Title: Stochastic Limited Memory Quasi-Newton Optimizers
Description: Implementations of stochastic, limited-memory quasi-Newton optimizers,
similar in spirit to the LBFGS (Limited-memory Broyden-Fletcher-Goldfarb-Shanno) algorithm,
for smooth stochastic optimization. Implements the following methods:
oLBFGS (online LBFGS) (Schraudolph, N.N., Yu, J. and Guenter, S., 2007 <http://proceedings.mlr.press/v2/schraudolph07a.html>),
SQN (stochastic quasi-Newton) (Byrd, R.H., Hansen, S.L., Nocedal, J. and Singer, Y., 2016 <arXiv:1401.7020>),
adaQN (adaptive quasi-Newton) (Keskar, N.S., Berahas, A.S., 2016, <arXiv:1511.01169>).
Provides functions for easily creating R objects
with partial_fit/predict methods from some given objective/gradient/predict functions.
Includes an example stochastic logistic regression using these optimizers.
Provides header files and registered C routines for using it directly from C/C++.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between stochQN versions 0.1.0 dated 2019-08-29 and 0.1.2 dated 2019-09-04
DESCRIPTION | 8 +++---- MD5 | 24 +++++++++++------------ R/optimizers_free.R | 9 +++++--- R/optimizers_guided.R | 9 +++++--- man/SQN.Rd | 3 +- man/SQN_free.Rd | 3 +- man/adaQN.Rd | 3 +- man/adaQN_free.Rd | 3 +- man/oLBFGS.Rd | 3 +- man/oLBFGS_free.Rd | 3 +- src/Makevars | 3 +- src/blas_R.h | 1 src/stochqn.c | 51 ++++++++++++++++++++++++++++++++++++++------------ 13 files changed, 81 insertions(+), 42 deletions(-)
Title: Mixture Models with Heterogeneous and (Partially) Missing Data
Description: Mixture Composer <https://github.com/modal-inria/MixtComp> is a project to build mixture models with
heterogeneous data sets and partially missing data management.
It includes 8 models for real, categorical, counting, functional and ranking data.
Author: Vincent Kubicki [aut],
Christophe Biernacki [aut],
Quentin Grimonprez [aut, cre],
Matthieu Marbac-Lourdelle [ctb],
Étienne Goffinet [ctb],
Serge Iovleff [ctb]
Maintainer: Quentin Grimonprez <quentin.grimonprez@inria.fr>
Diff between RMixtComp versions 4.0.0 dated 2019-08-28 and 4.0.1 dated 2019-09-04
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS | 5 ++++- R/MIXTCOMP_mixtCompLearn.R | 12 ++++++------ R/RMixtComp-package.R | 8 ++++---- man/RMixtComp-package.Rd | 8 ++++---- man/mixtCompLearn.Rd | 12 ++++++------ tests/testthat/test.hierarchical.R | 19 +++++++++---------- tests/testthat/test.runWrapper.R | 28 ++++++++++++++-------------- 9 files changed, 59 insertions(+), 57 deletions(-)
Title: Revealed Preferences and Microeconomic Rationality
Description: Computation of (direct and indirect) revealed preferences, fast non-parametric tests of rationality axioms (WARP, SARP, GARP), simulation of axiom-consistent data, and detection of axiom-consistent subpopulations. Rationality tests follow Varian (1982) <doi:10.2307/1912771>, axiom-consistent subpopulations follow Crawford and Pendakur (2012) <doi:10.1111/j.1468-0297.2012.02545.x>.
Author: Julien Boelaert <jubo.stats@gmail.com>
Maintainer: Julien Boelaert <jubo.stats@gmail.com>
Diff between revealedPrefs versions 0.4 dated 2018-10-10 and 0.4.1 dated 2019-09-04
revealedPrefs-0.4.1/revealedPrefs/DESCRIPTION | 8 ++++---- revealedPrefs-0.4.1/revealedPrefs/MD5 | 7 +++---- revealedPrefs-0.4.1/revealedPrefs/build/partial.rdb |binary revealedPrefs-0.4.1/revealedPrefs/src/crawford-pendakur.cpp | 4 ++-- revealedPrefs-0.4/revealedPrefs/TODO |only 5 files changed, 9 insertions(+), 10 deletions(-)
Title: Translate 'SQL' Queries into 'R' Expressions
Description: Translate 'SQL' 'SELECT' statements into lists of 'R' expressions.
Author: Ian Cook [aut, cre],
Cloudera [cph]
Maintainer: Ian Cook <ian@cloudera.com>
Diff between queryparser versions 0.1.0 dated 2019-09-03 and 0.1.1 dated 2019-09-04
DESCRIPTION | 6 MD5 | 45 +++--- NEWS.md | 9 + R/agg_scalar.R | 2 R/check_expressions.R | 35 ++++- R/common.R | 21 ++- R/compat.R | 5 R/parse_clauses.R | 10 + R/parse_expression.R | 19 +- R/parse_query.R | 145 ++++++++++++++++------ R/replace.R | 60 ++++++--- R/secure.R | 2 R/split_query.R | 2 R/translate.R | 6 R/translations.R | 37 +++-- README.md | 38 ++++- man/figures |only man/parse_expression.Rd | 21 ++- man/parse_query.Rd | 30 +++- man/split_query.Rd | 2 tests/testthat/test-agg_scalar.R | 4 tests/testthat/test-extract_alias.R | 1 tests/testthat/test-parse_expression.R | 70 ++++++++++ tests/testthat/test-parse_query.R | 215 ++++++++++++++++++++++++++++++--- 24 files changed, 622 insertions(+), 163 deletions(-)
Title: Factorization of Sparse Counts Matrices Through Poisson
Likelihood
Description: Creates a low-rank factorization of a sparse counts matrix by maximizing Poisson likelihood with l1/l2 regularization
with all non-negative latent factors (e.g. for recommender systems or topic modeling) (Cortes, David, 2018, <arXiv:1811.01908>).
Similar to hierarchical Poisson factorization, but follows an optimization-based approach with regularization instead of a hierarchical
structure, and is fit through either proximal gradient or conjugate gradient instead of variational inference.
Author: David Cortes
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between poismf versions 0.1.2 dated 2019-08-29 and 0.1.3 dated 2019-09-04
DESCRIPTION | 8 ++++---- MD5 | 12 ++++++------ R/poismf.R | 14 +++++++++----- man/poismf.Rd | 5 ++--- man/predict.poismf.Rd | 9 ++++++++- src/Makevars | 3 ++- src/pgd.cpp | 12 +++++++----- 7 files changed, 38 insertions(+), 25 deletions(-)
Title: Simulates SPSO and Efftox Phase 12 Trials with Correlated
Outcomes
Description: Simulating and conducting four phase 12 clinical trials with correlated binary bivariate outcomes described. Uses the 'Efftox' (efficacy and toxicity tradeoff, <https://biostatistics.mdanderson.org/SoftwareDownload/SingleSoftware/Index/2>) and SPSO (Semi-Parametric Stochastic Ordering) models with Utility and Desirability based objective functions for dose finding.
Author: Andrew G Chapple
Maintainer: Andrew G Chapple <achapp@lsuhsc.edu>
Diff between Phase12Compare versions 1.0 dated 2019-08-30 and 1.1 dated 2019-09-04
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/SPSOCODE.cpp | 10 +++++----- 3 files changed, 10 insertions(+), 10 deletions(-)
More information about Phase12Compare at CRAN
Permanent link
Title: Interactive Studio with Explanations for ML Predictive Models
Description: Automate explanation of machine learning predictive models.
