Previous versions (as known to CRANberries) which should be available via the Archive link are:
2023-08-23 0.0.3
2023-07-17 0.0.2
2023-05-29 0.0.1
Title: Search Algorithms and Loss Functions for Bayesian Clustering
Description: The SALSO algorithm is an efficient randomized greedy search method to find a point estimate for a random partition based on a loss function and posterior Monte Carlo samples. The algorithm is implemented for many loss functions, including the Binder loss and a generalization of the variation of information loss, both of which allow for unequal weights on the two types of clustering mistakes. Efficient implementations are also provided for Monte Carlo estimation of the posterior expected loss of a given clustering estimate. See Dahl, Johnson, Müller (2022) <doi:10.1080/10618600.2022.2069779>.
Author: David B. Dahl [aut, cre] ,
Devin J. Johnson [aut] ,
Peter Mueller [aut],
Alex Crichton [ctb] ,
Brendan Zabarauskas [ctb] ,
David B. Dahl [ctb] ,
David Tolnay [ctb] ,
Jim Turner [ctb] ,
Josh Stone [ctb] ,
R. Janis Goldschmidt [ctb] ,
Sean McArthur [ctb [...truncated...]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between salso versions 0.3.35 dated 2023-07-17 and 0.3.41 dated 2024-09-06
salso-0.3.35/salso/src/dummy.c |only salso-0.3.35/salso/src/rust/roxido/src/r.rs |only salso-0.3.35/salso/src/rust/vendor.tar.xz |only salso-0.3.41/salso/DESCRIPTION | 122 salso-0.3.41/salso/LICENSE | 2 salso-0.3.41/salso/MD5 | 78 salso-0.3.41/salso/NAMESPACE | 1 salso-0.3.41/salso/NEWS | 5 salso-0.3.41/salso/R/bell.R | 4 salso-0.3.41/salso/R/chips.R |only salso-0.3.41/salso/R/dlso.R | 4 salso-0.3.41/salso/R/enumerate.partitions.R | 4 salso-0.3.41/salso/R/internal.R | 4 salso-0.3.41/salso/R/partition.loss.R | 4 salso-0.3.41/salso/R/plot.salso.summary.R | 13 salso-0.3.41/salso/R/psm.R | 8 salso-0.3.41/salso/R/roxido.R | 5 salso-0.3.41/salso/R/salso.R | 4 salso-0.3.41/salso/R/summary.salso.estimate.R | 4 salso-0.3.41/salso/build/partial.rdb |binary salso-0.3.41/salso/configure | 4 salso-0.3.41/salso/inst/cargo.log | 4 salso-0.3.41/salso/man/bell.Rd | 4 salso-0.3.41/salso/man/chips.Rd |only salso-0.3.41/salso/man/dlso.Rd | 4 salso-0.3.41/salso/man/enumerate.partitions.Rd | 4 salso-0.3.41/salso/man/partition.loss.Rd | 4 salso-0.3.41/salso/man/plot.salso.summary.Rd | 7 salso-0.3.41/salso/man/psm.Rd | 8 salso-0.3.41/salso/man/salso-package.Rd |only salso-0.3.41/salso/man/salso.Rd | 4 salso-0.3.41/salso/man/summary.salso.estimate.Rd | 4 salso-0.3.41/salso/src/rust/Cargo.lock | 130 - salso-0.3.41/salso/src/rust/Cargo.toml | 6 salso-0.3.41/salso/src/rust/build.rs | 8 salso-0.3.41/salso/src/rust/roxido.txt | 1 salso-0.3.41/salso/src/rust/roxido/Cargo.lock |only salso-0.3.41/salso/src/rust/roxido/src/lib.rs | 2539 +++++++++++++++++++- salso-0.3.41/salso/src/rust/roxido/src/rbindings.rs | 36 salso-0.3.41/salso/src/rust/roxido_macro/Cargo.lock |only salso-0.3.41/salso/src/rust/roxido_macro/src/lib.rs | 367 ++ salso-0.3.41/salso/src/rust/src/lib.rs | 653 ++++- salso-0.3.41/salso/src/rust/vendor.tar.gz |only salso-0.3.41/salso/src/shim.c |only salso-0.3.41/salso/tools/cargo_run.R | 38 45 files changed, 3588 insertions(+), 499 deletions(-)
Title: Fast Computation of some Matrices Useful in Statistics
Description: Small set of functions to fast computation of some matrices and operations
useful in statistics and econometrics. Currently, there are functions for efficient
computation of duplication, commutation and symmetrizer matrices with minimal storage
requirements. Some commonly used matrix decompositions (LU and LDL), basic matrix
operations (for instance, Hadamard, Kronecker products and the Sherman-Morrison formula)
and iterative solvers for linear systems are also available. In addition, the package
includes a number of common statistical procedures such as the sweep operator, weighted
mean and covariance matrix using an online algorithm, linear regression (using Cholesky,
QR, SVD, sweep operator and conjugate gradients methods), ridge regression (with optimal
selection of the ridge parameter considering several procedures), omnibus tests for
univariate normality, functions to compute the multivariate skewness, kurtosis, the
Mahalanobis distance (checking the positive defineteness), and t [...truncated...]
Author: Felipe Osorio [aut, cre] ,
Alonso Ogueda [aut]
Maintainer: Felipe Osorio <felipe.osorios@usm.cl>
Diff between fastmatrix versions 0.5-772 dated 2024-01-17 and 0.5-7721 dated 2024-09-06
ChangeLog | 6 +++ DESCRIPTION | 8 ++--- MD5 | 52 ++++++++++++++++----------------- R/ridge.R | 2 - inst/CITATION | 4 +- inst/include/fastmatrix.h | 3 + inst/include/fastmatrix_API.h | 9 +++++ man/cov.MSSD.Rd | 3 + man/cov.weighted.Rd | 7 +++- src/R_init_fastmatrix.c | 3 + src/bezier.c | 6 +-- src/blas_3.c | 4 +- src/cholesky.c | 8 ++--- src/cov.c | 7 ++-- src/distance_API.c | 12 +++---- src/equilibrate.c | 6 +-- src/fastmatrix.h | 6 +++ src/krylov.c | 6 ++- src/linear_iterative.c | 18 +++++------ src/ls_API.c | 14 ++++---- src/matrix_API.c | 66 +++++++++++++++++++++--------------------- src/norms.c | 6 +-- src/ols.c | 10 +++--- src/power_method.c | 16 +++++----- src/ridge.c | 25 ++++++++------- src/sherman_morrison.c | 10 +++--- src/stats_API.c | 35 ++++++++++++++-------- 27 files changed, 194 insertions(+), 158 deletions(-)
Title: 'R' Grammar for 'Tree-Sitter'
Description: Provides bindings to an 'R' grammar for 'Tree-sitter', to be
used alongside the 'treesitter' package. 'Tree-sitter' builds concrete
syntax trees for source files of any language, and can efficiently
update those syntax trees as the source file is edited.
Author: Davis Vaughan [aut, cre],
Posit Software, PBC [cph, fnd],
Tree-sitter authors [cph]
Maintainer: Davis Vaughan <davis@posit.co>
Diff between treesitter.r versions 1.0.1 dated 2024-06-24 and 1.1.0 dated 2024-09-06
DESCRIPTION | 8 MD5 | 35 NEWS.md | 4 src/parser.c |469496 +++++++----------------------- src/scanner.c | 66 src/tree_sitter/parser.h | 1 tests/testthat/_snaps/control-flow.md | 8 tests/testthat/_snaps/delimiter.md | 60 tests/testthat/_snaps/functions.md | 90 tests/testthat/_snaps/miscellaneous.md | 213 tests/testthat/_snaps/missing.md | 42 tests/testthat/_snaps/newlines.md |only tests/testthat/helper-print.R | 12 tests/testthat/references/control-flow.R | 2 tests/testthat/references/delimiter.R | 7 tests/testthat/references/functions.R | 8 tests/testthat/references/miscellaneous.R | 13 tests/testthat/references/missing.R | 8 tests/testthat/references/newlines.R |only tests/testthat/test-newlines.R |only 20 files changed, 113814 insertions(+), 356259 deletions(-)
Title: Estimating Hidden Population Size using Respondent Driven
Sampling Data
Description: Estimate the size of a networked population based on
respondent-driven sampling data. The package is part of the "RDS Analyst"
suite of packages for the analysis of respondent-driven sampling data.
See Handcock, Gile and Mar (2014) <doi:10.1214/14-EJS923>,
Handcock, Gile and Mar (2015) <doi:10.1111/biom.12255>,
Kim and Handcock (2021) <doi:10.1093/jssam/smz055>, and
McLaughlin, et. al. (2023) <doi:10.1214/23-AOAS1807>.
Author: Mark S. Handcock [aut, cre, cph]
,
Krista J. Gile [aut, cph],
Brian Kim [ctb],
Katherine R. McLaughlin [ctb]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between sspse versions 1.1.0-1 dated 2024-03-28 and 1.1.0-2 dated 2024-09-06
DESCRIPTION | 10 +++++----- MD5 | 15 ++++++++------- R/sspse-doc.R | 2 +- R/sspse-package.R | 4 +++- build/partial.rdb |binary man/fauxmadrona2.Rd | 2 +- man/figures/crssfauxmadrona.png |only man/sspse-package.Rd | 19 ++++++++++++++++++- src/dpoilog.c | 8 ++++---- 9 files changed, 40 insertions(+), 20 deletions(-)
Title: "Risk Model Regression and Analysis with Complex Non-Linear
Models"
Description: Performs survival analysis using general non-linear models. Risk models can be the sum or product of terms. Each term is the product of exponential/linear functions of covariates. Additionally sub-terms can be defined as a sum of exponential, linear threshold, and step functions. Cox Proportional hazards <https://en.wikipedia.org/wiki/Proportional_hazards_model>, Poisson <https://en.wikipedia.org/wiki/Poisson_regression>, and Fine-Grey competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grant 80NSSC19M0161 through a subcontract from the National Council on Radiation Protection and Measurements (NCRP). The computing for this project was performed on the Beocat Research Cluster at Kansas State University, which is funded in part by NSF grants CNS-1006860, EPS-1006860, EPS-0919443, ACI-1440548, CHE-1726332, and NIH P20GM113109.
Author: Eric Giunta [aut, cre] ,
Amir Bahadori [ctb] ,
Dan Andresen [ctb],
Linda Walsh [ctb] ,
Benjamin French [ctb] ,
Lawrence Dauer [ctb],
John Boice Jr [ctb] ,
Kansas State University [cph],
NASA [fnd],
NCRP [fnd],
NRC [fnd]
Maintainer: Eric Giunta <egiunta@ksu.edu>
Diff between Colossus versions 1.1.1 dated 2024-04-30 and 1.1.3 dated 2024-09-06
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Title: Simple Features for R
Description: Support for simple features, a standardized way to
encode spatial vector data. Binds to 'GDAL' for reading and writing
data, to 'GEOS' for geometrical operations, and to 'PROJ' for
projection conversions and datum transformations. Uses by default the 's2'
package for spherical geometry operations on ellipsoidal (long/lat) coordinates.
Author: Edzer Pebesma [aut, cre] ,
Roger Bivand [ctb] ,
Etienne Racine [ctb],
Michael Sumner [ctb],
Ian Cook [ctb],
Tim Keitt [ctb],
Robin Lovelace [ctb],
Hadley Wickham [ctb],
Jeroen Ooms [ctb] ,
Kirill Mueller [ctb],
Thomas Lin Pedersen [ctb],
Dan Baston [c [...truncated...]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between sf versions 1.0-16 dated 2024-03-24 and 1.0-17 dated 2024-09-06
DESCRIPTION | 11 MD5 | 171 ++-- NAMESPACE | 10 NEWS.md | 24 R/RcppExports.R | 4 R/aggregate.R | 14 R/arith.R | 9 R/gdal_utils.R | 8 R/geom-measures.R | 5 R/geom-predicates.R | 4 R/geom-transformers.R | 36 - R/graticule.R | 10 R/init.R | 1 R/join.R | 31 R/make_grid.R | 2 R/plot.R | 38 + R/proj.R | 2 R/read.R | 14 R/sf.R | 36 - R/sfc.R | 23 R/sgbp.R | 24 R/transform.R | 12 build/partial.rdb |binary build/vignette.rds |binary inst/doc/sf1.Rmd | 2 inst/doc/sf1.html | 1573 ++++++++++++++++++++++++++------------------ inst/doc/sf2.Rmd | 2 inst/doc/sf2.html | 538 ++++++++------- inst/doc/sf3.html | 954 ++++++++++++++------------ inst/doc/sf4.html | 539 +++++++-------- inst/doc/sf5.html | 411 ++++++----- inst/doc/sf6.html | 239 +++--- inst/doc/sf7.html | 655 ++++++++++-------- inst/docker/gdal/Dockerfile | 13 man/gdal_utils.Rd | 8 man/geos_binary_pred.Rd | 2 man/geos_unary.Rd | 13 man/interpolate_aw.Rd | 7 man/plot.Rd | 22 man/sfc.Rd | 4 man/sgbp.Rd | 12 man/st_as_sf.Rd | 4 man/st_drivers.Rd | 2 man/st_graticule.Rd | 8 man/st_join.Rd | 29 man/st_make_grid.Rd | 2 man/st_read.Rd | 4 man/st_relate.Rd | 2 man/st_transform.Rd | 11 man/st_write.Rd | 6 man/st_zm.Rd | 2 src/RcppExports.cpp | 14 src/gdal.cpp | 44 + src/gdal_read.cpp | 28 src/proj.cpp | 2 tests/aggregate.R | 2 tests/aggregate.Rout.save | 42 - tests/cast.Rout.save | 38 - tests/crs.R | 12 tests/crs.Rout.save | 156 ---- tests/dist.Rout.save | 38 - tests/dplyr.Rout.save | 38 - tests/empty.R | 2 tests/empty.Rout.save | 40 - tests/gdal_geom.Rout.save | 38 - tests/geos.Rout.save | 38 - tests/graticule.R | 8 tests/graticule.Rout.save | 144 ++-- tests/grid.Rout.save | 40 - tests/maps.Rout.save | 38 - tests/plot.Rout.save | 38 - tests/read.Rout.save | 40 - tests/roundtrip.Rout.save | 44 - tests/s2.Rout.save | 38 - tests/sample.Rout.save | 38 - tests/sfc.R | 20 tests/sfc.Rout.save | 88 +- tests/sfg.Rout.save | 38 - tests/spatstat.R | 2 tests/spatstat.Rout.save | 45 - tests/stars.Rout.save | 38 - tests/testthat/Rplots.pdf |only tests/testthat/test-sfc.R | 8 tests/units.Rout.save | 38 - tests/wkb.Rout.save | 38 - vignettes/sf1.Rmd | 2 vignettes/sf2.Rmd | 2 87 files changed, 3851 insertions(+), 2981 deletions(-)
Title: Age-Depth Modelling using Bayesian Statistics
Description: An approach to age-depth modelling that uses Bayesian statistics to reconstruct accumulation histories for deposits, through combining radiocarbon and other dates with prior information on accumulation rates and their variability. See Blaauw & Christen (2011).
Author: Maarten Blaauw [aut, cre] ,
J. Andres Christen [aut, ctb, cph]
,
Marco A. Aquino Lopez [aut] ,
Judith Esquivel Vazquez [ctb],
Oscar M. Gonzalez V. [ctb],
Ted Belding [cph],
James Theiler [cph],
Brian Gough [cph],
Charles Karney [cph]
Maintainer: Maarten Blaauw <maarten.blaauw@qub.ac.uk>
Diff between rbacon versions 3.2.0 dated 2023-11-27 and 3.3.0 dated 2024-09-06
DESCRIPTION | 10 ++-- MD5 | 65 +++++++++++++++------------ NAMESPACE | 11 +++- NEWS.md | 7 ++ R/MCMC.R | 24 ++++++---- R/accrate.R | 101 +++++++++++++++++++++++++++++++++++++++++-- R/agedepth.R | 48 +++++++++++--------- R/calc.R | 24 ++++++---- R/calibrate.R | 2 R/ccurve.R |only R/internal_plots.R | 18 ++++--- R/rbacon-package.R | 2 R/rbacon.R | 56 ++++++++++++++--------- R/read_write.R | 39 ++++++++-------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/rbacon.Rmd | 4 - inst/doc/rbacon.html | 35 +++++++------- man/Bacon.Rd | 12 ++--- man/Bacon.hist.Rd | 7 ++ man/Baconvergence.Rd | 2 man/accrate.age.Rd | 4 - man/accrate.age.summary.Rd |only man/accrate.depth.Rd | 2 man/accrate.depth.summary.Rd |only man/accrates.core.Rd |only man/add.dates.Rd | 2 man/agedepth.Rd | 13 +++-- man/agemodel.it.Rd | 4 + man/ccurve.Rd |only man/glue.ccurves.Rd |only man/list.ccurves.Rd |only man/mix.ccurves.Rd |only man/new.ccdir.Rd |only man/rbacon.Rd | 2 man/scissors.Rd | 4 + man/thinner.Rd | 4 + vignettes/rbacon.Rmd | 4 - 38 files changed, 338 insertions(+), 168 deletions(-)
Title: Extract Genotypes from a PLINK .bed File
Description: A matrix-like data structure that allows for efficient,
convenient, and scalable subsetting of binary genotype/phenotype files
generated by PLINK (<https://www.cog-genomics.org/plink2>), the whole
genome association analysis toolset, without loading the entire file into
memory.
