Title: Non Linear Time Series Analysis
Description: Models for non-linear time series analysis and causality detection. The main functionalities of this package consist of an implementation of the classical causality test (C.W.J.Granger 1980) <doi:10.1016/0165-1889(80)90069-X>, and a non-linear version of it based on feed-forward neural networks. This package contains also an implementation of the Transfer Entropy <doi:10.1103/PhysRevLett.85.461>, and the continuous Transfer Entropy using an approximation based on the k-nearest neighbors <doi:10.1103/PhysRevE.69.066138>. There are also some other useful tools, like the VARNN (Vector Auto-Regressive Neural Network) prediction model, the Augmented test of stationarity, and the discrete and continuous entropy and mutual information.
Author: Youssef Hmamouche [aut, cre],
Sylvain Barthelemy [cph]
Maintainer: Youssef Hmamouche <hmamoucheyussef@gmail.com>
Diff between NlinTS versions 1.3.6 dated 2019-01-15 and 1.3.7 dated 2019-01-22
DESCRIPTION | 10 ++-- MD5 | 20 ++++---- R/modues.R | 25 +++++----- build/partial.rdb |binary inst/include/nsEntropy.h | 14 ----- man/NlinTS-package.rd | 2 man/entropy_cont.Rd | 2 man/mi_cont.Rd | 16 +++--- man/te_cont.Rd | 6 +- src/CDynamicCausality.cpp | 2 src/nsEntropy.cpp | 111 ++++++++++++++++++++++++---------------------- 11 files changed, 105 insertions(+), 103 deletions(-)
Title: Estimated Marginal Means, aka Least-Squares Means
Description: Obtain estimated marginal means (EMMs) for many linear, generalized
linear, and mixed models. Compute contrasts or linear functions of EMMs,
trends, and comparisons of slopes. Plots and compact letter displays.
Least-squares means are discussed, and the term "estimated marginal means"
is suggested, in Searle, Speed, and Milliken (1980) Population marginal means
in the linear model: An alternative to least squares means, The American
Statistician 34(4), 216-221 <doi:10.1080/00031305.1980.10483031>.
Author: Russell Lenth [aut, cre, cph],
Henrik Singmann [ctb],
Jonathon Love [ctb],
Paul Buerkner [ctb],
Maxime Herve [ctb]
Maintainer: Russell Lenth <russell-lenth@uiowa.edu>
Diff between emmeans versions 1.3.1 dated 2018-12-13 and 1.3.2 dated 2019-01-22
emmeans-1.3.1/emmeans/inst/doc/clean-simple.css |only emmeans-1.3.2/emmeans/DESCRIPTION | 19 - emmeans-1.3.2/emmeans/MD5 | 92 ++--- emmeans-1.3.2/emmeans/NAMESPACE | 2 emmeans-1.3.2/emmeans/NEWS.md | 32 ++ emmeans-1.3.2/emmeans/R/aovlist-support.R | 88 ++++- emmeans-1.3.2/emmeans/R/brms-support.R | 12 emmeans-1.3.2/emmeans/R/cld-emm.R | 6 emmeans-1.3.2/emmeans/R/emm-contr.R | 60 +++ emmeans-1.3.2/emmeans/R/emmGrid-methods.R | 22 - emmeans-1.3.2/emmeans/R/emmeans.R | 11 emmeans-1.3.2/emmeans/R/gam-support.R | 55 ++- emmeans-1.3.2/emmeans/R/helpers.R | 80 ++--- emmeans-1.3.2/emmeans/R/interfacing.R | 13 emmeans-1.3.2/emmeans/R/nested.R | 3 emmeans-1.3.2/emmeans/R/ordinal-support.R | 36 -- emmeans-1.3.2/emmeans/R/ref-grid.R | 27 + emmeans-1.3.2/emmeans/R/summary.R | 8 emmeans-1.3.2/emmeans/R/zzz.R | 7 emmeans-1.3.2/emmeans/README.md | 10 emmeans-1.3.2/emmeans/build/vignette.rds |binary emmeans-1.3.2/emmeans/inst/css |only emmeans-1.3.2/emmeans/inst/doc/FAQs.html | 12 emmeans-1.3.2/emmeans/inst/doc/basics.html | 58 +-- emmeans-1.3.2/emmeans/inst/doc/comparisons.html | 84 ++--- emmeans-1.3.2/emmeans/inst/doc/confidence-intervals.html | 138 ++++---- emmeans-1.3.2/emmeans/inst/doc/interactions.html | 190 ++++++------ emmeans-1.3.2/emmeans/inst/doc/messy-data.html | 74 ++-- emmeans-1.3.2/emmeans/inst/doc/models.Rmd | 28 + emmeans-1.3.2/emmeans/inst/doc/models.html | 29 + emmeans-1.3.2/emmeans/inst/doc/sophisticated.html | 174 +++++----- emmeans-1.3.2/emmeans/inst/doc/transformations.html | 100 +++--- emmeans-1.3.2/emmeans/inst/doc/transition-from-lsmeans.html | 4 emmeans-1.3.2/emmeans/inst/doc/utilities.R | 8 emmeans-1.3.2/emmeans/inst/doc/utilities.Rmd | 40 +- emmeans-1.3.2/emmeans/inst/doc/utilities.html | 83 ++--- emmeans-1.3.2/emmeans/inst/doc/vignette-topics.Rmd | 4 emmeans-1.3.2/emmeans/inst/doc/vignette-topics.html | 12 emmeans-1.3.2/emmeans/inst/doc/xtending.Rmd | 10 emmeans-1.3.2/emmeans/inst/doc/xtending.html | 12 emmeans-1.3.2/emmeans/man/emm_options.Rd | 6 emmeans-1.3.2/emmeans/man/emmc-functions.Rd | 29 + emmeans-1.3.2/emmeans/man/extending-emmeans.Rd | 14 emmeans-1.3.2/emmeans/man/ref_grid.Rd | 22 + emmeans-1.3.2/emmeans/vignettes/models.Rmd | 28 + emmeans-1.3.2/emmeans/vignettes/utilities.Rmd | 40 +- emmeans-1.3.2/emmeans/vignettes/vignette-topics.Rmd | 4 emmeans-1.3.2/emmeans/vignettes/xtending.Rmd | 10 48 files changed, 1073 insertions(+), 723 deletions(-)
Title: R MPFR - Multiple Precision Floating-Point Reliable
Description: Arithmetic (via S4 classes and methods) for
arbitrary precision floating point numbers, including transcendental
("special") functions. To this end, the package interfaces to
the 'LGPL' licensed 'MPFR' (Multiple Precision Floating-Point Reliable) Library
which itself is based on the 'GMP' (GNU Multiple Precision) Library.
Author: Martin Maechler [aut, cre] (<https://orcid.org/0000-0002-8685-9910>)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between Rmpfr versions 0.7-1 dated 2018-07-30 and 0.7-2 dated 2019-01-22
DESCRIPTION | 20 +++++++---- MD5 | 57 +++++++++++++++++----------------- NAMESPACE | 5 ++ R/Math.R | 2 + R/Summary.R | 48 +++++++++++++++++++++++++++- R/as.R | 6 ++- R/mpfr.R | 39 ++++++++++++----------- R/special-fun.R | 8 ++-- R/unirootR.R | 4 +- TODO | 12 ++----- build/partial.rdb |binary build/vignette.rds |binary configure.ac | 4 +- inst/NEWS.Rd | 41 ++++++++++++++++++++---- inst/doc/Maechler_useR_2011-abstr.pdf |binary inst/doc/Rmpfr-pkg.Rnw | 5 ++ inst/doc/Rmpfr-pkg.pdf |binary inst/doc/log1mexp-note.pdf |binary man/Bessel_mpfr.Rd | 22 ++++++++++++- man/mpfr-class.Rd | 15 +++++++- man/mpfr-utils.Rd | 6 +-- man/optimizeR.Rd | 18 ++++++++-- man/sapplyMpfr.Rd |only man/seqMpfr.Rd | 2 - man/special-math.Rd | 12 ++++--- man/unirootR.Rd | 3 + src/convert.c | 6 +-- src/utils.c | 9 ++++- tests/create.R | 3 + vignettes/Rmpfr-pkg.Rnw | 5 ++ 30 files changed, 250 insertions(+), 102 deletions(-)
Title: Flexible and Efficient Evaluation of Principal
Surrogates/Treatment Effect Modifiers
Description: Implements estimation and testing procedures for evaluating an intermediate biomarker response as a principal surrogate of a clinical response to treatment (i.e., principal stratification effect modification analysis), as described in Juraska M, Huang Y, and Gilbert PB (2018), Inference on treatment effect modification by biomarker response in a three-phase sampling design, Biostatistics, kxy074 <doi:10.1093/biostatistics/kxy074>. The methods avoid the restrictive 'placebo structural risk' modeling assumption common to past methods and further improve robustness by the use of nonparametric kernel smoothing for biomarker density estimation. A randomized controlled two-group clinical efficacy trial is assumed with an ordered categorical or continuous univariate biomarker response measured at a fixed timepoint post-randomization and with a univariate baseline surrogate measure allowed to be observed in only a subset of trial participants with an observed biomarker response (see the flexible three-phase sampling design in the paper for details). Bootstrap-based procedures are available for pointwise and simultaneous confidence intervals and testing of four relevant hypotheses. Summary and plotting functions are provided for estimation results.
Author: Michal Juraska [aut, cre]
Maintainer: Michal Juraska <mjuraska@fredhutch.org>
Diff between pssmooth versions 1.0.1 dated 2018-09-19 and 1.0.2 dated 2019-01-22
DESCRIPTION | 10 +++++----- MD5 | 22 +++++++++++----------- NEWS |binary R/pssmooth.R | 16 ++++++++-------- README.md | 2 +- inst/CITATION | 4 ++-- man/bootRiskCurve.Rd | 7 ++++--- man/plotMCEPcurve.Rd | 5 +++-- man/riskCurve.Rd | 2 +- man/summary.riskCurve.Rd | 6 +++--- man/testConstancy.Rd | 6 +++--- man/testEquality.Rd | 6 +++--- 12 files changed, 44 insertions(+), 42 deletions(-)
Title: Interface to the National Lakes Assessment
Description: Client for programmatic access to the 2007 and 2012 National
Lakes Assessment database <https://www.epa.gov/national-aquatic-resource-surveys/nla>
containing data for hundreds of lakes in the lower 48 states of the contiguous US.
Author: Joseph Stachelek [aut, cre]
Maintainer: Joseph Stachelek <stachel2@msu.edu>
Diff between nlaR versions 0.3 dated 2018-07-13 and 0.4.0 dated 2019-01-22
DESCRIPTION | 9 +++++---- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/compile.R | 1 + build/vignette.rds |binary 5 files changed, 14 insertions(+), 8 deletions(-)
Title: Interface to the Lake Multi-Scaled Geospatial and Temporal
Database
Description: Client for programmatic access to the Lake
Multi-scaled Geospatial and Temporal database <https://lagoslakes.org>, with functions
for accessing lake water quality and ecological context data for the US.