This package generates advanced interactive and animated model explanations in the form
of serverless HTML site. It combines 'R' with 'D3.js' to produce plots and descriptions
for local and global explanations. The whole is greater than the sum of its parts,
so it also supports EDA (Exploratory Data Analysis) on top of that. 'modelStudio' is
a fast and condensed way to get all the answers without much effort.
Break down your model and look into its ingredients with only a few lines of code.
Author: Hubert Baniecki [aut, cre],
Przemyslaw Biecek [aut] (<https://orcid.org/0000-0001-8423-1823>)
Maintainer: Hubert Baniecki <hbaniecki@gmail.com>
Diff between modelStudio versions 0.1.6 dated 2019-09-03 and 0.1.7 dated 2019-09-04
DESCRIPTION | 6 +- MD5 | 14 ++--- NEWS.md | 3 + inst/doc/vignette_modelStudio.html | 4 - tests/testthat.R | 6 +- tests/testthat/test_modelStudio.R | 81 +++++++++++++++---------------- tests/testthat/test_modelStudioOptions.R | 17 +++--- tests/testthat/test_objects.R | 24 +++------ 8 files changed, 78 insertions(+), 77 deletions(-)
Title: Co-Clustering of Mixed Type Data
Description: Implementation of the co-clustering method for mixed type data proposed in M. Selosse, J. Jacques, C. Biernacki (2018) <https://hal.archives-ouvertes.fr/hal-01893457>. It consists in clustering simultaneously the rows (observations) and the columns (features) of a heterogeneous data set.
Author: Margot Selosse, Julien Jacques, Christophe Biernacki
Maintainer: Margot Selosse <margot.selosse@gmail.com>
Diff between mixedClust versions 1.0.0 dated 2019-09-04 and 1.0.1 dated 2019-09-04
DESCRIPTION | 8 +- MD5 | 20 +++---- src/Bos.cpp | 34 ++++++------ src/CoClusteringContext.cpp | 120 ++++++++++++++++++++++---------------------- src/CoClusteringContext.h | 4 - src/Distribution.cpp | 26 ++++----- src/Distribution.h | 4 - src/Gaussian.cpp | 24 ++++---- src/GaussianMulti.cpp | 28 +++++----- src/Multinomial.cpp | 24 ++++---- src/Poisson.cpp | 46 ++++++++-------- 11 files changed, 169 insertions(+), 169 deletions(-)
Title: Read Data from JSTOR/DfR
Description: Functions and helpers to import metadata, ngrams and full-texts
delivered by Data for Research by JSTOR.
Author: Thomas Klebel [aut, cre] (<https://orcid.org/0000-0002-7331-4751>)
Maintainer: Thomas Klebel <t.klebel@hotmail.com>
Diff between jstor versions 0.3.6 dated 2018-12-12 and 0.3.7 dated 2019-09-04
jstor-0.3.6/jstor/R/deprecated.R |only jstor-0.3.6/jstor/man/find_article.Rd |only jstor-0.3.6/jstor/man/find_authors.Rd |only jstor-0.3.6/jstor/man/find_book.Rd |only jstor-0.3.6/jstor/man/find_chapters.Rd |only jstor-0.3.6/jstor/man/find_footnotes.Rd |only jstor-0.3.6/jstor/man/find_references.Rd |only jstor-0.3.6/jstor/man/get_basename.Rd |only jstor-0.3.6/jstor/man/jstor_example.Rd |only jstor-0.3.6/jstor/man/jstor_import.Rd |only jstor-0.3.6/jstor/man/read_full_text.Rd |only jstor-0.3.7/jstor/DESCRIPTION | 6 - jstor-0.3.7/jstor/MD5 | 61 ++++++----------- jstor-0.3.7/jstor/NAMESPACE | 11 --- jstor-0.3.7/jstor/NEWS.md | 5 + jstor-0.3.7/jstor/R/augmentations.R | 11 ++- jstor-0.3.7/jstor/R/batch_import_fun.R | 4 - jstor-0.3.7/jstor/R/books.R | 2 jstor-0.3.7/jstor/R/import_spec.R | 18 +++-- jstor-0.3.7/jstor/R/imports.R | 2 jstor-0.3.7/jstor/R/ngram.R | 4 - jstor-0.3.7/jstor/R/utils.R | 4 + jstor-0.3.7/jstor/R/zip.R | 4 - jstor-0.3.7/jstor/build/vignette.rds |binary jstor-0.3.7/jstor/inst/doc/Introduction.R | 2 jstor-0.3.7/jstor/inst/doc/Introduction.Rmd | 2 jstor-0.3.7/jstor/inst/doc/Introduction.html | 39 +++++----- jstor-0.3.7/jstor/inst/doc/automating-file-import.html | 29 ++++---- jstor-0.3.7/jstor/inst/doc/known-quirks.html | 19 ++--- jstor-0.3.7/jstor/man/jst_get_chapters.Rd | 2 jstor-0.3.7/jstor/man/jst_get_ngram.Rd | 4 - jstor-0.3.7/jstor/tests/testthat/test-article.R | 3 jstor-0.3.7/jstor/tests/testthat/test-books.R | 6 + jstor-0.3.7/jstor/tests/testthat/test-footnotes.R | 3 jstor-0.3.7/jstor/tests/testthat/test-helpers.R | 2 jstor-0.3.7/jstor/tests/testthat/test-references.R | 5 - jstor-0.3.7/jstor/vignettes/Introduction.Rmd | 2 37 files changed, 129 insertions(+), 121 deletions(-)
Title: Predicted Values and Discrete Changes for GLM
Description: Functions to calculate predicted values and the difference between
the two cases with confidence interval for lm() [linear model], glm() [general linear model], glm.nb() [negative binomial model],
polr() [ordinal logistic model] and multinom() [multinomial model] using Monte Carlo simulations. Reference: Bennet A. Zelner (2009) <doi:10.1002/smj.783>.
