Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut] (<https://orcid.org/0000-0003-1458-7108>),
Javier F. Tabima [aut] (<https://orcid.org/0000-0002-3603-2691>),
Sydney E. Everhart [ctb, dtc] (<https://orcid.org/0000-0002-5773-1280>),
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb]
(<https://orcid.org/0000-0002-7324-7448>),
Erik Sotka [ctb],
Brian J. Knaus [ctb] (<https://orcid.org/0000-0003-1665-4343>),
Patrick G. Meirmans [ctb] (<https://orcid.org/0000-0002-6395-8107>),
Niklaus J. Grunwald [ths] (<https://orcid.org/0000-0003-1656-7602>)
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>
Diff between poppr versions 2.7.0 dated 2018-03-16 and 2.7.1 dated 2018-03-16
DESCRIPTION | 13 +++--- MD5 | 18 ++++----- NAMESPACE | 5 ++ NEWS | 9 ++++ R/amova.r | 4 +- R/poppr.R | 1 inst/doc/algo.pdf |binary inst/doc/mlg.html | 4 +- inst/doc/poppr_manual.html | 6 +-- man/poppr.amova.Rd | 85 +++++++++++++++++++++++++++++++++++++++++++++ 10 files changed, 122 insertions(+), 23 deletions(-)
Title: Nonparametric Robust Estimation and Inference Methods using
Local Polynomial Regression and Kernel Density Estimation
Description: Tools for data-driven statistical analysis using local polynomial regression and kernel density estimation methods as described in Calonico, Cattaneo and Farrell (2018): lprobust() for local polynomial point estimation and robust bias-corrected inference and kdrobust() for kernel density point estimation and robust bias-corrected inference. Several optimal bandwidth selection procedures are computed by lpbwselect() and kdbwselect() for local polynomial and kernel density estimation, respectively. Finally, nprobust.plot() for density and regression plots with robust confidence interval.
Author: Sebastian Calonico <scalonico@bus.miami.edu>, Matias D. Cattaneo <cattaneo@umich.edu>, Max H. Farrell <max.farrell@chicagobooth.edu>
Maintainer: Sebastian Calonico <scalonico@bus.miami.edu>
Diff between nprobust versions 0.1.1 dated 2017-09-14 and 0.1.2 dated 2018-03-16
DESCRIPTION | 10 +++++----- MD5 | 26 +++++++++++++------------- R/kdbwselect.R | 17 ++++++++--------- R/kdrobust.R | 7 ++----- R/lpbwselect.R | 3 --- R/lprobust.R | 4 +--- R/npfunctions.R | 2 -- R/nprobust.plot.R | 2 +- man/kdbwselect.Rd | 18 +++++++++--------- man/kdrobust.Rd | 20 ++++++++++---------- man/lpbwselect.Rd | 12 ++++++------ man/lprobust.Rd | 12 ++++++------ man/nprobust-package.Rd | 4 ++-- man/nprobust.plot.Rd | 4 ++-- 14 files changed, 65 insertions(+), 76 deletions(-)
Title: Utilities for Learning Sparse Bayesian Networks
Description: A set of tools for representing and estimating sparse Bayesian networks from continuous and discrete data.
Author: Bryon Aragam [aut, cre],
Jiaying Gu [aut]
Maintainer: Bryon Aragam <sparsebn@gmail.com>
Diff between sparsebnUtils versions 0.0.5 dated 2017-09-09 and 0.0.6 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- NEWS.md | 8 +++++++- R/graph-compatibility.R | 12 ++++++++---- R/s3-sparsebnPath.R | 2 +- R/sparsebnUtils-cytoscape.R | 35 +++++++++++++++++++++-------------- R/sparsebnUtils-show.R | 8 ++++++-- inst/CITATION | 1 + man/openCytoscape.Rd | 9 ++++++++- man/show.parents.Rd | 7 ++++++- 10 files changed, 71 insertions(+), 37 deletions(-)
Title: Factors with Levels
Description: Provides an extension to factors called 'lfactor' that are similar
to factors but allows users to refer to 'lfactor' levels by either the level or
the label.
Author: Paul Bailey [aut, cre]
Maintainer: Paul Bailey <pbailey@air.org>
Diff between lfactors versions 1.0.1 dated 2017-04-18 and 1.0.4 dated 2018-03-16
DESCRIPTION | 12 ++++++------ MD5 | 42 +++++++++++++++++++++--------------------- R/all.R | 4 ---- R/as.factor.lfactor.R | 11 +---------- R/as.integer.lfactor.R | 14 ++++++++------ R/as.numeric.lfactor.R | 10 ++++++---- R/droplevels.R | 2 +- R/inlf.R | 15 +++++---------- R/lfactor.R | 22 +++++++++++----------- R/lfactors-package.R | 8 ++++++-- R/llevels.R | 4 ++-- R/mlfactor.R | 8 +------- inst/NEWS.Rd | 7 +++++++ man/as.factor.lfactor.Rd | 6 +++--- man/as.integer.lfactor.Rd | 15 ++++++++------- man/as.numeric.lfactor.Rd | 11 ++++++----- man/inlf.Rd | 8 ++++---- man/lfactor.Rd | 23 +++++++++++------------ man/lfactors-package.Rd | 10 +++++++--- man/llevels.Rd | 5 ++--- man/mlfactor.Rd | 16 ++++++++-------- tests/testthat/test-equals.R | 42 +++++++++++++++++++++++++++--------------- 22 files changed, 151 insertions(+), 144 deletions(-)
Title: Estimation of Spatial Autoregressive Models with and without
Heteroscedasticity
Description: Generalized Method of Moment estimation of Cliff-Ord-type spatial autoregressive models with and without Heteroscedasticity.
Author: Gianfranco Piras <gpiras@mac.com>
Maintainer: Gianfranco Piras <gpiras@mac.com>
Diff between sphet versions 1.6 dated 2015-01-16 and 1.7 dated 2018-03-16
ChangeLog | 2 ++ DESCRIPTION | 18 ++++++++---------- MD5 | 14 +++++++------- NAMESPACE | 10 +++++++--- R/spreg.R | 4 ++-- build/vignette.rds |binary inst/doc/sphet.pdf |binary man/spreg.Rd | 2 +- 8 files changed, 27 insertions(+), 23 deletions(-)
Title: Statistical Process Control for Stochastic Textured Surfaces
Description: Provides statistical process control tools for stochastic
textured surfaces. The current version supports the following tools:
(1) monitors and diagnoses for local defects on stochastic
textured surfaces, which was proposed by Bui and Apley (2018a)
<doi:10.1080/00401706.2017.1302362>.
(2) monitors for global changes in the nature of stochastic
textured surfaces.
Author: Anh Bui [aut, cre] and Daniel Apley [ths]
Maintainer: Anh Bui <atbui@u.northwestern.edu>
Diff between spc4sts versions 0.2.1 dated 2017-07-17 and 0.3.0 dated 2018-03-16
spc4sts-0.2.1/spc4sts/R/localStat.R |only spc4sts-0.2.1/spc4sts/man/localStat.Rd |only spc4sts-0.3.0/spc4sts/DESCRIPTION | 18 +++--- spc4sts-0.3.0/spc4sts/MD5 | 49 ++++++++-------- spc4sts-0.3.0/spc4sts/R/climit.R | 71 ++++++++++++++++-------- spc4sts-0.3.0/spc4sts/R/climit2.R | 21 +++++-- spc4sts-0.3.0/spc4sts/R/diagnoseLD.R | 17 +++-- spc4sts-0.3.0/spc4sts/R/mbChange.R |only spc4sts-0.3.0/spc4sts/R/monitoringStat.R |only spc4sts-0.3.0/spc4sts/R/surfacemodel.R | 62 +++++++++++++------- spc4sts-0.3.0/spc4sts/man/ad.Rd | 4 - spc4sts-0.3.0/spc4sts/man/bp.Rd | 10 +-- spc4sts-0.3.0/spc4sts/man/climit.Rd | 67 +++++++++++++--------- spc4sts-0.3.0/spc4sts/man/climit.object.Rd |only spc4sts-0.3.0/spc4sts/man/dataPrep.Rd | 25 +++++--- spc4sts-0.3.0/spc4sts/man/diagnoseLD.Rd | 20 +++--- spc4sts-0.3.0/spc4sts/man/exptailecdf.Rd | 6 +- spc4sts-0.3.0/spc4sts/man/exptailecdf.object.Rd | 4 - spc4sts-0.3.0/spc4sts/man/imposeDefect.Rd | 4 - spc4sts-0.3.0/spc4sts/man/kerMat.Rd | 2 spc4sts-0.3.0/spc4sts/man/mbChange.Rd |only spc4sts-0.3.0/spc4sts/man/monitoringStat.Rd |only spc4sts-0.3.0/spc4sts/man/pexptailecdf.Rd | 4 - spc4sts-0.3.0/spc4sts/man/sarGen.Rd | 9 ++- spc4sts-0.3.0/spc4sts/man/showNb.Rd | 8 +- spc4sts-0.3.0/spc4sts/man/sms.Rd | 8 +- spc4sts-0.3.0/spc4sts/man/spaCov.Rd | 17 ++--- spc4sts-0.3.0/spc4sts/man/spc4sts-package.Rd | 36 ++++++++---- spc4sts-0.3.0/spc4sts/man/surfacemodel.Rd | 38 +++++++----- 29 files changed, 307 insertions(+), 193 deletions(-)
Title: Automatic Parallelized Monte Carlo Simulations
Description: Simplifies Monte Carlo simulation studies by automatically
setting up loops to run over parameter grids and parallelising
the Monte Carlo repetitions. It also generates LaTeX tables.