Author: Joseph Stachelek [aut, cre] (<https://orcid.org/0000-0002-5924-2464>),
Samantha Oliver [aut] (<https://orcid.org/0000-0001-5668-1165>),
Farzan Masrour [aut]
Maintainer: Joseph Stachelek <stachel2@msu.edu>
Diff between LAGOSNE versions 1.1.0 dated 2017-12-12 and 1.2.0 dated 2019-01-22
LAGOSNE-1.1.0/LAGOSNE/inst/doc/lagos_structure.R |only LAGOSNE-1.1.0/LAGOSNE/inst/doc/lagos_structure.html |only LAGOSNE-1.1.0/LAGOSNE/inst/doc/lagos_structure.html.asis |only LAGOSNE-1.1.0/LAGOSNE/inst/doc/working_with_lagos.R |only LAGOSNE-1.1.0/LAGOSNE/inst/doc/working_with_lagos.html |only LAGOSNE-1.1.0/LAGOSNE/inst/doc/working_with_lagos.html.asis |only LAGOSNE-1.2.0/LAGOSNE/DESCRIPTION | 19 LAGOSNE-1.2.0/LAGOSNE/MD5 | 95 +- LAGOSNE-1.2.0/LAGOSNE/NAMESPACE | 8 LAGOSNE-1.2.0/LAGOSNE/NEWS.md | 24 LAGOSNE-1.2.0/LAGOSNE/R/LAGOSNE-package.R | 80 +- LAGOSNE-1.2.0/LAGOSNE/R/compile.R | 51 - LAGOSNE-1.2.0/LAGOSNE/R/coordinates.R | 2 LAGOSNE-1.2.0/LAGOSNE/R/get.R | 54 - LAGOSNE-1.2.0/LAGOSNE/R/info.R | 118 ++- LAGOSNE-1.2.0/LAGOSNE/R/ingest.R | 30 LAGOSNE-1.2.0/LAGOSNE/R/keywords.R | 5 LAGOSNE-1.2.0/LAGOSNE/R/load.R | 44 - LAGOSNE-1.2.0/LAGOSNE/R/names.R |only LAGOSNE-1.2.0/LAGOSNE/R/select.R | 24 LAGOSNE-1.2.0/LAGOSNE/R/utils.R | 34 LAGOSNE-1.2.0/LAGOSNE/R/zzz.R | 12 LAGOSNE-1.2.0/LAGOSNE/README.md | 319 ++++---- LAGOSNE-1.2.0/LAGOSNE/build/vignette.rds |binary LAGOSNE-1.2.0/LAGOSNE/inst/CITATION | 33 LAGOSNE-1.2.0/LAGOSNE/inst/doc/lagosne_structure.html | 362 +++++++++- LAGOSNE-1.2.0/LAGOSNE/inst/doc/working_with_lagosne.html | 296 +++++++- LAGOSNE-1.2.0/LAGOSNE/inst/lagos_test_subset.rds |only LAGOSNE-1.2.0/LAGOSNE/man/chag.Rd | 3 LAGOSNE-1.2.0/LAGOSNE/man/classifications.Rd | 28 LAGOSNE-1.2.0/LAGOSNE/man/conn.Rd | 7 LAGOSNE-1.2.0/LAGOSNE/man/coordinatize.Rd | 5 LAGOSNE-1.2.0/LAGOSNE/man/display_names.Rd |only LAGOSNE-1.2.0/LAGOSNE/man/epi_nutr.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/man/lagos_ingest.Rd | 6 LAGOSNE-1.2.0/LAGOSNE/man/lagoslakes.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/man/lagosne_compile.Rd | 18 LAGOSNE-1.2.0/LAGOSNE/man/lagosne_get.Rd | 10 LAGOSNE-1.2.0/LAGOSNE/man/lagosne_load.Rd | 15 LAGOSNE-1.2.0/LAGOSNE/man/lagosne_version.Rd |only LAGOSNE-1.2.0/LAGOSNE/man/lake_info.Rd | 37 - LAGOSNE-1.2.0/LAGOSNE/man/lakes_limno.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/man/lg_extent.Rd |only LAGOSNE-1.2.0/LAGOSNE/man/lg_subset.Rd | 6 LAGOSNE-1.2.0/LAGOSNE/man/locus.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/man/lulc.Rd | 11 LAGOSNE-1.2.0/LAGOSNE/man/query_lagos_names.Rd | 17 LAGOSNE-1.2.0/LAGOSNE/man/secchi.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/man/source.Rd | 2 LAGOSNE-1.2.0/LAGOSNE/tests/testthat/lagos_test_subset.rds |binary LAGOSNE-1.2.0/LAGOSNE/tests/testthat/test-lagos_load.R | 2 LAGOSNE-1.2.0/LAGOSNE/tests/testthat/test-lagos_select.R | 9 LAGOSNE-1.2.0/LAGOSNE/tests/testthat/test-lake_info.R | 21 LAGOSNE-1.2.0/LAGOSNE/tests/testthat/test-query_lagos_names.R | 5 54 files changed, 1286 insertions(+), 536 deletions(-)
Title: Configural Frequencies Analysis Using Log-Linear Modeling
Description: Offers several functions for Configural Frequencies
Analysis (CFA), which is a useful statistical tool for the analysis of
multiway contingency tables. CFA was introduced by G. A. Lienert as
'Konfigurations Frequenz Analyse - KFA'. Lienert, G. A. (1971).
Die Konfigurationsfrequenzanalyse: I. Ein neuer Weg zu Typen und Syndromen.
Zeitschrift für Klinische Psychologie und Psychotherapie, 19(2), 99–115.
Author: Joerg-Henrik Heine, R.W. Alexandrowicz (function stirling_cfa() )
and some package testing by Mark Stemmler
Maintainer: Joerg-Henrik Heine <jhheine@googlemail.com>
Diff between confreq versions 1.5.1 dated 2016-12-28 and 1.5.4-3 dated 2019-01-22
DESCRIPTION | 10 +++---- MD5 | 52 ++++++++++++++++++------------------- NAMESPACE | 1 NEWS | 10 +++++++ R/CFA.R | 30 ++++++++++++++++++--- R/confreq-package.R | 3 +- R/summary.CFA.R | 62 ++++++++++++++++++++++++++++++++++++++------- data/lazar.RData |binary man/CFA.Rd | 5 +-- man/S2CFA.Rd | 1 man/binomial_test_cfa.Rd | 1 man/chi_local_test_cfa.Rd | 1 man/confreq-package.Rd | 9 ++---- man/dat2cov.Rd | 4 +- man/dat2fre.Rd | 4 +- man/design_cfg_cfa.Rd | 5 +-- man/df_des_cfa.Rd | 1 man/expected_cfa.Rd | 1 man/expected_margin_cfa.Rd | 1 man/fre2dat.Rd | 1 man/ftab.Rd | 1 man/lr.Rd | 1 man/pos_cfg_cfa.Rd | 1 man/stirling_cfa.Rd | 7 ++--- man/summary.CFA.Rd | 11 +++++-- man/summary.S2CFA.Rd | 4 +- man/z_tests_cfa.Rd | 1 27 files changed, 148 insertions(+), 80 deletions(-)
Title: Assertive Programming for R Analysis Pipelines
Description: Provides functionality to assert conditions
that have to be met so that errors in data used in
analysis pipelines can fail quickly. Similar to
'stopifnot()' but more powerful, friendly, and easier
for use in pipelines.
Author: Tony Fischetti [aut, cre]
Maintainer: Tony Fischetti <tony.fischetti@gmail.com>
Diff between assertr versions 2.5 dated 2018-02-23 and 2.6 dated 2019-01-22
DESCRIPTION | 13 +- LICENSE | 2 MD5 | 37 +++---- NEWS | 11 ++ R/assertions.R | 45 +++++---- R/deprecated_se.R | 80 ++++++++-------- R/errors.R | 12 +- R/predicates.R | 43 ++++++-- R/utils.R | 4 README.md | 13 +- build/vignette.rds |binary inst/doc/assertr.html | 70 +++++++++----- man/chaining_functions.Rd | 3 man/insist.Rd | 7 - man/is_uniq.Rd | 5 - man/maha_dist.Rd | 3 man/verify.Rd | 3 tests/testthat/test-assertions.R | 188 +++++++++++++++++++++++++++++++++++++++ tests/testthat/test-predicates.R | 44 ++++++++- tests/testthat/test-utils.r |only 20 files changed, 441 insertions(+), 142 deletions(-)
Title: Bayesian 4 Parameter Item Response Model
Description: Estimate Barton & Lord's (1981) <doi:10.1002/j.2333-8504.1981.tb01255.x>
four parameter IRT model with lower and upper asymptotes using Bayesian
formulation described by Culpepper (2016) <doi:10.1007/s11336-015-9477-6>.
Author: Steven Andrew Culpepper [aut, cre, cph]
(<https://orcid.org/0000-0003-4226-6176>)
Maintainer: Steven Andrew Culpepper <sculpepp@illinois.edu>
Diff between fourPNO versions 1.0.4 dated 2017-04-26 and 1.0.5 dated 2019-01-22
fourPNO-1.0.4/fourPNO/man/kappa_initialize.Rd |only fourPNO-1.0.4/fourPNO/man/update_2pno.Rd |only fourPNO-1.0.4/fourPNO/man/update_WKappaZ_NA.Rd |only fourPNO-1.0.4/fourPNO/man/update_ab_NA.Rd |only fourPNO-1.0.4/fourPNO/man/update_ab_norestriction.Rd |only fourPNO-1.0.4/fourPNO/man/update_theta.Rd |only fourPNO-1.0.4/fourPNO/src/init.c |only fourPNO-1.0.5/fourPNO/DESCRIPTION | 26 fourPNO-1.0.5/fourPNO/MD5 | 43 fourPNO-1.0.5/fourPNO/NAMESPACE | 8 fourPNO-1.0.5/fourPNO/NEWS.md | 29 fourPNO-1.0.5/fourPNO/R/RcppExports.R | 550 ++++--- fourPNO-1.0.5/fourPNO/R/fourPNO-internal.R | 130 - fourPNO-1.0.5/fourPNO/README.md | 70 fourPNO-1.0.5/fourPNO/inst/CITATION | 18 fourPNO-1.0.5/fourPNO/man/Gibbs_2PNO.Rd | 12 fourPNO-1.0.5/fourPNO/man/Gibbs_4PNO.Rd | 49 fourPNO-1.0.5/fourPNO/man/Total_Tabulate.Rd | 6 fourPNO-1.0.5/fourPNO/man/Y_4pno_simulate.Rd | 6 fourPNO-1.0.5/fourPNO/man/fourPNO-package.Rd | 8 fourPNO-1.0.5/fourPNO/man/min2LL_4pno.Rd | 2 fourPNO-1.0.5/fourPNO/man/rmvnorm.Rd | 11 fourPNO-1.0.5/fourPNO/src/Makevars | 9 fourPNO-1.0.5/fourPNO/src/Makevars.win | 8 fourPNO-1.0.5/fourPNO/src/RcppExports.cpp | 137 - fourPNO-1.0.5/fourPNO/src/fourpno_101315.cpp | 1479 ++++++++++--------- 26 files changed, 1374 insertions(+), 1227 deletions(-)
Title: Visualization Package for CanvasXpress in R
Description: Enables creation of visualizations using the CanvasXpress framework
in R. CanvasXpress is a standalone JavaScript library for reproducible research
with complete tracking of data and end-user modifications stored in a single
PNG image that can be played back. See <http://canvasxpress.org> for more
information.