Author: Benjamin Schlegel [aut,cre]
Maintainer: Benjamin Schlegel <kontakt@benjaminschlegel.ch>
Diff between glm.predict versions 3.0-1 dated 2018-05-06 and 3.1-0 dated 2019-09-04
glm.predict-3.0-1/glm.predict/R/discrete.change.R |only glm.predict-3.0-1/glm.predict/R/discrete.changes.R |only glm.predict-3.0-1/glm.predict/R/glm.predict-internal.R |only glm.predict-3.0-1/glm.predict/R/nominal_discrete.change.R |only glm.predict-3.0-1/glm.predict/R/nominal_discrete.changes.R |only glm.predict-3.0-1/glm.predict/R/ordinal_discrete.changes.R |only glm.predict-3.0-1/glm.predict/R/ordinal_discrete_change.R |only glm.predict-3.0-1/glm.predict/R/predict_glm.R |only glm.predict-3.0-1/glm.predict/R/predict_multinom.R |only glm.predict-3.0-1/glm.predict/R/predict_polr.R |only glm.predict-3.0-1/glm.predict/R/predicts_glm.R |only glm.predict-3.0-1/glm.predict/R/predicts_multinom.R |only glm.predict-3.0-1/glm.predict/R/predicts_polr.R |only glm.predict-3.0-1/glm.predict/man/discrete.change.Rd |only glm.predict-3.0-1/glm.predict/man/discrete.changes.Rd |only glm.predict-3.0-1/glm.predict/man/nominal_discrete.change.Rd |only glm.predict-3.0-1/glm.predict/man/nominal_discrete.changes.Rd |only glm.predict-3.0-1/glm.predict/man/ordinal_discrete.change.Rd |only glm.predict-3.0-1/glm.predict/man/ordinal_discrete.changes.Rd |only glm.predict-3.0-1/glm.predict/man/predict_glm.Rd |only glm.predict-3.0-1/glm.predict/man/predict_multinom.Rd |only glm.predict-3.0-1/glm.predict/man/predict_polr.Rd |only glm.predict-3.0-1/glm.predict/man/predicts_glm.Rd |only glm.predict-3.0-1/glm.predict/man/predicts_multinom.Rd |only glm.predict-3.0-1/glm.predict/man/predicts_polr.Rd |only glm.predict-3.1-0/glm.predict/DESCRIPTION | 11 +- glm.predict-3.1-0/glm.predict/MD5 | 49 ++-------- glm.predict-3.1-0/glm.predict/NAMESPACE | 4 glm.predict-3.1-0/glm.predict/R/basepredict.lm.R |only glm.predict-3.1-0/glm.predict/R/dc.lm.R |only glm.predict-3.1-0/glm.predict/R/predicts.R | 4 glm.predict-3.1-0/glm.predict/man/basepredict.Rd | 2 glm.predict-3.1-0/glm.predict/man/basepredict.glm.Rd | 5 - glm.predict-3.1-0/glm.predict/man/basepredict.lm.Rd |only glm.predict-3.1-0/glm.predict/man/basepredict.multinom.Rd | 5 - glm.predict-3.1-0/glm.predict/man/basepredict.polr.Rd | 7 + glm.predict-3.1-0/glm.predict/man/dc.glm.Rd | 9 + glm.predict-3.1-0/glm.predict/man/dc.lm.Rd |only glm.predict-3.1-0/glm.predict/man/dc.multinom.Rd | 8 + glm.predict-3.1-0/glm.predict/man/dc.polr.Rd | 8 + 40 files changed, 64 insertions(+), 48 deletions(-)
Title: Create Muller Plots of Evolutionary Dynamics
Description: Create plots that combine a phylogeny and frequency dynamics.
Phylogenetic input can be a generic adjacency matrix or a tree of class "phylo".
Inspired by similar plots in publications of the labs of RE Lenski and JE
Barrick. Named for HJ Muller (who popularised such plots) and H Wickham (whose
code this package exploits).
Author: Robert Noble [aut, cre] (<https://orcid.org/0000-0002-8057-4252>)
Maintainer: Robert Noble <robjohnnoble@gmail.com>
Diff between ggmuller versions 0.5.3 dated 2019-01-15 and 0.5.4 dated 2019-09-04
DESCRIPTION | 8 MD5 | 12 - R/MullerPlot.R | 2 R/SupplementaryFunctions.R | 4 README.md | 2 inst/doc/ggmuller.html | 436 ++++++++++++++++++++++++++++++++++----------- man/Muller_plot.Rd | 4 7 files changed, 352 insertions(+), 116 deletions(-)
Title: Global Surface Summary of the Day ('GSOD') Weather Data Client
Description: Provides automated downloading, parsing, cleaning, unit conversion
and formatting of Global Surface Summary of the Day ('GSOD') weather data
from the from the USA National Centers for Environmental Information
('NCEI'). Units are converted from from United States Customary System
('USCS') units to International System of Units ('SI'). Stations may be
individually checked for number of missing days defined by the user, where
stations with too many missing observations are omitted. Only stations with
valid reported latitude and longitude values are permitted in the final
data. Additional useful elements, saturation vapour pressure ('es'), actual
vapour pressure ('ea') and relative humidity are calculated from the
original data and included in the final data set. The resulting metadata
include station identification information, country, state, latitude,
longitude, elevation, weather observations and associated flags. For
information on the 'GSOD' data from 'NCEI', please see the 'GSOD'
'readme.txt' file available from,
<http://www1.ncdc.noaa.gov/pub/data/gsod/readme.txt>.
Author: Adam Sparks [aut, cre] (<https://orcid.org/0000-0002-0061-8359>),
Tomislav Hengl [aut] (<https://orcid.org/0000-0002-9921-5129>),
Andrew Nelson [aut] (<https://orcid.org/0000-0002-7249-3778>),
Hugh Parsonage [cph, ctb] (<https://orcid.org/0000-0003-4055-0835>),
Gwenael Giboire [ctb] (Several bug reports in early versions and
testing feedback),
Łukasz Pawlik [ctb] (Reported bug in windspeed conversion calculation),
Ross Darnell [ctb] (Reported bug in 'Windows OS' versions causing
'GSOD' data untarring to fail)
Maintainer: Adam Sparks <adamhsparks@gmail.com>
Diff between GSODR versions 1.3.2 dated 2019-01-18 and 2.0.0 dated 2019-09-04