Author: Alexander Grueneberg [aut, cre],
Gustavo de los Campos [ctb]
Maintainer: Alexander Grueneberg <cran@agrueneberg.info>
Diff between BEDMatrix versions 2.0.3 dated 2020-07-08 and 2.0.4 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 5 +++++ README.md | 10 ++++------ inst/CITATION | 6 +++--- src/BEDMatrix.c | 4 ++-- 6 files changed, 23 insertions(+), 20 deletions(-)
Title: Circular / Ring Buffers
Description: Circular / ring buffers in R and C. There are a couple
of different buffers here with different implementations that
represent different trade-offs.
Author: Rich FitzJohn [aut, cre],
Imperial College of Science, Technology and Medicine [cph]
Maintainer: Rich FitzJohn <rich.fitzjohn@gmail.com>
Diff between ring versions 1.0.5 dated 2023-11-29 and 1.0.6 dated 2024-09-06
DESCRIPTION | 8 ++++---- LICENSE | 2 +- MD5 | 32 ++++++++++++++++---------------- build/vignette.rds |binary inst/doc/ring.html | 4 ++-- inst/doc/ring_applications.Rmd | 2 +- inst/doc/ring_applications.html | 4 ++-- inst/include/ring/ring.c | 2 +- src/convert.c | 30 +++++++++++++++--------------- src/convert.h | 1 - src/ring_r.c | 28 ++++++++++++++-------------- src/ring_r.h | 1 - src/test.c | 6 +++--- src/test.h | 1 - src/util.c | 2 +- src/util.h | 1 - vignettes/ring_applications.Rmd | 2 +- 17 files changed, 61 insertions(+), 65 deletions(-)
Title: Permutation-Based All-Resolutions Inference
Description: Computes the All-Resolution Inference method in the permutation framework, i.e., simultaneous lower confidence bounds for the number of true discoveries. <doi:10.1002/sim.9725>.
Author: Angela Andreella [aut, cre]
Maintainer: Angela Andreella <angela.andreella@unive.it>
Diff between pARI versions 1.1.1 dated 2022-01-10 and 1.1.2 dated 2024-09-06
pARI-1.1.1/pARI/inst/doc/pARI_vignette.R |only pARI-1.1.1/pARI/inst/doc/pARI_vignette.Rmd |only pARI-1.1.1/pARI/inst/doc/pARI_vignette.html |only pARI-1.1.1/pARI/vignettes/pARI_vignette.Rmd |only pARI-1.1.2/pARI/DESCRIPTION | 20 +- pARI-1.1.2/pARI/MD5 | 78 ++++++----- pARI-1.1.2/pARI/NAMESPACE | 3 pARI-1.1.2/pARI/R/Statmap.R | 38 +++-- pARI-1.1.2/pARI/R/criticalVector.R | 34 +++-- pARI-1.1.2/pARI/R/dI.R | 27 ++- pARI-1.1.2/pARI/R/lambdaOpt.R | 30 ++-- pARI-1.1.2/pARI/R/map_TDP.R | 10 - pARI-1.1.2/pARI/R/pARI.R | 49 ++++--- pARI-1.1.2/pARI/R/pARIbrain.R | 97 ++++++++------ pARI-1.1.2/pARI/R/pARIgene.R |only pARI-1.1.2/pARI/R/permTest.R | 29 ++-- pARI-1.1.2/pARI/R/plotNullDistribution.R | 59 +++++--- pARI-1.1.2/pARI/R/signTest.R | 24 +-- pARI-1.1.2/pARI/R/simulateData.R | 14 +- pARI-1.1.2/pARI/R/simulateSpatialData.R |only pARI-1.1.2/pARI/README.md | 10 - pARI-1.1.2/pARI/build/vignette.rds |binary pARI-1.1.2/pARI/inst/doc/intro.R |only pARI-1.1.2/pARI/inst/doc/intro.Rmd |only pARI-1.1.2/pARI/inst/doc/intro.html |only pARI-1.1.2/pARI/man/Statmap.Rd | 82 +++++------- pARI-1.1.2/pARI/man/criticalVector.Rd | 86 ++++++------ pARI-1.1.2/pARI/man/dI.Rd | 83 ++++++------ pARI-1.1.2/pARI/man/lambdaOpt.Rd | 88 +++++++----- pARI-1.1.2/pARI/man/map_TDP.Rd | 54 +++---- pARI-1.1.2/pARI/man/pARI.Rd | 153 +++++++++++----------- pARI-1.1.2/pARI/man/pARIbrain.Rd | 190 ++++++++++++++-------------- pARI-1.1.2/pARI/man/pARIgene.Rd |only pARI-1.1.2/pARI/man/permTest.Rd | 88 ++++++------ pARI-1.1.2/pARI/man/plotNullDistribution.Rd | 113 ++++++++-------- pARI-1.1.2/pARI/man/signTest.Rd | 80 ++++++----- pARI-1.1.2/pARI/man/simulateData.Rd | 64 ++++----- pARI-1.1.2/pARI/man/simulateSpatialData.Rd |only pARI-1.1.2/pARI/src/Makevars.win | 2 pARI-1.1.2/pARI/src/RcppExports.cpp | 2 pARI-1.1.2/pARI/src/colSortC.cpp | 5 pARI-1.1.2/pARI/src/lambdaCalibrate.cpp | 5 pARI-1.1.2/pARI/src/permDiscoveries.cpp | 89 ++++++++++--- pARI-1.1.2/pARI/src/permTest.cpp | 3 pARI-1.1.2/pARI/src/rowSortC.cpp | 5 pARI-1.1.2/pARI/vignettes/intro.Rmd |only 46 files changed, 945 insertions(+), 769 deletions(-)
Title: Management and Processing of Autonomous Recording Unit (ARU)
Data
Description: Parse Autonomous Recording Unit (ARU) data and for sub-sampling recordings.
Extract Metadata from your recordings, select a subset of recordings for
interpretation, and prepare files for processing on the
'WildTrax' <https://wildtrax.ca/> platform. Read and process metadata
from recordings collected using the SongMeter and BAR-LT types of ARUs.
Author: David Hope [aut, cre] ,
Steffi LaZerte [aut] ,
Government of Canada [cph, fnd]
Maintainer: David Hope <david.hope@ec.gc.ca>
Diff between ARUtools versions 0.6.2 dated 2024-04-18 and 0.7.0 dated 2024-09-06
DESCRIPTION | 20 MD5 | 92 NAMESPACE | 7 NEWS.md | 32 R/ARUtools-package.R | 2 R/aaa.R |only R/checks.R | 2 R/clean_logs.R | 88 R/clean_metadata.R | 85 R/create_patterns.R | 143 R/guess_ARU_type.R |only R/helper.R | 92 R/selections.R | 15 R/utils_wave.R | 15 README.md | 12 build/vignette.rds |binary data/example_clean.rda |binary data/example_files.rda |binary data/example_sites.rda |binary data/example_sites_clean.rda |binary inst/doc/ARUtools.html | 84 inst/doc/Misc.html | 2 inst/doc/SubSample.html | 76 inst/doc/customizing.R | 44 inst/doc/customizing.Rmd | 70 inst/doc/customizing.html | 260 + inst/doc/multisampling.html | 167 - inst/doc/spatial.html | 91 inst/doc/timezones.html | 2 inst/extdata/P71-1__20210604T212300-0400_SS.json | 628 +-- inst/extdata/P71-1__20210604T212300-0400_SS.txt | 634 +-- man/add_pattern_aru_type.Rd |only man/clean_logs.Rd | 14 man/clean_metadata.Rd | 4 man/clip_wave.Rd | 5 man/create_lookaround.Rd |only man/create_pattern.Rd | 56 man/get_pattern.Rd |only man/guess_ARU_type.Rd |only man/meta_clean_logs.Rd |only man/set_pattern.Rd |only man/template_observers.Rd | 52 tests/testthat/_snaps/08_selections.md | 3653 +++++++++++------------ tests/testthat/_snaps/10_clean_logs.md | 562 +-- tests/testthat/test-01_create_patterns.R | 246 + tests/testthat/test-02_clean_metadata.R | 6 tests/testthat/test-06_calc_sun.R | 5 tests/testthat/test-08_selections.R | 22 tests/testthat/test-10_clean_logs.R | 13 tests/testthat/test-99_helper.R | 84 vignettes/customizing.Rmd | 70 51 files changed, 4282 insertions(+), 3173 deletions(-)
Title: A Pseudo-Random Number Generator
Description: Provides functions for generating pseudo-random numbers that follow a uniform distribution [0,1]. Randomness tests were conducted using the National Institute of Standards and Technology test suite<https://csrc.nist.gov/pubs/sp/800/22/r1/upd1/final>, along with additional tests. The sequence generated depends on the initial values and parameters. The package includes a linear congruence map as the decision map and three chaotic maps to generate the pseudo-random sequence, which follow a uniform distribution. Other distributions can be generated from the uniform distribution using the Inversion Principle Method and BOX-Muller transformation. Small perturbations in seed values result in entirely different sequences of numbers due to the sensitive nature of the maps being used. The chaotic nature of the maps helps achieve randomness in the generator. Additionally, the generator is capable of producing random bits.
Author: Sajad Ahmad Mir [aut, cre] ,
Dr. Puneet Sharma [aut]
Maintainer: Sajad Ahmad Mir <maths.acad24@gmail.com>
Diff between PRNG versions 0.0.2.1.1 dated 2024-08-30 and 0.0.2.1.2 dated 2024-09-06
DESCRIPTION | 6 +++--- MD5 | 4 ++-- R/PRNG.R | 4 ++-- 3 files changed, 7 insertions(+), 7 deletions(-)
Title: Analysis of Longitudinal Data with Irregular Observation Times
Description: Functions to help with analysis of longitudinal data featuring irregular observation times, where the observation times may be associated with the outcome process. There are functions to quantify the degree of irregularity, fit inverse-intensity weighted Generalized Estimating Equations (Lin H, Scharfstein DO, Rosenheck RA (2004) <doi:10.1111/j.1467-9868.2004.b5543.x>), perform multiple outputation (Pullenayegum EM (2016) <doi:10.1002/sim.6829>) and fit semi-parametric joint models (Liang Y (2009) <doi: 10.1111/j.1541-0420.2008.01104.x>).
Author: Eleanor Pullenayegum [aut, cre]
Maintainer: Eleanor Pullenayegum <eleanor.pullenayegum@sickkids.ca>
Diff between IrregLong versions 0.3.4 dated 2022-02-21 and 0.4.0 dated 2024-09-06
DESCRIPTION | 21 MD5 | 39 - NAMESPACE | 3 R/IIWcode.R | 282 ++++++++- build/vignette.rds |binary inst/doc/Irreglong-vignette.R | 15 inst/doc/Irreglong-vignette.Rmd | 15 inst/doc/Irreglong-vignette.html | 1095 ++++++++++++++++++++++++++----------- man/Liang.Rd | 248 ++++---- man/Liangint.Rd |only man/abacus.plot.Rd | 118 +-- man/addcensoredrows.Rd | 98 +-- man/create.bootstrapped.dataset.Rd |only man/extent.of.irregularity.Rd | 166 ++--- man/iiw.Rd | 102 +-- man/iiw.weights.Rd | 193 +++--- man/iiwgee.Rd | 207 +++--- man/lagfn.Rd | 68 +- man/mo.Rd | 177 +++-- man/outputation.Rd | 132 ++-- vignettes/Irreglong-vignette.Rmd | 15 vignettes/pandoc4ae8d80e2f.html |only 22 files changed, 1872 insertions(+), 1122 deletions(-)
Title: Evaluation of Presence-Absence Models
Description: Collection of functions to evaluate presence-absence models. It
comprises functions to adjust discrimination statistics for the
representativeness effect through case-weighting, along with functions for
visualizing the outcomes. Originally outlined in:
Jiménez-Valverde (2022) The uniform AUC: dealing with the
representativeness effect in presence-absence models. Methods Ecol. Evol,
13, 1224-1236.
Author: Alberto Jimenez-Valverde [aut, cre]
Maintainer: Alberto Jimenez-Valverde <alberto.jimenez.valverde@gmail.com>
Diff between vandalico versions 0.0.1 dated 2022-02-15 and 0.1.0 dated 2024-09-06
DESCRIPTION | 26 ++++++++++++++++---------- MD5 | 15 ++++++++++----- NAMESPACE | 5 +++++ NEWS.md |only R/AUCuniform.R | 26 ++++++++++++++------------ R/AUCuniform_trap.R |only R/CALplot.R | 7 ++++--- R/HSgraph.R |only man/AUCuniform.Rd | 2 +- man/AUCuniform_trap.Rd |only man/HSgraph.Rd |only 11 files changed, 50 insertions(+), 31 deletions(-)
Title: Complementary Package to 'nicheROVER' and 'SIBER'
Description: Provides functions complementary to packages 'nicheROVER' and 'SIBER'
allowing the user to extract Bayesian estimates from data objects created
by the packages 'nicheROVER' and 'SIBER'. Please see the following
publications for detailed methods on 'nicheROVER' and 'SIBER'
Hansen et al. (2015) <doi:10.1890/14-0235.1>,
Jackson et al. (2011) <doi:10.1111/j.1365-2656.2011.01806.x>, and
Layman et al. (2007) <doi:10.1890/0012-9658(2007)88[42:CSIRPF]2.0.CO;2>,
respectfully.
Author: Benjamin L. Hlina [aut, cre]
Maintainer: Benjamin L. Hlina <benjamin.hlina@gmail.com>
Diff between nichetools versions 0.3.0 dated 2024-08-26 and 0.3.1 dated 2024-09-06
DESCRIPTION | 6 MD5 | 30 +- R/create_comparison.R | 3 R/extract_layman.R | 66 ++--- R/niche_ellipse.R | 4 R/zzz.R | 2 README.md | 8 inst/CITATION | 5 inst/doc/using-nichetools-with-the-package-SIBER.Rmd | 29 +- inst/doc/using-nichetools-with-the-package-SIBER.html | 81 +++--- inst/doc/using-nichetools-with-the-package-nicheROVER.html | 2 tests/testthat/test-create_comparison.R | 1 tests/testthat/test-extract_laymans.R | 158 ++++++++++--- tests/testthat/test-extract_similarities.R | 13 - tests/testthat/test-niche_ellipse.R | 67 +++++ vignettes/using-nichetools-with-the-package-SIBER.Rmd | 29 +- 16 files changed, 346 insertions(+), 158 deletions(-)
Title: Apply a PCA Like Procedure Suited for Multivariate Extreme Value
Distributions
Description: Dimension reduction for multivariate data of extreme events with a PCA like procedure as described in Reinbott, Janßen, (2024), <doi:10.48550/arXiv.2408.10650>. Tools for necessary transformations of the data are provided.
Author: Felix Reinbott [aut, cre]
Maintainer: Felix Reinbott <felix.reinbott@ovgu.de>
Diff between maxstablePCA versions 0.1.0 dated 2024-09-02 and 0.1.1 dated 2024-09-06
DESCRIPTION | 6 +++--- MD5 | 19 ++++++++++--------- NAMESPACE | 2 +- R/maxlinalg.R | 2 +- R/pca.R | 4 ++-- README.md | 6 ++---- man/max_stable_prcomp.Rd | 2 +- man/reconstruct.Rd | 2 +- src/init.c |only src/maxmatmul.h | 3 +-- tests/testthat/test-maxpca.R | 1 - 11 files changed, 22 insertions(+), 25 deletions(-)
Title: Behavioural Studies of Large Language Models
Description: Efficient way to design and conduct psychological experiments for testing the performance of large language models. It simplifies the process of setting up experiments and data collection via language models’ API, facilitating a smooth workflow for researchers in the field of machine behaviour.
