0/mosaic/inst/doc/LessVolume-MoreCreativity.Rmd | 2 mosaic-1.0.0/mosaic/inst/doc/LessVolume-MoreCreativity.html | 53 mosaic-1.0.0/mosaic/inst/doc/MinimalR.R | 29 mosaic-1.0.0/mosaic/inst/doc/MinimalR.Rnw | 45 mosaic-1.0.0/mosaic/inst/doc/MinimalR.pdf |binary mosaic-1.0.0/mosaic/inst/doc/MinimalRgg.R |only mosaic-1.0.0/mosaic/inst/doc/MinimalRgg.Rnw |only mosaic-1.0.0/mosaic/inst/doc/MinimalRgg.pdf |only mosaic-1.0.0/mosaic/inst/doc/Resampling.pdf |binary mosaic-1.0.0/mosaic/inst/doc/ggformula-lattice.R |only mosaic-1.0.0/mosaic/inst/doc/ggformula-lattice.Rmd |only mosaic-1.0.0/mosaic/inst/doc/ggformula-lattice.pdf |only mosaic-1.0.0/mosaic/inst/doc/mosaic-resources.Rmd | 33 mosaic-1.0.0/mosaic/inst/doc/mosaic-resources.html | 51 mosaic-1.0.0/mosaic/inst/doc/plotModel-vignette.html | 64 - mosaic-1.0.0/mosaic/man/Broyden.Rd | 1 mosaic-1.0.0/mosaic/man/CIAdata.Rd | 1 mosaic-1.0.0/mosaic/man/CIsim.Rd | 1 mosaic-1.0.0/mosaic/man/FunctionsFromData.Rd | 12 mosaic-1.0.0/mosaic/man/MAD.Rd | 5 mosaic-1.0.0/mosaic/man/MAD_.Rd | 1 mosaic-1.0.0/mosaic/man/TukeyHSD.lm.Rd | 3 mosaic-1.0.0/mosaic/man/adapt_seq.Rd | 1 mosaic-1.0.0/mosaic/man/aggregating.Rd | 70 - mosaic-1.0.0/mosaic/man/aggregatingAux.Rd | 8 mosaic-1.0.0/mosaic/man/aggregatingFunction1.Rd | 6 mosaic-1.0.0/mosaic/man/aggregatingFunction2.Rd | 4 mosaic-1.0.0/mosaic/man/as-xtabs.Rd | 3 mosaic-1.0.0/mosaic/man/ashplot.Rd | 83 - mosaic-1.0.0/mosaic/man/bargraph.Rd | 8 mosaic-1.0.0/mosaic/man/binom.test.Rd | 1 mosaic-1.0.0/mosaic/man/cdist.Rd | 1 mosaic-1.0.0/mosaic/man/chisq.Rd | 3 mosaic-1.0.0/mosaic/man/clustering.Rd | 1 mosaic-1.0.0/mosaic/man/columns.Rd | 3 mosaic-1.0.0/mosaic/man/compareMean.Rd | 1 mosaic-1.0.0/mosaic/man/compareProportion.Rd | 1 mosaic-1.0.0/mosaic/man/confint.Rd | 7 mosaic-1.0.0/mosaic/man/cor.test.Rd |only mosaic-1.0.0/mosaic/man/cross.Rd | 5 mosaic-1.0.0/mosaic/man/cull_for_do.Rd | 1 mosaic-1.0.0/mosaic/man/defunct-fetch.Rd | 6 mosaic-1.0.0/mosaic/man/deg2rad.Rd | 1 mosaic-1.0.0/mosaic/man/deltaMethod.Rd | 1 mosaic-1.0.0/mosaic/man/derivedVariable.Rd | 7 mosaic-1.0.0/mosaic/man/dfapply.Rd | 1 mosaic-1.0.0/mosaic/man/diffmean.Rd | 1 mosaic-1.0.0/mosaic/man/do.Rd | 13 mosaic-1.0.0/mosaic/man/docFile.Rd | 1 mosaic-1.0.0/mosaic/man/dotPlot.Rd | 5 