GSODR-1.3.2/GSODR/R/process_gz.R |only GSODR-1.3.2/GSODR/inst/doc/GSODR.R |only GSODR-1.3.2/GSODR/inst/doc/Working_with_spatial_and_climate_data.R |only GSODR-1.3.2/GSODR/inst/doc/use_case_1.R |only GSODR-1.3.2/GSODR/inst/doc/use_case_1.Rmd |only GSODR-1.3.2/GSODR/inst/doc/use_case_1.html |only GSODR-1.3.2/GSODR/inst/extdata/country_list.rda |only GSODR-1.3.2/GSODR/man/figures/Use_Case_1_Figure_1.png |only GSODR-1.3.2/GSODR/man/figures/Use_Case_1_Figure_2.png |only GSODR-1.3.2/GSODR/man/figures/example_1.2-1.png |only GSODR-1.3.2/GSODR/tests/testthat/test-process_gz.R |only GSODR-1.3.2/GSODR/vignettes/example_1.2-1.png |only GSODR-1.3.2/GSODR/vignettes/use_case_1.Rmd |only GSODR-2.0.0/GSODR/DESCRIPTION | 49 GSODR-2.0.0/GSODR/MD5 | 85 GSODR-2.0.0/GSODR/NAMESPACE | 3 GSODR-2.0.0/GSODR/NEWS.md | 32 GSODR-2.0.0/GSODR/R/GSODR-package.R | 25 GSODR-2.0.0/GSODR/R/get_GSOD.R | 145 - GSODR-2.0.0/GSODR/R/get_inventory.R | 101 - GSODR-2.0.0/GSODR/R/internal_functions.R | 358 ++-- GSODR-2.0.0/GSODR/R/nearest_stations.R | 12 GSODR-2.0.0/GSODR/R/process_csv.R |only GSODR-2.0.0/GSODR/R/reformat_GSOD.R | 61 GSODR-2.0.0/GSODR/R/update_station_list.R | 148 - GSODR-2.0.0/GSODR/R/zzz.R | 1 GSODR-2.0.0/GSODR/README.md | 67 GSODR-2.0.0/GSODR/build/vignette.rds |binary GSODR-2.0.0/GSODR/inst/doc/GSODR.Rmd | 883 +++++----- GSODR-2.0.0/GSODR/inst/doc/GSODR.html | 866 +++++---- GSODR-2.0.0/GSODR/inst/doc/Spatial.Rmd |only GSODR-2.0.0/GSODR/inst/doc/Spatial.html |only GSODR-2.0.0/GSODR/inst/doc/Working_with_spatial_and_climate_data.Rmd | 300 ++- GSODR-2.0.0/GSODR/inst/doc/Working_with_spatial_and_climate_data.html | 314 ++- GSODR-2.0.0/GSODR/inst/extdata/isd_history.rda |binary GSODR-2.0.0/GSODR/man/GSODR.Rd | 25 GSODR-2.0.0/GSODR/man/get_GSOD.Rd | 76 GSODR-2.0.0/GSODR/man/get_inventory.Rd | 11 GSODR-2.0.0/GSODR/man/nearest_stations.Rd | 8 GSODR-2.0.0/GSODR/man/reformat_GSOD.Rd | 54 GSODR-2.0.0/GSODR/man/update_station_list.Rd | 12 GSODR-2.0.0/GSODR/tests/testthat/test-get_GSOD.R | 163 + GSODR-2.0.0/GSODR/tests/testthat/test-nearest_stations.R | 11 GSODR-2.0.0/GSODR/tests/testthat/test-process_csv.R |only GSODR-2.0.0/GSODR/tests/testthat/test-reformat_GSOD.R | 28 GSODR-2.0.0/GSODR/tests/testthat/test-update_station_list.R | 18 GSODR-2.0.0/GSODR/vignettes/Ex5-1.png |only GSODR-2.0.0/GSODR/vignettes/GSODR.Rmd | 883 +++++----- GSODR-2.0.0/GSODR/vignettes/GSODR.Rmd.orig |only GSODR-2.0.0/GSODR/vignettes/Spatial.Rmd |only GSODR-2.0.0/GSODR/vignettes/Spatial.Rmd.orig |only GSODR-2.0.0/GSODR/vignettes/Working_with_spatial_and_climate_data.Rmd | 300 ++- GSODR-2.0.0/GSODR/vignettes/Working_with_spatial_and_climate_data.Rmd.orig |only GSODR-2.0.0/GSODR/vignettes/comparison-1.png |only GSODR-2.0.0/GSODR/vignettes/precompile.R |only GSODR-2.0.0/GSODR/vignettes/unnamed-chunk-1-1.png |only 56 files changed, 2767 insertions(+), 2272 deletions(-)
Title: Allows Interactive Visualization of Data Through a Web Browser
GUI
Description: Intended for both technical and non-technical users to create
interactive data visualizations through a web browser GUI without writing any
code.
Author: Eugene Dubossarsky [aut, cph, cre],
Julius Neggo [ctb] (Lead Developer),
Howard Song [aut] (Developer),
Susan Wang [ctb] (Project Manager),
Jason Widjaja [ctb] (Vignette),
Jose Magana [ctb] (Package Manager and Developer),
Sergey Skripko [ctb] (Developer)
Maintainer: Eugene Dubossarsky <eugene@presciient.com>
Diff between ggraptR versions 1.1 dated 2018-07-02 and 1.2 dated 2019-09-04
DESCRIPTION | 6 +++--- MD5 | 12 ++++++------ R/ggraptR.R | 1 - README.md | 2 +- build/vignette.rds |binary inst/ggraptR/functions/codeGen.R | 3 ++- inst/ggraptR/reactives/dataset.R | 2 +- 7 files changed, 13 insertions(+), 13 deletions(-)
Title: Quadratic Programming Solver using the 'OSQP' Library
Description: Provides bindings to the 'OSQP' solver. The 'OSQP' solver is a numerical optimization package or solving convex quadratic programs written in 'C' and based on the alternating direction method of multipliers, 'ADMM'. B. Stellato, G. Banjac, P. Goulart, A. Bemporad, S. Boyd (2018) <arXiv:1711.08013>.
Author: Bartolomeo Stellato [cre, aut, ctb, cph],
Goran Banjac [aut, ctb, cph],
Paul Goulart [aut, ctb, cph],
Stephen Boyd [aut, ctb, cph],
Eric Anderson [ctb]
Maintainer: Bartolomeo Stellato <bartolomeo.stellato@gmail.com>
Diff between osqp versions 0.5.0 dated 2018-12-11 and 0.6.0 dated 2019-09-04
osqp-0.5.0/osqp/src/osqp_sources/docs/examples/demo.rst |only osqp-0.5.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/examples/c |only osqp-0.5.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/examples/julia |only osqp-0.5.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/julia |only osqp-0.5.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/tests/julia |only osqp-0.6.0/osqp/DESCRIPTION | 8 osqp-0.6.0/osqp/MD5 | 229 ++-- osqp-0.6.0/osqp/NAMESPACE | 1 osqp-0.6.0/osqp/NEWS.md | 4 osqp-0.6.0/osqp/R/osqp.R | 10 osqp-0.6.0/osqp/R/params.R | 3 osqp-0.6.0/osqp/R/solve.R | 2 osqp-0.6.0/osqp/man/osqp.Rd | 2 osqp-0.6.0/osqp/man/osqpSettings.Rd | 2 osqp-0.6.0/osqp/man/solve_osqp.Rd | 3 osqp-0.6.0/osqp/src/osqp/Makefile | 1 osqp-0.6.0/osqp/src/osqp_solve_interface.cpp | 6 osqp-0.6.0/osqp/src/osqp_sources/CHANGELOG.md | 12 osqp-0.6.0/osqp/src/osqp_sources/CMakeLists.txt | 124 -- osqp-0.6.0/osqp/src/osqp_sources/LICENSE | 2 osqp-0.6.0/osqp/src/osqp_sources/NOTICE | 2 osqp-0.6.0/osqp/src/osqp_sources/README.md | 4 osqp-0.6.0/osqp/src/osqp_sources/appveyor.yml | 10 osqp-0.6.0/osqp/src/osqp_sources/ci/appveyor/deploy.cmd | 41 osqp-0.6.0/osqp/src/osqp_sources/ci/appveyor/install.cmd | 2 osqp-0.6.0/osqp/src/osqp_sources/ci/appveyor/script.cmd | 12 osqp-0.6.0/osqp/src/osqp_sources/ci/travis/deploy.sh | 57 - osqp-0.6.0/osqp/src/osqp_sources/ci/travis/docs.sh | 3 osqp-0.6.0/osqp/src/osqp_sources/ci/travis/install.sh | 32 osqp-0.6.0/osqp/src/osqp_sources/ci/travis/script.sh | 91 + osqp-0.6.0/osqp/src/osqp_sources/configure/cmake/FindR.cmake | 6 osqp-0.6.0/osqp/src/osqp_sources/configure/osqp_configure.h.in | 12 osqp-0.6.0/osqp/src/osqp_sources/docs/_static/css/osqp_theme.css | 6 osqp-0.6.0/osqp/src/osqp_sources/docs/citing/index.rst | 10 osqp-0.6.0/osqp/src/osqp_sources/docs/codegen/matlab.rst | 44 osqp-0.6.0/osqp/src/osqp_sources/docs/codegen/python.rst | 44 osqp-0.6.0/osqp/src/osqp_sources/docs/conf.py | 4 osqp-0.6.0/osqp/src/osqp_sources/docs/contributing/index.rst | 17 osqp-0.6.0/osqp/src/osqp_sources/docs/doxygen.conf | 2 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/huber.rst | 14 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/index.rst | 15 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/lasso.rst | 8 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/least-squares.rst | 9 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/mpc.rst | 8 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/portfolio.rst | 8 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/setup-and-solve.rst |only osqp-0.6.0/osqp/src/osqp_sources/docs/examples/svm.rst | 12 osqp-0.6.0/osqp/src/osqp_sources/docs/examples/update-matrices.rst |only osqp-0.6.0/osqp/src/osqp_sources/docs/examples/update-vectors.rst |only osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/CC++.rst | 3 osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/cutest.rst | 6 osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/julia.rst | 2 osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/linear_system_solvers.rst | 15 osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/matlab.rst | 2 osqp-0.6.0/osqp/src/osqp_sources/docs/get_started/python.rst | 15 osqp-0.6.0/osqp/src/osqp_sources/docs/interfaces/CC++.rst | 2 osqp-0.6.0/osqp/src/osqp_sources/docs/interfaces/julia.rst | 2 osqp-0.6.0/osqp/src/osqp_sources/docs/interfaces/python.rst | 12 osqp-0.6.0/osqp/src/osqp_sources/docs/interfaces/status_values.rst | 38 osqp-0.6.0/osqp/src/osqp_sources/docs/solver/index.rst | 8 osqp-0.6.0/osqp/src/osqp_sources/examples/osqp_demo.c | 72 - osqp-0.6.0/osqp/src/osqp_sources/include/CMakeLists.txt |only osqp-0.6.0/osqp/src/osqp_sources/include/auxil.h | 11 osqp-0.6.0/osqp/src/osqp_sources/include/constants.h | 61 - osqp-0.6.0/osqp/src/osqp_sources/include/cs.h | 2 osqp-0.6.0/osqp/src/osqp_sources/include/ctrlc.h | 4 osqp-0.6.0/osqp/src/osqp_sources/include/error.h |only osqp-0.6.0/osqp/src/osqp_sources/include/glob_opts.h | 38 osqp-0.6.0/osqp/src/osqp_sources/include/lin_alg.h | 8 osqp-0.6.0/osqp/src/osqp_sources/include/lin_sys.h | 28 osqp-0.6.0/osqp/src/osqp_sources/include/osqp.h | 10 osqp-0.6.0/osqp/src/osqp_sources/include/polish.h | 3 osqp-0.6.0/osqp/src/osqp_sources/include/scaling.h | 3 osqp-0.6.0/osqp/src/osqp_sources/include/types.h | 129 -- osqp-0.6.0/osqp/src/osqp_sources/include/util.h | 10 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/pardiso/pardiso_interface.c | 196 ++- osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/pardiso/pardiso_interface.h | 53 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/pardiso/pardiso_loader.c | 8 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_interface.c | 238 ++-- osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_interface.h | 71 - osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/CMakeLists.txt | 2 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/README.md | 14 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/examples/example.c |only osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/include/qdldl.h | 66 - osqp-0.6.0/osqp/src/osqp_sources/lin_sys/direct/qdldl/qdldl_sources/tests/qdldl_tester.c | 2 osqp-0.6.0/osqp/src/osqp_sources/lin_sys/lib_handler.c | 3 osqp-0.6.0/osqp/src/osqp_sources/src/CMakeLists.txt |only osqp-0.6.0/osqp/src/osqp_sources/src/auxil.c | 145 +- osqp-0.6.0/osqp/src/osqp_sources/src/cs.c | 7 osqp-0.6.0/osqp/src/osqp_sources/src/error.c |only osqp-0.6.0/osqp/src/osqp_sources/src/kkt.c | 13 osqp-0.6.0/osqp/src/osqp_sources/src/lin_alg.c | 1 osqp-0.6.0/osqp/src/osqp_sources/src/lin_sys.c | 37 osqp-0.6.0/osqp/src/osqp_sources/src/osqp.c | 565 +++++----- osqp-0.6.0/osqp/src/osqp_sources/src/polish.c | 146 +- osqp-0.6.0/osqp/src/osqp_sources/src/scaling.c | 19 osqp-0.6.0/osqp/src/osqp_sources/src/util.c | 64 - osqp-0.6.0/osqp/src/osqp_sources/tests/basic_qp/generate_problem.py | 17 osqp-0.6.0/osqp/src/osqp_sources/tests/basic_qp/test_basic_qp.h | 509 +++++++-- osqp-0.6.0/osqp/src/osqp_sources/tests/basic_qp2/generate_problem.py | 8 osqp-0.6.0/osqp/src/osqp_sources/tests/basic_qp2/test_basic_qp2.h | 35 osqp-0.6.0/osqp/src/osqp_sources/tests/custom_memory |only osqp-0.6.0/osqp/src/osqp_sources/tests/demo |only osqp-0.6.0/osqp/src/osqp_sources/tests/lin_alg/generate_problem.py | 22 osqp-0.6.0/osqp/src/osqp_sources/tests/lin_alg/test_lin_alg.h | 17 osqp-0.6.0/osqp/src/osqp_sources/tests/minunit.h | 2 osqp-0.6.0/osqp/src/osqp_sources/tests/non_cvx/generate_problem.py | 7 osqp-0.6.0/osqp/src/osqp_sources/tests/non_cvx/test_non_cvx.h | 20 osqp-0.6.0/osqp/src/osqp_sources/tests/osqp_tester.c | 6 osqp-0.6.0/osqp/src/osqp_sources/tests/primal_dual_infeasibility/generate_problem.py | 8 osqp-0.6.0/osqp/src/osqp_sources/tests/primal_dual_infeasibility/test_primal_dual_infeasibility.h | 42 osqp-0.6.0/osqp/src/osqp_sources/tests/primal_infeasibility/generate_problem.py | 9 osqp-0.6.0/osqp/src/osqp_sources/tests/primal_infeasibility/test_primal_infeasibility.h | 10 osqp-0.6.0/osqp/src/osqp_sources/tests/solve_linsys/generate_problem.py | 25 osqp-0.6.0/osqp/src/osqp_sources/tests/solve_linsys/test_solve_linsys.h | 48 osqp-0.6.0/osqp/src/osqp_sources/tests/unconstrained/generate_problem.py | 6 osqp-0.6.0/osqp/src/osqp_sources/tests/unconstrained/test_unconstrained.h | 13 osqp-0.6.0/osqp/src/osqp_sources/tests/update_matrices/generate_problem.py | 42 osqp-0.6.0/osqp/src/osqp_sources/tests/update_matrices/test_update_matrices.h | 158 ++ osqp-0.6.0/osqp/src/osqp_sources/tests/utils/codegen_utils.py | 33 osqp-0.6.0/osqp/tests/testthat/test-solve-basic-qp.R | 5 121 files changed, 2414 insertions(+), 1644 deletions(-)
Title: A Simple Logging System for R, Based on 'log4j'
Description: The log4r package is meant to provide a fast, lightweight,
object-oriented approach to logging in R based on the widely-emulated
'log4j' system and etymology.