Author: Xufeng Duan [aut, cre],
Shixuan Li [aut],
Zhenguang Cai [aut]
Maintainer: Xufeng Duan <dxfdxfdxf88@gmail.com>
Diff between MacBehaviour versions 1.2.6 dated 2024-09-02 and 1.2.7 dated 2024-09-06
DESCRIPTION | 27 +++---- MD5 | 16 ++-- NEWS.md | 2 R/exception_handle.R | 45 +++++++------ R/gpt.R | 171 ++++++++++++++++++++++++++++++++++---------------- R/runExperiment.R | 59 ++++++++++++++--- R/tools.R | 174 ++++++++++++++++++++++++++++++++++++--------------- README.md | 138 ++++++++++++++++++++++++++++------------ man/setKey.Rd | 17 +--- 9 files changed, 439 insertions(+), 210 deletions(-)
Title: Download Official Spatial Data Sets of Brazil
Description: Easy access to official spatial data sets of Brazil as 'sf' objects
in R. The package includes a wide range of geospatial data available
at various geographic scales and for various years with harmonized
attributes, projection and fixed topology.
Author: Rafael H. M. Pereira [aut, cre]
,
Caio Nogueira Goncalves [aut],
Paulo Henrique Fernandes de Araujo [ctb],
Guilherme Duarte Carvalho [ctb],
Rodrigo Almeida de Arruda [ctb],
Igor Nascimento [ctb],
Barbara Santiago Pedreira da Costa [ctb],
Welligtton S [...truncated...]
Maintainer: Rafael H. M. Pereira <rafa.pereira.br@gmail.com>
Diff between geobr versions 1.9.0 dated 2024-04-18 and 1.9.1 dated 2024-09-06
DESCRIPTION | 12 - MD5 | 147 ++++++------- R/geobr.R | 9 R/list_geobr.R | 14 - R/lookup_muni.R | 26 +- R/read_amazon.R | 10 R/read_biomes.R | 10 R/read_capitals.R | 3 R/read_census_tract.R | 16 + R/read_comparable_areas.R | 11 - R/read_conservation_units.R | 10 R/read_country.R | 10 R/read_disaster_risk_area.R | 10 R/read_health_facilities.R | 9 R/read_health_region.R | 11 - R/read_immediate_region.R | 16 + R/read_indigenous_land.R | 12 - R/read_intermediate_region.R | 17 + R/read_meso_region.R | 74 +++--- R/read_metro_area.R | 8 R/read_micro_region.R | 73 +++--- R/read_municipal_seat.R | 11 - R/read_municipality.R | 151 ++++--------- R/read_neighborhood.R | 10 R/read_pop_arrangements.R | 10 R/read_region.R | 11 - R/read_schools.R | 9 R/read_semiarid.R | 11 - R/read_state.R | 123 +++-------- R/read_statistical_grid.R | 18 + R/read_urban_area.R | 8 R/read_urban_concentrations.R | 10 R/read_weighting_area.R | 89 ++++---- R/utils.R | 235 ++++++++------------- inst/doc/intro_to_geobr.R | 3 inst/doc/intro_to_geobr.Rmd | 3 inst/doc/intro_to_geobr.html | 43 +-- man/check_connection.Rd | 2 man/download_gpkg.Rd | 14 + man/read_amazon.Rd | 8 man/read_biomes.Rd | 8 man/read_census_tract.Rd | 9 man/read_comparable_areas.Rd | 9 man/read_conservation_units.Rd | 13 + man/read_country.Rd | 8 man/read_disaster_risk_area.Rd | 13 + man/read_health_facilities.Rd | 8 man/read_health_region.Rd | 9 man/read_immediate_region.Rd | 9 man/read_indigenous_land.Rd | 15 + man/read_intermediate_region.Rd | 9 man/read_meso_region.Rd | 9 man/read_metro_area.Rd | 9 man/read_micro_region.Rd | 9 man/read_municipal_seat.Rd | 8 man/read_municipality.Rd | 14 + man/read_neighborhood.Rd | 13 + man/read_pop_arrangements.Rd | 13 + man/read_region.Rd | 8 man/read_schools.Rd | 8 man/read_semiarid.Rd | 13 + man/read_state.Rd | 9 man/read_statistical_grid.Rd | 13 + man/read_urban_area.Rd | 9 man/read_urban_concentrations.Rd | 13 + man/read_weighting_area.Rd | 9 man/roxygen/templates/cache.R |only tests/tests_rafa/long_term_cache.R | 328 +++++++++++++++++++++++++++++- tests/tests_rafa/test_rafa.R | 157 +------------- tests/testthat/test-read_meso_region.R | 3 tests/testthat/test-read_micro_region.R | 8 tests/testthat/test-read_municipality.R | 17 + tests/testthat/test-read_state.R | 2 tests/testthat/test-read_weighting_area.R | 18 - vignettes/intro_to_geobr.Rmd | 3 75 files changed, 1279 insertions(+), 801 deletions(-)
Title: Algorithm Driven Statistical Analysis for Researchers without
Coding Skills
Description: Support functions for R-based 'EQUAL-STATS' software which automatically classifies the data and performs appropriate statistical tests. 'EQUAL-STATS' software is a shiny application with an user-friendly interface to perform complex statistical analysis. Gurusamy,K (2024)<doi:10.5281/zenodo.13354162>.
Author: Kurinchi Gurusamy [aut, cre]
Maintainer: Kurinchi Gurusamy <k.gurusamy@ucl.ac.uk>
Diff between EQUALSTATS versions 0.3.0 dated 2024-09-02 and 0.4.0 dated 2024-09-06
DESCRIPTION | 14 ++- MD5 | 84 +++++++++---------- NAMESPACE | 7 - R/compile_questions.R | 6 - R/function.Check_Distribution.R | 4 R/function.Compare_Groups.R | 4 R/function.Compare_Sample_Pop_Means.R | 4 R/function.Correlation.R | 4 R/function.Create_Plots.R | 4 R/function.Diagnostic_Accuracy_Primary.R | 4 R/function.Diagnostic_Accuracy_Tables.R | 4 R/function.Generate_Hypothesis.R | 4 R/function.Make_Conclusions_Effect_size.R | 4 R/function.Mixed_Effects_Regression.R | 65 ++++---------- R/function.Multivariate_Regression.R | 4 R/function.Regression_Analysis.R | 4 R/function.Sample_Size_Calculations_Effect_size.R | 4 R/function.Sample_Size_Calculations_Primary.R | 4 R/function.Summary_Measures.R | 4 R/function.Survival_Analysis.R | 4 R/function.plan_upload.R | 6 - R/function.plan_upload_no_data.R | 6 - R/function.submit_choices.R | 4 man/compile_questions.Rd | 2 man/function.Check_Distribution.Rd | 5 - man/function.Compare_Groups.Rd | 5 - man/function.Compare_Sample_Pop_Means.Rd | 5 - man/function.Correlation.Rd | 5 - man/function.Create_Plots.Rd | 5 - man/function.Diagnostic_Accuracy_Primary.Rd | 5 - man/function.Diagnostic_Accuracy_Tables.Rd | 5 - man/function.Generate_Hypothesis.Rd | 5 - man/function.Make_Conclusions_Effect_size.Rd | 5 - man/function.Mixed_Effects_Regression.Rd | 5 - man/function.Multivariate_Regression.Rd | 5 - man/function.Regression_Analysis.Rd | 5 - man/function.Sample_Size_Calculations_Effect_size.Rd | 5 - man/function.Sample_Size_Calculations_Primary.Rd | 5 - man/function.Summary_Measures.Rd | 5 - man/function.Survival_Analysis.Rd | 5 - man/function.plan_upload.Rd | 5 - man/function.plan_upload_no_data.Rd | 6 - man/function.submit_choices.Rd | 7 + 43 files changed, 177 insertions(+), 175 deletions(-)
Title: Algorithm Driven Time Series Analysis for Researchers without
Coding Skills
Description: Support functions for R-based 'EQUAL-STATS' software which automatically classifies the data and performs appropriate statistical tests. 'EQUAL-STATS' software is a shiny application with an user-friendly interface to perform complex statistical analysis. Gurusamy,K (2024)<doi:10.5281/zenodo.13354162>.
Author: Kurinchi Gurusamy [aut, cre]
Maintainer: Kurinchi Gurusamy <k.gurusamy@ucl.ac.uk>
Diff between EQUALrepeat versions 0.3.0 dated 2024-09-02 and 0.4.0 dated 2024-09-06
DESCRIPTION | 10 ++++++---- MD5 | 14 +++++++------- R/function.Measurement_Error.R | 6 +++--- R/function.Repeated_Measures.R | 4 ++-- R/function.Time_Series.R | 6 +++--- man/function.Measurement_Error.Rd | 5 +++-- man/function.Repeated_Measures.Rd | 5 +++-- man/function.Time_Series.Rd | 5 +++-- 8 files changed, 30 insertions(+), 25 deletions(-)
Title: Multivariate Multiscale Spatial Analysis
Description: Tools for the multiscale spatial analysis of multivariate data.
Several methods are based on the use of a spatial weighting matrix and its
eigenvector decomposition (Moran's Eigenvectors Maps, MEM).
Several approaches are described in the review Dray et al (2012)
<doi:10.1890/11-1183.1>.
Author: Stephane Dray [aut] ,
David Bauman [ctb],
Guillaume Blanchet [ctb],
Daniel Borcard [ctb],
Sylvie Clappe [ctb],
Guillaume Guenard [ctb] ,
Thibaut Jombart [ctb],
Guillaume Larocque [ctb],
Pierre Legendre [ctb] ,
Naima Madi [ctb],
Helene H Wagner [ctb], [...truncated...]
Maintainer: Aurelie Siberchicot <aurelie.siberchicot@univ-lyon1.fr>
Diff between adespatial versions 0.3-23 dated 2023-10-18 and 0.3-24 dated 2024-09-06
DESCRIPTION | 21 +- MD5 | 56 +++--- NAMESPACE | 1 R/ScotchWhiskey.R | 69 ++++--- R/Tiahura.R | 12 - R/aem.R | 2 R/aem.time.R | 2 R/chooseCN.R | 3 R/constr.hclust-class.R | 5 R/constr.hclust.R | 84 ++++----- R/envspace.test.R | 2 R/listw.select.R | 9 R/multispati.R | 1 R/plot.constr.hclust.R | 271 ++++++++++++++++------------- build/partial.rdb |binary build/vignette.rds |binary inst/doc/tutorial.html | 409 +++++++++++++++++++++------------------------ man/ScotchWhiskey.Rd | 50 ++--- man/Tiahura.Rd | 7 man/aem.Rd | 2 man/constr.hclust-class.Rd | 3 man/constr.hclust.Rd | 69 +++---- man/envspace.test.Rd | 2 man/multispati.Rd | 1 man/plot.constr.hclust.Rd | 61 +++--- src/WRperiodogram.c | 46 ++--- src/WRperiodogram.h | 1 src/constr.hclust.c | 8 src/constr.hclust.h | 2 29 files changed, 616 insertions(+), 583 deletions(-)
Title: Tools to Deal with Raster Maps
Description: A collection of tools to deal with raster maps.
Author: Clement Calenge [aut, cre],
Mathieu Basille [ctb]
Maintainer: Clement Calenge <clement.calenge@ofb.gouv.fr>
Diff between adehabitatMA versions 0.3.16 dated 2023-04-06 and 0.3.17 dated 2024-09-06
adehabitatMA-0.3.16/adehabitatMA/vignettes/auto |only adehabitatMA-0.3.17/adehabitatMA/DESCRIPTION | 18 ++++- adehabitatMA-0.3.17/adehabitatMA/MD5 | 11 +-- adehabitatMA-0.3.17/adehabitatMA/build/vignette.rds |binary adehabitatMA-0.3.17/adehabitatMA/inst/doc/adehabitatMA.pdf |binary adehabitatMA-0.3.17/adehabitatMA/man/adeoptions.Rd | 10 +-- adehabitatMA-0.3.17/adehabitatMA/src/tests.c | 41 ++++--------- 7 files changed, 38 insertions(+), 42 deletions(-)
Title: Analysis of Animal Movements
Description: A collection of tools for the analysis of animal movements.
Author: Clement Calenge [aut, cre],
Stephane Dray [ctb],
Manuela Royer [ctb]
Maintainer: Clement Calenge <clement.calenge@ofb.gouv.fr>
Diff between adehabitatLT versions 0.3.27 dated 2023-04-06 and 0.3.28 dated 2024-09-06
DESCRIPTION | 22 +++++++++++++++++----- MD5 | 8 ++++---- build/vignette.rds |binary inst/doc/adehabitatLT.pdf |binary src/tests.c | 39 +++++++++++++-------------------------- 5 files changed, 34 insertions(+), 35 deletions(-)
Title: Home Range Estimation
Description: A collection of tools for the estimation of animals home range.
Author: Clement Calenge [aut, cre],
Scott Fortmann-Roe [ctb]
Maintainer: Clement Calenge <clement.calenge@ofb.gouv.fr>
Diff between adehabitatHR versions 0.4.21 dated 2023-04-06 and 0.4.22 dated 2024-09-06
DESCRIPTION | 18 +++++++++++++----- MD5 | 16 ++++++++-------- build/vignette.rds |binary inst/doc/adehabitatHR.pdf |binary man/BRB.Rd | 4 ++-- man/estUD-class.Rd | 4 ++-- man/kernelbb.Rd | 2 +- man/kernelkc.Rd | 2 +- src/tests.c | 16 ++++++++-------- 9 files changed, 35 insertions(+), 27 deletions(-)
Title: Lightweight Well-Known Geometry Parsing
Description: Provides a minimal R and C++ API for parsing
well-known binary and well-known text representation of
geometries to and from R-native formats.
Well-known binary is compact
and fast to parse; well-known text is human-readable
and is useful for writing tests. These formats are
useful in R only if the information they contain can be
accessed in R, for which high-performance functions
are provided here.
Author: Dewey Dunnington [aut, cre] ,
Edzer Pebesma [aut] ,
Anthony North [ctb]
Maintainer: Dewey Dunnington <dewey@fishandwhistle.net>
Diff between wk versions 0.9.2 dated 2024-07-09 and 0.9.3 dated 2024-09-06
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/handle-crc.c | 4 ++-- 4 files changed, 12 insertions(+), 8 deletions(-)
Title: Flexible Regression Models for Survival Data
Description: Programs for Martinussen and Scheike (2006), `Dynamic Regression
Models for Survival Data', Springer Verlag. Plus more recent developments.
Additive survival model, semiparametric proportional odds model, fast
cumulative residuals, excess risk models and more. Flexible competing risks
regression including GOF-tests. Two-stage frailty modelling. PLS for the
additive risk model. Lasso in the 'ahaz' package.
Author: Thomas Scheike [aut, cre],
Torben Martinussen [aut],
Jeremy Silver [ctb],
Klaus K. Holst [ctb]
Maintainer: Thomas Scheike <ts@biostat.ku.dk>
Diff between timereg versions 2.0.5 dated 2023-01-17 and 2.0.6 dated 2024-09-06
DESCRIPTION | 22 ++++++++----- MD5 | 29 +++++++++--------- R/base.r | 1 R/comprisk.r | 2 - R/event.r | 8 +--- R/ipcw-residualmean.r | 2 - R/recurrent.r | 42 +++++++++++++------------- R/timecox.r | 1 inst/CITATION | 66 ++++++++++++++++++++--------------------- man/comp.risk.Rd | 2 - man/recurrent.marginal.mean.Rd | 42 +++++++++++++------------- man/res.mean.Rd | 2 - src/Makevars | 16 --------- src/Makevars.win |only src/matrix.c | 12 +++---- src/matrix.h | 6 +-- 16 files changed, 121 insertions(+), 132 deletions(-)
Title: Tools to Support the Sheffield Elicitation Framework
Description: Implements various methods for eliciting a probability
distribution for a single parameter from an expert or a group of
experts. The expert provides a small number of probability judgements,
corresponding to points on his or her cumulative distribution
function. A range of parametric distributions can then be fitted and
displayed, with feedback provided in the form of fitted probabilities
and percentiles. For multiple experts, a weighted linear pool can be
calculated. Also includes functions for eliciting beliefs about
population distributions; eliciting multivariate distributions using a
Gaussian copula; eliciting a Dirichlet distribution; eliciting
distributions for variance parameters in a random effects
meta-analysis model; survival extrapolation. R Shiny apps for most of the methods are
included.