Author: Christian Hendrik Leschinski
Maintainer: Christian Hendrik Leschinski <leschinski@statistik.uni-hannover.de>
Diff between MonteCarlo versions 1.0.4 dated 2018-03-14 and 1.0.5 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/MakeDataFrame.R | 31 ++++++++++++++++--------------- inst/doc/MonteCarlo-Vignette.html | 18 +++++++++--------- 4 files changed, 32 insertions(+), 31 deletions(-)
Title: Bayesian Optimal INterval (BOIN) Design for Single-Agent and
Drug- Combination Phase I Clinical Trials
Description: The Bayesian optimal interval (BOIN) design is a novel phase I
clinical trial design for finding the maximum tolerated dose (MTD). It can be
used to design both single-agent and drug-combination trials. The BOIN design
is motivated by the top priority and concern of clinicians when testing a new
drug, which is to effectively treat patients and minimize the chance of exposing
them to subtherapeutic or overly toxic doses. The prominent advantage of the
BOIN design is that it achieves simplicity and superior performance at the same
time. The BOIN design is algorithm-based and can be implemented in a simple
way similar to the traditional 3+3 design. The BOIN design yields an average
performance that is comparable to that of the continual reassessment method
(CRM, one of the best model-based designs) in terms of selecting the MTD, but
has a substantially lower risk of assigning patients to subtherapeutic or overly
toxic doses.
Author: Ying Yuan and Suyu Liu
Maintainer: Ying Yuan <yyuan@mdanderson.org>
Diff between BOIN versions 2.6 dated 2018-02-21 and 2.6.1 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/select.mtd.R | 22 ++++++++-------------- R/summary.boin.R | 7 ++----- 4 files changed, 17 insertions(+), 26 deletions(-)
Title: Read, Manipulate and Visualise Magnetic Resonance Images
Description: Functions for working with magnetic resonance images. Analyze,
NIfTI-1, NIfTI-2 and MGH format images can be read and written; DICOM files
can only be read.
Author: Jon Clayden
Maintainer: Jon Clayden <code@clayden.org>
Diff between tractor.base versions 3.1.0 dated 2017-06-15 and 3.2.2 dated 2018-03-16
DESCRIPTION | 13 +++--- MD5 | 35 +++++++++-------- NAMESPACE | 6 ++- R/08_sparse.R | 6 ++- R/10_mri_image.R | 46 +++++++++++++++++++---- R/12_coerce.R | 10 ++++- R/15_dicom.R | 35 ++++++++++++----- R/dicom_dir.R | 11 ++++- R/files.R | 23 +++++++---- R/lambda.R |only R/misc.R | 35 +++++++++++++++++ R/viewer.R | 4 +- R/viz.R | 86 +++++++++++++++++--------------------------- man/DicomMetadata-class.Rd | 3 + man/colourScales.Rd | 46 ++++++++--------------- man/files.Rd | 12 ++++-- man/index.Rd | 12 +++++- man/indexList.Rd |only man/lambda.Rd |only man/sortDicomDirectories.Rd | 5 ++ 20 files changed, 243 insertions(+), 145 deletions(-)
Title: Tools for Nuclear Magnetic Resonance (NMR) Spectra Alignment,
Peak Based Processing, Quantitative Analysis and Visualizations
Description: Makes Nuclear Magnetic Resonance spectroscopy (NMR spectroscopy) data analysis as easy as possible by only requiring a small set of functions to perform an entire analysis. 'speaq' offers the possibility of raw spectra alignment and quantitation but also an analysis based on features whereby the spectra are converted to peaks which are then grouped and turned into features. These features can be processed with any number of statistical tools either included in 'speaq' or available elsewhere on CRAN. More detail can be found in Vu et al. (2011) <doi:10.1186/1471-2105-12-405> and Beirnaert et al. (2018) <doi:10.1371/journal.pcbi.1006018>.
Author: Charlie Beirnaert, Trung Nghia Vu, Pieter Meysman, Kris Laukens and Dirk Valkenborg
Maintainer: Charlie Beirnaert <charlie_beirnaert@icloud.com>
Diff between speaq versions 2.2.0 dated 2018-03-02 and 2.3.0 dated 2018-03-16
DESCRIPTION | 8 +++---- MD5 | 40 +++++++++++++++++------------------ NEWS.md | 6 +++++ R/AddPlottingStuff.R | 4 +-- R/BuildFeatureMatrix.R | 3 +- R/GetWinedata.subset.R | 8 +++---- R/PeakFilling.R | 12 +++++++--- R/PeakGrouper.R | 5 ++-- R/ROIplot.R | 3 +- R/SilhouetR.R | 5 ++-- R/getWaveletPeaks.R | 3 +- inst/doc/classic_speaq_vignette.html | 8 +++---- inst/doc/speaq2_illustrations.html | 4 +-- man/AddPlottingStuff.Rd | 4 +-- man/BuildFeatureMatrix.Rd | 3 +- man/GetWinedata.subset.Rd | 2 - man/PeakFilling.Rd | 3 +- man/PeakGrouper.Rd | 5 ++-- man/ROIplot.Rd | 3 +- man/SilhouetR.Rd | 5 ++-- man/getWaveletPeaks.Rd | 3 +- 21 files changed, 80 insertions(+), 57 deletions(-)
Title: Simulation-Based Quasi-Likelihood Estimation
Description: A simulation-based quasi-likelihood method (Baaske, M., Ballani, F., v.d. Boogaart, K.G. (2014) <doi:10.5566/ias.v33.p107-119>) for parameter estimation of parametric statistical models for which closed-form representations of distributional characteristics are unavailable and can only be obtained by computationally intensive simulations of the model.
Author: Markus Baaske [aut, cre, cph],
K. Gerald van den Boogaart [ths]
Maintainer: Markus Baaske <markus.baaske@uni-jena.de>
Diff between qle versions 0.17 dated 2018-03-16 and 0.17-1 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- R/covariance.R | 2 +- R/krige.R | 8 ++++---- R/qleTest.R | 4 ++-- R/qsOpt.R | 2 +- inst/doc/qle_with_R.R | 6 +++--- inst/doc/qle_with_R.Rnw | 8 ++++---- inst/doc/qle_with_R.pdf |binary man/checkMultRoot.Rd | 2 +- man/fitSIRFk.Rd | 2 +- man/mahalDist.Rd | 8 ++++---- man/multiSearch.Rd | 2 +- vignettes/qle_with_R.Rnw | 8 ++++---- 14 files changed, 43 insertions(+), 43 deletions(-)
Title: Genetic Analysis of Populations with Mixed Reproduction
Description: Population genetic analyses for hierarchical analysis of partially
clonal populations built upon the architecture of the 'adegenet' package.
Author: Zhian N. Kamvar [cre, aut] (<https://orcid.org/0000-0003-1458-7108>),
Javier F. Tabima [aut] (<https://orcid.org/0000-0002-3603-2691>),
Sydney E. Everhart [ctb, dtc] (<https://orcid.org/0000-0002-5773-1280>),
Jonah C. Brooks [aut],
Stacy A. Krueger-Hadfield [ctb]
(<https://orcid.org/0000-0002-7324-7448>),
Erik Sotka [ctb],
Brian J. Knaus [ctb] (<https://orcid.org/0000-0003-1665-4343>),
Patrick G. Meirmans [ctb] (<https://orcid.org/0000-0002-6395-8107>),
Niklaus J. Grunwald [ths] (<https://orcid.org/0000-0003-1656-7602>)
Maintainer: Zhian N. Kamvar <zkamvar@gmail.com>
Diff between poppr versions 2.6.1 dated 2018-01-15 and 2.7.0 dated 2018-03-16
DESCRIPTION | 24 +- MD5 | 36 +-- NAMESPACE | 3 NEWS | 39 +++ R/amova.r | 357 ++++++++++++++++++---------------- R/data_subset.r | 79 +++++++ R/internal.r | 121 ----------- R/methods.r | 56 +++++ R/print_methods.r | 21 -- README.md | 5 build/vignette.rds |binary inst/doc/algo.pdf |binary inst/doc/mlg.html | 8 inst/doc/poppr_manual.html | 24 +- man/coercion-methods.Rd | 24 ++ man/make_haplotypes.Rd |only man/poppr.amova.Rd | 177 +++++----------- tests/testthat/test-amova.R | 165 +++++++++++++++ tests/testthat/test-make_haplotypes.R |only tests/testthat/test-polyploids.R | 7 20 files changed, 682 insertions(+), 464 deletions(-)
Title: Multidimensional Item Response Theory
Description: Analysis of dichotomous and polytomous response data using
unidimensional and multidimensional latent trait models under the Item
Response Theory paradigm (Chalmers (2012) <doi:10.18637/jss.v048.i06>).