Author: John Myles White [aut, cph],
Kenton White [ctb],
Kirill Müller [ctb],
Aaron Jacobs [aut, cre]
Maintainer: Aaron Jacobs <atheriel@gmail.com>
Diff between log4r versions 0.3.0 dated 2019-06-21 and 0.3.1 dated 2019-09-04
log4r-0.3.0/log4r/TODO |only log4r-0.3.0/log4r/inst/NEWS.Rd |only log4r-0.3.1/log4r/DESCRIPTION | 10 +- log4r-0.3.1/log4r/MD5 | 25 +++-- log4r-0.3.1/log4r/NEWS.md |only log4r-0.3.1/log4r/R/layouts.R | 6 - log4r-0.3.1/log4r/README.md | 94 ++++++++++----------- log4r-0.3.1/log4r/build |only log4r-0.3.1/log4r/inst/doc |only log4r-0.3.1/log4r/src/log4r.c | 1 log4r-0.3.1/log4r/tests/testthat/helpers-logging.R |only log4r-0.3.1/log4r/tests/testthat/test-acceptance.R | 30 ++---- log4r-0.3.1/log4r/tests/testthat/test-appenders.R |only log4r-0.3.1/log4r/tests/testthat/test-layouts.R |only log4r-0.3.1/log4r/tests/testthat/test-loglevel.R | 39 ++++---- log4r-0.3.1/log4r/tests/testthat/test-verbosity.R | 26 ++--- log4r-0.3.1/log4r/vignettes |only 17 files changed, 117 insertions(+), 114 deletions(-)
Title: Directory of Open Access Journals Client
Description: Client for the Directory of Open Access Journals ('DOAJ')
(<https://doaj.org/>). API documentation at
<https://doaj.org/api/v1/docs>. Methods included for working with
all 'DOAJ' API routes: fetch article information by identifier,
search for articles, fetch journal information by identifier,
and search for journals.
Author: Scott Chamberlain [aut, cre] (<https://orcid.org/0000-0003-1444-9135>)
Maintainer: Scott Chamberlain <myrmecocystus+r@gmail.com>
Diff between jaod versions 0.1.0 dated 2017-09-01 and 0.2.0 dated 2019-09-04
DESCRIPTION | 30 +++- LICENSE | 2 MD5 | 46 ++++--- NEWS.md | 10 + R/jaod-package.R | 2 R/jaod_article_search.R | 2 R/jaod_journal_search.R | 2 README.md | 181 ++++++++++++++---------------- build |only inst |only man/jaod-package.Rd | 2 man/jaod_article.Rd | 2 man/jaod_article_search.Rd | 2 man/jaod_journal.Rd | 2 man/jaod_journal_search.Rd | 2 tests/fixtures |only tests/testthat/helper-jaod.R |only tests/testthat/test-jaod_article.R | 44 +++---- tests/testthat/test-jaod_article_search.R | 50 ++++---- tests/testthat/test-jaod_journal.R | 44 +++---- tests/testthat/test-jaod_journal_search.R | 50 ++++---- vignettes |only 22 files changed, 253 insertions(+), 220 deletions(-)
Title: Expectation-Maximization Binary Clustering
Description: Unsupervised, multivariate, binary clustering for meaningful annotation of data, taking into account the uncertainty in the data. A specific constructor for trajectory analysis in movement ecology yields behavioural annotation of trajectories based on estimated local measures of velocity and turning angle, eventually with solar position covariate as a daytime indicator, ("Expectation-Maximization Binary Clustering for Behavioural Annotation").
Author: Joan Garriga, John R.B. Palmer, Aitana Oltra, Frederic Bartumeus
Maintainer: Joan Garriga <jgarriga@ceab.csic.es>
Diff between EMbC versions 2.0.1 dated 2018-05-07 and 2.0.2 dated 2019-09-04
DESCRIPTION | 10 +++++----- MD5 | 18 +++++++++--------- NEWS.md | 5 +++++ R/functions.R | 1 + R/methods.R | 18 ++++++++---------- build/vignette.rds |binary inst/doc/EMbC_qckref.pdf |binary man/bkml.Rd | 4 ++-- man/pkml.Rd | 3 ++- man/view.Rd | 6 ++++-- 10 files changed, 36 insertions(+), 29 deletions(-)
Title: Stratified Medicine
Description: A toolkit for stratified medicine, subgroup identification, and precision medicine.
Current tools include (1) filtering models (reduce covariate space), (2) patient-level estimate
models (counterfactual patient-level quantities, for example the individual treatment effect),
(3) subgroup identification models (find subsets of patients with similar treatment effects),
and (4) parameter estimation and inference (for the overall population and discovered subgroups).
These tools can directly feed into stratified medicine algorithms including PRISM
(patient response identifiers for stratified medicine; Jemielita and Mehrotra 2019 (in progress)).
PRISM is a flexible and general framework which accepts user-created models/functions. This
package is in beta and will be continually updated.
Author: Thomas Jemielita [aut, cre]
Maintainer: Thomas Jemielita <thomasjemielita@gmail.com>
Diff between StratifiedMedicine versions 0.1.2 dated 2019-08-19 and 0.1.3 dated 2019-09-04
StratifiedMedicine-0.1.2/StratifiedMedicine/R/getUsefulPredictors.R |only StratifiedMedicine-0.1.2/StratifiedMedicine/man/getUsefulPredictors.Rd |only StratifiedMedicine-0.1.3/StratifiedMedicine/DESCRIPTION | 6 StratifiedMedicine-0.1.3/StratifiedMedicine/MD5 | 72 +-- StratifiedMedicine-0.1.3/StratifiedMedicine/NAMESPACE | 1 StratifiedMedicine-0.1.3/StratifiedMedicine/R/PRISM.R | 98 ++++ StratifiedMedicine-0.1.3/StratifiedMedicine/R/PRISM_resamp.R | 68 +-- StratifiedMedicine-0.1.3/StratifiedMedicine/R/PRISM_train.R | 3 StratifiedMedicine-0.1.3/StratifiedMedicine/R/param_cox.R | 35 - StratifiedMedicine-0.1.3/StratifiedMedicine/R/param_dr.R | 30 - StratifiedMedicine-0.1.3/StratifiedMedicine/R/param_lm.R | 62 +- StratifiedMedicine-0.1.3/StratifiedMedicine/R/param_ple.R | 74 ++- StratifiedMedicine-0.1.3/StratifiedMedicine/R/param_rmst.R | 26 - StratifiedMedicine-0.1.3/StratifiedMedicine/R/ple_bart.R | 101 ++-- StratifiedMedicine-0.1.3/StratifiedMedicine/R/ple_causal_forest.R | 3 StratifiedMedicine-0.1.3/StratifiedMedicine/R/ple_glmnet.R | 34 + StratifiedMedicine-0.1.3/StratifiedMedicine/R/ple_ranger.R | 209 +++++----- StratifiedMedicine-0.1.3/StratifiedMedicine/R/submod_ctree.R | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/R/submod_lmtree.R | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/R/submod_otr.R | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/R/submod_rpart.R | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/R/submod_weibull.R | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/R/utils.R |only StratifiedMedicine-0.1.3/StratifiedMedicine/README.md | 30 - StratifiedMedicine-0.1.3/StratifiedMedicine/inst/doc/SM_PRISM.R | 1 StratifiedMedicine-0.1.3/StratifiedMedicine/inst/doc/SM_PRISM.Rmd | 7 StratifiedMedicine-0.1.3/StratifiedMedicine/inst/doc/SM_PRISM.html | 86 +++- StratifiedMedicine-0.1.3/StratifiedMedicine/man/PRISM.Rd | 19 StratifiedMedicine-0.1.3/StratifiedMedicine/man/PRISM_resamp.Rd | 3 StratifiedMedicine-0.1.3/StratifiedMedicine/man/PRISM_train.Rd | 3 StratifiedMedicine-0.1.3/StratifiedMedicine/man/figures/README-example-3.png |binary StratifiedMedicine-0.1.3/StratifiedMedicine/man/figures/README-example-4.png |binary StratifiedMedicine-0.1.3/StratifiedMedicine/man/submod_ctree.Rd | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/man/submod_lmtree.Rd | 4 StratifiedMedicine-0.1.3/StratifiedMedicine/man/submod_otr.Rd | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/man/submod_rpart.Rd | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/man/submod_weibull.Rd | 2 StratifiedMedicine-0.1.3/StratifiedMedicine/man/summary.PRISM.Rd |only StratifiedMedicine-0.1.3/StratifiedMedicine/vignettes/SM_PRISM.Rmd | 7 39 files changed, 622 insertions(+), 378 deletions(-)
More information about StratifiedMedicine at CRAN
Permanent link
Title: Bayesian Analysis of Finite Mixtures of Plackett-Luce Models for
Partial Rankings/Orderings
Description: Fit finite mixtures of Plackett-Luce models for partial top rankings/orderings within the Bayesian framework. It provides MAP point estimates via EM algorithm and posterior MCMC simulations via Gibbs Sampling. It also fits MLE as a special case of the noninformative Bayesian analysis with vague priors. In addition to inferential techniques, the package assists other fundamental phases of a model-based analysis for partial rankings/orderings, by including functions for data manipulation, simulation, descriptive summary, model selection and goodness-of-fit evaluation. Main references on the methods are Mollica and Tardella (2017) <doi.org/10.1007/s11336-016-9530-0> and Mollica and Tardella (2014) <doi/10.1002/sim.6224>.