Author: Jeremy Oakley [aut, cre]
Maintainer: Jeremy Oakley <j.oakley@sheffield.ac.uk>
Diff between SHELF versions 1.10.0 dated 2024-05-07 and 1.11.0 dated 2024-09-06
SHELF-1.10.0/SHELF/inst/doc/Multivariate-normal-copula.R |only SHELF-1.10.0/SHELF/inst/doc/Multivariate-normal-copula.Rmd |only SHELF-1.10.0/SHELF/inst/doc/Multivariate-normal-copula.html |only SHELF-1.10.0/SHELF/vignettes/Multivariate-normal-copula.Rmd |only SHELF-1.11.0/SHELF/DESCRIPTION | 29 +++++--- SHELF-1.11.0/SHELF/MD5 | 33 +++++----- SHELF-1.11.0/SHELF/NAMESPACE | 6 + SHELF-1.11.0/SHELF/R/elicitCopula.R | 3 SHELF-1.11.0/SHELF/R/elicitSurvivalExtrapolation.R |only SHELF-1.11.0/SHELF/R/fitdist.R | 19 +++-- SHELF-1.11.0/SHELF/R/makeCDFPlot.R | 6 + SHELF-1.11.0/SHELF/R/survivalModelExtrapolations.R |only SHELF-1.11.0/SHELF/R/survivalScenario.R |only SHELF-1.11.0/SHELF/build/vignette.rds |binary SHELF-1.11.0/SHELF/inst/NEWS.md | 7 ++ SHELF-1.11.0/SHELF/inst/shinyAppFiles/distributionsChild.Rmd | 5 + SHELF-1.11.0/SHELF/inst/shinyAppFiles/elicitationShinySummarySurvivalExtrapolation.Rmd |only SHELF-1.11.0/SHELF/man/SHELF-package.Rd | 6 + SHELF-1.11.0/SHELF/man/copulaSample.Rd | 4 - SHELF-1.11.0/SHELF/man/elicitSurvivalExtrapolation.Rd |only SHELF-1.11.0/SHELF/man/fitdist.Rd | 9 +- SHELF-1.11.0/SHELF/man/survivalModelExtrapolations.Rd |only SHELF-1.11.0/SHELF/man/survivalScenario.Rd |only 23 files changed, 85 insertions(+), 42 deletions(-)
Title: Import and Export 'Familias' Files
Description: Tools for exchanging pedigree data between the 'pedsuite'
packages and the 'Familias' software for forensic kinship computations
(Egeland et al. (2000) <doi:10.1016/s0379-0738(00)00147-x>). These
functions were split out from the 'forrel' package to streamline
maintenance and provide a lightweight alternative for packages otherwise
independent of 'forrel'.
Author: Magnus Dehli Vigeland [aut, cre]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedFamilias versions 0.2.2 dated 2024-04-03 and 0.2.4 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- NEWS.md | 9 ++++++--- R/readFam.R | 18 ++++++++++-------- R/writeFam.R | 6 +++--- README.md | 13 ++++++++----- build/partial.rdb |binary man/readFam.Rd | 10 +++++----- man/writeFam.Rd | 4 ++-- 9 files changed, 46 insertions(+), 38 deletions(-)
Title: Scoring Algorithm for the Implicit Association Test (IAT)
Description: This minimalist package is designed to quickly score raw data outputted from an Implicit Association Test (IAT; Greenwald, McGhee, & Schwartz, 1998) <doi:10.1037/0022-3514.74.6.1464>. IAT scores are calculated as specified by Greenwald, Nosek, and Banaji (2003) <doi:10.1037/0022-3514.85.2.197>. Outputted values can be interpreted as effect sizes. The input function consists of three arguments. First, indicate the name of the dataset to be analyzed. This is the only required input. Second, indicate the number of trials in your entire IAT (the default is set to 219, which is typical for most IATs). Last, indicate whether congruent trials (e.g., flowers and pleasant) or incongruent trials (e.g., guns and pleasant) were presented first for this participant (the default is set to congruent). The script will tell you how long it took to run the code, the effect size for the participant, and whether that participant should be excluded based on the criteria outlined by Greenwal [...truncated...]
Author: Daniel Storage [aut, cre]
Maintainer: Daniel Storage <danielstorage@icloud.com>
Diff between IATScore versions 0.1.1 dated 2018-01-10 and 0.2.0 dated 2024-09-06
DESCRIPTION | 14 +++++++++----- LICENSE | 4 ++-- MD5 | 14 +++++++------- R/IATScore.R | 6 +++++- man/BriefIAT.Rd | 4 +++- man/IAT.Rd | 4 +++- man/IATScore.Rd | 2 +- man/TooFastIAT.Rd | 4 +++- 8 files changed, 33 insertions(+), 19 deletions(-)
Title: Compute Effect Sizes and Reliability for Implicit Association
Test (IAT) Data
Description: Quickly score raw data outputted from an Implicit Association Test (IAT; Greenwald, McGhee, & Schwartz, 1998) <doi:10.1037/0022-3514.74.6.1464>. IAT scores are calculated as specified by Greenwald, Nosek, and Banaji (2003) <doi:10.1037/0022-3514.85.2.197>. The output of this function is a data frame that consists of four rows containing the following information: (1) the overall IAT effect size for the participant's dataset, (2) the effect size calculated for odd trials only, (3) the effect size calculated for even trials only, and (4) the proportion of trials with reaction times under 300ms (which is important for exclusion purposes). Items (2) and (3) allow for a measure of the internal consistency of the IAT. Specifically, you can use the subsetted IAT effect sizes for odd and even trials to calculate Cronbach's alpha across participants in the sample. The input function consists of three arguments. First, indicate the name of the dataset to be analyzed. This i [...truncated...]
Author: Daniel Storage [aut, cre]
Maintainer: Daniel Storage <danielstorage@icloud.com>
Diff between IATanalytics versions 0.1.1 dated 2018-06-13 and 0.2.0 dated 2024-09-06
DESCRIPTION | 10 +++++++--- LICENSE | 4 ++-- MD5 | 6 +++--- R/IATanalytics.R | 14 +++++++++++++- 4 files changed, 25 insertions(+), 9 deletions(-)
Title: Feature Allocation Neighborhood Greedy Search Algorithm
Description: A neighborhood-based, greedy search algorithm is performed to estimate a feature allocation by minimizing the expected loss based on posterior samples from the feature allocation distribution. The method is currently under peer review but an earlier draft is available in Dahl, Johnson, and Andros (2022+) <doi:10.48550/arXiv.2207.13824>.
Author: David B. Dahl [aut, cre] ,
R. Jacob Andros [aut] ,
Devin J. Johnson [aut] ,
Alex Crichton [ctb] ,
Andrii Dmytrenko [ctb] ,
Brendan Zabarauskas [ctb] ,
David B. Dahl [ctb] ,
David Tolnay [ctb] ,
Jim Turner [ctb] ,
Josh Stone [ctb] ,
Niko Matsakis [ctb [...truncated...]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between fangs versions 0.2.13 dated 2023-07-17 and 0.2.17 dated 2024-09-06
fangs-0.2.13/fangs/src/dummy.c |only fangs-0.2.13/fangs/src/rust/roxido.txt |only fangs-0.2.13/fangs/src/rust/roxido/src/r.rs |only fangs-0.2.13/fangs/src/rust/vendor.tar.xz |only fangs-0.2.17/fangs/DESCRIPTION | 116 fangs-0.2.17/fangs/LICENSE | 2 fangs-0.2.17/fangs/MD5 | 36 fangs-0.2.17/fangs/NEWS | 4 fangs-0.2.17/fangs/build/partial.rdb |binary fangs-0.2.17/fangs/configure | 4 fangs-0.2.17/fangs/inst/cargo.log | 2 fangs-0.2.17/fangs/src/rust/Cargo.lock | 124 fangs-0.2.17/fangs/src/rust/Cargo.toml | 5 fangs-0.2.17/fangs/src/rust/build.rs | 8 fangs-0.2.17/fangs/src/rust/roxido/Cargo.lock |only fangs-0.2.17/fangs/src/rust/roxido/src/lib.rs | 2539 +++++++++++++++++++- fangs-0.2.17/fangs/src/rust/roxido/src/rbindings.rs | 36 fangs-0.2.17/fangs/src/rust/roxido_macro/Cargo.lock |only fangs-0.2.17/fangs/src/rust/roxido_macro/src/lib.rs | 367 ++ fangs-0.2.17/fangs/src/rust/src/lib.rs | 201 - fangs-0.2.17/fangs/src/rust/vendor.tar.gz |only fangs-0.2.17/fangs/src/shim.c |only fangs-0.2.17/fangs/tools/cargo_run.R | 38 23 files changed, 3092 insertions(+), 390 deletions(-)
Title: Evolutionary Multiobjective Optimization Algorithms
Description: Collection of building blocks for the design and analysis
of evolutionary multiobjective optimization algorithms.
Author: Olaf Mersmann [aut, cre]
Maintainer: Olaf Mersmann <olafm@p-value.net>
Diff between emoa versions 0.5-2 dated 2024-01-26 and 0.5-3 dated 2024-09-06
DESCRIPTION | 9 +- MD5 | 12 +-- README.md | 7 -- src/cec2009.c | 161 +++++++++++++++++++++++------------------------- src/crowding_distance.c | 8 +- src/dominance.c | 8 +- src/sympart.c | 6 - 7 files changed, 102 insertions(+), 109 deletions(-)
Title: Cluster Analysis via Random Partition Distributions
Description: Cluster analysis is performed using pairwise distance information and a random partition distribution. The method is
implemented for two random partition distributions. It draws samples and then obtains and plots clustering estimates.
An implementation of a selection algorithm is provided for the mass parameter of the partition distribution. Since
pairwise distances are the principal input to this procedure, it is most comparable to the hierarchical and k-medoids
clustering methods. The method is Dahl, Andros, Carter (2022+) <doi:10.1002/sam.11602>.
Author: David B. Dahl [aut, cre] ,
R. Jacob Andros [aut] ,
J. Brandon Carter [aut] ,
Alex Crichton [ctb] ,
Brendan Zabarauskas [ctb] ,
David B. Dahl [ctb] ,
David Tolnay [ctb] ,
Jim Turner [ctb] ,
Jorge Aparicio [ctb] ,
Josh Stone [ctb] ,
Mikhail Vorotilov [ [...truncated...]
Maintainer: David B. Dahl <dahl@stat.byu.edu>
Diff between caviarpd versions 0.3.9 dated 2023-07-17 and 0.3.13 dated 2024-09-06
caviarpd-0.3.13/caviarpd/DESCRIPTION | 128 caviarpd-0.3.13/caviarpd/LICENSE | 2 caviarpd-0.3.13/caviarpd/MD5 | 39 caviarpd-0.3.13/caviarpd/NEWS | 4 caviarpd-0.3.13/caviarpd/build/partial.rdb |binary caviarpd-0.3.13/caviarpd/configure | 4 caviarpd-0.3.13/caviarpd/inst/cargo.log | 2 caviarpd-0.3.13/caviarpd/src/rust/Cargo.lock | 103 caviarpd-0.3.13/caviarpd/src/rust/Cargo.toml | 5 caviarpd-0.3.13/caviarpd/src/rust/build.rs | 8 caviarpd-0.3.13/caviarpd/src/rust/epa/Cargo.lock |only caviarpd-0.3.13/caviarpd/src/rust/epa/src/clust.rs | 2 caviarpd-0.3.13/caviarpd/src/rust/roxido/Cargo.lock |only caviarpd-0.3.13/caviarpd/src/rust/roxido/src/lib.rs | 2539 +++++++++++++- caviarpd-0.3.13/caviarpd/src/rust/roxido/src/rbindings.rs | 36 caviarpd-0.3.13/caviarpd/src/rust/roxido_macro/Cargo.lock |only caviarpd-0.3.13/caviarpd/src/rust/roxido_macro/src/lib.rs | 367 +- caviarpd-0.3.13/caviarpd/src/rust/src/lib.rs | 148 caviarpd-0.3.13/caviarpd/src/rust/vendor.tar.gz |only caviarpd-0.3.13/caviarpd/src/shim.c |only caviarpd-0.3.13/caviarpd/tools/cargo_run.R | 38 caviarpd-0.3.9/caviarpd/src/dummy.c |only caviarpd-0.3.9/caviarpd/src/rust/roxido.txt |only caviarpd-0.3.9/caviarpd/src/rust/roxido/src/r.rs |only caviarpd-0.3.9/caviarpd/src/rust/vendor.tar.xz |only 25 files changed, 3079 insertions(+), 346 deletions(-)
Title: Sparse Matrix Format with Data on Disk
Description: Provide a sparse matrix format with data stored on disk, to be
used in both R and C++. This is intended for more efficient use of sparse
data in C++ and also when parallelizing, since data on disk does not need
copying. Only a limited number of features will be implemented. For now,
conversion can be performed from a 'dgCMatrix' or a 'dsCMatrix' from R
package 'Matrix'. A new compact format is also now available.
Author: Florian Prive [aut, cre]
Maintainer: Florian Prive <florian.prive.21@gmail.com>
Diff between bigsparser versions 0.7.1 dated 2024-05-31 and 0.7.3 dated 2024-09-06
DESCRIPTION | 6 +++--- MD5 | 17 +++++++++-------- NAMESPACE | 3 +++ R/RcppExports.R | 12 ++++++++++++ R/SFBM.R | 31 +++++++++++++++++++++++-------- man/SFBM-methods.Rd | 9 +++++++++ src/Makevars | 1 + src/RcppExports.cpp | 36 ++++++++++++++++++++++++++++++++++++ src/diag.cpp |only tests/testthat/test-accessor.R | 23 +++++++++++++++++++++++ 10 files changed, 119 insertions(+), 19 deletions(-)
Title: Adaptive Rejection Sampling
Description: Adaptive Rejection Sampling, Original version.
Author: Paulino Perez Rodriguez [aut, cre]
Maintainer: Paulino Perez Rodriguez <perpdgo@colpos.mx>
Diff between ars versions 0.7 dated 2024-04-05 and 0.8 dated 2024-09-06
DESCRIPTION | 18 +++++++++++------- MD5 | 6 +++--- R/ars.R | 2 +- src/ars.cpp | 28 ++++++++++++++-------------- 4 files changed, 29 insertions(+), 25 deletions(-)
Title: Toolkit for Regression Analysis of Kazakhstan Banking Sector
Data
Description: Tool is created for regression, prediction and forecast analysis of macroeconomic and credit data.
The package includes functions from existing R packages adapted for banking sector of Kazakhstan.
The purpose of the package is to optimize statistical functions for easier interpretation for bank analysts and non-statisticians.
Author: Timur Abilkassymov [aut],
Shyngys Shuneyev [aut],
Alua Makhmetova [aut],
Sultan Zhaparov [aut, cre]
Maintainer: Sultan Zhaparov <saldau.sultan@gmail.com>
Diff between AFR versions 0.3.5 dated 2023-10-29 and 0.3.6 dated 2024-09-06
DESCRIPTION | 24 +- MD5 | 20 +- R/finratKZ.R | 3 R/macroKZ.R | 7 README.md |only data/finratKZ.rda |binary data/macroKZ.rda |binary inst/doc/Data-transformation.html | 305 +++++++++++++++++++------------------- inst/doc/Diagnostic-tests.html | 116 +++++++------- inst/doc/Regression-model.html | 9 - man/figures |only man/macroKZ.Rd | 2 12 files changed, 252 insertions(+), 234 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') Driver Manager
Description: Provides a developer-facing interface to 'Arrow' Database
Connectivity ('ADBC') for the purposes of driver development, driver
testing, and building high-level database interfaces for users. 'ADBC'
<https://arrow.apache.org/adbc/> is an API standard for database access
libraries that uses 'Arrow' for result sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcdrivermanager versions 0.13.0 dated 2024-07-09 and 0.14.0 dated 2024-09-06
adbcdrivermanager-0.13.0/adbcdrivermanager/src/adbc.h |only adbcdrivermanager-0.13.0/adbcdrivermanager/src/adbc_driver_manager.cc |only adbcdrivermanager-0.13.0/adbcdrivermanager/src/adbc_driver_manager.h |only adbcdrivermanager-0.13.0/adbcdrivermanager/src/driver_base.h |only adbcdrivermanager-0.14.0/adbcdrivermanager/DESCRIPTION | 6 adbcdrivermanager-0.14.0/adbcdrivermanager/MD5 | 102 ++++- adbcdrivermanager-0.14.0/adbcdrivermanager/configure | 26 - adbcdrivermanager-0.14.0/adbcdrivermanager/src/Makevars | 10 adbcdrivermanager-0.14.0/adbcdrivermanager/src/c |only adbcdrivermanager-0.14.0/adbcdrivermanager/src/driver_test.cc | 180 ++++++---- adbcdrivermanager-0.14.0/adbcdrivermanager/src/error.cc | 4 adbcdrivermanager-0.14.0/adbcdrivermanager/src/options.cc | 2 adbcdrivermanager-0.14.0/adbcdrivermanager/src/radbc.cc | 4 adbcdrivermanager-0.14.0/adbcdrivermanager/src/radbc.h | 2 adbcdrivermanager-0.14.0/adbcdrivermanager/tests/testthat/_snaps/driver_log.md | 16 adbcdrivermanager-0.14.0/adbcdrivermanager/tests/testthat/test-driver_log.R | 6 adbcdrivermanager-0.14.0/adbcdrivermanager/tests/testthat/test-error.R | 4 adbcdrivermanager-0.14.0/adbcdrivermanager/tests/testthat/test-options.R | 29 + 18 files changed, 257 insertions(+), 134 deletions(-)
More information about adbcdrivermanager at CRAN
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Title: Analyze and Visualize Data from 'Microsoft Viva Insights'
Description: Provides a versatile range of functions, including exploratory data analysis, time-series analysis, organizational network analysis, and data validation, whilst at the same time implements a set of best practices in analyzing and visualizing data specific to 'Microsoft Viva Insights'.