Exploratory and confirmatory models can be estimated with quadrature (EM)
or stochastic (MHRM) methods. Confirmatory
bi-factor and two-tier analyses are available for modeling item testlets.
Multiple group analysis and mixed effects designs also are available for
detecting differential item and test functioning as well as modelling
item and person covariates. Finally, latent class models such as the DINA,
DINO, multidimensional latent class, and several other discrete latent
variable models are supported.
Author: Phil Chalmers [aut, cre, cph],
Joshua Pritikin [ctb],
Alexander Robitzsch [ctb],
Mateusz Zoltak [ctb],
KwonHyun Kim [ctb],
Carl F. Falk [ctb],
Adam Meade [ctb],
Lennart Schneider [ctb],
David King [ctb],
Chen-Wei Liu [ctb]
Maintainer: Phil Chalmers <rphilip.chalmers@gmail.com>
Diff between mirt versions 1.26.3 dated 2017-11-29 and 1.27.1 dated 2018-03-16
DESCRIPTION | 14 +- MD5 | 89 ++++++------- NAMESPACE | 1 NEWS.md | 41 ++++++ R/01-itemclass.R | 5 R/02-item_methods.R | 255 +++++++++++++++++++++++++++++++++++---- R/03-estimation.R | 5 R/LoadPars.R | 49 +++++++ R/MHRM.utils.R | 34 ++--- R/Mixed-methods.R | 16 +- R/MultipleGroup-methods.R | 4 R/PrepData.R | 1 R/SingleGroup-methods.R | 55 ++++++-- R/createGroup.R | 3 R/createItem.R | 48 ++++++- R/itemGAM.R | 2 R/itemfit.R | 21 +-- R/itemplot.R | 6 R/itemplot.internal.R | 5 R/key2binary.R | 17 ++ R/mdirt.R | 32 +++- R/mirt-package.R | 1 R/mirt.R | 18 ++ R/mirt.model.R | 9 + R/mod2values.R | 6 R/model.elements.R | 2 R/shinyItemplot.R | 51 ++++++- R/simdata.R | 17 ++ R/utils.R | 26 ++- build/partial.rdb |binary man/coef-method.Rd | 8 - man/createItem.Rd | 28 +++- man/itemGAM.Rd | 2 man/itemplot.Rd | 9 - man/key2binary.Rd | 14 +- man/mdirt.Rd | 34 +++-- man/mirt.Rd | 18 ++ man/mirt.model.Rd | 9 + man/plot-method.Rd | 3 man/simdata.Rd | 16 ++ src/ggum_derivs.cpp | 36 +---- tests/tests/test-02-mirtTwo.R | 8 + tests/tests/test-07-mixedmirt.R | 66 ++++------ tests/tests/test-09-mirt.model.R | 7 + tests/tests/test-10-extras.R | 2 tests/tests/test-15-IRTpars.R |only 46 files changed, 821 insertions(+), 272 deletions(-)
Title: Forest Plots, Funnel Plots, and Visual Funnel Plot Inference for
Meta-Analysis
Description: A compilation of functions to plot meta-analytic data using 'ggplot2'. Currently allows to
create forest plots, funnel plots, and many of their variants, such as rainforest plots and
additional evidence contour enhanced funnel plots. In addition, functionalities for visual funnel
plot inference are provided. In the near future, the 'metaviz' package will be extended by further,
established as well as novel, plotting options for visualizing meta-analytic data.
Author: Michael Kossmeier [cre, aut],
Ulrich S. Tran [aut],
Martin Voracek [aut]
Maintainer: Michael Kossmeier <michael.kossmeier@univie.ac.at>
Diff between metaviz versions 0.1.1 dated 2017-06-30 and 0.2.0 dated 2018-03-16
metaviz-0.1.1/metaviz/R/rainforest.R |only metaviz-0.1.1/metaviz/R/rem_functions.R |only metaviz-0.1.1/metaviz/man/rainforest.Rd |only metaviz-0.1.1/metaviz/man/rem_effect.Rd |only metaviz-0.1.1/metaviz/man/rem_err.Rd |only metaviz-0.2.0/metaviz/DESCRIPTION | 23 metaviz-0.2.0/metaviz/MD5 | 49 - metaviz-0.2.0/metaviz/NAMESPACE | 9 metaviz-0.2.0/metaviz/NEWS.md |only metaviz-0.2.0/metaviz/R/brainvol.R | 4 metaviz-0.2.0/metaviz/R/exrehab.R |only metaviz-0.2.0/metaviz/R/funnelinf.R | 582 ++++++++------- metaviz-0.2.0/metaviz/R/mozart.R | 12 metaviz-0.2.0/metaviz/R/viz_forest.R |only metaviz-0.2.0/metaviz/R/viz_forest_internal.R |only metaviz-0.2.0/metaviz/R/viz_funnel.R |only metaviz-0.2.0/metaviz/R/viz_rainforest.R |only metaviz-0.2.0/metaviz/R/viz_thickforest.R |only metaviz-0.2.0/metaviz/build/vignette.rds |binary metaviz-0.2.0/metaviz/data/exrehab.rda |only metaviz-0.2.0/metaviz/data/mozart.rda |binary metaviz-0.2.0/metaviz/inst/doc/metaviz.R | 217 ++--- metaviz-0.2.0/metaviz/inst/doc/metaviz.Rmd | 292 +++---- metaviz-0.2.0/metaviz/inst/doc/metaviz.html | 613 ++++++++++------ metaviz-0.2.0/metaviz/man/brainvol.Rd | 4 metaviz-0.2.0/metaviz/man/exrehab.Rd |only metaviz-0.2.0/metaviz/man/funnelinf.Rd | 98 +- metaviz-0.2.0/metaviz/man/mozart.Rd | 12 metaviz-0.2.0/metaviz/man/viz_classicforest_internal.Rd |only metaviz-0.2.0/metaviz/man/viz_forest.Rd |only metaviz-0.2.0/metaviz/man/viz_funnel.Rd |only metaviz-0.2.0/metaviz/man/viz_rainforest.Rd |only metaviz-0.2.0/metaviz/man/viz_rainforest_internal.Rd |only metaviz-0.2.0/metaviz/man/viz_thickforest.Rd |only metaviz-0.2.0/metaviz/man/viz_thickforest_internal.Rd |only metaviz-0.2.0/metaviz/vignettes/metaviz.Rmd | 292 +++---- 36 files changed, 1302 insertions(+), 905 deletions(-)
Title: Baseline Identification and Peak Decomposition for x-Ray
Diffractograms
Description: Residual-based baseline identification and peak decomposition for x-ray diffractograms as introduced in Davies/Gather/Mergel/Meise/Mildenberger (2008) <doi:10.1214/08-AOAS181>.
Author: P.L. Davies, U. Gather, M. Meise, D.Mergel, T. Mildenberger. Additional Code by T. Bernholt and T. Hofmeister
Maintainer: T. Mildenberger <mild@zhaw.ch>
Diff between diffractometry versions 0.1-8 dated 2013-12-11 and 0.1-10 dated 2018-03-16
DESCRIPTION | 14 MD5 | 11 NAMESPACE | 3 R/baselinefit.r | 1103 ++++++++++++++++++++++++++---------------------------- R/diffractogram.r | 62 +-- R/fitint.r | 42 +- src/init.c |only 7 files changed, 619 insertions(+), 616 deletions(-)
More information about diffractometry at CRAN
Permanent link
Title: Evaluation and Experimental Design for Binomial Group Testing
Description: Methods for estimation and hypothesis testing of proportions
in group testing designs: methods for estimating a proportion in a single
population (assuming sensitivity and specificity equal to 1 in designs
with equal group sizes), as well as hypothesis tests and
functions for experimental design for this situation. For
estimating one proportion or the difference of proportions, a
number of confidence interval methods are included, which can
deal with various different pool sizes. Further, regression
methods are implemented for simple pooling and matrix pooling
designs.
Methods for identification of positive specimens in group
testing designs: methods for identification of positive
specimens in a number of group testing algorithms. Hierarchical and
array-based algorithms are implemented and used to find the
optimal testing configuration and calculate operating characteristics
for testing configurations across a wide variety of situations.
Author: Boan Zhang [aut],
Christopher Bilder [aut],
Brad Biggerstaff [aut],
Frank Schaarschmidt [aut, cre],
Brianna Hitt [aut]
Maintainer: Frank Schaarschmidt <schaarschmidt@biostat.uni-hannover.de>
Diff between binGroup versions 2.1-0 dated 2018-03-13 and 2.1-1 dated 2018-03-16
DESCRIPTION | 10 +++++----- MD5 | 8 ++++---- NAMESPACE | 1 - R/Hierarchical.Functions.R | 2 +- man/binGroup-package.Rd | 4 ++-- 5 files changed, 12 insertions(+), 13 deletions(-)
Title: An API Wrapper for the Bureau of Labor Statistics (BLS)
Description: Scrapes various data from <https://www.bls.gov/>. The U.S. Bureau of Labor Statistics is the statistical branch of the United States Department of Labor. The package has additional functions to help parse, analyze and visualize the data.