Author: Isaac Neuhaus [aut],
Connie Brett [aut, cre]
Maintainer: Connie Brett <connie@aggregate-genius.com>
Diff between canvasXpress versions 1.22.6 dated 2019-01-12 and 1.22.9 dated 2019-01-22
DESCRIPTION | 6 +- MD5 | 33 ++++++++-------- NEWS.md | 3 + README.md | 2 inst/doc/additional_examples.html | 4 - inst/doc/getting_started.html | 4 - inst/htmlwidgets/canvasXpress.yaml | 2 inst/htmlwidgets/lib/canvasXpress/canvasXpress.min.js | 6 +- tests/cX-ui-functions.R | 37 +++++++++++------- tests/testthat/helper-functions.R | 5 -- tests/testthat/test-manual-transform.R |only tests/testthat/test-other-custom-events.R | 2 tests/testthat/test-other-decorations.R | 23 +++++++++++ tests/testthat/test-ui-chord.R | 6 -- tests/testthat/test-ui-correlation.R | 4 + tests/testthat/test-ui-layout.R | 2 tests/testthat/test-ui-network.R | 14 +++--- tests/testthat/test-ui-radar.R | 2 18 files changed, 95 insertions(+), 60 deletions(-)
Title: Full Text of 'Scholarly' Articles Across Many Data Sources
Description: Provides a single interface to many sources of full text
'scholarly' data, including 'Biomed Central', Public Library of
Science, 'Pubmed Central', 'eLife', 'F1000Research', 'PeerJ',
'Pensoft', 'Hindawi', 'arXiv' 'preprints', and more. Functionality
included for searching for articles, downloading full or partial
text, downloading supplementary materials, converting to various
data formats.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between fulltext versions 1.1.0 dated 2018-10-19 and 1.2.0 dated 2019-01-22
fulltext-1.1.0/fulltext/R/ft_get_si.R |only fulltext-1.1.0/fulltext/R/ft_get_si_plugins.R |only fulltext-1.1.0/fulltext/R/ft_get_si_utils.R |only fulltext-1.1.0/fulltext/inst/examples/example3.pdf |only fulltext-1.1.0/fulltext/inst/examples/example4.pdf |only fulltext-1.1.0/fulltext/inst/examples/example5.pdf |only fulltext-1.1.0/fulltext/man/ft_chunks.Rd |only fulltext-1.1.0/fulltext/man/ft_get_si.Rd |only fulltext-1.1.0/fulltext/man/fulltext-deprecated.Rd |only fulltext-1.1.0/fulltext/tests/testthat/test-chunks.R |only fulltext-1.1.0/fulltext/tests/testthat/test-ft_get_si.r |only fulltext-1.2.0/fulltext/DESCRIPTION | 33 - fulltext-1.2.0/fulltext/LICENSE | 2 fulltext-1.2.0/fulltext/MD5 | 98 +-- fulltext-1.2.0/fulltext/NAMESPACE | 13 fulltext-1.2.0/fulltext/NEWS.md | 24 fulltext-1.2.0/fulltext/R/as.ft_data.R | 10 fulltext-1.2.0/fulltext/R/cache.R | 26 fulltext-1.2.0/fulltext/R/chunks.R | 452 ---------------- fulltext-1.2.0/fulltext/R/defunct.R | 21 fulltext-1.2.0/fulltext/R/europe_pmc_utils.R | 71 +- fulltext-1.2.0/fulltext/R/ft_abstract.R | 10 fulltext-1.2.0/fulltext/R/ft_get.R | 173 ++++-- fulltext-1.2.0/fulltext/R/ft_links.R | 8 fulltext-1.2.0/fulltext/R/ft_search.R | 3 fulltext-1.2.0/fulltext/R/fulltext-package.R | 54 + fulltext-1.2.0/fulltext/R/plugins_get.R | 287 +++++----- fulltext-1.2.0/fulltext/R/plugins_links.R | 7 fulltext-1.2.0/fulltext/R/plugins_search.R | 3 fulltext-1.2.0/fulltext/R/zzz.R | 34 + fulltext-1.2.0/fulltext/README.md | 126 ++-- fulltext-1.2.0/fulltext/build/vignette.rds |binary fulltext-1.2.0/fulltext/inst/doc/fulltext_vignette.Rmd | 206 ++----- fulltext-1.2.0/fulltext/inst/doc/fulltext_vignette.html | 203 ++----- fulltext-1.2.0/fulltext/inst/doc/getting_fulltext.Rmd | 54 + fulltext-1.2.0/fulltext/inst/doc/getting_fulltext.html | 54 + fulltext-1.2.0/fulltext/inst/examples/elife.xml |only fulltext-1.2.0/fulltext/inst/vign/fulltext_vignette.Rmd | 31 - fulltext-1.2.0/fulltext/inst/vign/fulltext_vignette.md | 206 ++----- fulltext-1.2.0/fulltext/inst/vign/getting_fulltext.Rmd | 13 fulltext-1.2.0/fulltext/inst/vign/getting_fulltext.md | 54 + fulltext-1.2.0/fulltext/man/as.ft_data.Rd | 10 fulltext-1.2.0/fulltext/man/cache.Rd | 17 fulltext-1.2.0/fulltext/man/eupmc.Rd | 66 +- fulltext-1.2.0/fulltext/man/ft_abstract.Rd | 10 fulltext-1.2.0/fulltext/man/ft_chunks-defunct.Rd |only fulltext-1.2.0/fulltext/man/ft_get.Rd | 50 + fulltext-1.2.0/fulltext/man/ft_get_si-defunct.Rd |only fulltext-1.2.0/fulltext/man/ft_links.Rd | 8 fulltext-1.2.0/fulltext/man/ft_search.Rd | 3 fulltext-1.2.0/fulltext/man/ft_tabularize-defunct.Rd |only fulltext-1.2.0/fulltext/man/fulltext-defunct.Rd | 3 fulltext-1.2.0/fulltext/man/fulltext-package.Rd | 52 + fulltext-1.2.0/fulltext/tests/testthat/test-caching.R |only fulltext-1.2.0/fulltext/tests/testthat/test-ft_get.r | 72 ++ fulltext-1.2.0/fulltext/tests/testthat/test-ft_search.R | 1 fulltext-1.2.0/fulltext/vignettes/fulltext_vignette.Rmd | 206 ++----- fulltext-1.2.0/fulltext/vignettes/getting_fulltext.Rmd | 54 + 58 files changed, 1264 insertions(+), 1564 deletions(-)
Title: Tools for Analyzing QTL Experiments
Description: Analysis of experimental crosses to identify genes
(called quantitative trait loci, QTLs) contributing to variation in
quantitative traits.
Author: Karl W Broman <broman@wisc.edu> and Hao Wu, with
ideas from Gary Churchill and Saunak Sen and contributions from
Danny Arends, Robert Corty, Timothee Flutre, Ritsert Jansen, Pjotr
Prins, Lars Ronnegard, Rohan Shah, Laura Shannon, Quoc Tran, Aaron
Wolen, and Brian Yandell
Maintainer: Karl W Broman <broman@wisc.edu>
Diff between qtl versions 1.42-8 dated 2018-02-19 and 1.44-9 dated 2019-01-22
qtl-1.42-8/qtl/inst/README.md |only qtl-1.42-8/qtl/inst/STATUS.txt |only qtl-1.44-9/qtl/DESCRIPTION | 14 qtl-1.44-9/qtl/MD5 | 522 +++++------ qtl-1.44-9/qtl/NEWS.md |only qtl-1.44-9/qtl/R/mqmcircleplot.R | 14 qtl-1.44-9/qtl/R/mqmprepare.R | 24 qtl-1.44-9/qtl/R/mqmutil.R | 6 qtl-1.44-9/qtl/R/plot.R | 15 qtl-1.44-9/qtl/R/plot.scanone.R | 7 qtl-1.44-9/qtl/R/read.cross.mq.R | 15 qtl-1.44-9/qtl/R/refineqtl.R | 5 qtl-1.44-9/qtl/R/util.R | 14 qtl-1.44-9/qtl/R/xchr.R | 12 qtl-1.44-9/qtl/README.md |only qtl-1.44-9/qtl/build/vignette.rds |binary qtl-1.44-9/qtl/data/badorder.RData |binary qtl-1.44-9/qtl/data/bristle3.RData |binary qtl-1.44-9/qtl/data/bristleX.RData |binary qtl-1.44-9/qtl/data/fake.4way.RData |binary qtl-1.44-9/qtl/data/fake.bc.RData |binary qtl-1.44-9/qtl/data/fake.f2.RData |binary qtl-1.44-9/qtl/data/hyper.RData |binary qtl-1.44-9/qtl/data/listeria.RData |binary qtl-1.44-9/qtl/data/locations.RData |binary qtl-1.44-9/qtl/data/map10.RData |binary qtl-1.44-9/qtl/data/mapthis.RData |binary qtl-1.44-9/qtl/data/multitrait.RData |binary qtl-1.44-9/qtl/inst/BUGS.txt | 2 qtl-1.44-9/qtl/inst/INSTALL_ME.txt | 24 qtl-1.44-9/qtl/inst/TODO.txt | 7 qtl-1.44-9/qtl/inst/contrib/scripts/repl_inputs.rb | 2 qtl-1.44-9/qtl/inst/doc/Sources/MQM/mqm/standard_seealso.txt | 2 qtl-1.44-9/qtl/inst/doc/Sources/geneticmaps.Rnw | 5 qtl-1.44-9/qtl/inst/doc/Sources/rqtltour.tex | 2 qtl-1.44-9/qtl/inst/doc/bcsft.pdf |binary qtl-1.44-9/qtl/inst/doc/geneticmaps.R | 3 qtl-1.44-9/qtl/inst/doc/geneticmaps.pdf |binary qtl-1.44-9/qtl/inst/doc/rqtltour.R | 2 qtl-1.44-9/qtl/inst/doc/rqtltour.pdf |binary qtl-1.44-9/qtl/inst/doc/rqtltour2.R | 2 qtl-1.44-9/qtl/inst/doc/rqtltour2.pdf |binary qtl-1.44-9/qtl/man/MQM.Rd | 6 qtl-1.44-9/qtl/man/a.starting.point.Rd | 14 qtl-1.44-9/qtl/man/add.cim.covar.Rd | 6 qtl-1.44-9/qtl/man/add.threshold.Rd | 10 qtl-1.44-9/qtl/man/addcovarint.Rd | 24 qtl-1.44-9/qtl/man/addint.Rd | 18 qtl-1.44-9/qtl/man/addloctocross.Rd | 4 qtl-1.44-9/qtl/man/addmarker.Rd | 2 qtl-1.44-9/qtl/man/addpair.Rd | 2 qtl-1.44-9/qtl/man/addqtl.Rd | 2 qtl-1.44-9/qtl/man/addtoqtl.Rd | 6 qtl-1.44-9/qtl/man/allchrsplits.Rd | 8 qtl-1.44-9/qtl/man/argmax.geno.Rd | 10 qtl-1.44-9/qtl/man/arithscan.Rd | 2 qtl-1.44-9/qtl/man/arithscanperm.Rd | 8 qtl-1.44-9/qtl/man/badorder.Rd | 10 qtl-1.44-9/qtl/man/bayesint.Rd | 6 qtl-1.44-9/qtl/man/bristle3.Rd | 10 qtl-1.44-9/qtl/man/bristleX.Rd | 10 qtl-1.44-9/qtl/man/c.cross.Rd | 2 qtl-1.44-9/qtl/man/c.scanone.Rd | 8 qtl-1.44-9/qtl/man/c.scanoneperm.Rd | 4 qtl-1.44-9/qtl/man/c.scantwo.Rd | 4 qtl-1.44-9/qtl/man/c.scantwoperm.Rd | 2 qtl-1.44-9/qtl/man/calc.errorlod.Rd | 14 qtl-1.44-9/qtl/man/calc.genoprob.Rd | 10 qtl-1.44-9/qtl/man/calc.penalties.Rd | 2 qtl-1.44-9/qtl/man/cbind.scanoneperm.Rd | 6 qtl-1.44-9/qtl/man/cbind.scantwoperm.Rd | 2 qtl-1.44-9/qtl/man/checkAlleles.Rd | 4 qtl-1.44-9/qtl/man/chrlen.Rd | 4 qtl-1.44-9/qtl/man/chrnames.Rd | 2 qtl-1.44-9/qtl/man/cim.Rd | 18 qtl-1.44-9/qtl/man/clean.cross.Rd | 2 qtl-1.44-9/qtl/man/clean.scantwo.Rd | 4 qtl-1.44-9/qtl/man/cleanGeno.Rd | 6 qtl-1.44-9/qtl/man/comparecrosses.Rd | 6 qtl-1.44-9/qtl/man/comparegeno.Rd | 4 qtl-1.44-9/qtl/man/compareorder.Rd | 14 qtl-1.44-9/qtl/man/condense.scantwo.Rd | 4 qtl-1.44-9/qtl/man/convert.map.Rd | 4 qtl-1.44-9/qtl/man/convert.scanone.Rd | 4 qtl-1.44-9/qtl/man/convert.scantwo.Rd | 4 qtl-1.44-9/qtl/man/convert2riself.Rd | 2 qtl-1.44-9/qtl/man/convert2risib.Rd | 2 qtl-1.44-9/qtl/man/convert2sa.Rd | 4 qtl-1.44-9/qtl/man/countXO.Rd | 6 qtl-1.44-9/qtl/man/drop.dupmarkers.Rd | 2 qtl-1.44-9/qtl/man/drop.markers.Rd | 2 qtl-1.44-9/qtl/man/drop.nullmarkers.Rd | 4 qtl-1.44-9/qtl/man/dropfromqtl.Rd | 6 qtl-1.44-9/qtl/man/droponemarker.Rd | 10 qtl-1.44-9/qtl/man/effectplot.Rd | 10 qtl-1.44-9/qtl/man/effectscan.Rd | 10 qtl-1.44-9/qtl/man/est.map.Rd | 2 qtl-1.44-9/qtl/man/est.rf.Rd | 4 qtl-1.44-9/qtl/man/fake.4way.Rd | 12 qtl-1.44-9/qtl/man/fake.bc.Rd | 12 qtl-1.44-9/qtl/man/fake.f2.Rd | 14 qtl-1.44-9/qtl/man/fill.geno.Rd | 8 qtl-1.44-9/qtl/man/find.marker.Rd | 8 qtl-1.44-9/qtl/man/find.markerpos.Rd | 4 qtl-1.44-9/qtl/man/find.pseudomarker.Rd | 6 qtl-1.44-9/qtl/man/findDupMarkers.Rd | 4 qtl-1.44-9/qtl/man/findmarkerindex.Rd | 4 qtl-1.44-9/qtl/man/fitqtl.Rd | 2 qtl-1.44-9/qtl/man/fitstahl.Rd | 16 qtl-1.44-9/qtl/man/flip.order.Rd | 2 qtl-1.44-9/qtl/man/formLinkageGroups.Rd | 2 qtl-1.44-9/qtl/man/formMarkerCovar.Rd | 2 qtl-1.44-9/qtl/man/geno.crosstab.Rd | 2 qtl-1.44-9/qtl/man/geno.image.Rd | 7 qtl-1.44-9/qtl/man/geno.table.Rd | 2 qtl-1.44-9/qtl/man/getid.Rd | 4 qtl-1.44-9/qtl/man/groupclusteredheatmap.Rd | 2 qtl-1.44-9/qtl/man/inferFounderHap.Rd | 4 qtl-1.44-9/qtl/man/inferredpartitions.Rd | 10 qtl-1.44-9/qtl/man/interpPositions.Rd | 6 qtl-1.44-9/qtl/man/jittermap.Rd | 4 qtl-1.44-9/qtl/man/locateXO.Rd | 4 qtl-1.44-9/qtl/man/locations.Rd | 32 qtl-1.44-9/qtl/man/lodint.Rd | 6 qtl-1.44-9/qtl/man/makeqtl.Rd | 10 qtl-1.44-9/qtl/man/map10.Rd | 6 qtl-1.44-9/qtl/man/map2table.Rd | 2 qtl-1.44-9/qtl/man/mapthis.Rd | 4 qtl-1.44-9/qtl/man/markerlrt.Rd | 2 qtl-1.44-9/qtl/man/markernames.Rd | 2 qtl-1.44-9/qtl/man/max.scanPhyloQTL.Rd | 18 qtl-1.44-9/qtl/man/max.scanone.Rd | 2 qtl-1.44-9/qtl/man/max.scantwo.Rd | 2 qtl-1.44-9/qtl/man/movemarker.Rd | 6 qtl-1.44-9/qtl/man/mqmaugment.Rd | 4 qtl-1.44-9/qtl/man/mqmautocofactors.Rd | 4 qtl-1.44-9/qtl/man/mqmextractmarkers.Rd | 4 qtl-1.44-9/qtl/man/mqmfind.marker.Rd | 4 qtl-1.44-9/qtl/man/mqmgetmodel.Rd | 4 qtl-1.44-9/qtl/man/mqmpermutation.Rd | 4 qtl-1.44-9/qtl/man/mqmplotcircle.Rd | 2 qtl-1.44-9/qtl/man/mqmplotcistrans.Rd | 2 qtl-1.44-9/qtl/man/mqmplotclusteredheatmap.Rd | 2 qtl-1.44-9/qtl/man/mqmplotcofactors.Rd | 2 qtl-1.44-9/qtl/man/mqmplotdirectedqtl.Rd | 2 qtl-1.44-9/qtl/man/mqmplotheatmap.Rd | 2 qtl-1.44-9/qtl/man/mqmplotmultitrait.Rd | 2 qtl-1.44-9/qtl/man/mqmplotpermutations.Rd | 2 qtl-1.44-9/qtl/man/mqmplotsingletrait.Rd | 2 qtl-1.44-9/qtl/man/mqmprocesspermutation.Rd | 4 qtl-1.44-9/qtl/man/mqmscan.Rd | 4 qtl-1.44-9/qtl/man/mqmscanall.Rd | 4 qtl-1.44-9/qtl/man/mqmscanfdr.Rd | 4 qtl-1.44-9/qtl/man/mqmsetcofactors.Rd | 4 qtl-1.44-9/qtl/man/mqmtestnormal.Rd | 2 qtl-1.44-9/qtl/man/multitrait.Rd | 16 qtl-1.44-9/qtl/man/nchr.Rd | 2 qtl-1.44-9/qtl/man/nind.Rd | 2 qtl-1.44-9/qtl/man/nmar.Rd | 2 qtl-1.44-9/qtl/man/nmissing.Rd | 2 qtl-1.44-9/qtl/man/nphe.Rd | 2 qtl-1.44-9/qtl/man/nqrank.Rd | 4 qtl-1.44-9/qtl/man/nqtl.Rd | 2 qtl-1.44-9/qtl/man/ntyped.Rd | 2 qtl-1.44-9/qtl/man/nullmarkers.Rd | 4 qtl-1.44-9/qtl/man/orderMarkers.Rd | 4 qtl-1.44-9/qtl/man/phenames.Rd | 2 qtl-1.44-9/qtl/man/pickMarkerSubset.Rd | 7 qtl-1.44-9/qtl/man/plot.cross.Rd | 14 qtl-1.44-9/qtl/man/plot.errorlod.Rd | 2 qtl-1.44-9/qtl/man/plot.geno.Rd | 2 qtl-1.44-9/qtl/man/plot.info.Rd | 2 qtl-1.44-9/qtl/man/plot.map.Rd | 6 qtl-1.44-9/qtl/man/plot.missing.Rd | 2 qtl-1.44-9/qtl/man/plot.pheno.Rd | 2 qtl-1.44-9/qtl/man/plot.pxg.Rd | 2 qtl-1.44-9/qtl/man/plot.qtl.Rd | 6 qtl-1.44-9/qtl/man/plot.rf.Rd | 2 qtl-1.44-9/qtl/man/plot.rfmatrix.Rd | 2 qtl-1.44-9/qtl/man/plot.scanPhyloQTL.Rd | 16 qtl-1.44-9/qtl/man/plot.scanone.Rd | 8 qtl-1.44-9/qtl/man/plot.scanoneboot.Rd | 6 qtl-1.44-9/qtl/man/plot.scanoneperm.Rd | 12 qtl-1.44-9/qtl/man/plot.scantwo.Rd | 2 qtl-1.44-9/qtl/man/plot.scantwoperm.Rd | 2 qtl-1.44-9/qtl/man/plotLodProfile.Rd | 10 qtl-1.44-9/qtl/man/plotModel.Rd | 6 qtl-1.44-9/qtl/man/pull.argmaxgeno.Rd | 4 qtl-1.44-9/qtl/man/pull.draws.Rd | 2 qtl-1.44-9/qtl/man/pull.geno.Rd | 4 qtl-1.44-9/qtl/man/pull.genoprob.Rd | 4 qtl-1.44-9/qtl/man/pull.map.Rd | 2 qtl-1.44-9/qtl/man/pull.markers.Rd | 2 qtl-1.44-9/qtl/man/pull.pheno.Rd | 4 qtl-1.44-9/qtl/man/pull.rf.Rd | 2 qtl-1.44-9/qtl/man/qtl-internal.Rd | 2 qtl-1.44-9/qtl/man/qtlversion.Rd | 2 qtl-1.44-9/qtl/man/read.cross.Rd | 10 qtl-1.44-9/qtl/man/readMWril.Rd | 2 qtl-1.44-9/qtl/man/reduce2grid.Rd | 2 qtl-1.44-9/qtl/man/refineqtl.Rd | 2 qtl-1.44-9/qtl/man/reorderqtl.Rd | 4 qtl-1.44-9/qtl/man/replace.map.Rd | 2 qtl-1.44-9/qtl/man/replacemap.scanone.Rd | 6 qtl-1.44-9/qtl/man/replacemap.scantwo.Rd | 6 qtl-1.44-9/qtl/man/replaceqtl.Rd | 10 qtl-1.44-9/qtl/man/rescalemap.Rd | 4 qtl-1.44-9/qtl/man/ripple.Rd | 8 qtl-1.44-9/qtl/man/scanPhyloQTL.Rd | 12 qtl-1.44-9/qtl/man/scanone.Rd | 2 qtl-1.44-9/qtl/man/scanoneboot.Rd | 22 qtl-1.44-9/qtl/man/scantwo.Rd | 2 qtl-1.44-9/qtl/man/scantwopermhk.Rd | 2 qtl-1.44-9/qtl/man/shiftmap.Rd | 4 qtl-1.44-9/qtl/man/sim.cross.Rd | 2 qtl-1.44-9/qtl/man/sim.geno.Rd | 12 qtl-1.44-9/qtl/man/sim.map.Rd | 6 qtl-1.44-9/qtl/man/simFounderSnps.Rd | 10 qtl-1.44-9/qtl/man/simPhyloQTL.Rd | 22 qtl-1.44-9/qtl/man/simulateMissingData.Rd | 2 qtl-1.44-9/qtl/man/stepwiseqtl.Rd | 2 qtl-1.44-9/qtl/man/strip.partials.Rd | 2 qtl-1.44-9/qtl/man/subset.cross.Rd | 6 qtl-1.44-9/qtl/man/subset.map.Rd | 4 qtl-1.44-9/qtl/man/subset.scanone.Rd | 6 qtl-1.44-9/qtl/man/subset.scanoneperm.Rd | 6 qtl-1.44-9/qtl/man/subset.scantwo.Rd | 6 qtl-1.44-9/qtl/man/subset.scantwoperm.Rd | 2 qtl-1.44-9/qtl/man/summary.cross.Rd | 2 qtl-1.44-9/qtl/man/summary.fitqtl.Rd | 4 qtl-1.44-9/qtl/man/summary.map.Rd | 6 qtl-1.44-9/qtl/man/summary.qtl.Rd | 6 qtl-1.44-9/qtl/man/summary.ripple.Rd | 4 qtl-1.44-9/qtl/man/summary.scanPhyloQTL.Rd | 16 qtl-1.44-9/qtl/man/summary.scanone.Rd | 2 qtl-1.44-9/qtl/man/summary.scanoneboot.Rd | 2 qtl-1.44-9/qtl/man/summary.scanoneperm.Rd | 2 qtl-1.44-9/qtl/man/summary.scantwo.Rd | 2 qtl-1.44-9/qtl/man/summary.scantwo.old.Rd | 2 qtl-1.44-9/qtl/man/summary.scantwoperm.Rd | 2 qtl-1.44-9/qtl/man/switch.order.Rd | 2 qtl-1.44-9/qtl/man/switchAlleles.Rd | 4 qtl-1.44-9/qtl/man/table2map.Rd | 2 qtl-1.44-9/qtl/man/top.errorlod.Rd | 4 qtl-1.44-9/qtl/man/totmar.Rd | 2 qtl-1.44-9/qtl/man/transformPheno.Rd | 4 qtl-1.44-9/qtl/man/tryallpositions.Rd | 12 qtl-1.44-9/qtl/man/typingGap.Rd | 6 qtl-1.44-9/qtl/man/write.cross.Rd | 14 qtl-1.44-9/qtl/man/xaxisloc.scanone.Rd | 12 qtl-1.44-9/qtl/src/Makevars | 3 qtl-1.44-9/qtl/src/discan_covar.h | 71 - qtl-1.44-9/qtl/src/hmm_ri8selfIRIP1.c | 102 +- qtl-1.44-9/qtl/src/hmm_ri8selfIRIP1.h | 57 - qtl-1.44-9/qtl/src/mqm.h | 4 qtl-1.44-9/qtl/src/mqmaugment.h | 21 qtl-1.44-9/qtl/src/mqmeliminate.h | 8 qtl-1.44-9/qtl/src/mqmmapqtl.h | 2 qtl-1.44-9/qtl/src/mqmmixture.h | 4 qtl-1.44-9/qtl/src/mqmregression.h | 6 qtl-1.44-9/qtl/src/mqmscan.h | 6 qtl-1.44-9/qtl/src/util.c | 38 qtl-1.44-9/qtl/src/util.h | 12 qtl-1.44-9/qtl/src/zeroin.c | 152 +-- 264 files changed, 1174 insertions(+), 1147 deletions(-)
Title: Magnitude-Based Inferences
Description: Allows practitioners and researchers a wholesale approach for deriving magnitude-based inferences from raw data. A major goal of 'mbir' is to programmatically detect appropriate statistical tests to run in lieu of relying on practitioners to determine correct stepwise procedures independently.