Author: Martin Chan [aut, cre],
Carlos Morales [aut]
Maintainer: Martin Chan <martin.chan@microsoft.com>
Diff between vivainsights versions 0.5.3 dated 2024-06-06 and 0.5.4 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 12 +++++++----- NAMESPACE | 1 + NEWS.md | 4 ++++ R/create_lorenz.R |only R/export.R | 2 +- R/globals.R | 5 ++++- man/create_lorenz.Rd |only 8 files changed, 21 insertions(+), 11 deletions(-)
Title: Long-Short Term Memory for Time-Series Forecasting, Enhanced
Description: The LSTM (Long Short-Term Memory) model is a Recurrent Neural Network (RNN) based architecture that is widely used for time series forecasting. Customizable configurations for the model are allowed, improving the capabilities and usability of this model compared to other packages. This package is based on 'keras' and 'tensorflow' modules and the algorithm of Paul and Garai (2021) <doi:10.1007/s00500-021-06087-4>.
Author: Jaime Pizarroso Gonzalo [aut, ctb, cre],
Antonio Munoz San Roque [aut]
Maintainer: Jaime Pizarroso Gonzalo <jpizarroso@comillas.edu>
Diff between TSLSTMplus versions 1.0.4 dated 2024-03-10 and 1.0.5 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 4 ++-- R/TSLSTM.R | 4 ++-- 3 files changed, 8 insertions(+), 8 deletions(-)
Title: Spatial Early Warning Signals of Ecosystem Degradation
Description: Tools to compute and assess significance of early-warnings signals (EWS) of ecosystem degradation on raster data sets. EWS are spatial metrics derived from raster data -- e.g. spatial autocorrelation -- that increase before an ecosystem undergoes a non-linear transition (Genin et al. (2018) <doi:10.1111/2041-210X.13058>).
Author: Alain Danet [aut],
Alexandre Genin [aut, cre],
Vishwesha Guttal [aut],
Sonia Kefi [aut],
Sabiha Majumder [aut],
Sumithra Sankaran [aut],
Florian Schneider [aut]
Maintainer: Alexandre Genin <alexandre.genin@sete.cnrs.fr>
Diff between spatialwarnings versions 3.0.3 dated 2022-03-21 and 3.1.0 dated 2024-09-06
spatialwarnings-3.0.3/spatialwarnings/R/arizona.R |only spatialwarnings-3.0.3/spatialwarnings/R/forestgap.R |only spatialwarnings-3.0.3/spatialwarnings/R/serengeti.R |only spatialwarnings-3.0.3/spatialwarnings/man/generic_spews-deprecated.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/indicator_moran.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/indicator_sdr.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/indicator_skewness.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/indicator_variance.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/patchdistr_spews-deprecated.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/spatialwarnings-deprecated.Rd |only spatialwarnings-3.0.3/spatialwarnings/man/spectral_spews-deprecated.Rd |only spatialwarnings-3.0.3/spatialwarnings/tests/testthat/rodriguez2018/read_sd.m |only spatialwarnings-3.1.0/spatialwarnings/DESCRIPTION | 44 - spatialwarnings-3.1.0/spatialwarnings/MD5 | 182 ++-- spatialwarnings-3.1.0/spatialwarnings/NAMESPACE | 15 spatialwarnings-3.1.0/spatialwarnings/NEWS | 25 spatialwarnings-3.1.0/spatialwarnings/R/RcppExports.R | 32 spatialwarnings-3.1.0/spatialwarnings/R/clustering.R |only spatialwarnings-3.1.0/spatialwarnings/R/datasets.R |only spatialwarnings-3.1.0/spatialwarnings/R/deprecation.R | 432 ---------- spatialwarnings-3.1.0/spatialwarnings/R/display_matrix.R | 2 spatialwarnings-3.1.0/spatialwarnings/R/extra_doc.R | 36 spatialwarnings-3.1.0/spatialwarnings/R/fitpsd.R | 154 ++- spatialwarnings-3.1.0/spatialwarnings/R/helpers.R | 6 spatialwarnings-3.1.0/spatialwarnings/R/indicator_plrange.R | 21 spatialwarnings-3.1.0/spatialwarnings/R/indicator_psdtype.R | 40 spatialwarnings-3.1.0/spatialwarnings/R/indictest.R | 30 spatialwarnings-3.1.0/spatialwarnings/R/label.R | 92 +- spatialwarnings-3.1.0/spatialwarnings/R/lsw_sews.R |only spatialwarnings-3.1.0/spatialwarnings/R/null_model_helpers.R | 1 spatialwarnings-3.1.0/spatialwarnings/R/simple_indic.R | 10 spatialwarnings-3.1.0/spatialwarnings/R/simple_indic_indictest.R | 20 spatialwarnings-3.1.0/spatialwarnings/R/simple_indic_methods.R | 4 spatialwarnings-3.1.0/spatialwarnings/R/spatialwarnings-deprecated.R | 21 spatialwarnings-3.1.0/spatialwarnings/R/spatialwarnings.R | 25 spatialwarnings-3.1.0/spatialwarnings/R/task_flowlength.R | 4 spatialwarnings-3.1.0/spatialwarnings/R/task_generic_indic.R | 28 spatialwarnings-3.1.0/spatialwarnings/R/task_kbdm.R | 6 spatialwarnings-3.1.0/spatialwarnings/R/task_patch_indic.R | 40 spatialwarnings-3.1.0/spatialwarnings/R/task_patch_indic_methods.R | 13 spatialwarnings-3.1.0/spatialwarnings/R/task_spectral_indic.R | 31 spatialwarnings-3.1.0/spatialwarnings/R/task_spectral_indic_methods.R | 6 spatialwarnings-3.1.0/spatialwarnings/R/task_variogram_indic.R | 8 spatialwarnings-3.1.0/spatialwarnings/R/task_variogram_indic_indictest.R | 3 spatialwarnings-3.1.0/spatialwarnings/build/partial.rdb |binary spatialwarnings-3.1.0/spatialwarnings/data/dda.pars.rda |only spatialwarnings-3.1.0/spatialwarnings/data/dda.rda |only spatialwarnings-3.1.0/spatialwarnings/man/arizona.Rd | 6 spatialwarnings-3.1.0/spatialwarnings/man/create_indicator.Rd | 10 spatialwarnings-3.1.0/spatialwarnings/man/dLSW.Rd |only spatialwarnings-3.1.0/spatialwarnings/man/dda.Rd |only spatialwarnings-3.1.0/spatialwarnings/man/display_matrix.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/extract_spectrum.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/extract_variogram.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/flowlength_sews.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/forestgap.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/generic_sews.Rd | 22 spatialwarnings-3.1.0/spatialwarnings/man/indicator_plrange.Rd | 14 spatialwarnings-3.1.0/spatialwarnings/man/indicator_psdtype.Rd | 28 spatialwarnings-3.1.0/spatialwarnings/man/indictest.Rd | 30 spatialwarnings-3.1.0/spatialwarnings/man/kbdm_sews.Rd | 4 spatialwarnings-3.1.0/spatialwarnings/man/label.Rd | 24 spatialwarnings-3.1.0/spatialwarnings/man/lsw_sews.Rd |only spatialwarnings-3.1.0/spatialwarnings/man/patchdistr_sews.Rd | 25 spatialwarnings-3.1.0/spatialwarnings/man/patchdistr_sews_plot.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/patchdistr_sews_predict.Rd | 11 spatialwarnings-3.1.0/spatialwarnings/man/patchsizes.Rd | 26 spatialwarnings-3.1.0/spatialwarnings/man/pl_fit.Rd | 62 - spatialwarnings-3.1.0/spatialwarnings/man/plot_spectrum.Rd | 4 spatialwarnings-3.1.0/spatialwarnings/man/raw_cg_moran.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_cg_skewness.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_cg_variance.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_clustering.Rd |only spatialwarnings-3.1.0/spatialwarnings/man/raw_flowlength_uniform.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_kbdm.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_moran.Rd | 8 spatialwarnings-3.1.0/spatialwarnings/man/raw_plrange.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/raw_sdr.Rd | 4 spatialwarnings-3.1.0/spatialwarnings/man/rspectrum.Rd | 8 spatialwarnings-3.1.0/spatialwarnings/man/serengeti.Rd | 19 spatialwarnings-3.1.0/spatialwarnings/man/simple_sews.Rd | 36 spatialwarnings-3.1.0/spatialwarnings/man/simple_sews_methods.Rd | 3 spatialwarnings-3.1.0/spatialwarnings/man/spatialwarnings.Rd | 25 spatialwarnings-3.1.0/spatialwarnings/man/spectral_sews.Rd | 27 spatialwarnings-3.1.0/spatialwarnings/man/variogram_sews.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/variogram_sews_plot.Rd | 5 spatialwarnings-3.1.0/spatialwarnings/man/variogram_sews_predict.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/man/xmin_estim.Rd | 2 spatialwarnings-3.1.0/spatialwarnings/src/RcppExports.cpp | 56 - spatialwarnings-3.1.0/spatialwarnings/src/clustering.cpp |only spatialwarnings-3.1.0/spatialwarnings/src/label.cpp | 8 spatialwarnings-3.1.0/spatialwarnings/src/moran_correlation.cpp | 13 spatialwarnings-3.1.0/spatialwarnings/src/norm_constants.cpp | 118 +- spatialwarnings-3.1.0/spatialwarnings/src/rspectrum.cpp | 8 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-clustering.R |only spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-lsw.R |only spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-nullfun.R | 6 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-parallelism.R | 11 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-patches.R |only spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-psd-predict.R | 19 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-psdfit.R | 349 ++++---- spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-spectrum.R | 27 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-tplnorm.R |only spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-variogram.R | 3 spatialwarnings-3.1.0/spatialwarnings/tests/testthat/test-xminest.R | 7 105 files changed, 1131 insertions(+), 1256 deletions(-)
More information about spatialwarnings at CRAN
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Title: Stochastic Multi-Criteria Acceptability Analysis
Description: Implementation of the Stochastic Multi-Criteria Acceptability Analysis (SMAA) family of Multiple Criteria Decision Analysis (MCDA) methods. Tervonen, T. and Figueira, J. R. (2008) <doi:10.1002/mcda.407>.
Author: Gert van Valkenhoef [aut, cre, cph]
Maintainer: Gert van Valkenhoef <gert@gertvv.nl>
Diff between smaa versions 0.3-2 dated 2023-04-28 and 0.3-3 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- build/partial.rdb |binary man/smaa.Rd | 8 ++++---- man/smaa.values.Rd | 8 ++++---- tests/Examples/smaa-Ex.Rout.save | 18 ++++++++---------- 6 files changed, 25 insertions(+), 27 deletions(-)
Title: Policy Learning
Description: Package for evaluating user-specified finite stage policies and learning optimal treatment policies via doubly robust loss functions. Policy learning methods include doubly robust learning of the blip/conditional average treatment effect and sequential policy tree learning. The package also include methods for optimal subgroup analysis. See Nordland and Holst (2022) <doi:10.48550/arXiv.2212.02335> for documentation and references.
Author: Andreas Nordland [aut, cre],
Klaus Holst [aut]
Maintainer: Andreas Nordland <andreasnordland@gmail.com>
Diff between polle versions 1.4 dated 2024-04-25 and 1.5 dated 2024-09-06
polle-1.4/polle/R/value_functions.R |only polle-1.5/polle/DESCRIPTION | 10 polle-1.5/polle/MD5 | 132 - polle-1.5/polle/NAMESPACE | 1 polle-1.5/polle/NEWS.md | 5 polle-1.5/polle/R/Q_function.R | 172 +- polle-1.5/polle/R/blip.R | 483 ++++-- polle-1.5/polle/R/drql.R | 203 +- polle-1.5/polle/R/earl.R | 5 polle-1.5/polle/R/estimate_target.R |only polle-1.5/polle/R/fit_functions.R | 54 polle-1.5/polle/R/helper_functions.R | 44 polle-1.5/polle/R/history_functions.R | 2 polle-1.5/polle/R/nuisance_functions.R | 2 polle-1.5/polle/R/owl.R | 5 polle-1.5/polle/R/policy_data.R | 8 polle-1.5/polle/R/policy_data_functions.R | 15 polle-1.5/polle/R/policy_def.R | 10 polle-1.5/polle/R/policy_eval.R | 924 +++++++++---- polle-1.5/polle/R/policy_eval_functions.R | 96 - polle-1.5/polle/R/policy_learn.R | 205 +- polle-1.5/polle/R/policy_object_functions.R | 72 - polle-1.5/polle/R/ptl.R | 472 ++++-- polle-1.5/polle/R/q_models.R | 53 polle-1.5/polle/R/rql.R | 96 - polle-1.5/polle/R/rwl.R | 5 polle-1.5/polle/R/simulation.R | 8 polle-1.5/polle/build/partial.rdb |binary polle-1.5/polle/build/vignette.rds |binary polle-1.5/polle/inst/doc/optimal_subgroup.R |only polle-1.5/polle/inst/doc/optimal_subgroup.Rmd |only polle-1.5/polle/inst/doc/optimal_subgroup.html |only polle-1.5/polle/inst/doc/policy_data.html | 451 +++--- polle-1.5/polle/inst/doc/policy_eval.R | 4 polle-1.5/polle/inst/doc/policy_eval.Rmd | 4 polle-1.5/polle/inst/doc/policy_eval.html | 81 - polle-1.5/polle/inst/doc/policy_learn.html | 209 +- polle-1.5/polle/man/control_ptl.Rd | 3 polle-1.5/polle/man/copy_policy_data.Rd | 3 polle-1.5/polle/man/get_actions.Rd | 2 polle-1.5/polle/man/get_history.Rd | 6 polle-1.5/polle/man/get_id_stage.Rd | 2 polle-1.5/polle/man/get_policy.Rd | 44 polle-1.5/polle/man/get_policy_actions.Rd | 2 polle-1.5/polle/man/get_policy_functions.Rd | 41 polle-1.5/polle/man/get_q_functions.Rd | 25 polle-1.5/polle/man/get_utility.Rd | 2 polle-1.5/polle/man/policy.Rd | 2 polle-1.5/polle/man/policy_data.Rd | 8 polle-1.5/polle/man/policy_def.Rd | 4 polle-1.5/polle/man/policy_eval.Rd | 208 ++ polle-1.5/polle/man/policy_learn.Rd | 91 - polle-1.5/polle/man/polle-package.Rd | 2 polle-1.5/polle/man/predict.nuisance_functions.Rd | 2 polle-1.5/polle/man/sim_multi_stage.Rd | 4 polle-1.5/polle/man/sim_two_stage.Rd | 2 polle-1.5/polle/man/sim_two_stage_multi_actions.Rd | 2 polle-1.5/polle/tests/testthat/test-fit_functions.R |only polle-1.5/polle/tests/testthat/test-g_models.R | 145 +- polle-1.5/polle/tests/testthat/test-helper_functions.R |only polle-1.5/polle/tests/testthat/test-policy_data.R | 12 polle-1.5/polle/tests/testthat/test-policy_eval.R | 763 ++++++++-- polle-1.5/polle/tests/testthat/test-policy_eval_subgroup.R |only polle-1.5/polle/tests/testthat/test-policy_learn.R | 58 polle-1.5/polle/tests/testthat/test-policy_learn_blip.R | 338 ++++ polle-1.5/polle/tests/testthat/test-policy_learn_drql.R | 184 +- polle-1.5/polle/tests/testthat/test-policy_learn_ptl.R | 255 ++- polle-1.5/polle/tests/testthat/test-policy_learn_ql.R | 49 polle-1.5/polle/tests/testthat/test-q_glmnet.R |only polle-1.5/polle/tests/testthat/test-q_models.R | 76 - polle-1.5/polle/vignettes/optimal_subgroup.Rmd |only polle-1.5/polle/vignettes/policy_eval.Rmd | 4 72 files changed, 4180 insertions(+), 1990 deletions(-)
Title: Explainable Outlier Detection Through Decision Tree Conditioning
Description: Outlier detection method that flags suspicious values within observations,
constrasting them against the normal values in a user-readable format, potentially
describing conditions within the data that make a given outlier more rare.