Author: Kris Eberwein [aut, cre]
Maintainer: Kris Eberwein <eberwein@knights.ucf.edu>
Diff between blscrapeR versions 3.1.1 dated 2017-11-22 and 3.1.2 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ NEWS.md | 10 ++++++++++ R/bls_api.R | 13 ++++++------- build/vignette.rds |binary data/series_ids.rda |binary inst/doc/Employment_and_Unemployment.html | 4 ++-- inst/doc/Inflation_and_Prices.html | 4 ++-- inst/doc/Mapping_BLS_Data.html | 4 ++-- inst/doc/Pay_and_Benefits.html | 4 ++-- inst/doc/QCEW_API.html | 4 ++-- man/series_ids.Rd | 2 +- tests/testthat/test_bls_api.R | 13 +++++-------- 13 files changed, 48 insertions(+), 42 deletions(-)
Title: Ethnicity Annotation from Whole Exome Sequencing Data
Description: Reliable and rapid ethnicity annotation from whole exome sequencing data.
Author: Alessandro Romanel
Maintainer: Alessandro Romanel <alessandro.romanel@unitn.it>
Diff between EthSEQ versions 2.1.1 dated 2017-09-16 and 2.1.2 dated 2018-03-16
DESCRIPTION | 8 MD5 | 24 +- NEWS | 4 R/combine_Models.R | 97 ++++++++- R/ethseq_Analysis.R | 2 R/ethseq_RM.R | 3 build/vignette.rds |binary inst/doc/EthSEQ.R | 13 - inst/doc/EthSEQ.Rmd | 13 - inst/doc/EthSEQ.html | 518 ++++++++++++++++--------------------------------- man/ethseq.Analysis.Rd | 46 +--- man/ethseq.RM.Rd | 37 --- vignettes/EthSEQ.Rmd | 13 - 13 files changed, 321 insertions(+), 457 deletions(-)
Title: Non Linear Time Series Analysis
Description: Models for time series forecasting and causality detection. The main functionalities of this package consist of a neural network Vector Auto-Regressive model, the classical Granger causality test C.W.J.Granger (1980) <doi:10.1016/0165-1889(80)90069-X>, and a non-linear version of it based on feedforward neural networks.
Author: Youssef Hmamouche [aut, cre],
Sylvain Barthelemy [cph]
Maintainer: Youssef Hmamouche <hmamoucheyussef@gmail.com>
Diff between NlinTS versions 1.3.1 dated 2018-03-15 and 1.3.2 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 14 +++++++------- NAMESPACE | 1 + R/modues.R | 1 + build/partial.rdb |binary src/CMultiLayerPerceptron.cpp | 6 ++++-- src/CVARMLPExport.cpp | 2 +- src/Cmatrixoperations.cpp | 4 ++-- 8 files changed, 20 insertions(+), 16 deletions(-)
Title: Tools for Model Specification in the Latent Variable Framework
Description: Tools for model specification in the latent variable framework
(add-on to the 'lava' package). The package contains three main functionalities:
Wald tests/F-tests with improved control of the type 1 error in small samples,
adjustment for multiple comparisons when searching for local dependencies,
and adjustment for multiple comparisons when doing inference for multiple latent variable models.
Author: Brice Ozenne [aut, cre]
Maintainer: Brice Ozenne <brice.ozenne@orange.fr>
Diff between lavaSearch2 versions 1.1.0 dated 2018-02-06 and 1.2.0 dated 2018-03-16
lavaSearch2-1.1.0/lavaSearch2/R/intDensTri.R |only lavaSearch2-1.1.0/lavaSearch2/R/lTest.R |only lavaSearch2-1.1.0/lavaSearch2/R/summary.R |only lavaSearch2-1.1.0/lavaSearch2/man/coef2.Rd |only lavaSearch2-1.1.0/lavaSearch2/man/getGroup2.Rd |only lavaSearch2-1.1.0/lavaSearch2/man/lTest.Rd |only lavaSearch2-1.1.0/lavaSearch2/man/prepareScore2.Rd |only lavaSearch2-1.1.0/lavaSearch2/man/summary.Rd |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-iid2-lava.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-iid2-nlme.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-residuals2.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-sCorrect.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-score2-lava.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-score2-nlme.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-vcov-lava.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test1-vcov-nlme.R |only lavaSearch2-1.1.0/lavaSearch2/tests/testthat/test2-intDensTri.R |only lavaSearch2-1.2.0/lavaSearch2/DESCRIPTION | 13 lavaSearch2-1.2.0/lavaSearch2/MD5 | 141 - lavaSearch2-1.2.0/lavaSearch2/NAMESPACE | 60 lavaSearch2-1.2.0/lavaSearch2/NEWS | 23 lavaSearch2-1.2.0/lavaSearch2/R/IntDensTri.R |only lavaSearch2-1.2.0/lavaSearch2/R/Utils-nlme.R | 541 +++- lavaSearch2-1.2.0/lavaSearch2/R/adjustEstimate.R |only lavaSearch2-1.2.0/lavaSearch2/R/compare2.R | 156 - lavaSearch2-1.2.0/lavaSearch2/R/compareSearch.R | 6 lavaSearch2-1.2.0/lavaSearch2/R/conditionalMoment.R |only lavaSearch2-1.2.0/lavaSearch2/R/createContrast.R | 23 lavaSearch2-1.2.0/lavaSearch2/R/iid2.R | 2 lavaSearch2-1.2.0/lavaSearch2/R/iidJack.R | 7 lavaSearch2-1.2.0/lavaSearch2/R/information2.R |only lavaSearch2-1.2.0/lavaSearch2/R/leverage.R |only lavaSearch2-1.2.0/lavaSearch2/R/matrixPower.R | 54 lavaSearch2-1.2.0/lavaSearch2/R/methods-modelsearch2.R | 7 lavaSearch2-1.2.0/lavaSearch2/R/modelsearch2.R | 27 lavaSearch2-1.2.0/lavaSearch2/R/modelsearchMax.R | 43 lavaSearch2-1.2.0/lavaSearch2/R/multcomp.R | 41 lavaSearch2-1.2.0/lavaSearch2/R/package-butils-extractData.R | 25 lavaSearch2-1.2.0/lavaSearch2/R/prepareScore2.R | 379 --- lavaSearch2-1.2.0/lavaSearch2/R/residuals2.R | 602 ----- lavaSearch2-1.2.0/lavaSearch2/R/sCorrect.R | 1103 +++++----- lavaSearch2-1.2.0/lavaSearch2/R/score2.R | 286 +- lavaSearch2-1.2.0/lavaSearch2/R/skeleton.R | 520 ++-- lavaSearch2-1.2.0/lavaSearch2/R/summary.modelsearch2.R | 11 lavaSearch2-1.2.0/lavaSearch2/R/summary2.R |only lavaSearch2-1.2.0/lavaSearch2/R/symmetrize.R | 9 lavaSearch2-1.2.0/lavaSearch2/R/vcov2.R |only lavaSearch2-1.2.0/lavaSearch2/inst/demoGLS.R | 40 lavaSearch2-1.2.0/lavaSearch2/inst/implementationScheme.png |only lavaSearch2-1.2.0/lavaSearch2/inst/implementationScheme.svg |only lavaSearch2-1.2.0/lavaSearch2/inst/todo.org |only lavaSearch2-1.2.0/lavaSearch2/man/adjustEstimate.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/autoplot.intDensTri.Rd | 2 lavaSearch2-1.2.0/lavaSearch2/man/coef2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/compare2.Rd | 27 lavaSearch2-1.2.0/lavaSearch2/man/compareSearch.Rd | 2 lavaSearch2-1.2.0/lavaSearch2/man/conditionalMoment.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/createContrast.Rd | 4 lavaSearch2-1.2.0/lavaSearch2/man/dInformation2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/extractData.Rd | 16 lavaSearch2-1.2.0/lavaSearch2/man/getCluster2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/getIndexOmega2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/getVarCov2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/getVarCov2.Rd | 85 lavaSearch2-1.2.0/lavaSearch2/man/iid2.Rd | 64 lavaSearch2-1.2.0/lavaSearch2/man/information2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/intDensTri.Rd | 2 lavaSearch2-1.2.0/lavaSearch2/man/leverage2.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/matrixPower.Rd | 26 lavaSearch2-1.2.0/lavaSearch2/man/merge.Rd | 3 lavaSearch2-1.2.0/lavaSearch2/man/modelsearch2.Rd | 8 lavaSearch2-1.2.0/lavaSearch2/man/residuals2.Rd | 78 lavaSearch2-1.2.0/lavaSearch2/man/sCorrect.Rd | 80 lavaSearch2-1.2.0/lavaSearch2/man/score2-internal.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/score2.Rd | 103 lavaSearch2-1.2.0/lavaSearch2/man/skeleton.Rd | 14 lavaSearch2-1.2.0/lavaSearch2/man/summary.modelsearch2.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/summary2.Rd |only lavaSearch2-1.2.0/lavaSearch2/man/vcov2.Rd |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test-coefType.R | 6 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test-initVar.R | 2 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test-matrixPower.R | 7 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-Utils-nlme.R | 140 - lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-compare2.R | 347 +-- lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-adjustedResiduals.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-clubSandwich.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-dVcov.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-lava.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-missingValues.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test1-sCorrect-validObjects.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test2-IntDensTri.R |only lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test2-calcType1postSelection.R | 12 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test2-compareSearch.R | 6 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test2-modelsearch2.R | 10 lavaSearch2-1.2.0/lavaSearch2/tests/testthat/test3-multcomp.R | 6 95 files changed, 2441 insertions(+), 2728 deletions(-)
Title: TIFF I/O for 'ImageJ' Users
Description: Correctly import TIFF files that were saved from 'ImageJ' and write
TIFF files than can be correctly read by 'ImageJ'
<https://imagej.nih.gov/ij/>. Full support for TIFF files with floating
point (real-numbered) pixels. Also supports text image I/O.