mosaic-1.0.0/mosaic/man/dpqrdist.Rd | 9 mosaic-1.0.0/mosaic/man/ediff.Rd | 10 mosaic-1.0.0/mosaic/man/evalFormula.Rd | 1 mosaic-1.0.0/mosaic/man/evalSubFormula.Rd | 1 mosaic-1.0.0/mosaic/man/expandFun.Rd | 1 mosaic-1.0.0/mosaic/man/factorize.Rd | 7 mosaic-1.0.0/mosaic/man/fav_stats.Rd | 1 mosaic-1.0.0/mosaic/man/findZeros.Rd | 7 mosaic-1.0.0/mosaic/man/findZerosMult.Rd | 1 mosaic-1.0.0/mosaic/man/fitModel.Rd | 7 mosaic-1.0.0/mosaic/man/fitSpline.Rd | 1 mosaic-1.0.0/mosaic/man/fortify.Rd | 5 mosaic-1.0.0/mosaic/man/freqpoly.Rd | 1 mosaic-1.0.0/mosaic/man/freqpolygon.Rd | 9 mosaic-1.0.0/mosaic/man/getVarFormula.Rd | 1 mosaic-1.0.0/mosaic/man/googleMap.Rd | 1 mosaic-1.0.0/mosaic/man/gwm.Rd | 46 mosaic-1.0.0/mosaic/man/inferArgs.Rd | 1 mosaic-1.0.0/mosaic/man/inspect.Rd | 9 mosaic-1.0.0/mosaic/man/interval.Rd | 5 mosaic-1.0.0/mosaic/man/is.wholenumber.Rd | 1 mosaic-1.0.0/mosaic/man/joinFrames.Rd | 5 mosaic-1.0.0/mosaic/man/ladd.Rd | 7 mosaic-1.0.0/mosaic/man/latlon2xyz.Rd | 3 mosaic-1.0.0/mosaic/man/linear.algebra.Rd | 1 mosaic-1.0.0/mosaic/man/logical2factor.Rd | 3 mosaic-1.0.0/mosaic/man/logit.Rd | 3 mosaic-1.0.0/mosaic/man/mPlotting.Rd | 13 mosaic-1.0.0/mosaic/man/mUSMap.Rd | 1 mosaic-1.0.0/mosaic/man/mWorldMap.Rd | 1 mosaic-1.0.0/mosaic/man/makeColorscheme.Rd | 1 mosaic-1.0.0/mosaic/man/makeMap.Rd | 1 mosaic-1.0.0/mosaic/man/mid.Rd | 1 mosaic-1.0.0/mosaic/man/mm.Rd | 25 mosaic-1.0.0/mosaic/man/mosaic-internal.Rd | 46 mosaic-1.0.0/mosaic/man/mosaic-package.Rd | 9 mosaic-1.0.0/mosaic/man/mosaic.options.Rd | 16 mosaic-1.0.0/mosaic/man/mplot.Rd | 7 mosaic-1.0.0/mosaic/man/msummary.Rd | 7 mosaic-1.0.0/mosaic/man/n_missing.Rd | 1 mosaic-1.0.0/mosaic/man/nicenames.Rd | 1 mosaic-1.0.0/mosaic/man/ntiles.Rd | 1 mosaic-1.0.0/mosaic/man/oddsRatio.Rd | 11 mosaic-1.0.0/mosaic/man/panel.levelcontourplot.Rd | 1 mosaic-1.0.0/mosaic/man/panel.lmbands.Rd | 1 mosaic-1.0.0/mosaic/man/panel.plotFun.Rd | 1 mosaic-1.0.0/mosaic/man/panel.plotFun1.Rd | 1 mosaic-1.0.0/mosaic/man/pdist.Rd | 41 mosaic-1.0.0/mosaic/man/perctable.Rd | 1 mosaic-1.0.0/mosaic/man/plotCumfreq.Rd | 9 mosaic-1.0.0/mosaic/man/plotDist.Rd | 23 mosaic-1.0.0/mosaic/man/plotFun.Rd | 9 mosaic-1.0.0/mosaic/man/plotModel.Rd | 8 mosaic-1.0.0/mosaic/man/plotPoints.Rd | 5 mosaic-1.0.0/mosaic/man/pqrdata.Rd | 9 mosaic-1.0.0/mosaic/man/pqrdata2.Rd | 19 mosaic-1.0.0/mosaic/man/project-methods.Rd | 5 mosaic-1.0.0/mosaic/man/prop.Rd | 29 mosaic-1.0.0/mosaic/man/prop.test.Rd | 1 mosaic-1.0.0/mosaic/man/props.Rd |only mosaic-1.0.0/mosaic/man/qdist.Rd | 29 mosaic-1.0.0/mosaic/man/r.squared.Rd | 1 mosaic-1.0.0/mosaic/man/rand.Rd | 1 mosaic-1.0.0/mosaic/man/read.file.Rd | 1 mosaic-1.0.0/mosaic/man/reexports.Rd | 17 mosaic-1.0.0/mosaic/man/relm.Rd | 1 mosaic-1.0.0/mosaic/man/repeater-class.Rd | 2 mosaic-1.0.0/mosaic/man/resample.Rd | 17 mosaic-1.0.0/mosaic/man/rescale.Rd | 5 mosaic-1.0.0/mosaic/man/rflip.Rd | 15 mosaic-1.0.0/mosaic/man/rfun.Rd | 2 mosaic-1.0.0/mosaic/man/rgeo-internals.Rd | 3 mosaic-1.0.0/mosaic/man/rgeo.Rd | 5 mosaic-1.0.0/mosaic/man/rspin.Rd | 1 mosaic-1.0.0/mosaic/man/rsquared.Rd | 1 mosaic-1.0.0/mosaic/man/rstudio.Rd | 3 mosaic-1.0.0/mosaic/man/set.rseed.Rd | 1 mosaic-1.0.0/mosaic/man/sp2df.Rd | 1 mosaic-1.0.0/mosaic/man/standardName.Rd | 3 mosaic-1.0.0/mosaic/man/statTally.Rd | 1 mosaic-1.0.0/mosaic/man/surround.Rd | 1 mosaic-1.0.0/mosaic/man/swap.Rd | 1 mosaic-1.0.0/mosaic/man/tally.Rd | 3 mosaic-1.0.0/mosaic/man/theme_map.Rd | 1 mosaic-1.0.0/mosaic/man/themes.Rd | 3 mosaic-1.0.0/mosaic/man/ttest.Rd | 74 - mosaic-1.0.0/mosaic/man/update_ci.Rd | 1 mosaic-1.0.0/mosaic/man/value.Rd | 3 mosaic-1.0.0/mosaic/man/vector2df.Rd | 1 mosaic-1.0.0/mosaic/man/xchisq.test.Rd | 13 mosaic-1.0.0/mosaic/man/xhistogram.Rd | 19 mosaic-1.0.0/mosaic/man/xpnorm.Rd | 20 mosaic-1.0.0/mosaic/man/xqqmath.Rd | 3 mosaic-1.0.0/mosaic/man/zscore.Rd | 1 mosaic-1.0.0/mosaic/vignettes/GraphicsWithMosaic.Rmd | 8 mosaic-1.0.0/mosaic/vignettes/LessVolume-MoreCreativity.Rmd | 2 mosaic-1.0.0/mosaic/vignettes/LessVolume-MoreCreativity_files/figure-html/unnamed-chunk-16-1.png |binary mosaic-1.0.0/mosaic/vignettes/LessVolume-MoreCreativity_files/figure-html/unnamed-chunk-31-1.png |binary mosaic-1.0.0/mosaic/vignettes/LessVolume-MoreCreativity_files/figure-html/unnamed-chunk-32-1.png |binary mosaic-1.0.0/mosaic/vignettes/MinimalR.Rnw | 45 mosaic-1.0.0/mosaic/vignettes/MinimalRgg.Rnw |only mosaic-1.0.0/mosaic/vignettes/ggformula-lattice.Rmd |only mosaic-1.0.0/mosaic/vignettes/mosaic-resources.Rmd | 33 219 files changed, 2304 insertions(+), 2150 deletions(-)