Full procedure is described in Cortes (2020) <doi:10.48550/arXiv.2001.00636>.
Loosely based on the 'GritBot' <https://www.rulequest.com/gritbot-info.html> software.
Author: David Cortes [aut, cre]
Maintainer: David Cortes <david.cortes.rivera@gmail.com>
Diff between outliertree versions 1.9.0 dated 2024-02-09 and 1.10.0 dated 2024-09-06
DESCRIPTION | 14 +++++++++----- MD5 | 6 +++--- inst/doc/Introducing_OutlierTree.html | 4 ++-- src/clusters.cpp | 19 +++++++++---------- 4 files changed, 23 insertions(+), 20 deletions(-)
Title: Nonlinear Nonparametric Statistics
Description: Nonlinear nonparametric statistics using partial moments. Partial moments are the elements of variance and asymptotically approximate the area of f(x). These robust statistics provide the basis for nonlinear analysis while retaining linear equivalences. NNS offers: Numerical integration, Numerical differentiation, Clustering, Correlation, Dependence, Causal analysis, ANOVA, Regression, Classification, Seasonality, Autoregressive modeling, Normalization, Stochastic dominance and Advanced Monte Carlo sampling. All routines based on: Viole, F. and Nawrocki, D. (2013), Nonlinear Nonparametric Statistics: Using Partial Moments (ISBN: 1490523995).
Author: Fred Viole [aut, cre],
Roberto Spadim [ctb]
Maintainer: Fred Viole <ovvo.financial.systems@gmail.com>
Diff between NNS versions 10.9.1 dated 2024-08-23 and 10.9.2 dated 2024-09-06
NNS-10.9.1/NNS/vignettes/images/ARMA_ex.png |only NNS-10.9.2/NNS/DESCRIPTION | 8 NNS-10.9.2/NNS/MD5 | 49 ++-- NNS-10.9.2/NNS/NAMESPACE | 1 NNS-10.9.2/NNS/R/ANOVA.R | 62 +++-- NNS-10.9.2/NNS/R/Binary_ANOVA.R | 85 ++++--- NNS-10.9.2/NNS/R/Boost.R | 2 NNS-10.9.2/NNS/R/Central_tendencies.R | 14 - NNS-10.9.2/NNS/R/Copula.R | 2 NNS-10.9.2/NNS/R/Dependence.R | 73 +++--- NNS-10.9.2/NNS/R/Regression.R | 3 NNS-10.9.2/NNS/R/Stack.R | 16 - NNS-10.9.2/NNS/R/gvload.R | 2 NNS-10.9.2/NNS/README.md | 4 NNS-10.9.2/NNS/inst/doc/NNSvignette_Comparing_Distributions.R | 4 NNS-10.9.2/NNS/inst/doc/NNSvignette_Comparing_Distributions.Rmd | 12 - NNS-10.9.2/NNS/inst/doc/NNSvignette_Comparing_Distributions.html | 85 +++++-- NNS-10.9.2/NNS/inst/doc/NNSvignette_Correlation_and_Dependence.html | 24 +- NNS-10.9.2/NNS/inst/doc/NNSvignette_Forecasting.R | 58 ++-- NNS-10.9.2/NNS/inst/doc/NNSvignette_Forecasting.Rmd | 58 ++-- NNS-10.9.2/NNS/inst/doc/NNSvignette_Forecasting.html | 118 ++++------ NNS-10.9.2/NNS/man/NNS.ANOVA.Rd | 15 + NNS-10.9.2/NNS/vignettes/NNSvignette_Comparing_Distributions.Rmd | 12 - NNS-10.9.2/NNS/vignettes/NNSvignette_Forecasting.Rmd | 58 ++-- NNS-10.9.2/NNS/vignettes/images/ARMA_optim.png |binary NNS-10.9.2/NNS/vignettes/images/ARMA_optim_h_50.png |binary 26 files changed, 429 insertions(+), 336 deletions(-)
Title: Statistical Entropy Analysis of Network Data
Description: Statistical entropy analysis of network data as introduced by Frank and Shafie (2016) <doi:10.1177/0759106315615511>, and a in textbook which is in progress.
Author: Termeh Shafie [aut, cre]
Maintainer: Termeh Shafie <termeh.shafie@uni-konstanz.de>
Diff between netropy versions 0.1.0 dated 2022-02-02 and 0.2.0 dated 2024-09-06
DESCRIPTION | 15 MD5 | 88 +-- NAMESPACE | 1 NEWS.md | 4 R/assoc_graph.R | 68 +- R/div_gof.R |only R/entropy_bivar.R | 76 +-- R/entropy_trivar.R | 119 ++--- R/get_dyad_var.R | 96 +--- R/get_triad_var.R | 171 ++++--- R/joint_entropy.R | 91 +-- R/lawdata.R | 16 R/prediction_power.R | 99 ++-- R/redundancy.R | 56 +- README.md | 53 +- build/vignette.rds |binary inst/doc/div_gof.R |only inst/doc/div_gof.Rmd |only inst/doc/div_gof.html |only inst/doc/joint_entropies.R | 2 inst/doc/joint_entropies.Rmd | 4 inst/doc/joint_entropies.html | 426 ++++++++++++++---- inst/doc/prediction_power.R | 2 inst/doc/prediction_power.Rmd | 2 inst/doc/prediction_power.html | 404 +++++++++++++---- inst/doc/univariate_bivariate_trivariate.R | 2 inst/doc/univariate_bivariate_trivariate.Rmd | 1 inst/doc/univariate_bivariate_trivariate.html | 438 ++++++++++++++---- inst/doc/variable_domains.R | 4 inst/doc/variable_domains.Rmd | 3 inst/doc/variable_domains.html | 613 ++++++++++++++++++-------- man/assoc_graph.Rd | 24 - man/div_gof.Rd |only man/entropy_bivar.Rd | 24 - man/entropy_trivar.Rd | 24 - man/figures/README-assoc_g-1.png |binary man/figures/hex_netropy.png |binary man/get_dyad_var.Rd | 32 - man/get_triad_var.Rd | 32 - man/joint_entropy.Rd | 24 - man/lawdata.Rd | 16 man/prediction_power.Rd | 26 - man/redundancy.Rd | 26 - vignettes/div_gof.Rmd |only vignettes/joint_entropies.Rmd | 4 vignettes/prediction_power.Rmd | 2 vignettes/univariate_bivariate_trivariate.Rmd | 1 vignettes/variable_domains.Rmd | 3 48 files changed, 2081 insertions(+), 1011 deletions(-)
Title: Data Analysis for Censored Environmental Data
Description: Contains methods described by Dennis Helsel in
his book "Statistics for Censored Environmental Data
using Minitab and R" (2011) and courses and videos at
<https://practicalstats.com>. This package adds new functions to
the `NADA` Package.
Author: Paul Julian [aut, cre],
Dennis Helsel [aut, cph]
Maintainer: Paul Julian <pauljulianphd@gmail.com>
Diff between NADA2 versions 1.1.6 dated 2024-02-26 and 1.1.8 dated 2024-09-06
DESCRIPTION | 8 MD5 | 30 +-- NEWS.md | 11 + R/ATS.R | 11 + R/Pollen_Thia.R | 2 R/cen1way.R | 1 R/centrend.R | 15 + R/cfit.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/Censored_Data_Analysis.Rmd | 4 inst/doc/Censored_Data_Analysis.html | 339 +++++++++++++++++------------------ man/ATS.Rd | 5 man/Pollen_Thia.Rd | 2 man/centrend.Rd | 9 vignettes/Censored_Data_Analysis.Rmd | 4 16 files changed, 244 insertions(+), 201 deletions(-)
Title: Targets for JAGS Pipelines
Description: Bayesian data analysis usually incurs long runtimes
and cumbersome custom code.
A pipeline toolkit tailored to Bayesian statisticians,
the 'jagstargets' R package is leverages
'targets' and 'R2jags' to ease this burden.
'jagstargets' makes it super easy to set up scalable
JAGS pipelines that automatically parallelize the computation
and skip expensive steps when the results are already up to date.
Minimal custom code is required, and there is no need to manually
configure branching, so usage is much easier than 'targets' alone.
For the underlying methodology, please refer
to the documentation of 'targets' <doi:10.21105/joss.02959> and 'JAGS'
(Plummer 2003) <https://www.r-project.org/conferences/DSC-2003/Proceedings/Plummer.pdf>.
Author: William Michael Landau [aut, cre]
,
David Lawrence Miller [rev],
Eli Lilly and Company [cph]
Maintainer: William Michael Landau <will.landau.oss@gmail.com>
Diff between jagstargets versions 1.2.0 dated 2024-04-17 and 1.2.1 dated 2024-09-06
DESCRIPTION | 8 ++-- MD5 | 20 +++++----- NEWS.md | 4 ++ R/tar_jags_df.R | 4 +- build/vignette.rds |binary inst/doc/introduction.html | 62 ++++++++++++++++++++----------- inst/doc/simulation.html | 76 ++++++++++++++++++++++++-------------- man/tar_jags_df.Rd | 2 - man/tar_jags_rep.Rd | 2 - man/tar_jags_rep_run.Rd | 2 - tests/testthat/test-tar_jags_df.R | 2 - 11 files changed, 113 insertions(+), 69 deletions(-)
Title: Summarise Patient-Level Drug Utilisation in Data Mapped to the
OMOP Common Data Model
Description: Summarise patient-level drug utilisation cohorts using data mapped
to the Observational Medical Outcomes Partnership (OMOP) common data model.
New users and prevalent users cohorts can be generated and their
characteristics, indication and drug use summarised.
Author: Marti Catala [aut, cre] ,
Mike Du [ctb] ,
Yuchen Guo [aut] ,
Kim Lopez-Guell [aut] ,
Edward Burn [aut] ,
Xintong Li [ctb] ,
Marta Alcalde-Herraiz [ctb] ,
Nuria Mercade-Besora [aut] ,
Xihang Chen [aut]
Maintainer: Marti Catala <marti.catalasabate@ndorms.ox.ac.uk>
Diff between DrugUtilisation versions 0.7.0 dated 2024-07-29 and 0.7.1 dated 2024-09-06
DrugUtilisation-0.7.0/DrugUtilisation/vignettes/daily_dose_calculation.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/daily_dose_calculation.html |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/drug_restart.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/indication.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/indication.html |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/mock_data.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/mock_data.html |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/summarise_treatments.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/summarise_treatments.html |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/treatment_discontinuation.R |only DrugUtilisation-0.7.0/DrugUtilisation/vignettes/treatment_discontinuation.html |only DrugUtilisation-0.7.1/DrugUtilisation/DESCRIPTION | 6 DrugUtilisation-0.7.1/DrugUtilisation/MD5 | 239 DrugUtilisation-0.7.1/DrugUtilisation/NAMESPACE | 134 DrugUtilisation-0.7.1/DrugUtilisation/NEWS.md | 42 DrugUtilisation-0.7.1/DrugUtilisation/R/addDrugUse.R | 1980 - DrugUtilisation-0.7.1/DrugUtilisation/R/addDrugUtilisation.R | 2196 - DrugUtilisation-0.7.1/DrugUtilisation/R/addIndication.R | 558 DrugUtilisation-0.7.1/DrugUtilisation/R/assert.R | 1018 DrugUtilisation-0.7.1/DrugUtilisation/R/benchmarkDrugUtilisation.R | 310 DrugUtilisation-0.7.1/DrugUtilisation/R/checkInputs.R | 1436 - DrugUtilisation-0.7.1/DrugUtilisation/R/cohortUtilities.R | 2 DrugUtilisation-0.7.1/DrugUtilisation/R/dailyDose.R | 602 DrugUtilisation-0.7.1/DrugUtilisation/R/data.R | 90 DrugUtilisation-0.7.1/DrugUtilisation/R/generateAtcCohortSet.R | 276 DrugUtilisation-0.7.1/DrugUtilisation/R/generateDrugUtilisationCohortSet.R | 418 DrugUtilisation-0.7.1/DrugUtilisation/R/generateIngredientCohortSet.R | 364 DrugUtilisation-0.7.1/DrugUtilisation/R/mockDrugUtilisation.R | 1080 DrugUtilisation-0.7.1/DrugUtilisation/R/pattern.R | 642 DrugUtilisation-0.7.1/DrugUtilisation/R/plotProportionOfPatientsCovered.R | 2 DrugUtilisation-0.7.1/DrugUtilisation/R/plots.R | 930 DrugUtilisation-0.7.1/DrugUtilisation/R/readConceptList.R | 90 DrugUtilisation-0.7.1/DrugUtilisation/R/reexports.R | 62 DrugUtilisation-0.7.1/DrugUtilisation/R/require.R | 742 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseDrugRestart.R | 624 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseDrugUse.R | 242 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseDrugUtilisation.R | 390 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseIndication.R | 543 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseProportionOfPatientsCovered.R | 656 DrugUtilisation-0.7.1/DrugUtilisation/R/summariseTreatment.R | 502 DrugUtilisation-0.7.1/DrugUtilisation/R/tables.R | 1774 - DrugUtilisation-0.7.1/DrugUtilisation/README.md | 410 DrugUtilisation-0.7.1/DrugUtilisation/build/vignette.rds |binary DrugUtilisation-0.7.1/DrugUtilisation/inst/CITATION | 22 DrugUtilisation-0.7.1/DrugUtilisation/inst/Concept/asthma.json | 36 DrugUtilisation-0.7.1/DrugUtilisation/inst/acetaminophen.json | 24 DrugUtilisation-0.7.1/DrugUtilisation/inst/concepts/acetaminophen.json | 24 DrugUtilisation-0.7.1/DrugUtilisation/inst/concepts/influenza.json | 24 DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/create_cohorts.R | 764 DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/create_cohorts.Rmd | 1288 DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/create_cohorts.html | 2034 - DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/drug_utilisation.R | 348 DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/drug_utilisation.Rmd | 598 DrugUtilisation-0.7.1/DrugUtilisation/inst/doc/drug_utilisation.html |14127 ++++------ DrugUtilisation-0.7.1/DrugUtilisation/inst/pattern_assessment_for_dose_final.csv | 84 DrugUtilisation-0.7.1/DrugUtilisation/man/DrugUtilisation-package.Rd | 80 DrugUtilisation-0.7.1/DrugUtilisation/man/addCumulativeDose.Rd | 120 DrugUtilisation-0.7.1/DrugUtilisation/man/addCumulativeQuantity.Rd | 124 DrugUtilisation-0.7.1/DrugUtilisation/man/addDailyDose.Rd | 74 DrugUtilisation-0.7.1/DrugUtilisation/man/addDrugUse.Rd | 242 DrugUtilisation-0.7.1/DrugUtilisation/man/addDrugUtilisation.Rd | 186 DrugUtilisation-0.7.1/DrugUtilisation/man/addExposedTime.Rd | 132 DrugUtilisation-0.7.1/DrugUtilisation/man/addIndication.Rd | 140 DrugUtilisation-0.7.1/DrugUtilisation/man/addInitialDailyDose.Rd | 120 DrugUtilisation-0.7.1/DrugUtilisation/man/addInitialQuantity.Rd | 124 DrugUtilisation-0.7.1/DrugUtilisation/man/addNumberEras.Rd | 132 DrugUtilisation-0.7.1/DrugUtilisation/man/addNumberExposures.Rd | 124 DrugUtilisation-0.7.1/DrugUtilisation/man/addRoute.Rd | 58 DrugUtilisation-0.7.1/DrugUtilisation/man/addTimeToExposure.Rd | 124 DrugUtilisation-0.7.1/DrugUtilisation/man/cohortGapEra.Rd | 86 DrugUtilisation-0.7.1/DrugUtilisation/man/dailyDoseCoverage.Rd | 42 DrugUtilisation-0.7.1/DrugUtilisation/man/defaultTableOptions.Rd | 42 DrugUtilisation-0.7.1/DrugUtilisation/man/generateAtcCohortSet.Rd | 160 DrugUtilisation-0.7.1/DrugUtilisation/man/generateDrugUtilisationCohortSet.Rd | 154 DrugUtilisation-0.7.1/DrugUtilisation/man/generateIngredientCohortSet.Rd | 202 DrugUtilisation-0.7.1/DrugUtilisation/man/mockDrugUtilisation.Rd | 88 DrugUtilisation-0.7.1/DrugUtilisation/man/patternTable.Rd | 58 DrugUtilisation-0.7.1/DrugUtilisation/man/patternsWithFormula.Rd | 38 DrugUtilisation-0.7.1/DrugUtilisation/man/plotDrugRestart.Rd | 120 DrugUtilisation-0.7.1/DrugUtilisation/man/plotIndication.Rd | 118 DrugUtilisation-0.7.1/DrugUtilisation/man/plotProportionOfPatientsCovered.Rd | 62 DrugUtilisation-0.7.1/DrugUtilisation/man/plotTreatment.Rd | 106 DrugUtilisation-0.7.1/DrugUtilisation/man/readConceptList.Rd | 62 DrugUtilisation-0.7.1/DrugUtilisation/man/reexports.Rd | 50 DrugUtilisation-0.7.1/DrugUtilisation/man/requireDrugInDateRange.Rd | 108 DrugUtilisation-0.7.1/DrugUtilisation/man/requireIsFirstDrugEntry.Rd | 86 DrugUtilisation-0.7.1/DrugUtilisation/man/requireObservationBeforeDrug.Rd | 100 DrugUtilisation-0.7.1/DrugUtilisation/man/requirePriorDrugWashout.Rd | 106 DrugUtilisation-0.7.1/DrugUtilisation/man/stratifyByUnit.Rd | 70 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseDoseCoverage.Rd | 88 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseDrugRestart.Rd | 130 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseDrugUse.Rd | 112 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseDrugUtilisation.Rd | 188 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseIndication.Rd | 154 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseProportionOfPatientsCovered.Rd | 68 DrugUtilisation-0.7.1/DrugUtilisation/man/summariseTreatment.Rd | 116 DrugUtilisation-0.7.1/DrugUtilisation/man/tableDoseCoverage.Rd | 128 DrugUtilisation-0.7.1/DrugUtilisation/man/tableDrugRestart.Rd | 146 DrugUtilisation-0.7.1/DrugUtilisation/man/tableDrugUtilisation.Rd | 152 DrugUtilisation-0.7.1/DrugUtilisation/man/tableIndication.Rd | 124 DrugUtilisation-0.7.1/DrugUtilisation/man/tableProportionOfPatientsCovered.Rd | 98 DrugUtilisation-0.7.1/DrugUtilisation/man/tableTreatment.Rd | 126 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat.R | 24 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/_snaps/addDrugUtilisation.md | 144 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/setup.R | 84 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-addDrugUtilisation.R | 690 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-benchmarkDrugUtilisation.R | 60 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-dailyDose.R | 518 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-drugUse.R | 2118 - DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-generateDrugUtilisationCohortSet.R | 188 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-generatedAtcCohortSet.R | 48 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-generatedIngredientCohortSet.R | 266 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-indication.R | 1347 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-patterns.R | 128 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-plotProportionOfPatientsCovered.R | 296 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-plotTreatment.R | 182 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-plots.R | 248 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-readConceptList.R | 38 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-require.R | 1306 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-summariseDrugRestart.R | 272 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-summariseDrugUtilisation.R | 248 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-summariseProportionOfPatientsCovered.R | 1196 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-summariseTreatment.R | 104 DrugUtilisation-0.7.1/DrugUtilisation/tests/testthat/test-tables.R | 1098 DrugUtilisation-0.7.1/DrugUtilisation/vignettes/create_cohorts.Rmd | 1288 DrugUtilisation-0.7.1/DrugUtilisation/vignettes/drug_utilisation.Rmd | 598 126 files changed, 27730 insertions(+), 27760 deletions(-)
More information about DrugUtilisation at CRAN
Permanent link
Title: Covariate-Based Covariance Functions for Nonstationary Spatial
Modeling
Description: Estimation and prediction of nonstationary Gaussian process with modular covariate-based covariance functions. Routines for handling large datasets are also provided.