Author: Rory Nolan [aut, cre],
Simon Urbanek [ctb],
Sergi Padilla-Parra [ths]
Maintainer: Rory Nolan <rorynoolan@gmail.com>
Diff between ijtiff versions 0.3.0 dated 2018-02-12 and 1.0.0 dated 2018-03-16
ijtiff-0.3.0/ijtiff/src/init.c |only ijtiff-1.0.0/ijtiff/DESCRIPTION | 14 ++-- ijtiff-1.0.0/ijtiff/MD5 | 24 ++++---- ijtiff-1.0.0/ijtiff/NEWS.md | 6 ++ ijtiff-1.0.0/ijtiff/R/read.R | 4 - ijtiff-1.0.0/ijtiff/R/write.R | 7 +- ijtiff-1.0.0/ijtiff/build/vignette.rds |binary ijtiff-1.0.0/ijtiff/inst/doc/ijtiff.R | 2 ijtiff-1.0.0/ijtiff/inst/doc/ijtiff.Rmd | 8 +- ijtiff-1.0.0/ijtiff/inst/doc/ijtiff.html | 67 +++++++++++------------ ijtiff-1.0.0/ijtiff/inst/img/ropensci_footer.png |only ijtiff-1.0.0/ijtiff/src/RcppExports.cpp | 16 +++++ ijtiff-1.0.0/ijtiff/src/read.c | 24 +------- ijtiff-1.0.0/ijtiff/vignettes/ijtiff.Rmd | 8 +- 14 files changed, 95 insertions(+), 85 deletions(-)
Title: k-Nearest Neighbor Join for Spatial Data
Description: K-nearest neighbor search for projected and non-projected 'sf' spatial layers. Nearest neighbor search uses (1) C implementation of the Vincenty Formula for lon-lat point layers, (2) function nn2() from package 'RANN' for projected point layers, or (3) function st_distance() from package 'sf' for line or polygon layers.
Author: Michael Dorman [aut, cre],
Jan Antala [ctb]
Maintainer: Michael Dorman <dorman@post.bgu.ac.il>
Diff between nngeo versions 0.1.0 dated 2018-01-16 and 0.1.5 dated 2018-03-16
DESCRIPTION | 20 +++++++++------- MD5 | 32 ++++++++++++++------------ NAMESPACE | 2 + NEWS.md | 9 +++++-- R/RcppExports.R |only R/data.R | 1 R/rcpp.R |only R/st_connect.R | 8 ++++++ R/st_nn.R | 21 +++++++++++------ R/st_nn_pnt_geo.R | 26 ++++++++++++++++----- R/st_nn_poly.R | 10 ++++++++ inst/doc/intro.R | 38 ++++++++++++++++++++++-------- inst/doc/intro.Rmd | 47 ++++++++++++++++++++++++++++---------- inst/doc/intro.pdf |binary man/st_nn.Rd | 21 ++++++++++++----- src |only tests/testthat/test_st_nn.R | 54 ++++++++++++++++++++++++++++++++++++++++++-- vignettes/intro.Rmd | 47 ++++++++++++++++++++++++++++---------- 18 files changed, 256 insertions(+), 80 deletions(-)
More information about NetworkExtinction at CRAN
Permanent link
Title: Interface to the Greek National Data Bank for
Hydrometeorological Information
Description: R interface to the Greek National Data Bank for Hydrological and
Meteorological Information <http://www.hydroscope.gr/>. It covers
Hydroscope's data sources and provides functions to transliterate,
translate and download them into tidy dataframes (tibbles).
Author: Konstantinos Vantas [aut, cre]
(<https://orcid.org/0000-0001-6387-8791>),
Sharla Gelfand [ctb, rev] (Sharla Gelfand reviewed the package for
rOpenSci, see https://github.com/ropensci/onboarding/issues/185),
Tim Trice [rev] (Tim Trice reviewed the package for rOpenSci, see
https://github.com/ropensci/onboarding/issues/185)
Maintainer: Konstantinos Vantas <kon.vantas@gmail.com>
Diff between hydroscoper versions 0.1.0 dated 2017-12-22 and 1.0.0 dated 2018-03-16
hydroscoper-0.1.0/hydroscoper/R/utility_functions.R |only hydroscoper-0.1.0/hydroscoper/inst/doc/kyy_data.R |only hydroscoper-0.1.0/hydroscoper/inst/doc/kyy_data.Rmd |only hydroscoper-0.1.0/hydroscoper/inst/doc/kyy_data.html |only hydroscoper-0.1.0/hydroscoper/man/figures/README-plot_timeseries-1.png |only hydroscoper-0.1.0/hydroscoper/man/get_coords.Rd |only hydroscoper-0.1.0/hydroscoper/man/get_stations.Rd |only hydroscoper-0.1.0/hydroscoper/man/get_timeseries.Rd |only hydroscoper-0.1.0/hydroscoper/tests/testthat/test_get_functions.R |only hydroscoper-0.1.0/hydroscoper/tests/testthat/test_internal_functions.R |only hydroscoper-0.1.0/hydroscoper/vignettes/kyy_data.Rmd |only hydroscoper-1.0.0/hydroscoper/DESCRIPTION | 48 hydroscoper-1.0.0/hydroscoper/LICENSE | 2 hydroscoper-1.0.0/hydroscoper/MD5 | 70 - hydroscoper-1.0.0/hydroscoper/NAMESPACE | 15 hydroscoper-1.0.0/hydroscoper/NEWS.md | 45 hydroscoper-1.0.0/hydroscoper/R/data.R | 78 - hydroscoper-1.0.0/hydroscoper/R/defunct.R |only hydroscoper-1.0.0/hydroscoper/R/enhydris_api.R |only hydroscoper-1.0.0/hydroscoper/R/get_data.R | 534 ---------- hydroscoper-1.0.0/hydroscoper/R/get_tables.R |only hydroscoper-1.0.0/hydroscoper/R/hydro_coords.R |only hydroscoper-1.0.0/hydroscoper/R/hydro_translate.R |only hydroscoper-1.0.0/hydroscoper/R/hydroscoper_package.R |only hydroscoper-1.0.0/hydroscoper/R/translit.R |only hydroscoper-1.0.0/hydroscoper/R/utils.R |only hydroscoper-1.0.0/hydroscoper/README.md | 178 +-- hydroscoper-1.0.0/hydroscoper/build/vignette.rds |binary hydroscoper-1.0.0/hydroscoper/data/greece_borders.rda |only hydroscoper-1.0.0/hydroscoper/data/stations.rda |binary hydroscoper-1.0.0/hydroscoper/data/timeseries.rda |binary hydroscoper-1.0.0/hydroscoper/inst/CITATION |only hydroscoper-1.0.0/hydroscoper/inst/doc/intro_hydroscoper.R |only hydroscoper-1.0.0/hydroscoper/inst/doc/intro_hydroscoper.Rmd |only hydroscoper-1.0.0/hydroscoper/inst/doc/intro_hydroscoper.html |only hydroscoper-1.0.0/hydroscoper/inst/doc/stations_with_data.R |only hydroscoper-1.0.0/hydroscoper/inst/doc/stations_with_data.Rmd |only hydroscoper-1.0.0/hydroscoper/inst/doc/stations_with_data.html |only hydroscoper-1.0.0/hydroscoper/man/figures/README-plot_time_series-1.png |only hydroscoper-1.0.0/hydroscoper/man/figures/hydroscoper_hex.png |only hydroscoper-1.0.0/hydroscoper/man/get_data.Rd | 57 - hydroscoper-1.0.0/hydroscoper/man/get_tables.Rd |only hydroscoper-1.0.0/hydroscoper/man/greece_borders.Rd |only hydroscoper-1.0.0/hydroscoper/man/hydro_coords.Rd |only hydroscoper-1.0.0/hydroscoper/man/hydro_translate.Rd |only hydroscoper-1.0.0/hydroscoper/man/hydroscoper.Rd |only hydroscoper-1.0.0/hydroscoper/man/hydroscoper_defunct.Rd |only hydroscoper-1.0.0/hydroscoper/man/stations.Rd | 28 hydroscoper-1.0.0/hydroscoper/man/timeseries.Rd | 27 hydroscoper-1.0.0/hydroscoper/tests/testthat/test_defunct.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_enhydris.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_get_data.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_get_table.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_hydro_coords.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_translit.R |only hydroscoper-1.0.0/hydroscoper/tests/testthat/test_utils.R |only hydroscoper-1.0.0/hydroscoper/vignettes/intro_hydroscoper.Rmd |only hydroscoper-1.0.0/hydroscoper/vignettes/stations_with_data.Rmd |only 58 files changed, 354 insertions(+), 728 deletions(-)
Title: Quantile Regression in Varying-Coefficient Models
Description: Quantile regression in varying-coefficient models (VCM) using one particular nonparametric technique called P-splines. The functions can be applied on three types of VCM; (1) Homoscedastic VCM, (2) Simple heteroscedastic VCM, and (3) General heteroscedastic VCM.