Author: Cristina Mollica [aut, cre],
Luca Tardella [aut]
Maintainer: Cristina Mollica <cristina.mollica@uniroma1.it>
Diff between PLMIX versions 2.1.0 dated 2019-08-03 and 2.1.1 dated 2019-09-04
DESCRIPTION | 8 +++--- MD5 | 54 +++++++++++++++++++++++---------------------- NEWS | 10 +++++++- R/PLMIXfunctions.R | 38 +++++++++++-------------------- data/d_gaming.RData |only man/PLMIX-package.Rd | 24 ++++++++++---------- man/as.top_ordering.Rd | 10 ++++---- man/d_apa.Rd | 2 - man/d_carconf.Rd | 2 - man/d_dublinwest.Rd | 2 - man/d_gaming.Rd |only man/d_german.Rd | 2 - man/d_nascar.Rd | 2 - man/d_occup.Rd | 2 - man/d_rice.Rd | 2 - man/freq_to_unit.Rd | 2 - man/is.top_ordering.Rd | 8 +++--- man/label_switchPLMIX.Rd | 1 man/loglikelihood.Rd | 2 - man/make_complete.Rd | 2 - man/make_partial.Rd | 2 - man/mapPLMIX.Rd | 1 man/mapPLMIX_multistart.Rd | 1 man/paired_comparisons.Rd | 2 - man/ppcheckPLMIX.Rd | 1 man/ppcheckPLMIX_cond.Rd | 1 man/rank_ord_switch.Rd | 2 - man/rank_summaries.Rd | 2 - man/selectPLMIX.Rd | 1 29 files changed, 89 insertions(+), 97 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) generic modeling of stochastic textured surfaces.
(2) local defect monitoring and diagnostics in stochastic
textured surfaces, which was proposed by Bui and Apley (2018a)
<doi:10.1080/00401706.2017.1302362>.
(3) global change monitoring in the nature of stochastic
textured surfaces, which was proposed by Bui and Apley (2018b)
<doi:10.1080/00224065.2018.1507559>.
(4) computation of dissimilarity matrix of stochastic textured
surface images, which was proposed by Bui and Apley (2019b)
<doi:10.1016/j.csda.2019.01.019>.
Author: Anh Tuan Bui [aut, cre] and Daniel W. Apley [ths]
Maintainer: Anh Bui <atbui@u.northwestern.edu>
Diff between spc4sts versions 0.4.2 dated 2019-02-25 and 0.5.1 dated 2019-09-04
DESCRIPTION | 10 +++--- MD5 | 59 +++++++++++++++++++++----------------- NAMESPACE | 6 +++ R/bp.R | 10 ++---- R/bp2.R | 16 +++++----- R/climit.R | 35 ++++++++++++++++------ R/climit2.R | 12 ++++++- R/disMat.R | 3 + R/monitoringStat.R | 76 +++++++++++++++++++++++++++++-------------------- R/plot.climit.R |only R/plot.surfacemodel.R |only R/print.climit.R | 4 +- R/print.surfacemodel.R | 27 +++++++++++------ R/sarGen.R | 1 R/sms.R | 67 +++++++++++++++++++------------------------ R/spaCov.R | 73 ++++++++++++++++++++++------------------------- R/stationaryTest.R |only R/surfacemodel.R | 50 +++++++++++++++++++++++++------- R/twms.R |only inst |only man/bp.Rd | 19 ++++++------ man/climit.Rd | 34 +++++++++++++-------- man/climit.object.Rd | 4 +- man/dataPrep.Rd | 2 - man/disMat.Rd | 2 - man/mbChange.Rd | 2 - man/monitoringStat.Rd | 6 ++- man/plotcc.Rd | 3 - man/sarGen.Rd | 2 - man/showNb.Rd | 2 - man/spc4sts-package.Rd | 4 +- man/stationaryTest.Rd |only man/surfacemodel.Rd | 55 +++++++++++++++++++++++------------ man/twms.Rd |only 34 files changed, 342 insertions(+), 242 deletions(-)
More information about freesurferformats at CRAN
Permanent link
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-05-30 0.3.3
2019-04-13 0.3.2
2019-03-10 0.3.1
2019-02-03 0.2.6
2018-01-04 0.2.5
2017-12-09 0.2.4
2017-11-10 0.2.3
2017-11-06 0.2.2
2017-09-18 0.2.1
2017-09-15 0.2.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2013-10-25 0.1.4
2013-08-18 0.1.3
Title: The Exterior Calculus
Description: Provides functionality for working with differentials,
k-forms, wedge products, Stokes's theorem, and related concepts
from the exterior calculus. The canonical reference would be:
M. Spivak (1965, ISBN:0-8053-9021-9). "Calculus on Manifolds",
Benjamin Cummings.