Author: Federico Blasi [aut, cre] ,
Reinhard Furrer [ctb]
Maintainer: Federico Blasi <federico.blasi@math.uzh.ch>
Diff between cocons versions 0.1.1 dated 2024-08-01 and 0.1.2 dated 2024-09-06
cocons-0.1.1/cocons/man/cov_rns_taper_optimized_predict_range.Rd |only cocons-0.1.1/cocons/man/cov_rns_taper_optimized_range.Rd |only cocons-0.1.2/cocons/DESCRIPTION | 8 cocons-0.1.2/cocons/MD5 | 100 +-- cocons-0.1.2/cocons/R/RcppExports.R | 8 cocons-0.1.2/cocons/R/checkFunctions.R | 80 ++ cocons-0.1.2/cocons/R/cocons.R | 96 ++- cocons-0.1.2/cocons/R/data.R | 25 cocons-0.1.2/cocons/R/getFunctions.R | 268 ++++----- cocons-0.1.2/cocons/R/methods.R | 279 +++++----- cocons-0.1.2/cocons/R/neg2loglikelihood.R | 84 +-- cocons-0.1.2/cocons/R/optim.R | 122 ++-- cocons-0.1.2/cocons/R/predict.R | 89 ++- cocons-0.1.2/cocons/R/profile.R | 4 cocons-0.1.2/cocons/R/sim.R | 77 +- cocons-0.1.2/cocons/inst/doc/cocons.pdf |binary cocons-0.1.2/cocons/man/GetNeg2loglikelihood.Rd | 16 cocons-0.1.2/cocons/man/GetNeg2loglikelihoodProfile.Rd | 18 cocons-0.1.2/cocons/man/GetNeg2loglikelihoodTaper.Rd | 20 cocons-0.1.2/cocons/man/GetNeg2loglikelihoodTaperProfile.Rd | 20 cocons-0.1.2/cocons/man/coco.Rd | 94 ++- cocons-0.1.2/cocons/man/cocoOptim.Rd | 62 +- cocons-0.1.2/cocons/man/cocoPredict.Rd | 58 +- cocons-0.1.2/cocons/man/cocoSim.Rd | 64 +- cocons-0.1.2/cocons/man/cocons-package.Rd | 15 cocons-0.1.2/cocons/man/cov_rns_taper.Rd |only cocons-0.1.2/cocons/man/cov_rns_taper_pred.Rd |only cocons-0.1.2/cocons/man/getAIC.Rd | 6 cocons-0.1.2/cocons/man/getBIC.Rd | 6 cocons-0.1.2/cocons/man/getBoundaries.Rd | 8 cocons-0.1.2/cocons/man/getBoundariesV2.Rd | 18 cocons-0.1.2/cocons/man/getBoundariesV3.Rd | 20 cocons-0.1.2/cocons/man/getCIs.Rd | 12 cocons-0.1.2/cocons/man/getCRPS.Rd | 13 cocons-0.1.2/cocons/man/getCondNumber.Rd | 8 cocons-0.1.2/cocons/man/getCovMatrix.Rd | 14 cocons-0.1.2/cocons/man/getDesignMatrix.Rd | 19 cocons-0.1.2/cocons/man/getEstims.Rd | 6 cocons-0.1.2/cocons/man/getHessian.Rd | 8 cocons-0.1.2/cocons/man/getLogScore.Rd | 15 cocons-0.1.2/cocons/man/getLoglik.Rd | 4 cocons-0.1.2/cocons/man/getModHess.Rd | 9 cocons-0.1.2/cocons/man/getModelLists.Rd | 12 cocons-0.1.2/cocons/man/getPen.Rd | 12 cocons-0.1.2/cocons/man/getScale.Rd | 12 cocons-0.1.2/cocons/man/getSpatEffects.Rd | 8 cocons-0.1.2/cocons/man/getTrend.Rd | 8 cocons-0.1.2/cocons/man/holes.Rd | 12 cocons-0.1.2/cocons/man/plot-methods.Rd | 4 cocons-0.1.2/cocons/man/stripes.Rd | 13 cocons-0.1.2/cocons/src/RcppExports.cpp | 20 cocons-0.1.2/cocons/src/cocons_full.cpp | 4 cocons-0.1.2/cocons/src/cocons_taper.cpp | 4 53 files changed, 1141 insertions(+), 741 deletions(-)
Title: A Comprehensive Interface for Accessing the Protein Data Bank
Description: Streamlines the interaction with the 'RCSB' Protein Data Bank ('PDB') <https://www.rcsb.org/>. This interface offers an intuitive and
powerful tool for searching and retrieving a diverse range of data types from the 'PDB'. It includes advanced functionalities like
BLAST and sequence motif queries. Built upon the existing XML-based API of the 'PDB', it simplifies the creation of custom requests,
thereby enhancing usability and flexibility for researchers.
Author: Selcuk Korkmaz [aut, cre] ,
Bilge Eren Yamasan [aut]
Maintainer: Selcuk Korkmaz <selcukorkmaz@gmail.com>
Diff between rPDBapi versions 2.0 dated 2024-09-04 and 2.1 dated 2024-09-06
DESCRIPTION | 6 - MD5 | 52 +++++++------ NAMESPACE | 4 + R/00_globals.R | 17 +++- R/data_fetcher.R | 78 +++++++++++++++----- R/describe_chemical.R | 44 +++++------ R/fetch_data.R | 36 ++++++--- R/generate_json_query.R | 2 R/get_fasta_from_rcsb_entry.R | 42 ++++++----- R/get_info.R | 39 +++++----- R/get_pdb_api_url.R |only R/get_pdb_file.R | 43 +++++------ R/handle_api_errors.R |only R/parse_response.R |only R/perform_search.R | 13 ++- R/query_search.R | 91 ++++++------------------ R/search_graphql.R | 6 + R/send_api_request.R |only man/data_fetcher.Rd | 18 +--- man/describe_chemical.Rd | 9 +- man/get_fasta_from_rcsb_entry.Rd | 30 ++++--- man/get_info.Rd | 6 - man/get_pdb_api_url.Rd |only man/get_pdb_file.Rd | 5 + man/handle_api_errors.Rd |only man/parse_response.Rd |only man/perform_search.Rd | 8 +- man/query_search.Rd | 76 +++++--------------- man/search_graphql.Rd | 4 - man/send_api_request.Rd |only tests/testthat/test_get_fasta_from_rcsb_entry.R | 5 - 31 files changed, 328 insertions(+), 306 deletions(-)
Title: R Interface for the GPlates Web Service and Desktop Application
Description: Query functions to the GPlates <https://www.gplates.org/> Desktop Application and the GPlates Web Service <https://gws.gplates.org/> allow users to reconstruct past positions of geographic entities based on user-selected rotation models without leaving the R running environment. The online method (GPlates Web Service) makes the rotation of static plates, coastlines, and a low number of geographic coordinates available using nothing but an internet connection. The offline method requires an external installation of the GPlates Desktop Application, but allows the efficient batch rotation of thousands of coordinates, Simple Features (sf) and Spatial (sp) objects with custom reconstruction trees and partitioning polygons. Examples of such plate tectonic models are accessible via the chronosphere <https://cran.r-project.org/package=chronosphere>. This R extension is developed under the umbrella of the DFG (Deutsche Forschungsgemeinschaft) Research Unit TERSANE2 (For 2332, [...truncated...]
Author: Adam T. Kocsis [cre, aut] ,
Nussaibah B. Raja [ctb] ,
Simon Williams [ctb] ,
Elizabeth M. Dowding [ctb] ,
Deutsche Forschungsgemeinschaft [fnd],
FAU GeoZentrum Nordbayern [fnd]
Maintainer: Adam T. Kocsis <adam.t.kocsis@gmail.com>
Diff between rgplates versions 0.4.1 dated 2024-08-20 and 0.5.0 dated 2024-09-06
DESCRIPTION | 18 ++-- MD5 | 29 ++++--- NAMESPACE | 1 NEWS.md | 31 ++++++++ R/data.R | 5 - R/front_end.R | 196 ++++++++++++++++++++++++++++++++++++++++++++++++++++- R/offline.R | 4 - R/online.R | 36 +++++++++ R/utility.R | 121 ++++++++++++++++++++++++++++++++ R/zzz.R | 2 data/gws.RData |binary inst/CITATION | 9 +- man/gws.Rd | 5 - man/reconstruct.Rd | 15 +++- man/rgplates.Rd | 2 man/velocities.Rd |only 16 files changed, 436 insertions(+), 38 deletions(-)
Title: Easy Installation of the 'pedsuite' Packages for Pedigree
Analysis
Description: The 'pedsuite' is a collection of packages for pedigree
analysis, covering applications in forensic genetics, medical genetics
and more. A detailed presentation of the 'pedsuite' is given in the
book 'Pedigree Analysis in R' (Vigeland, 2021, ISBN: 9780128244302).
Author: Magnus Dehli Vigeland [aut, cre]
,
Thore Egeland [aut]
Maintainer: Magnus Dehli Vigeland <m.d.vigeland@medisin.uio.no>
Diff between pedsuite versions 1.2.0 dated 2023-06-26 and 1.3.1 dated 2024-09-06
DESCRIPTION | 17 +++---- MD5 | 24 +++++----- NAMESPACE | 1 NEWS.md | 7 +++ R/pedsuite-package.R | 1 README.md | 110 +++++++++++++++++++++++++----------------------- build/vignette.rds |binary inst/CITATION | 9 +-- inst/doc/pedsuite.R | 25 +++++----- inst/doc/pedsuite.Rmd | 44 +++++++++++-------- inst/doc/pedsuite.html | 61 +++++++++++++++++--------- man/pedsuite-package.Rd | 4 - vignettes/pedsuite.Rmd | 44 +++++++++++-------- 13 files changed, 198 insertions(+), 149 deletions(-)
Title: Analysis of Habitat Selection by Animals
Description: A collection of tools for the analysis of habitat selection.
Author: Clement Calenge [aut, cre],
Mathieu Basille [ctb]
Maintainer: Clement Calenge <clement.calenge@ofb.gouv.fr>
Diff between adehabitatHS versions 0.3.17 dated 2023-04-06 and 0.3.18 dated 2024-09-06
DESCRIPTION | 18 +++++++++++++----- MD5 | 10 +++++----- build/vignette.rds |binary inst/doc/adehabitatHS.pdf |binary man/rand.kselect.Rd | 2 +- src/tests.c | 40 +++++++++++++--------------------------- 6 files changed, 32 insertions(+), 38 deletions(-)
Title: Real-Time Disease Surveillance
Description: Supports modelling real-time case data to facilitate the real-time
surveillance of infectious diseases and other point phenomena. The package provides automated computational grid generation over
an area of interest with methods to map covariates between geographies, model fitting including spatially aggregated case counts,
and predictions and visualisation. Both Bayesian and maximum likelihood methods are provided. Log-Gaussian Cox Processes are described by
Diggle et al. (2013) <doi:10.1214/13-STS441> and we provide both the low-rank approximation for Gaussian processes
described by Solin and Särkkä (2020) <doi:10.1007/s11222-019-09886-w> and Riutort-Mayol et al (2023) <doi:10.1007/s11222-022-10167-2> and the
nearest neighbour Gaussian process described by Datta et al (2016) <doi:10.1080/01621459.2015.1044091>. 'cmdstanr' can be downloaded at <https://mc-stan.org/cmdstanr/>.
Author: Sam Watson [aut, cre]
Maintainer: Sam Watson <s.i.watson@bham.ac.uk>
Diff between rts2 versions 0.7.5 dated 2024-06-24 and 0.7.6 dated 2024-09-06
DESCRIPTION | 8 +-- MD5 | 8 +-- build/partial.rdb |binary inst/include/rts/rtsmodelbits.h | 68 ++++----------------------------- inst/include/rts/rtsregionmodeloptim.h | 8 +++ 5 files changed, 25 insertions(+), 67 deletions(-)
Title: Regression and Clustering in Multivariate Response Scenarios
Description: Fitting multivariate response models with random effects on one or two levels; whereby the (one-dimensional) random effect represents a latent variable approximating the multivariate space of outcomes, after possible adjustment for covariates. The method is particularly useful for multivariate, highly correlated outcome variables with unobserved heterogeneities. Applications include regression with multivariate responses, as well as multivariate clustering or ranking problems. See Zhang and Einbeck (2024) <doi:10.1007/s42519-023-00357-0>.