Author: 'Andriyana, Y.' [aut, cre], 'Ibrahim M. A.' [aut], 'Gijbels, I.' [ctb], 'Verhasselt A.' [ctb]
Maintainer: "Andriyana.Y" <y.andriyana@unpad.ac.id>
Diff between QRegVCM versions 1.1 dated 2017-08-22 and 1.2 dated 2018-03-16
DESCRIPTION | 10 +++--- MD5 | 38 ++++++++++++++++-------- NAMESPACE | 1 R/D_KTB.R |only R/D_wages.R |only R/F_Lamb_gconl.R |only R/F_Lamb_gmonl.R |only R/F_intpoint_gconl.R |only R/F_intpoint_gmonl.R |only R/F_lambdak_gconl.R |only R/F_lambdak_gmonl.R |only R/F_lambdak_m45.R | 3 - R/F_qrvcp_gconl.R |only R/F_qrvcp_gmonl.R |only R/F_qrvcp_m45.R | 4 -- R/F_simul_shapetest.R |only data/wages.rda |only man/AHeVT.Rd | 61 +++++++++++++++++++-------------------- man/AHeVXT.Rd | 75 ++++++++++++++++++++++++------------------------ man/CD4.Rd | 4 +- man/QRIndiv.Rd | 51 ++++++++++++++++---------------- man/QRSimul.Rd | 57 ++++++++++++++++++------------------ man/QRStepwise.Rd | 57 ++++++++++++++++++------------------ man/QRWSimul.Rd | 59 +++++++++++++++++++------------------ man/simul_shapetest.Rd |only man/test_variability.Rd | 14 ++++---- man/wages.Rd |only 27 files changed, 225 insertions(+), 209 deletions(-)
Title: Simulation-Based Quasi-Likelihood Estimation
Description: A simulation-based quasi-likelihood method (Baaske, M., Ballani, F., v.d. Boogaart, K.G. (2014) <doi:10.5566/ias.v33.p107-119>) for parameter estimation of parametric statistical models for which closed-form representations of distributional characteristics are unavailable and can only be obtained by computationally intensive simulations of the model.
Author: Markus Baaske [aut, cre, cph],
K. Gerald van den Boogaart [ths]
Maintainer: Markus Baaske <markus.baaske@uni-jena.de>
Diff between qle versions 0.16-6 dated 2017-11-24 and 0.17 dated 2018-03-16
DESCRIPTION | 11 MD5 | 123 +-- NAMESPACE | 1 NEWS | 58 + R/covariance.R | 519 +++++++++------ R/helpers.R | 37 - R/krige.R | 281 ++++---- R/qle-package.R | 6 R/qleTest.R | 531 +++++++++------ R/qsOpt.R | 1524 ++++++++++++++++++++++++++------------------- R/simQLData.R | 168 ++-- data/matclust.rda |binary data/normal.rda |binary inst/COPYRIGHTS | 2 inst/doc/qle_with_R.R | 187 +++-- inst/doc/qle_with_R.Rnw | 140 ++-- inst/doc/qle_with_R.pdf |binary man/QLmodel.Rd | 30 man/checkMultRoot.Rd | 15 man/covarTx.Rd | 27 man/crossValTx.Rd | 46 - man/estim.Rd | 19 man/fitCov.Rd | 32 man/fitSIRFk.Rd | 67 + man/getDefaultOptions.Rd | 5 man/getQLmodel.Rd | 23 man/krige.Rd | 9 man/mahalDist.Rd | 34 - man/multiDimLHS.Rd | 9 man/multiSearch.Rd |only man/nextLOCsample.Rd | 12 man/prefitCV.Rd | 24 man/qle.Rd | 154 ++-- man/qleTest.Rd | 90 +- man/qscoring.Rd | 32 man/qsd.Rd | 6 man/quasiDeviance.Rd | 61 - man/reml.Rd | 2 man/searchMinimizer.Rd | 71 +- man/setCovModel.Rd | 59 - man/setQLdata.Rd | 55 - man/simQLdata.Rd | 22 man/updateCovModels.Rd | 18 src/Makevars | 2 src/auxil.cc | 773 +++++++++++++++------- src/auxil.h | 53 - src/covariance.cc | 134 ++- src/covariance.h | 9 src/error.h | 107 +-- src/initError.cc | 91 +- src/kriging.cc | 1048 +++++++++++++++++++----------- src/kriging.h | 240 ++++--- src/qloptr.cc | 4 src/qsoptim.cc | 668 +++++++++++++------ src/qsoptim.h | 49 - tests/test_covar.R | 16 tests/test_normal.R | 42 + tests/test_quasiDeviance.R | 12 tests/test_scoring.R | 31 vignettes/Kfunc.pdf |binary vignettes/qleTheory.tex | 2 vignettes/qle_with_R.Rnw | 140 ++-- vignettes/qlebib.bib | 19 63 files changed, 4803 insertions(+), 3147 deletions(-)
Title: Bayesian Inference for Directed Acyclic Graphs (BiDAG)
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.
References:
N. Friedman and D. Koller (2003) <doi:10.1023/A:1020249912095>,
D. Geiger and D. Heckerman (2002) <doi:10.1214/aos/1035844981>,
J. Kuipers and G. Moffa (2016) <doi:10.1080/01621459.2015.1133426>,
M. Kalisch et al.(2012) <doi:10.18637/jss.v047.i11>.
Author: Polina Suter [aut, cre], Jack Kuipers [aut]
Maintainer: Polina Suter <polina.minkina@bsse.ethz.ch>
Diff between BiDAG versions 1.0.2 dated 2017-09-08 and 1.1.1 dated 2018-03-16
BiDAG-1.0.2/BiDAG/R/oderscore.R |only BiDAG-1.0.2/BiDAG/R/oderscorenew.R |only BiDAG-1.1.1/BiDAG/DESCRIPTION | 8 - BiDAG-1.1.1/BiDAG/MD5 | 39 ++++---- BiDAG-1.1.1/BiDAG/R/corescore.R | 10 +- BiDAG-1.1.1/BiDAG/R/initpar.R | 8 + BiDAG-1.1.1/BiDAG/R/iterativeMCMC.R | 120 +++++++++------------------ BiDAG-1.1.1/BiDAG/R/main.R | 15 ++- BiDAG-1.1.1/BiDAG/R/newbinaryscoring.R | 53 ++++++----- BiDAG-1.1.1/BiDAG/R/orderMCMCbasemax.R | 1 BiDAG-1.1.1/BiDAG/R/orderMCMCplus1.R | 38 ++++---- BiDAG-1.1.1/BiDAG/R/orderscore.R |only BiDAG-1.1.1/BiDAG/R/performanceassess.R | 40 ++++----- BiDAG-1.1.1/BiDAG/R/samplefns.R | 5 - BiDAG-1.1.1/BiDAG/R/spacefns.R | 37 ++++++++ BiDAG-1.1.1/BiDAG/man/DAGscore.Rd | 2 BiDAG-1.1.1/BiDAG/man/dag.threshold.Rd | 4 BiDAG-1.1.1/BiDAG/man/edges.posterior.Rd | 6 - BiDAG-1.1.1/BiDAG/man/iterations.check.Rd | 2 BiDAG-1.1.1/BiDAG/man/iterativeMCMCsearch.Rd | 6 + BiDAG-1.1.1/BiDAG/man/sample.check.Rd | 2 BiDAG-1.1.1/BiDAG/man/scoreparameters.Rd | 5 - 22 files changed, 221 insertions(+), 180 deletions(-)
Title: Landscape and Range Expansion Simulation
Description: Tools to generate random landscape graphs, evaluate species
occurrence in dynamic landscapes, simulate future landscape occupation and
evaluate range expansion when new empty patches are available (e.g. as a
result of climate change).
Author: Frederico Mestre, Fernando Canovas, Benjamin Risk, Ricardo Pita,
Antonio Mira, Pedro Beja.