Author: Kyle Peterson [aut, cre],
Aaron Caldwell [aut]
Maintainer: Kyle Peterson <petersonkdon@gmail.com>
Diff between mbir versions 1.3.4 dated 2018-09-17 and 1.3.5 dated 2019-01-22
mbir-1.3.4/mbir/vignettes/my-vignette.R |only mbir-1.3.5/mbir/DESCRIPTION | 8 +- mbir-1.3.5/mbir/MD5 | 13 ++-- mbir-1.3.5/mbir/R/swc_ind.R | 76 ++++++++++++++++++---------- mbir-1.3.5/mbir/inst/doc/mbir-vignette.R | 11 ++-- mbir-1.3.5/mbir/inst/doc/mbir-vignette.Rmd | 7 ++ mbir-1.3.5/mbir/inst/doc/mbir-vignette.html | 16 ++--- mbir-1.3.5/mbir/vignettes/mbir-vignette.Rmd | 7 ++ 8 files changed, 87 insertions(+), 51 deletions(-)
Title: Identification of Cell Types and Inference of Lineage Trees from
Single-Cell RNA-Seq Data
Description: Application of 'RaceID' allows inference of cell types and prediction of lineage trees by he StemID2 algorithm. Herman, J.S., Sagar, Grün D. (2018) <DOI:10.1038/nmeth.4662>.
Author: Dominic Grün <dominic.gruen@gmail.com>
Maintainer: Dominic Grün <dominic.gruen@gmail.com>
Diff between RaceID versions 0.1.2 dated 2018-11-13 and 0.1.3 dated 2019-01-22
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/RaceID.R | 2 +- inst/doc/RaceID.html | 4 ++-- 4 files changed, 10 insertions(+), 10 deletions(-)
Title: Comparison of Phylogenetic Trees Using Quartet and Bipartition
Measures
Description: Calculates the number of four-taxon subtrees consistent with a pair
of cladograms, calculating the symmetric quartet distance of Bandelt & Dress (1986),
Reconstructing the shape of a tree from observed dissimilarity data,
Advances in Applied Mathematics, 7, 309-343 <doi:10.1016/0196-8858(86)90038-2>,
and using the tqDist algorithm of Sand et al. (2014), tqDist: a library for
computing the quartet and triplet distances between binary or general trees,
Bioinformatics, 30, 2079–2080 <doi:10.1093/bioinformatics/btu157>
for pairs of bifurcating trees.
Author: Martin R. Smith [aut, cre, cph]
(<https://orcid.org/0000-0001-5660-1727>),
Andreas Sand [ant],
Gerth Stølting Brodal [ant],
Rolf Fagerberg [ant],
Thomas Mailund [ant],
Christian N. S. Pedersen [ant],
Jens Johansen [ant],
Morten K. Holt [ant]
Maintainer: Martin R. Smith <martin.smith@durham.ac.uk>
Diff between Quartet versions 1.0.0 dated 2019-01-16 and 1.0.1 dated 2019-01-22
DESCRIPTION | 13 ++--- MD5 | 81 ++++++++++++++++++------------------ NEWS.md | 4 + R/ReleaseQuestions.R |only R/TreeManipulation.R | 2 README.md | 28 ++++++------ build/partial.rdb |binary inst/CITATION | 12 ++--- inst/REFERENCES.bib | 68 ++++++++++++++++++++++++++++++ inst/doc/Critical-distances.pdf |binary inst/doc/Tree-distance-metrics.Rmd | 30 +++++++++++++ inst/doc/Tree-distance-metrics.pdf |binary man/SimilarityMetrics.Rd | 4 + man/UnshiftTree.Rd | 2 src/AbstractDistanceCalculator.cpp | 22 +-------- src/HDT.cpp | 43 +++---------------- src/HDTCountingCCToC.cpp | 32 ++++---------- src/HDTCountingCTransform.cpp | 20 +------- src/HDTCountingG.cpp | 32 ++------------ src/HDTCountingIGToC.cpp | 12 +---- src/HDTCountingLeaf.cpp | 12 +---- src/HDTFactory.cpp | 10 ++-- src/HDTListUtils.cpp | 4 - src/NewickParser.cpp | 4 - src/Quartet-init.c | 2 src/QuartetDistanceCalculator.cpp | 7 --- src/RcppExports.cpp | 16 +++---- src/RootedTreeFactory.cpp | 6 +- src/TripletDistanceCalculator.cpp | 7 --- src/counting_linked_list.h | 15 +----- src/hdt.h | 11 +--- src/hdt_factory.h | 2 src/int_stuff.cpp | 2 src/int_stuff.h | 20 ++++---- src/rQuartetDist.cpp | 7 --- src/rTripletDist.cpp | 34 +++++++++------ src/rooted_tree.h | 6 -- src/rooted_tree_factory.h | 2 src/templated_linked_list.h | 2 src/unrooted_tree.h | 2 tests/testthat/test-1-tqdist.R | 2 vignettes/Tree-distance-metrics.Rmd | 30 +++++++++++++ 42 files changed, 308 insertions(+), 300 deletions(-)
Title: Metrics of Difference for Comparing Pairs of Maps or Pairs of
Variables
Description: Metrics of difference for comparing pairs of variables or pairs of maps representing real or categorical variables at original and multiple resolutions.
Author: Robert Gilmore Pontius Jr. <rpontius@clarku.edu>, Ali Santacruz <asantacruzdelgado@clarku.edu>
Maintainer: Ali Santacruz <amsantac@unal.edu.co>
Diff between diffeR versions 0.0-5 dated 2018-10-07 and 0.0-6 dated 2019-01-22
DESCRIPTION | 12 ++++---- MD5 | 26 +++++++++--------- NAMESPACE | 3 +- R/categoryComponentsPlot.R | 10 ++++--- R/categorySourcesPlot.R | 11 ++++--- R/crosstabm.R | 59 ++++++++++++++++++++++-------------------- R/diffTablej.R | 5 ++- R/overallSourcesPlot.R | 14 +++++++-- demo/diffMetrics.R | 8 ++--- man/categoryComponentsPlot.Rd | 26 +++++++++++++++++- man/categorySourcesPlot.Rd | 31 ++++++++++++++++++++-- man/diffTablej.Rd | 5 ++- man/diffeR-package.Rd | 5 ++- man/overallSourcesPlot.Rd | 38 ++++++++++++++++++++++++--- 14 files changed, 180 insertions(+), 73 deletions(-)
Title: Automated Cleaning of Occurrence Records from Biological
Collections
Description: Automated flagging of common spatial and temporal errors in biological and paleontological collection data, for the use in conservation, ecology and paleontology. Includes automated tests to easily flag (and exclude) records assigned to country or province centroid, the open ocean, the headquarters of the Global Biodiversity Information Facility, urban areas or the location of biodiversity institutions (museums, zoos, botanical gardens, universities). Furthermore identifies per species outlier coordinates, zero coordinates, identical latitude/longitude and invalid coordinates. Also implements an algorithm to identify data sets with a significant proportion of rounded coordinates. Especially suited for large data sets.
Author: Alexander Zizka [aut, cre],
Daniele Silvestro [ctb],
Tobias Andermann [ctb],
Josue Azevedo [ctb],
Camila Duarte Ritter [ctb],
Daniel Edler [ctb],
Harith Farooq [ctb],
Andrei Herdean [ctb],
Maria Ariza [ctb],
Ruud Scharn [ctb],
Sten Svanteson [ctb],
Niklas Wengstrom [ctb],
Vera Zizka [ctb],
Alexandre Antonelli [ctb],
Irene Steves [rev] (Irene reviewed the package for ropensci, see
<https://github.com/ropensci/onboarding/issues/210>),
Francisco Rodriguez-Sanchez [rev] (Francisco reviewed the package for
ropensci, see <https://github.com/ropensci/onboarding/issues/210>)
Maintainer: Alexander Zizka <alexander.zizka@idiv.de>
Diff between CoordinateCleaner versions 2.0-3 dated 2018-10-24 and 2.0-7 dated 2019-01-22
DESCRIPTION | 13 MD5 | 71 NEWS.md | 40 R/CoordinateCleaner-package.R | 5 R/cc_cap.R | 7 R/cc_cen.R | 2 R/cc_coun.R | 2 R/cc_outl.R | 27 R/cf_age.R | 2 R/cf_outl.R | 2 R/clean_coordinates.R | 8 R/clean_fossils.R | 6 R/write_pyrate.R | 2 README.md | 9 build/vignette.rds |binary inst/CITATION |only inst/doc/Tutorial_Cleaning_GBIF_data_with_CoordinateCleaner.R | 43 inst/doc/Tutorial_Cleaning_GBIF_data_with_CoordinateCleaner.Rmd | 50 inst/doc/Tutorial_Cleaning_GBIF_data_with_CoordinateCleaner.html | 740 +++------- inst/doc/Tutorial_Cleaning_PBDB_fossils_with_CoordinateCleaner.Rmd | 4 inst/doc/Tutorial_Cleaning_PBDB_fossils_with_CoordinateCleaner.html | 702 +++------ man/cc_cap.Rd | 7 man/cc_cen.Rd | 5 man/cc_inst.Rd | 3 man/cc_outl.Rd | 13 man/cf_age.Rd | 2 man/cf_outl.Rd | 2 man/clean_coordinates.Rd | 8 man/clean_fossils.Rd | 8 man/countryref.Rd | 5 man/write_pyrate.Rd | 2 tests/testthat/Test_fossillevel_cleaning.R | 8 tests/testthat/test_coordinatelevel_functions.R | 9 tests/testthat/test_datasetlevel_functions.R | 2 tests/testthat/test_wrapper_functions.R | 5 vignettes/Tutorial_Cleaning_GBIF_data_with_CoordinateCleaner.Rmd | 50 vignettes/Tutorial_Cleaning_PBDB_fossils_with_CoordinateCleaner.Rmd | 4 37 files changed, 837 insertions(+), 1031 deletions(-)
More information about CoordinateCleaner at CRAN
Permanent link
Title: Tune Random Forest of the 'ranger' Package
Description: Tuning random forest with one line. The package is mainly based on the packages 'ranger' and 'mlrMBO'.
Author: Philipp Probst [aut, cre],
Simon Klau [ctb]
Maintainer: Philipp Probst <philipp_probst@gmx.de>
Diff between tuneRanger versions 0.3 dated 2018-08-30 and 0.4 dated 2019-01-22
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/RLearner_classif_tuneRanger.R | 1 + R/tuneRanger.R | 4 ++-- README.md | 7 +++++-- man/restartTuneRanger.Rd | 3 ++- man/tuneRanger.Rd | 10 +++++----- 7 files changed, 26 insertions(+), 21 deletions(-)
Title: Handling Vegetation Data Sets
Description: Import and handling data from vegetation-plot databases, especially
data stored in 'Turboveg' (<https://www.synbiosys.alterra.nl/turboveg>).
Also import/export routines for exchange of data with 'Juice'
(<http://www.sci.muni.cz/botany/juice>) are implemented.
Author: Miguel Alvarez [aut, cre] (<https://orcid.org/0000-0003-1500-1834>)
Maintainer: Miguel Alvarez <kamapu78@gmail.com>
Diff between vegtable versions 0.1.3 dated 2018-06-29 and 0.1.4 dated 2019-01-22
DESCRIPTION | 17 ++++++++++------- MD5 | 26 ++++++++++++++++---------- NAMESPACE | 2 ++ NEWS.md | 18 ++++++++++++++++++ R/count_taxa.R |only R/cross2db.R | 2 +- R/taxa2samples.R |only data/Kenya_veg.rda |binary data/Wetlands.rda |binary data/aspect_conv.rda |only data/braun_blanquet.rda |binary data/dune_veg.rda |binary man/aspect_conv-data.Rd |only man/count_taxa.Rd |only man/merge_taxa.Rd | 22 +++++++++++++++++++--- man/vegtable_stat.Rd | 2 +- tests/extras/slope_conv.R |only 17 files changed, 67 insertions(+), 22 deletions(-)
Title: Panel Vector Autoregression
Description: We extend two general methods of moment estimators to panel vector
autoregression models (PVAR) with p lags of endogenous variables, predetermined
and strictly exogenous variables. This general PVAR model contains the first
difference GMM estimator by Holtz-Eakin et al. (1988) <doi:10.2307/1913103>,
Arellano and Bond (1991) <doi:10.2307/2297968> and the system GMM estimator
by Blundell and Bond (1998) <doi:10.1016/S0304-4076(98)00009-8>. We also
provide specification tests (Hansen overidentification test, lag selection
criterion and stability test of the PVAR polynomial) and classical structural
analysis for PVAR models such as orthogonal and generalized impulse response
functions, bootstrapped confidence intervals for impulse response analysis and
forecast error variance decompositions.