Author: Robin K. S. Hankin [aut, cre] (<https://orcid.org/0000-0001-5982-0415>)
Maintainer: Robin K. S. Hankin <hankin.robin@gmail.com>
Diff between wedge versions 1.0-2 dated 2019-06-27 and 1.0-3 dated 2019-09-04
wedge-1.0-2/wedge/R/keepndrop.R |only wedge-1.0-3/wedge/DESCRIPTION | 10 wedge-1.0-3/wedge/MD5 | 71 ++-- wedge-1.0-3/wedge/NAMESPACE | 3 wedge-1.0-3/wedge/R/mult.R | 210 ++++++++--- wedge-1.0-3/wedge/build/partial.rdb |binary wedge-1.0-3/wedge/build/vignette.rds |binary wedge-1.0-3/wedge/inst/doc/wedge.R | 28 + wedge-1.0-3/wedge/inst/doc/wedge.Rmd | 83 ++++ wedge-1.0-3/wedge/inst/doc/wedge.html | 386 +++++++++++++++++----- wedge-1.0-3/wedge/man/Alt.Rd | 8 wedge-1.0-3/wedge/man/consolidate.Rd | 20 - wedge-1.0-3/wedge/man/contract.Rd |only wedge-1.0-3/wedge/man/cross.Rd | 16 wedge-1.0-3/wedge/man/hodge.Rd | 13 wedge-1.0-3/wedge/man/inner.Rd | 9 wedge-1.0-3/wedge/man/issmall.Rd | 4 wedge-1.0-3/wedge/man/keep.Rd | 11 wedge-1.0-3/wedge/man/kform.Rd | 26 - wedge-1.0-3/wedge/man/ktensor.Rd | 4 wedge-1.0-3/wedge/man/rform.Rd | 2 wedge-1.0-3/wedge/man/scalar.Rd |only wedge-1.0-3/wedge/man/symbolic.Rd | 4 wedge-1.0-3/wedge/man/transform.Rd | 18 - wedge-1.0-3/wedge/man/volume.Rd |only wedge-1.0-3/wedge/man/wedge-package.Rd | 15 wedge-1.0-3/wedge/man/wedge.Rd | 4 wedge-1.0-3/wedge/man/zero.Rd |only wedge-1.0-3/wedge/tests/testthat.R | 3 wedge-1.0-3/wedge/tests/testthat/test_alt.R | 3 wedge-1.0-3/wedge/tests/testthat/test_contract.R |only wedge-1.0-3/wedge/tests/testthat/test_cross.R | 3 wedge-1.0-3/wedge/tests/testthat/test_hodge.R | 4 wedge-1.0-3/wedge/tests/testthat/test_inner.R |only wedge-1.0-3/wedge/tests/testthat/test_ktensor.R | 4 wedge-1.0-3/wedge/tests/testthat/test_misc.R | 2 wedge-1.0-3/wedge/tests/testthat/test_ops.R | 2 wedge-1.0-3/wedge/tests/testthat/test_transform.R | 4 wedge-1.0-3/wedge/tests/testthat/test_wedge.R | 2 wedge-1.0-3/wedge/vignettes/wedge.Rmd | 83 ++++ 40 files changed, 802 insertions(+), 253 deletions(-)
Title: MSigDB Gene Sets for Multiple Organisms in a Tidy Data Format
Description: Provides the 'Molecular Signatures Database' (MSigDB) gene sets
typically used with the 'Gene Set Enrichment Analysis' (GSEA) software
(Subramanian et al. 2005 <doi:10.1073/pnas.0506580102>, Liberzon et al. 2015
<doi:10.1016/j.cels.2015.12.004>) in a standard R data frame with key-value
pairs. The package includes the original human gene symbols and NCBI/Entrez
IDs as well as the equivalents for frequently studied model organisms such
as mouse, rat, pig, fly, and yeast.
Author: Igor Dolgalev [aut, cre]
Maintainer: Igor Dolgalev <igor.dolgalev@nyumc.org>
Diff between msigdbr versions 6.2.1 dated 2018-10-09 and 7.0.1 dated 2019-09-04
DESCRIPTION | 18 +-- LICENSE | 2 MD5 | 24 ++-- NAMESPACE | 6 - NEWS.md | 5 R/functions.R | 14 ++ R/sysdata.rda |binary build/vignette.rds |binary inst/doc/msigdbr-intro.R | 4 inst/doc/msigdbr-intro.Rmd | 16 +- inst/doc/msigdbr-intro.html | 239 +++++++++++++++++++++++----------------- tests/testthat/test-functions.R | 43 +++++-- vignettes/msigdbr-intro.Rmd | 16 +- 13 files changed, 233 insertions(+), 154 deletions(-)
Title: Kaplan-Meier Plot with 'ggplot2'
Description: The function 'jskm()' creates publication quality Kaplan-Meier plot with at risk tables below. 'svyjskm()' provides plot for weighted Kaplan-Meier estimator.
Author: Jinseob Kim [aut, cre] (<https://orcid.org/0000-0002-9403-605X>),
Zarathu [cph, fnd]
Maintainer: Jinseob Kim <jinseob2kim@gmail.com>
Diff between jskm versions 0.3.5 dated 2019-05-17 and 0.3.6 dated 2019-09-04
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 4 ++++ R/jskm.R | 9 +++++++-- R/svyjskm.R | 8 ++++++-- build/vignette.rds |binary inst/doc/jskm.html | 26 +++++++++++++++----------- man/jskm.Rd | 2 +- man/svyjskm.Rd | 2 +- 9 files changed, 46 insertions(+), 29 deletions(-)
Title: Imagine Your Data Before You Collect It
Description: Helps you imagine your data before you collect it. Hierarchical data structures
and correlated data can be easily simulated, either from random number generators or
by resampling from existing data sources. This package is faster with 'data.table' and
'mvnfast' installed.
Author: Graeme Blair [aut, cre],
Jasper Cooper [aut],
Alexander Coppock [aut],
Macartan Humphreys [aut],
Aaron Rudkin [aut],
Neal Fultz [aut]
Maintainer: Graeme Blair <graeme.blair@ucla.edu>
Diff between fabricatr versions 0.8.0 dated 2019-03-12 and 0.10.0 dated 2019-09-04
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NAMESPACE | 10 +++++----- NEWS.md | 5 +++++ R/aaa_fabricate.R | 10 +++++----- R/helper_functions.R | 12 ++++++------ 6 files changed, 30 insertions(+), 25 deletions(-)
Title: MCMC for Spike and Slab Regression
Description: Spike and slab regression with a variety of residual error
distributions corresponding to Gaussian, Student T, probit, logit, SVM, and a
few others. Spike and slab regression is Bayesian regression with prior
distributions containing a point mass at zero. The posterior updates the
amount of mass on this point, leading to a posterior distribution that is
actually sparse, in the sense that if you sample from it many coefficients are
actually zeros. Sampling from this posterior distribution is an elegant way
to handle Bayesian variable selection and model averaging. See
<DOI:10.1504/IJMMNO.2014.059942> for an explanation of the Gaussian case.
Author: Steven L. Scott <steve.the.bayesian@gmail.com>
Maintainer: Steven L. Scott <steve.the.bayesian@gmail.com>
Diff between BoomSpikeSlab versions 1.1.1 dated 2019-06-07 and 1.2.1 dated 2019-09-04
DESCRIPTION | 22 +++-- MD5 | 28 +++++-- NAMESPACE | 10 ++ R/logit.spike.R | 172 +++++++++++++++++++++----------------------- R/spike.slab.prior.R | 2 R/splines.R |only man/logit.spike.Rd | 13 +-- man/splines.Rd |only src/boom_spike_slab_init.cc | 13 +++ src/splines.cc |only tests |only 11 files changed, 148 insertions(+), 112 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-08-20 0.6.2
2018-03-25 0.5
2018-03-25 0.5.1
2017-11-02 0.3.0
2017-09-21 0.1.0