Maintainer: Frederico Mestre <mestre.frederico@gmail.com>
Diff between MetaLandSim versions 1.0.2 dated 2018-03-12 and 1.0.3 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/rland.graph.R | 4 ++-- inst/doc/landscape_simulation-knitr.pdf |binary inst/doc/parameter_estimation-knitr.pdf |binary inst/doc/range_expansion-knitr.pdf |binary man/MetaLandSim-package.Rd | 4 ++-- 7 files changed, 14 insertions(+), 14 deletions(-)
Title: Functions to Support the Multicriteria Decision Aiding Process
Description: Functions which can be useful to support the analyst in the Multicriteria Decision Aiding (MCDA) process involving multiple, conflicting criteria.
Author: Patrick Meyer, Sébastien Bigaret, Richard Hodgett, Alexandru-Liviu Olteanu
Maintainer: Patrick Meyer <patrick.meyer@imt-atlantique.fr>
Diff between MCDA versions 0.0.18 dated 2017-12-20 and 0.0.19 dated 2018-03-16
DESCRIPTION | 10 - MD5 | 50 +++---- R/LPDMRSort.R | 24 +-- R/LPDMRSortIdentifyIncompatibleAssignments.R | 16 -- R/LPDMRSortIdentifyUsedDictatorProfiles.R | 12 - R/LPDMRSortIdentifyUsedVetoProfiles.R | 10 - R/LPDMRSortInferenceExact.R | 25 +-- R/MRSort.R | 25 +-- R/MRSortIdentifyIncompatibleAssignments.R | 17 -- R/MRSortIdentifyUsedVetoProfiles.R | 10 - R/MRSortInferenceExact.R | 25 +-- R/plotMRSortSortingProblem.R | 75 +++++++---- inst/examples/exampleFLOSS.R | 160 ++++++++++-------------- inst/extdata/SRMPMinInconsist.gmpl | 10 - inst/extdata/SRMPMinInconsistIndif.gmpl | 10 - inst/extdata/SRMPNoInconsist.gmpl | 10 - inst/extdata/SRMPNoInconsistIndif.gmpl | 10 - man/LPDMRSortIdentifyIncompatibleAssignments.Rd | 2 man/LPDMRSortInferenceExact.Rd | 1 man/MRSortIdentifyIncompatibleAssignments.Rd | 2 man/MRSortInferenceExact.Rd | 1 man/SRMPInferenceApproxFixedProfilesNumber.Rd | 7 - man/SRMPInferenceNoInconsist.Rd | 3 man/plotMRSortSortingProblem.Rd | 3 tests/SRMPInferenceFixedProfilesNumber.R | 24 +-- tests/SRMPInferenceNoInconsist.R | 2 26 files changed, 258 insertions(+), 286 deletions(-)
Title: Univariate Feature Selection and Compound Covariate for
Predicting Survival
Description: Univariate feature selection and compound covariate methods under the Cox model with high-dimensional features (gene expressions).
Available are survival data for non-small-cell lung cancer patients with gene expressions (Chen et al 2007 New Engl J Med) <DOI:10.1056/NEJMoa060096>,
statistical methods in Emura et al (2012 PLoS ONE) <DOI:10.1371/journal.pone.0047627>,
Emura & Chen (2016 Stat Methods Med Res) <DOI:10.1177/0962280214533378>, and Emura et al. (2018-)<submitted>.
Algorithms for generating correlated gene expressions are also available.
Author: Takeshi Emura, Hsuan-Yu Chen, Shigeyuki Matsui, Yi-Hau Chen
Maintainer: Takeshi Emura <takeshiemura@gmail.com>
Diff between compound.Cox versions 3.8 dated 2018-03-09 and 3.9 dated 2018-03-16
DESCRIPTION | 10 +++++----- MD5 | 16 ++++++++-------- R/compound.reg.R | 15 ++++++++------- R/dependCox.reg.CV.R | 2 ++ R/dependCox.reg.R | 3 ++- man/compound.Cox-package.Rd | 8 ++++---- man/compound.reg.Rd | 38 ++++++++++++++++---------------------- man/dependCox.reg.CV.Rd | 11 ----------- man/uni.selection.Rd | 2 +- 9 files changed, 46 insertions(+), 59 deletions(-)
Title: Analysis with Profile Hidden Markov Models
Description: Designed for the development and application of
hidden Markov models and profile HMMs for biological sequence analysis.
Contains functions for multiple and pairwise sequence alignment,
model construction and parameter optimization, file import/export,
implementation of the forward, backward and Viterbi algorithms for
conditional sequence probabilities, tree-based sequence weighting,
and sequence simulation.
Features a wide variety of potential applications including
database searching, gene-finding and annotation, phylogenetic
analysis and sequence classification.
Based on the models and algorithms described in Durbin et
al (1998, ISBN: 9780521629713).
Author: Shaun Wilkinson [aut, cre]
Maintainer: Shaun Wilkinson <shaunpwilkinson@gmail.com>
Diff between aphid versions 1.0.1 dated 2017-07-08 and 1.1.0 dated 2018-03-16
DESCRIPTION | 11 ++++++----- MD5 | 36 ++++++++++++++++++------------------ NAMESPACE | 1 + R/RcppExports.R | 36 ++++++++++++++++++------------------ R/align.R | 6 +++--- R/deriveHMM.R | 4 ++-- R/derivePHMM.R | 30 ++++++++++++++++++++---------- R/plot.R | 10 ++++++---- R/print.R | 2 +- R/train.R | 15 +++++++++------ R/weight.R | 18 ++++++++++++------ README.md | 1 + inst/doc/aphid-vignette.html | 6 +++--- man/align.Rd | 4 ++-- man/deriveHMM.Rd | 4 ++-- man/derivePHMM.Rd | 6 +++--- man/train.Rd | 11 ++++++++--- man/weight.Rd | 6 +++--- src/RcppExports.cpp | 36 ++++++++++++++++++------------------ 19 files changed, 136 insertions(+), 107 deletions(-)
Title: Utilities for Strings and Function Arguments
Description: The gsubfn function is like gsub but can take a replacement
function or certain other objects instead of the replacement string.
Matches and back references are input to the replacement function and
replaced by the function output. gsubfn can be used to split strings
based on content rather than delimiters and for quasi-perl-style string
interpolation. The package also has facilities for translating formulas
to functions and allowing such formulas in function calls instead of
functions. This can be used with R functions such as apply, sapply,
lapply, optim, integrate, xyplot, Filter and any other function that
expects another function as an input argument or functions like cat
or sql calls that may involve strings where substitution is desirable.
There is also a facility for returning multiple objects from functions
and a version of transform that allows the RHS to refer to LHS used in
the same transform.
Author: G. Grothendieck
Maintainer: G. Grothendieck <ggrothendieck@gmail.com>
Diff between gsubfn versions 0.6-6 dated 2014-08-27 and 0.7 dated 2018-03-16
DESCRIPTION | 26 ++++++++++++---------- MD5 | 20 ++++++++++------- NAMESPACE | 12 +++++++--- R/list.R |only R/transform2.R |only build/vignette.rds |binary inst/NEWS | 8 ++++++ inst/doc/gsubfn.R | 59 ++++++++++++--------------------------------------- inst/doc/gsubfn.Rnw | 42 ++++-------------------------------- inst/doc/gsubfn.pdf |binary man/list.Rd |only man/transform2.Rd |only vignettes/gsubfn.Rnw | 42 ++++-------------------------------- 13 files changed, 68 insertions(+), 141 deletions(-)
Title: Fitting and Testing Generalized Logistic Distributions
Description: Tools for the generalized logistic distribution (Type I,
also known as skew-logistic distribution), encompassing
basic distribution functions (p, q, d, r, score), maximum
likelihood estimation, and structural change methods.
Author: Achim Zeileis [aut, cre] (<https://orcid.org/0000-0003-0918-3766>),
Thomas Windberger [aut]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between glogis versions 1.0-0 dated 2014-11-11 and 1.0-1 dated 2018-03-16
glogis |only 1 file changed
Title: Identification of Dichotomous Differential Item Functioning
(DIF) using Angoff's Delta Plot Method
Description: The deltaPlotR package implements Angoff's Delta Plot method to detect dichotomous DIF. Several detection thresholds are included, either from multivariate normality assumption or by prior determination. Item purification is supported (Magis and Facon (2014) <doi:10.18637/jss.v059.c01>).
Author: David Magis (U Liege), Bruno Facon (Univ Lille-Nord de France)
Maintainer: David Magis <david.magis@ulg.ac.be>
Diff between deltaPlotR versions 1.5 dated 2014-11-20 and 1.6 dated 2018-03-16
deltaPlotR-1.5/deltaPlotR/man/deltaPlotR-package.Rd |only deltaPlotR-1.6/deltaPlotR/DESCRIPTION | 14 +++++++------- deltaPlotR-1.6/deltaPlotR/MD5 | 7 +++---- deltaPlotR-1.6/deltaPlotR/NAMESPACE | 12 +++++++++--- deltaPlotR-1.6/deltaPlotR/NEWS | 13 +++++++++++++ 5 files changed, 32 insertions(+), 14 deletions(-)
Title: Probabilistic Population Projection
Description: Generating population projections for all countries of the world using several probabilistic components, such as total fertility rate and life expectancy.