Author: Michael Sigmund [aut],
Robert Ferstl [aut, cre]
Maintainer: Robert Ferstl <robert.ferstl@ur.de>
Diff between panelvar versions 0.5.1 dated 2018-04-03 and 0.5.2 dated 2019-01-22
DESCRIPTION | 9 MD5 | 110 - NAMESPACE | 128 - R/Endo_Lmin_Lmax_transition_matrix.R | 212 +- R/Predetermined_Lmin_Lmax_transition_matrix.R | 186 +- R/datafiles.R | 194 +- R/helper_functions.R | 1176 ++++++------- R/panel_lag.R | 198 +- R/pca_transformation_matrix.R | 316 +-- R/pvar-methods.R | 1439 ++++++++-------- R/pvar.R | 2282 +++++++++++++------------- R/pvar_fe_ols.R | 410 ++-- R/pvarfeols-methods.R |only R/pvarhk-methods.R |only R/pvarhk.R | 590 +++--- R/rows_Q.R | 253 +- R/zzz.R | 10 build/partial.rdb |binary data/datalist | 16 data/ex1_dahlberg_data.rda |binary data/ex3_abdata.rda |binary inst/CITATION | 22 man/Andrews_Lu_MMSC.Rd | 64 man/Cigar.Rd | 78 man/Dahlberg.Rd | 78 man/abdata.Rd | 70 man/bootstrap_irf.Rd | 72 man/coef.pvarfeols.Rd |only man/coef.pvargmm.Rd | 40 man/coef.pvarhk.Rd |only man/ex1_dahlberg_data.Rd | 28 man/ex1_dahlberg_data_bs.Rd | 28 man/ex2_nlswork2_data_bs.Rd | 28 man/ex3_abdata.Rd | 28 man/extract.Rd | 53 man/fevd_orthogonal.Rd | 82 man/fixedeffects.Rd | 50 man/girf.Rd | 50 man/hansen_j_test.Rd | 46 man/knit_print.pvarfeols.Rd |only man/knit_print.pvargmm.Rd | 32 man/knit_print.pvarhk.Rd |only man/knit_print.summary.pvarfeols.Rd |only man/knit_print.summary.pvargmm.Rd | 32 man/knit_print.summary.pvarhk.Rd |only man/nlswork2.Rd | 28 man/oirf.Rd | 32 man/plot.pvarstability.Rd |only man/print.pvarfeols.Rd |only man/print.pvargmm.Rd | 32 man/print.pvarhk.Rd |only man/print.pvarstability.Rd |only man/print.summary.pvarfeols.Rd |only man/print.summary.pvargmm.Rd | 32 man/print.summary.pvarhk.Rd |only man/pvalue.Rd | 53 man/pvarfeols.Rd | 72 man/pvargmm.Rd | 287 +-- man/pvarhk.Rd | 71 man/se.Rd | 53 man/stability.Rd | 74 man/summary.pvarfeols.Rd |only man/summary.pvargmm.Rd | 32 man/summary.pvarhk.Rd |only 64 files changed, 4669 insertions(+), 4507 deletions(-)
Title: Multilevel Joint Modelling Multiple Imputation
Description: Similarly to Schafer's package 'pan', 'jomo' is a package for multilevel joint modelling multiple imputation (Carpenter and Kenward, 2013) <doi: 10.1002/9781119942283>.
Novel aspects of 'jomo' are the possibility of handling binary and categorical data through latent normal variables, the option to use cluster-specific covariance matrices and to impute compatibly with the substantive model.
Author: Matteo Quartagno, James Carpenter
Maintainer: Matteo Quartagno <m.quartagno@ucl.ac.uk>
Diff between jomo versions 2.6-5 dated 2018-11-09 and 2.6-6 dated 2019-01-22
DESCRIPTION | 8 ++++---- MD5 | 20 ++++++++++---------- R/jomo.clmm.MCMCchain.R | 2 +- R/jomo.clmm.R | 2 +- R/jomo.glm.MCMCchain.R | 2 +- R/jomo.glm.R | 2 +- R/jomo.glmer.MCMCchain.R | 2 +- R/jomo.glmer.R | 2 +- R/jomo.polr.MCMCchain.R | 2 +- R/jomo.polr.R | 2 +- inst/CITATION | 2 +- 11 files changed, 23 insertions(+), 23 deletions(-)
Title: Index Number Calculation
Description: Computes bilateral and multilateral index numbers.
It has support for several standard bilateral indices as well as
the GEKS multilateral index number methods
(see Ivancic, Diewert and Fox (2011) <doi:10.1016/j.jeconom.2010.09.003>) .
It also supports updating of GEKS indexes using several splicing methods.
Author: Graham White
Maintainer: Graham White <g.white@unswalumni.com>
Diff between IndexNumR versions 0.1.0 dated 2018-01-26 and 0.1.1 dated 2019-01-22
DESCRIPTION | 8 +-- MD5 | 35 ++++++++------- R/bilateral.R | 13 +++++ R/evaluateMatched.R | 6 ++ R/multilateral.R | 12 ++++- R/unitValues.R | 73 ++++++++++++++++++++++++++++---- R/utils.R | 53 +++++++++++++++++++++++ README.md | 4 + build/vignette.rds |binary inst/doc/indexnumr.html | 18 +++---- inst/testdata/testData_monthIndex.RData |only man/daysInMonth.Rd |only man/elasticity.Rd | 4 - man/isContinuous.Rd |only man/mixScaleDissimilarity.Rd | 4 - man/monthIndex.Rd | 15 +++++- man/relativeDissimilarity.Rd | 4 - tests/testthat/test-bilateral.R | 26 +++++++++++ tests/testthat/test-geks.R | 13 +++++ tests/testthat/test-monthIndex.R |only tests/testthat/test-utils.R |only 21 files changed, 242 insertions(+), 46 deletions(-)
Title: Flexible Gaussian Cluster Simulator
Description: Clustering is a central task in big data analyses and clusters are often Gaussian or near Gaussian. However, a flexible Gaussian cluster simulation tool with precise control over the size, variance, and spacing of the clusters in NXN dimensional space does not exist. This is why we created 'clusterlab'. The algorithm first creates X points equally spaced on the circumference of a circle in 2D space. These form the centers of each cluster to be simulated. Additional samples are added by adding Gaussian noise to each cluster center and concatenating the new sample co-ordinates. Then if the feature space is greater than 2D, the generated points are considered principal component scores and projected into N dimensional space using linear combinations using fixed eigenvectors. Through using vector rotations and scalar multiplication clusterlab can generate complex patterns of Gaussian clusters and outliers.
Author: Christopher R John
Maintainer: Christopher R John <chris.r.john86@gmail.com>
Diff between clusterlab versions 0.0.2.5 dated 2018-10-05 and 0.0.2.6 dated 2019-01-22
clusterlab-0.0.2.5/clusterlab/vignettes/introduction.html |only clusterlab-0.0.2.6/clusterlab/DESCRIPTION | 10 +-- clusterlab-0.0.2.6/clusterlab/MD5 | 11 +-- clusterlab-0.0.2.6/clusterlab/R/clusterlab.R | 39 +++++++------- clusterlab-0.0.2.6/clusterlab/build/vignette.rds |binary clusterlab-0.0.2.6/clusterlab/inst/doc/introduction.pdf |binary clusterlab-0.0.2.6/clusterlab/man/clusterlab.Rd | 4 + 7 files changed, 35 insertions(+), 29 deletions(-)
Title: Datetimes as Integers for Discrete-Event Simulations
Description: Handles datetimes as integers for the usage inside
Discrete-Event Simulations (DES). The conversion is made using
the internally generic function as.numeric() of the base
package. DES is described in Simulation Modeling and Analysis
by Averill Law and David Kelton (1999) <doi:10.2307/2288169>.
Author: Adrian Staempfli, Christoph Strauss, Michael Schmid
Maintainer: Adrian Staempfli <adrian.staempfli@fhsg.ch>
Diff between simtimer versions 3.0.0 dated 2017-12-21 and 4.0.0 dated 2019-01-22
DESCRIPTION | 10 - MD5 | 30 +-- NEWS.md | 8 R/simtimer.R | 37 ++-- README.md | 10 - inst/doc/simtimer.R | 10 - inst/doc/simtimer.Rmd | 10 - inst/doc/simtimer.html | 330 +++++++---------------------------------- man/as.datetime.Rd | 5 man/as.sim_datetime.Rd | 6 man/sim_date.Rd | 4 man/sim_time.Rd | 6 man/sim_wday.Rd | 14 - tests/testthat/helper-data.R | 8 tests/testthat/test-simtimer.R | 10 - vignettes/simtimer.Rmd | 10 - 16 files changed, 150 insertions(+), 358 deletions(-)
Title: Interactive Maps Using 'Mapbox GL JS' and 'Deck.gl'
Description: Provides a mechanism to plot an interactive map using 'Mapbox GL'
(<https://www.mapbox.com/mapbox-gl-js/api/>), a javascript library for interactive maps,
and 'Deck.gl' (<http://deck.gl/#/>), a javascript library which uses 'WebGL' for
visualising large data sets.