Author: Hana Sevcikova, Adrian Raftery, Thomas Buettner
Maintainer: Hana Sevcikova <hanas@uw.edu>
Diff between bayesPop versions 6.2-3 dated 2017-10-23 and 6.2-4 dated 2018-03-16
ChangeLog | 7 +++++++ DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- R/predict.pop.R | 23 +++++++++++++++-------- man/bayesPop-package.Rd | 4 ++-- man/predict.pop.Rd | 4 +++- 6 files changed, 36 insertions(+), 20 deletions(-)
Title: Mass Spectrometry Tools
Description: Common mass spectrometry tools described in John Roboz (2013) <doi:10.1201/b15436>. It allows checking element
isotopes, calculating (isotope labelled) exact monoisitopic mass, m/z values and mass accuracy, and inspecting possible contaminant mass peaks,
examining possible adducts in electrospray ionization (ESI) and matrix-assisted laser desorption ionization (MALDI)
ion sources.
Author: Yonghui Dong
Maintainer: Yonghui Dong <yonghui.dong@gmail.com>
Diff between MSbox versions 1.0 dated 2017-09-27 and 1.1 dated 2018-03-16
MSbox-1.0/MSbox/R/Molecular_Mass.R |only MSbox-1.0/MSbox/man/M_mass.Rd |only MSbox-1.1/MSbox/DESCRIPTION | 6 ++--- MSbox-1.1/MSbox/MD5 | 28 ++++++++++++------------- MSbox-1.1/MSbox/NAMESPACE | 2 - MSbox-1.1/MSbox/R/Adduct.R | 12 +++++++--- MSbox-1.1/MSbox/R/Iso_mass.R | 2 - MSbox-1.1/MSbox/R/Iso_mz.R | 2 - MSbox-1.1/MSbox/R/mass.R |only MSbox-1.1/MSbox/R/mz.R | 17 +++++++++++++-- MSbox-1.1/MSbox/R/ppm.R | 5 ++-- MSbox-1.1/MSbox/R/sysdata.rda |binary MSbox-1.1/MSbox/README.md | 41 ++++++++++++++++++++++++------------- MSbox-1.1/MSbox/man/Iso_mz.Rd | 2 - MSbox-1.1/MSbox/man/mass.Rd |only MSbox-1.1/MSbox/man/mz.Rd | 1 MSbox-1.1/MSbox/man/ppm.Rd | 4 ++- 17 files changed, 78 insertions(+), 44 deletions(-)
Title: Bayesian Estimation of Change-Points in the Slope of
Multivariate Time-Series
Description: Assume that a temporal process is composed of contiguous segments with differing slopes and replicated noise-corrupted time series measurements are observed. The unknown mean of the data generating process is modelled as a piecewise linear function of time with an unknown number of change-points. The package infers the joint posterior distribution of the number and position of change-points as well as the unknown mean parameters per time-series by MCMC sampling. A-priori, the proposed model uses an overfitting number of mean parameters but, conditionally on a set of change-points, only a subset of them influences the likelihood. An exponentially decreasing prior distribution on the number of change-points gives rise to a posterior distribution concentrating on sparse representations of the underlying sequence, but also available is the Poisson distribution. See Papastamoulis et al (2017) <arXiv:1709.06111> for a detailed presentation of the method.
Author: Panagiotis Papastamoulis
Maintainer: Panagiotis Papastamoulis <papapast@yahoo.gr>
Diff between beast versions 1.0 dated 2017-11-29 and 1.1 dated 2018-03-16
DESCRIPTION | 8 - MD5 | 12 +- R/fullMCMC_complexityPrior.R | 181 +++++++++++++++++++++++++------------------ build/partial.rdb |binary man/beast.Rd | 2 man/complexityPrior.Rd | 2 man/plot.beast.object.Rd | 5 - 7 files changed, 122 insertions(+), 88 deletions(-)
Title: Bivariate Pareto Models
Description: Perform competing risks analysis under bivariate Pareto models. See Shih et al. (2018) <doi:10.1080/03610926.2018.1425450> for details.
Author: Jia-Han Shih, Wei Lee
Maintainer: Jia-Han Shih <tommy355097@gmail.com>
Diff between Bivariate.Pareto versions 1.0.0 dated 2018-02-12 and 1.0.1 dated 2018-03-16
DESCRIPTION | 10 +++++----- MD5 | 30 +++++++++++++++--------------- R/Frank.Pareto.R | 2 +- R/Kendall.SNBP.R | 6 +++--- R/MLE.Frank.Pareto.R | 2 +- R/MLE.Frank.Pareto.com.R | 2 +- R/MLE.SN.Pareto.R | 2 +- R/SN.Pareto.R | 2 +- build/partial.rdb |binary man/Bivariate.Pareto-package.Rd | 4 ++-- man/Frank.Pareto.Rd | 2 +- man/Kendall.SNBP.Rd | 2 +- man/MLE.Frank.Pareto.Rd | 2 +- man/MLE.Frank.Pareto.com.Rd | 2 +- man/MLE.SN.Pareto.Rd | 2 +- man/SN.Pareto.Rd | 2 +- 16 files changed, 36 insertions(+), 36 deletions(-)
More information about Bivariate.Pareto at CRAN
Permanent link
Title: Framework for the Analysis of Genomic Prediction Data using R
Description: A collection of functions required for genomic prediction which were developed within the Synbreed project for synergistic plant and animal breeding (<http://www.synbreed.tum.de>). This covers data processing, data visualization, and analysis. All functions are embedded within the framework of a single, unified data object. The implementation is flexible with respect to a wide range of data formats in plant and animal breeding. This research was funded by the German Federal Ministry of Education and Research (BMBF) within the AgroClustEr Synbreed - Synergistic plant and animal breeding (FKZ 0315528A).
Author: Hans-Juergen Auinger, Valentin Wimmer, Theresa Albrecht, Chris-Carolin Schoen with contributions by Larry Schaeffer, Malena Erbe, Ulrike Ober, Christian Reimer, Yvonne Badke and Peter VandeHaar
Maintainer: Hans-Juergen Auinger <auinger@tum.de>
Diff between synbreed versions 0.12-6 dated 2017-04-21 and 0.12-9 dated 2018-03-16
DESCRIPTION | 16 +- MD5 | 44 +++-- NAMESPACE | 4 NEWS | 18 ++ R/LD.r | 5 R/LDMap.r | 23 +-- R/add.gpData.r |only R/codeGeno.r | 69 +++++---- R/create.gpData.r | 3 R/plot.relationshipMatrix.r | 14 + build/vignette.rds |binary inst/doc/IntroSyn.R | 72 ++++----- inst/doc/IntroSyn.Rnw | 304 +++++++++++++++++++--------------------- man/add.gpData.Rd |only man/create.gpData.Rd | 7 man/plot.relationshipMatrix.Rd | 5 vignettes/IntroSyn.Rnw | 304 +++++++++++++++++++--------------------- vignettes/IntroSyn.tex | 297 +++++++++++++++++++-------------------- vignettes/figs/cattleHist.pdf |binary vignettes/figs/genMapCattle.pdf |binary vignettes/figs/genMapMaize.pdf |binary vignettes/figs/genMapMice.pdf |binary vignettes/figs/maizeHist.pdf |binary vignettes/figs/miceHist.pdf |binary 24 files changed, 602 insertions(+), 583 deletions(-)
Title: Fast K-Mer Counting and Clustering for Biological Sequence
Analysis
Description: Contains tools for rapidly computing distance matrices
and clustering large sequence datasets using fast alignment-free
k-mer counting and recursive k-means partitioning.
See Vinga and Almeida (2003) <doi:10.1093/bioinformatics/btg005>
for a review of k-mer counting methods and applications for
biological sequence analysis.
Author: Shaun Wilkinson [aut, cre]
Maintainer: Shaun Wilkinson <shaunpwilkinson@gmail.com>
Diff between kmer versions 1.0.0 dated 2018-03-06 and 1.0.1 dated 2018-03-16
DESCRIPTION | 6 +++--- MD5 | 10 +++++----- R/otu.R | 13 +++++++------ README.md | 20 ++++++++++++-------- inst/doc/kmer-vignette.html | 4 ++-- man/otu.Rd | 2 +- 6 files changed, 30 insertions(+), 25 deletions(-)
Title: Geographical Detectors
Description: Geographical detectors for measuring spatial stratified heterogeneity,
as described in Jinfeng Wang (2010) <doi:10.1080/13658810802443457> and
Jinfeng Wang (2016) <doi:10.1016/j.ecolind.2016.02.052>. Includes the
discretization of continuous data and four primary functions of
geographical detectors.
Author: Yongze Song [aut, cre] (<https://orcid.org/0000-0003-3420-9622>)
Maintainer: Yongze Song <yongze.song@postgrad.curtin.edu.au>
Diff between GD versions 1.2 dated 2018-02-22 and 1.3 dated 2018-03-16
DESCRIPTION | 8 ++++---- MD5 | 3 ++- inst |only 3 files changed, 6 insertions(+), 5 deletions(-)