Author: David Cooley [aut, cre]
Maintainer: David Cooley <dcooley@symbolix.com.au>
Diff between mapdeck versions 0.1.0 dated 2018-08-16 and 0.2.1 dated 2019-01-22
mapdeck-0.1.0/mapdeck/R/map_shape_constructors.R |only mapdeck-0.1.0/mapdeck/R/scratch.R |only mapdeck-0.1.0/mapdeck/tests/testthat/test-colours.R |only mapdeck-0.1.0/mapdeck/tests/testthat/test-map_layer_sf.R |only mapdeck-0.1.0/mapdeck/tests/testthat/test-map_shape_constructors.R |only mapdeck-0.1.0/mapdeck/vignettes/img/arcs.png |only mapdeck-0.2.1/mapdeck/DESCRIPTION | 23 mapdeck-0.2.1/mapdeck/MD5 | 183 ++-- mapdeck-0.2.1/mapdeck/NAMESPACE | 44 - mapdeck-0.2.1/mapdeck/NEWS.md |only mapdeck-0.2.1/mapdeck/R/RcppExports.R |only mapdeck-0.2.1/mapdeck/R/colours.R | 127 --- mapdeck-0.2.1/mapdeck/R/legend.R |only mapdeck-0.2.1/mapdeck/R/map_data.R |only mapdeck-0.2.1/mapdeck/R/map_layer_arc.R | 266 ++++-- mapdeck-0.2.1/mapdeck/R/map_layer_geojson.R | 276 +++++- mapdeck-0.2.1/mapdeck/R/map_layer_grid.R | 152 ++- mapdeck-0.2.1/mapdeck/R/map_layer_hexagon.R |only mapdeck-0.2.1/mapdeck/R/map_layer_line.R | 213 ++--- mapdeck-0.2.1/mapdeck/R/map_layer_parameter_checks.R | 9 mapdeck-0.2.1/mapdeck/R/map_layer_path.R | 160 ++- mapdeck-0.2.1/mapdeck/R/map_layer_pointcloud.R | 223 +++-- mapdeck-0.2.1/mapdeck/R/map_layer_polygon.R | 240 +++-- mapdeck-0.2.1/mapdeck/R/map_layer_scatterplot.R | 203 +++-- mapdeck-0.2.1/mapdeck/R/map_layer_screengrid.R | 146 +-- mapdeck-0.2.1/mapdeck/R/map_layer_sf.R | 111 -- mapdeck-0.2.1/mapdeck/R/map_layer_text.R | 179 ++-- mapdeck-0.2.1/mapdeck/R/map_sf.R |only mapdeck-0.2.1/mapdeck/R/mapdeck_map.R | 47 - mapdeck-0.2.1/mapdeck/R/mapdeck_map_utilities.R | 37 mapdeck-0.2.1/mapdeck/R/mapdeck_package.R | 10 mapdeck-0.2.1/mapdeck/R/mapdeck_tokens.R | 2 mapdeck-0.2.1/mapdeck/R/transitions.R |only mapdeck-0.2.1/mapdeck/README.md | 96 +- mapdeck-0.2.1/mapdeck/build/vignette.rds |binary mapdeck-0.2.1/mapdeck/data/geojson.rda |binary mapdeck-0.2.1/mapdeck/inst/doc/mapdeck.R | 22 mapdeck-0.2.1/mapdeck/inst/doc/mapdeck.Rmd | 87 +- mapdeck-0.2.1/mapdeck/inst/doc/mapdeck.html | 189 +++- mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/arc/arc.js | 52 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/deckgl.min.js | 6 mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/geojson/geojson.js | 182 +++- mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/grid/grid.js | 35 mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/hexagon |only mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/line/line.js | 50 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/map/legend.js |only mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/map/polyline.js | 5 mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/mapbox-gl.css | 68 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/mapbox-gl.js | 13 mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/mapdeck.css | 88 ++ mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/path/path.js | 55 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/pointcloud/pointcloud.js | 53 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/polygon/polygon.js | 77 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/scatterplot/scatterplot.js | 49 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/screengrid/screengrid.js | 34 mapdeck-0.2.1/mapdeck/inst/htmlwidgets/lib/text/text.js | 49 + mapdeck-0.2.1/mapdeck/inst/htmlwidgets/mapdeck.js | 404 ++++++++-- mapdeck-0.2.1/mapdeck/inst/htmlwidgets/mapdeck.yaml | 9 mapdeck-0.2.1/mapdeck/inst/include |only mapdeck-0.2.1/mapdeck/man/add_arc.Rd | 122 ++- mapdeck-0.2.1/mapdeck/man/add_geojson.Rd | 235 ++++- mapdeck-0.2.1/mapdeck/man/add_grid.Rd | 57 + mapdeck-0.2.1/mapdeck/man/add_hexagon.Rd |only mapdeck-0.2.1/mapdeck/man/add_line.Rd | 132 ++- mapdeck-0.2.1/mapdeck/man/add_path.Rd | 121 ++ mapdeck-0.2.1/mapdeck/man/add_pointcloud.Rd | 140 +++ mapdeck-0.2.1/mapdeck/man/add_polygon.Rd | 177 +++- mapdeck-0.2.1/mapdeck/man/add_scatterplot.Rd | 143 +++ mapdeck-0.2.1/mapdeck/man/add_screengrid.Rd | 44 - mapdeck-0.2.1/mapdeck/man/add_sf.Rd |only mapdeck-0.2.1/mapdeck/man/add_text.Rd | 114 ++ mapdeck-0.2.1/mapdeck/man/clear.Rd |only mapdeck-0.2.1/mapdeck/man/clear_legend.Rd |only mapdeck-0.2.1/mapdeck/man/mapdeck.Rd | 14 mapdeck-0.2.1/mapdeck/man/mapdeck_style.Rd | 4 mapdeck-0.2.1/mapdeck/man/mapdeck_update.Rd | 3 mapdeck-0.2.1/mapdeck/man/mapdeck_view.Rd | 10 mapdeck-0.2.1/mapdeck/man/pipe.Rd | 6 mapdeck-0.2.1/mapdeck/src |only mapdeck-0.2.1/mapdeck/tests/testthat/test-htmlwidget_dependencies.R | 3 mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_arc.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_grid.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_hexagon.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_line.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_path.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_pointcloud.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_polygon.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_scatterplot.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_screengrid.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layer_text.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-layers_cleared.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-legends.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-map_layer_parameters.R | 2 mapdeck-0.2.1/mapdeck/tests/testthat/test-map_layers.R | 112 +- mapdeck-0.2.1/mapdeck/tests/testthat/test-map_utilities.R | 10 mapdeck-0.2.1/mapdeck/tests/testthat/test-sf_functions.R |only mapdeck-0.2.1/mapdeck/tests/testthat/test-transitions.R |only mapdeck-0.2.1/mapdeck/vignettes/mapdeck.Rmd | 87 +- 98 files changed, 4071 insertions(+), 1739 deletions(-)
Title: Construct Complex Table with 'kable' and Pipe Syntax
Description: Build complex HTML or 'LaTeX' tables using 'kable()' from 'knitr'
and the piping syntax from 'magrittr'. Function 'kable()' is a light weight
table generator coming from 'knitr'. This package simplifies the way to
manipulate the HTML or 'LaTeX' codes generated by 'kable()' and allows
users to construct complex tables and customize styles using a readable
syntax.
Author: Hao Zhu [aut, cre] (<https://orcid.org/0000-0002-3386-6076>),
Thomas Travison [ctb],
Timothy Tsai [ctb],
Will Beasley [ctb],
Yihui Xie [ctb],
GuangChuang Yu [ctb],
Stéphane Laurent [ctb],
Rob Shepherd [ctb],
Yoni Sidi [ctb],
Brian Salzer [ctb],
George Gui [ctb],
Yeliang Fan [ctb],
Duncan Murdoch [ctb]
Maintainer: Hao Zhu <haozhu233@gmail.com>
Diff between kableExtra versions 1.0.0 dated 2019-01-16 and 1.0.1 dated 2019-01-22
DESCRIPTION | 6 MD5 | 24 +-- R/kable_xml.R | 4 R/magic_mirror.R | 122 ++++++++---------- R/print.R | 2 R/save_kable.R | 11 + R/util.R | 14 ++ inst/NEWS.md | 8 + inst/doc/awesome_table_in_html.html | 18 +- inst/doc/awesome_table_in_pdf.pdf |binary inst/doc/best_practice_for_newline_in_latex_table.pdf |binary inst/doc/legacy_features.html | 4 inst/doc/use_kableExtra_with_formattable.html | 4 13 files changed, 121 insertions(+), 96 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2018-01-03 0.1.3
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-01-21 1.2.1
Title: Graphical Model Stability and Variable Selection Procedures
Description: Model stability and variable inclusion plots [Mueller and Welsh
(2010, <doi:10.1111/j.1751-5823.2010.00108.x>); Murray, Heritier and Mueller
(2013, <doi:10.1002/sim.5855>)] as well as the adaptive fence [Jiang et al.
(2008, <doi:10.1214/07-AOS517>); Jiang et al.
(2009, <doi:10.1016/j.spl.2008.10.014>)] for linear and generalised linear models.
Author: Garth Tarr [aut, cre],
Samuel Mueller [aut],
Alan H Welsh [aut]
Maintainer: Garth Tarr <garth.tarr@gmail.com>
Diff between mplot versions 1.0.1 dated 2018-02-14 and 1.0.2 dated 2019-01-22
DESCRIPTION | 10 +- MD5 | 23 ++--- NAMESPACE | 1 NEWS | 6 + R/af.R | 2 R/bglmnet.R | 4 R/sstab.R |only R/vis.R | 216 ++++++++++++++++++++++++++-------------------------- man/af.Rd | 3 man/plot.af.Rd | 12 +- man/plot.bglmnet.Rd | 16 +-- man/plot.vis.Rd | 4 man/vis.Rd | 6 - 13 files changed, 159 insertions(+), 144 deletions(-)
Title: Generate Descriptive Statistics
Description: Generate descriptive statistics such as measures of location,
dispersion, frequency tables, cross tables, group summaries and multiple
one/two way tables.
Author: Aravind Hebbali [aut, cre] (<https://orcid.org/0000-0001-9220-9669>)
Maintainer: Aravind Hebbali <hebbali.aravind@gmail.com>
Diff between descriptr versions 0.4.1 dated 2018-03-20 and 0.5.0 dated 2019-01-22
descriptr-0.4.1/descriptr/R/ds-freq-cont.R |only descriptr-0.4.1/descriptr/inst/application |only descriptr-0.4.1/descriptr/inst/doc/descriptive-stats.R |only descriptr-0.4.1/descriptr/inst/doc/descriptive-stats.Rmd |only descriptr-0.4.1/descriptr/inst/doc/descriptive-stats.html |only descriptr-0.4.1/descriptr/inst/doc/distributions.R |only descriptr-0.4.1/descriptr/inst/doc/distributions.Rmd |only descriptr-0.4.1/descriptr/inst/doc/distributions.html |only descriptr-0.4.1/descriptr/man/ds_freq_cont.Rd |only descriptr-0.4.1/descriptr/man/ds_multi_stats.Rd |only descriptr-0.4.1/descriptr/man/ds_oway_tables.Rd |only descriptr-0.4.1/descriptr/tests/figs/ds-cross-table/cross-mosaic.svg |only descriptr-0.4.1/descriptr/tests/figs/ds-freq-cont |only descriptr-0.4.1/descriptr/tests/figs/ds-group-summary |only descriptr-0.4.1/descriptr/tests/figs/freq-table |only descriptr-0.4.1/descriptr/tests/testthat/test-freq-cont.R |only descriptr-0.4.1/descriptr/tests/testthat/test-mult-table.R |only descriptr-0.4.1/descriptr/vignettes/descriptive-stats.Rmd |only descriptr-0.4.1/descriptr/vignettes/distributions.Rmd |only descriptr-0.5.0/descriptr/DESCRIPTION | 30 descriptr-0.5.0/descriptr/MD5 | 244 ++----- descriptr-0.5.0/descriptr/NAMESPACE | 138 ---- descriptr-0.5.0/descriptr/NEWS.md | 36 + descriptr-0.5.0/descriptr/R/dist-binomial.R | 213 ------ descriptr-0.5.0/descriptr/R/dist-chisquare.R | 264 ------- descriptr-0.5.0/descriptr/R/dist-f.R | 286 -------- descriptr-0.5.0/descriptr/R/dist-normal.R | 322 --------- descriptr-0.5.0/descriptr/R/dist-t.R | 317 --------- descriptr-0.5.0/descriptr/R/ds-auto-summary.R |only descriptr-0.5.0/descriptr/R/ds-cross-mult.R | 97 +- descriptr-0.5.0/descriptr/R/ds-cross-table.R | 234 +++--- descriptr-0.5.0/descriptr/R/ds-describe.R | 336 ++++------ descriptr-0.5.0/descriptr/R/ds-freq-factor.R |only descriptr-0.5.0/descriptr/R/ds-freq-mult.R | 66 - descriptr-0.5.0/descriptr/R/ds-freq-numeric.R |only descriptr-0.5.0/descriptr/R/ds-freq-table.R | 189 +---- descriptr-0.5.0/descriptr/R/ds-group-summary.R | 115 +-- descriptr-0.5.0/descriptr/R/ds-launch-shiny-app.R | 26 descriptr-0.5.0/descriptr/R/ds-mult-table.R | 134 ++- descriptr-0.5.0/descriptr/R/ds-multistats.R | 60 + descriptr-0.5.0/descriptr/R/ds-output.R | 10 descriptr-0.5.0/descriptr/R/ds-plots.R |only descriptr-0.5.0/descriptr/R/ds-screener.R | 126 ++- descriptr-0.5.0/descriptr/R/ds-summary-stats.R | 149 ++-- descriptr-0.5.0/descriptr/R/ds-utils.R | 149 +--- descriptr-0.5.0/descriptr/R/zzz.R |only descriptr-0.5.0/descriptr/README.md | 175 ++--- descriptr-0.5.0/descriptr/build/vignette.rds |binary descriptr-0.5.0/descriptr/inst/doc/categorical-data.R |only descriptr-0.5.0/descriptr/inst/doc/categorical-data.Rmd |only descriptr-0.5.0/descriptr/inst/doc/categorical-data.html |only descriptr-0.5.0/descriptr/inst/doc/continuous-data.R |only descriptr-0.5.0/descriptr/inst/doc/continuous-data.Rmd |only descriptr-0.5.0/descriptr/inst/doc/continuous-data.html |only descriptr-0.5.0/descriptr/inst/doc/visualization.R |only descriptr-0.5.0/descriptr/inst/doc/visualization.Rmd |only descriptr-0.5.0/descriptr/inst/doc/visualization.html |only descriptr-0.5.0/descriptr/man/dist_binom_plot.Rd | 10 descriptr-0.5.0/descriptr/man/dist_chi_plot.Rd | 10 descriptr-0.5.0/descriptr/man/dist_f_plot.Rd | 14 descriptr-0.5.0/descriptr/man/dist_norm_plot.Rd | 13 descriptr-0.5.0/descriptr/man/dist_t.Rd | 10 descriptr-0.5.0/descriptr/man/ds_auto_freq_table.Rd |only descriptr-0.5.0/descriptr/man/ds_auto_group_summary.Rd |only descriptr-0.5.0/descriptr/man/ds_auto_summary_stats.Rd |only descriptr-0.5.0/descriptr/man/ds_cross_table.Rd | 10 descriptr-0.5.0/descriptr/man/ds_css.Rd | 9 descriptr-0.5.0/descriptr/man/ds_cvar.Rd | 6 descriptr-0.5.0/descriptr/man/ds_freq_table.Rd | 37 - descriptr-0.5.0/descriptr/man/ds_gmean.Rd | 6 descriptr-0.5.0/descriptr/man/ds_group_summary.Rd | 7 descriptr-0.5.0/descriptr/man/ds_hmean.Rd | 6 descriptr-0.5.0/descriptr/man/ds_kurtosis.Rd | 6 descriptr-0.5.0/descriptr/man/ds_launch_shiny_app.Rd | 1 descriptr-0.5.0/descriptr/man/ds_mdev.Rd | 6 descriptr-0.5.0/descriptr/man/ds_measures_location.Rd | 6 descriptr-0.5.0/descriptr/man/ds_measures_symmetry.Rd | 6 descriptr-0.5.0/descriptr/man/ds_measures_variation.Rd | 6 descriptr-0.5.0/descriptr/man/ds_mode.Rd | 6 descriptr-0.5.0/descriptr/man/ds_percentiles.Rd | 6 descriptr-0.5.0/descriptr/man/ds_plot_bar.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_bar_grouped.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_bar_stacked.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_box_group.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_box_single.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_density.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_histogram.Rd |only descriptr-0.5.0/descriptr/man/ds_plot_scatter.Rd |only descriptr-0.5.0/descriptr/man/ds_range.Rd | 6 descriptr-0.5.0/descriptr/man/ds_rindex.Rd | 6 descriptr-0.5.0/descriptr/man/ds_screener.Rd | 11 descriptr-0.5.0/descriptr/man/ds_skewness.Rd | 6 descriptr-0.5.0/descriptr/man/ds_summary_stats.Rd | 13 descriptr-0.5.0/descriptr/man/ds_tailobs.Rd | 6 descriptr-0.5.0/descriptr/man/ds_tidy_stats.Rd |only descriptr-0.5.0/descriptr/tests/figs/deps.txt | 6 descriptr-0.5.0/descriptr/tests/figs/ds-cross-table/cross-bar-proportional.svg | 86 +- descriptr-0.5.0/descriptr/tests/figs/ds-cross-table/cross-bar-stacked.svg | 76 +- descriptr-0.5.0/descriptr/tests/figs/ds-cross-table/cross-bar.svg | 88 +- descriptr-0.5.0/descriptr/tests/testthat/test-auto-summary.R |only descriptr-0.5.0/descriptr/tests/testthat/test-binom-dist.R | 103 --- descriptr-0.5.0/descriptr/tests/testthat/test-chi-dist.R | 67 - descriptr-0.5.0/descriptr/tests/testthat/test-cross-table.R | 24 descriptr-0.5.0/descriptr/tests/testthat/test-describe.R | 141 ++++ descriptr-0.5.0/descriptr/tests/testthat/test-f-dist.R | 63 - descriptr-0.5.0/descriptr/tests/testthat/test-freq-table.R | 23 descriptr-0.5.0/descriptr/tests/testthat/test-group-summary.R | 4 descriptr-0.5.0/descriptr/tests/testthat/test-multistats.R | 8 descriptr-0.5.0/descriptr/tests/testthat/test-normal-dist.R | 73 -- descriptr-0.5.0/descriptr/tests/testthat/test-output.R | 8 descriptr-0.5.0/descriptr/tests/testthat/test-plots.R |only descriptr-0.5.0/descriptr/tests/testthat/test-screen.R | 2 descriptr-0.5.0/descriptr/tests/testthat/test-summary-stats.R |only descriptr-0.5.0/descriptr/tests/testthat/test-t-dist.R | 87 -- descriptr-0.5.0/descriptr/tests/testthat/test-utils.R | 4 descriptr-0.5.0/descriptr/vignettes/categorical-data.Rmd |only descriptr-0.5.0/descriptr/vignettes/continuous-data.Rmd |only descriptr-0.5.0/descriptr/vignettes/visualization.Rmd |only 118 files changed, 1477 insertions(+), 3331 deletions(-)
Title: Download and Explore Datasets from UCSC Xena Data Hubs
Description: Download and explore datasets from UCSC Xena data hubs, which are
a collection of UCSC-hosted public databases such as TCGA, ICGC, TARGET, GTEx, CCLE, and others.
Databases are normalized so they can be combined, linked, filtered, explored and downloaded.
This package is based on 'XenaR' package.
Author: Shixiang Wang [aut, cre] (<https://orcid.org/0000-0001-9855-7357>),
Martin Morgan [aut]
Maintainer: Shixiang Wang <w_shixiang@163.com>
Diff between UCSCXenaTools versions 0.2.6 dated 2018-12-09 and 0.2.7 dated 2019-01-22
UCSCXenaTools-0.2.6/UCSCXenaTools/inst/figures |only UCSCXenaTools-0.2.7/UCSCXenaTools/DESCRIPTION | 11 UCSCXenaTools-0.2.7/UCSCXenaTools/MD5 | 47 UCSCXenaTools-0.2.7/UCSCXenaTools/NAMESPACE | 2 UCSCXenaTools-0.2.7/UCSCXenaTools/NEWS.md | 8 UCSCXenaTools-0.2.7/UCSCXenaTools/R/XenaHub-class.R | 311 ++-- UCSCXenaTools-0.2.7/UCSCXenaTools/R/download.R | 297 ++- UCSCXenaTools-0.2.7/UCSCXenaTools/R/query.R | 124 - UCSCXenaTools-0.2.7/UCSCXenaTools/R/shiny.R | 96 - UCSCXenaTools-0.2.7/UCSCXenaTools/R/simplify.R | 766 ++++++---- UCSCXenaTools-0.2.7/UCSCXenaTools/R/utils-pipe.R |only UCSCXenaTools-0.2.7/UCSCXenaTools/R/zzz.R |only UCSCXenaTools-0.2.7/UCSCXenaTools/README.md | 106 - UCSCXenaTools-0.2.7/UCSCXenaTools/build/vignette.rds |binary UCSCXenaTools-0.2.7/UCSCXenaTools/data/XenaData.rda |binary UCSCXenaTools-0.2.7/UCSCXenaTools/inst/doc/USCSXenaTools.R | 16 UCSCXenaTools-0.2.7/UCSCXenaTools/inst/doc/USCSXenaTools.Rmd | 8 UCSCXenaTools-0.2.7/UCSCXenaTools/inst/doc/USCSXenaTools.html | 709 ++++----- UCSCXenaTools-0.2.7/UCSCXenaTools/man/XenaDownload.Rd | 5 UCSCXenaTools-0.2.7/UCSCXenaTools/man/XenaGenerate.Rd | 4 UCSCXenaTools-0.2.7/UCSCXenaTools/man/XenaHub-class.Rd | 4 UCSCXenaTools-0.2.7/UCSCXenaTools/man/XenaPrepare.Rd | 7 UCSCXenaTools-0.2.7/UCSCXenaTools/man/XenaQuery.Rd | 2 UCSCXenaTools-0.2.7/UCSCXenaTools/man/figures |only UCSCXenaTools-0.2.7/UCSCXenaTools/man/pipe.Rd |only UCSCXenaTools-0.2.7/UCSCXenaTools/tests |only UCSCXenaTools-0.2.7/UCSCXenaTools/vignettes/USCSXenaTools.Rmd | 8 27 files changed, 1524 insertions(+), 1007 deletions(-)
Title: Mapping Smoothed Effect Estimates from Individual-Level Data
Description: Contains functions for mapping odds ratios, hazard ratios, or other effect estimates using individual-level data such as case-control study data, using generalized additive models (GAMs) or Cox models for smoothing with a two-dimensional predictor (e.g., geolocation or exposure to chemical mixtures) while adjusting linearly for confounding variables, using methods described by Kelsall and Diggle (1998), Webster at al. (2006), and Bai et al. (submitted). Includes convenient functions for mapping point estimates and confidence intervals, efficient control sampling, and permutation tests for the null hypothesis that the two-dimensional predictor is not associated with the outcome variable (adjusting for confounders).
Author: Lu Bai, Scott Bartell, Robin Bliss, and Veronica Vieira
Maintainer: Scott Bartell <sbartell@uci.edu>
Diff between MapGAM versions 1.2 dated 2018-07-25 and 1.2-4 dated 2019-01-22
ChangeLog | 18 ++++++++++++++++++ DESCRIPTION | 8 ++++---- MD5 | 18 +++++++++--------- R/MapGAM.version.R | 12 ++++++------ R/gamcox.R | 10 ++++++---- R/gamcox.fit.R | 13 ++++++++----- R/optspan.R | 6 ++++-- R/plot.modgam.R | 10 +++++----- man/MapGAM-package.Rd | 4 ++-- man/plot.modgam.Rd | 7 +++++-- 10 files changed, 67 insertions(+), 39 deletions(-)
Title: Charles's Utility Function using Formula
Description: Utility functions that provides wrapper to descriptive base functions
like cor, mean and table. It makes use of the formula interface to pass
variables to functions. It also provides operators to concatenate (%+%), to
repeat (%n%) and manage character vectors for nice display.
Author: Charles-Édouard Giguère
Maintainer: Charles-Édouard Giguère <ce.giguere@gmail.com>
Diff between CUFF versions 1.5 dated 2018-05-28 and 1.6 dated 2019-01-22
ChangeLog | 14 ++++- DESCRIPTION | 10 +-- MD5 | 20 +++++-- NAMESPACE | 72 +++++++++++++++++--------- R/cf.R |only R/clip.R |only R/meansd.R |only R/pv.R |only R/view.R |only R/xf.R | 156 +++++++++++++++++++++++++++++++--------------------------- man/cf.Rd |only man/clip.Rd |only man/meansd.Rd |only man/pv.Rd |only man/view.Rd |only man/xf.Rd | 4 + 16 files changed, 167 insertions(+), 109 deletions(-)
Title: Dimension Reduction Methods for Multivariate Time Series
Description: Estimates VAR and VARX models with structured Lasso Penalties.
Author: Will Nicholson [cre, aut],
David Matteson [aut],
Jacob Bien [aut]
Maintainer: Will Nicholson <wbn8@cornell.edu>
Diff between BigVAR versions 1.0.3 dated 2018-07-22 and 1.0.4 dated 2019-01-22
BigVAR-1.0.3/BigVAR/src/BigVAR_init.C |only BigVAR-1.0.3/BigVAR/src/init.C |only BigVAR-1.0.4/BigVAR/DESCRIPTION | 13 ++++++++----- BigVAR-1.0.4/BigVAR/MD5 | 8 +++----- BigVAR-1.0.4/BigVAR/R/BigVARObjectClass.R | 14 ++++++++++++-- BigVAR-1.0.4/BigVAR/R/BigVARSupportFunctions.R | 18 +++++++++++------- 6 files changed, 34 insertions(+), 19 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-05 0.1-16
2017-09-27 0.1-15
2015-12-25 0.1-14
2015-03-23 0.1-13
2015-02-06 0.1-12
2014-08-11 0.1-11
2014-08-06 0.1-1
2014-01-09 0.1-0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2017-10-09 0.2.2
2017-02-22 0.1.1
2017-02-20 0.1.0