Author: Yingjuan Zhang [aut, cre],
Jochen Einbeck [aut, ctb]
Maintainer: Yingjuan Zhang <yingjuan.zhang@durham.ac.uk>
Diff between mult.latent.reg versions 0.1.7 dated 2024-03-21 and 0.1.9 dated 2024-09-06
mult.latent.reg-0.1.7/mult.latent.reg/man/mult.latent.reg.Rd |only mult.latent.reg-0.1.9/mult.latent.reg/DESCRIPTION | 8 +- mult.latent.reg-0.1.9/mult.latent.reg/MD5 | 16 ++--- mult.latent.reg-0.1.9/mult.latent.reg/R/mult.latent.reg-package.R | 2 mult.latent.reg-0.1.9/mult.latent.reg/R/start.em.1level.R | 28 ++++++++++ mult.latent.reg-0.1.9/mult.latent.reg/R/start.em.2level.R | 26 +++++++-- mult.latent.reg-0.1.9/mult.latent.reg/R/twins_data.R | 4 - mult.latent.reg-0.1.9/mult.latent.reg/build/partial.rdb |binary mult.latent.reg-0.1.9/mult.latent.reg/man/open-curly-mult.latent.reg-close.Rd |only mult.latent.reg-0.1.9/mult.latent.reg/man/twins_data.Rd | 4 - 10 files changed, 65 insertions(+), 23 deletions(-)
More information about mult.latent.reg at CRAN
Permanent link
Title: Interlinear Glossed Linguistic Examples and Abbreviation Lists
Generation
Description: Helps to render interlinear glossed linguistic examples in html
'rmarkdown' documents and then semi-automatically compiles the list of
glosses at the end of the document. It also provides a database of linguistic
glosses.
Author: George Moroz [aut, cre]
Maintainer: George Moroz <agricolamz@gmail.com>
Diff between lingglosses versions 0.0.7 dated 2023-10-11 and 0.0.8 dated 2024-09-06
DESCRIPTION | 8 ++++---- MD5 | 10 +++++----- NEWS.md | 4 ++++ R/glosses_df.R | 2 +- data/glosses_df.RData |binary man/glosses_df.Rd | 2 +- 6 files changed, 15 insertions(+), 11 deletions(-)
Title: Quality Control for Label-Free Proteomics Expression Data
Description: Label-free bottom-up proteomics expression data is often affected by data heterogeneity and missing values. Normalization and missing value imputation are commonly used techniques to address these issues and make the dataset suitable for further downstream analysis. This package provides an optimal combination of normalization and imputation methods for the dataset. The package utilizes three normalization methods and three imputation methods.The statistical evaluation measures named pooled co-efficient of variance, pooled estimate of variance and pooled median absolute deviation are used for selecting the best combination of normalization and imputation method for the given dataset. The user can also visualize the results by using various plots available in this package. The user can also perform the differential expression analysis between two sample groups with the function included in this package. The chosen three normalization methods, three imputation methods and three evaluati [...truncated...]
Author: Kabilan S [aut, cre],
Dr Shashi Bhushan Lal [aut, ths],
Dr Sudhir Srivastava [aut, ths],
Dr Krishna Kumar Chaturvedi [ths],
Dr Yasin Jeshima K [ths],
Dr Ramasubramanian V [ths],
Dr Girish Kumar Jha [ctb]
Maintainer: Kabilan S <kabilan151414@gmail.com>
Diff between lfproQC versions 0.1.0 dated 2024-05-23 and 0.2.0 dated 2024-09-06
DESCRIPTION | 8 - MD5 | 37 +++--- NEWS |only R/best_combination.R | 125 +++++++++++--------- R/knn_rlr_yeast_data.R | 2 R/yeast_data.R | 6 R/yeast_top_table.R | 2 build/partial.rdb |binary build/vignette.rds |binary data/knn_rlr_yeast_data.rda |binary data/yeast_data.rda |binary data/yeast_groups.rda |binary data/yeast_top_table.rda |binary inst/doc/user_guide.R | 3 inst/doc/user_guide.Rmd | 4 inst/doc/user_guide.html | 271 ++++++++++++++++++++++++++++---------------- man/knn_rlr_yeast_data.Rd | 2 man/yeast_data.Rd | 7 - man/yeast_top_table.Rd | 2 vignettes/user_guide.Rmd | 4 20 files changed, 290 insertions(+), 183 deletions(-)
Title: Computing a New Informative Distribution Set of Asset Returns
Description: Estimation of the most-left informative set of gross returns
(i.e., the informative set).
The procedure to compute the informative set adjusts the method
proposed by
Mariani et al. (2022a) <doi:10.1007/s11205-020-02440-6>
and
Mariani et al. (2022b) <doi:10.1007/s10287-022-00422-2>
to gross returns of financial assets.
This is accomplished through an adaptive algorithm
that identifies sub-groups of gross returns in
each iteration by approximating their distribution with a
sequence of two-component log-normal mixtures.
These sub-groups emerge when a significant change
in the distribution occurs below the median of the
financial returns, with their boundary termed as
the “change point" of the mixture.
The process concludes when no further change points are detected.
The outcome encompasses parameters of the leftmost mixture
distributions and change points of the
analyzed financial time series.
Author: Gloria Polinesi [aut, cre],
Francesca Mariani [aut],
Maria Cristina Recchioni [aut]
Maintainer: Gloria Polinesi <g.polinesi@staff.univpm.it>
Diff between INFOSET versions 4.0.5 dated 2024-09-05 and 4.0.6 dated 2024-09-06
DESCRIPTION | 14 +++++++++----- MD5 | 2 +- 2 files changed, 10 insertions(+), 6 deletions(-)
Title: Gene Analysis Toolkit
Description: Provides features for searching, converting, analyzing, plotting, and exporting data effortlessly by inputting feature IDs. Enables easy retrieval of feature information, conversion of ID types, gene enrichment analysis, publication-level figures, group interaction plotting, and result export in one Excel file for seamless sharing and communication.
Author: Yunze Liu [aut, cre]
Maintainer: Yunze Liu <jieandze1314@gmail.com>
Diff between genekitr versions 1.2.7 dated 2024-06-06 and 1.2.8 dated 2024-09-06
DESCRIPTION | 13 - MD5 | 26 +- NAMESPACE | 1 R/genORA.R | 501 +++++++++++++++++++-------------------- R/utilities.R | 10 README.md | 6 data/biocOrg_name.rda |binary data/deg.rda |binary data/ensOrg_name.rda |binary data/geneList.rda |binary data/hsapiens_probe_platform.rda |binary data/keggOrg_name.rda |binary data/msig_category.rda |binary data/msig_org.rda |binary 14 files changed, 282 insertions(+), 275 deletions(-)
Title: Draw Flows (Migration, Goods, Money, Information) on 'ggplot2'
Plots
Description: Adds flow maps to 'ggplot2' plots. The flow maps consist of 'ggplot2' layers which visualize the nodes as circles and the bilateral flows between the nodes as bidirectional half-arrows.
Author: Johannes Mast [aut, cre]
Maintainer: Johannes Mast <johannes.mast@dlr.de>
Diff between flowmapper versions 0.1.1 dated 2024-08-30 and 0.1.2 dated 2024-09-06
DESCRIPTION | 6 +- MD5 | 15 +++--- NAMESPACE | 7 ++ NEWS.md | 5 +- R/add_flowmap.R | 96 +++++++++++++++++++++++++++++++++++---- data/CH_migration_data.rda |binary data/cantons.rda |binary man/add_flowmap.Rd | 21 ++++++++ man/util_data_flow_to_flowdat.Rd |only 9 files changed, 129 insertions(+), 21 deletions(-)
Title: Fair Data Adaptation with Quantile Preservation
Description: An implementation of the fair data adaptation with quantile
preservation described in Plecko & Meinshausen (JMLR 2020, 21(242), 1-44).
The adaptation procedure uses the specified causal graph to pre-process the
given training and testing data in such a way to remove the bias caused by
the protected attribute. The procedure uses tree ensembles for quantile
regression. Instructions for using the methods are further elaborated in
the corresponding JSS manuscript, see <doi:10.18637/jss.v110.i04>.
Author: Drago Plecko [aut, cre],
Nicolas Bennett [aut]
Maintainer: Drago Plecko <www.plecko@gmail.com>
Diff between fairadapt versions 0.2.7 dated 2023-10-09 and 1.0.0 dated 2024-09-06
fairadapt-0.2.7/fairadapt/vignettes/jsslogo.jpg |only fairadapt-0.2.7/fairadapt/vignettes/tmp-pdfcrop-11092.tex |only fairadapt-1.0.0/fairadapt/DESCRIPTION | 19 +- fairadapt-1.0.0/fairadapt/MD5 | 67 +++---- fairadapt-1.0.0/fairadapt/NEWS.md | 4 fairadapt-1.0.0/fairadapt/R/boot.R | 31 ++- fairadapt-1.0.0/fairadapt/R/data.R | 6 fairadapt-1.0.0/fairadapt/R/fairadapt.R | 40 ++-- fairadapt-1.0.0/fairadapt/R/generics.R | 47 ++++ fairadapt-1.0.0/fairadapt/R/quants.R | 52 ++--- fairadapt-1.0.0/fairadapt/build/partial.rdb |only fairadapt-1.0.0/fairadapt/build/vignette.rds |binary fairadapt-1.0.0/fairadapt/inst/CITATION | 35 +-- fairadapt-1.0.0/fairadapt/inst/WORDLIST |only fairadapt-1.0.0/fairadapt/inst/doc/jss.R | 63 +++--- fairadapt-1.0.0/fairadapt/inst/doc/jss.Rmd | 95 +++++----- fairadapt-1.0.0/fairadapt/inst/doc/jss.pdf |binary fairadapt-1.0.0/fairadapt/man/autoplot.fairadapt.Rd |only fairadapt-1.0.0/fairadapt/man/compas.Rd | 2 fairadapt-1.0.0/fairadapt/man/computeQuants.Rd | 4 fairadapt-1.0.0/fairadapt/man/fairTwins.Rd | 4 fairadapt-1.0.0/fairadapt/man/fairadapt-package.Rd | 5 fairadapt-1.0.0/fairadapt/man/fairadapt.Rd | 21 +- fairadapt-1.0.0/fairadapt/man/fairadaptBoot.Rd | 17 + fairadapt-1.0.0/fairadapt/man/gov_census.Rd | 2 fairadapt-1.0.0/fairadapt/man/plot.fairadapt.Rd |only fairadapt-1.0.0/fairadapt/man/predict.fairadapt.Rd | 4 fairadapt-1.0.0/fairadapt/man/predict.fairadaptBoot.Rd | 4 fairadapt-1.0.0/fairadapt/man/quantFit.Rd | 4 fairadapt-1.0.0/fairadapt/man/rangerQuants.Rd | 2 fairadapt-1.0.0/fairadapt/man/summary.fairadapt.Rd |only fairadapt-1.0.0/fairadapt/man/summary.fairadaptBoot.Rd |only fairadapt-1.0.0/fairadapt/man/uni_admission.Rd | 2 fairadapt-1.0.0/fairadapt/man/visualizeGraph.Rd | 4 fairadapt-1.0.0/fairadapt/tests/spelling.R |only fairadapt-1.0.0/fairadapt/tests/testthat/_snaps/generics/graph_lin.png |binary fairadapt-1.0.0/fairadapt/tests/testthat/_snaps/generics/graph_rf.png |binary fairadapt-1.0.0/fairadapt/vignettes/jss.Rmd | 95 +++++----- fairadapt-1.0.0/fairadapt/vignettes/jss.bib | 13 + 39 files changed, 391 insertions(+), 251 deletions(-)
Title: Store and Retrieve Data.frames in a Git Repository
Description: The git2rdata package is an R package for writing and reading
dataframes as plain text files. A metadata file stores important
information. 1) Storing metadata allows to maintain the classes of
variables. By default, git2rdata optimizes the data for file storage.
The optimization is most effective on data containing factors. The
optimization makes the data less human readable. The user can turn
this off when they prefer a human readable format over smaller files.
Details on the implementation are available in vignette("plain_text",
package = "git2rdata"). 2) Storing metadata also allows smaller row
based diffs between two consecutive commits. This is a useful feature
when storing data as plain text files under version control. Details
on this part of the implementation are available in
vignette("version_control", package = "git2rdata"). Although we
envisioned git2rdata with a git workflow in mind, you can use it in
combination with other version control systems like subversion [...truncated...]
Author: Thierry Onkelinx [aut, cre] ),
Floris Vanderhaeghe [ctb] ),
Peter Desmet [ctb] ),
Els Lommelen [ctb] ),
Research Institute for Nature and Forest [cph, fnd]
Maintainer: Thierry Onkelinx <thierry.onkelinx@inbo.be>
Diff between git2rdata versions 0.4.0 dated 2022-03-17 and 0.4.1 dated 2024-09-06
DESCRIPTION | 52 +- MD5 | 84 ++- NAMESPACE | 8 NEWS.md | 6 R/clean_data_path.R | 2 R/display_metadata.R |only R/meta.R | 60 +- R/print.R |only R/read_vc.R | 34 + R/update_metadata.R |only R/utils.R | 8 R/write_vc.R | 9 README.md | 8 build/partial.rdb |only build/vignette.rds |binary inst/CITATION | 15 inst/doc/efficiency.Rmd | 2 inst/doc/efficiency.html | 394 ++++++++--------- inst/doc/metadata.R |only inst/doc/metadata.Rmd |only inst/doc/metadata.html |only inst/doc/plain_text.Rmd | 15 inst/doc/plain_text.html | 465 ++++++++++---------- inst/doc/split_by.html | 226 +++++---- inst/doc/version_control.Rmd | 4 inst/doc/version_control.html | 819 ++++++++++++++++++------------------ inst/doc/workflow.html | 474 ++++++++++---------- inst/en_gb.dic |only man/display_metadata.Rd |only man/git2rdata-package.Rd | 11 man/is_git2rdata.Rd | 2 man/is_git2rmeta.Rd | 2 man/list_data.Rd | 2 man/meta.Rd | 4 man/print.git2rdata.Rd |only man/prune_meta.Rd | 2 man/read_vc.Rd | 4 man/relabel.Rd | 2 man/rename_variable.Rd | 2 man/rm_data.Rd | 2 man/summary.git2rdata.Rd |only man/update_metadata.Rd |only man/upgrade_data.Rd | 4 man/verify_vc.Rd | 2 man/write_vc.Rd | 2 tests/testthat/test_d_description.R |only vignettes/efficiency.Rmd | 2 vignettes/metadata.Rmd |only vignettes/plain_text.Rmd | 15 vignettes/version_control.Rmd | 4 50 files changed, 1453 insertions(+), 1294 deletions(-)
Title: Gene Locus Plot with Gene Annotations
Description: Publication-ready regional gene locus plots similar to those produced by the web interface 'LocusZoom' <https://my.locuszoom.org>, but running locally in R. Genetic or genomic data with gene annotation tracks are plotted via R base graphics, 'ggplot2' or 'plotly', allowing flexibility and easy customisation including laying out multiple locus plots on the same page. It uses the 'LDlink' API <https://ldlink.nih.gov/?tab=apiaccess> to query linkage disequilibrium data from the 1000 Genomes Project and can overlay this on plots.
Author: Myles Lewis [aut, cre]
Maintainer: Myles Lewis <myles.lewis@qmul.ac.uk>
Diff between locuszoomr versions 0.3.2 dated 2024-08-19 and 0.3.4 dated 2024-09-06
DESCRIPTION | 6 +- MD5 | 32 ++++++------- NEWS.md | 12 ++++ R/eqtl_plot.R | 4 + R/gg_scatter.R | 114 ++++++++++++++++++++++++++++++++++------------- R/link_LD.R | 21 ++++++-- R/link_recomb.R | 11 ++++ R/locus.R | 31 +++++++----- R/scatter_plot.R | 41 ++++++++-------- inst/doc/locuszoomr.R | 13 ++++- inst/doc/locuszoomr.Rmd | 27 +++++++++-- inst/doc/locuszoomr.html | 34 +++++++++++--- man/gg_scatter.Rd | 10 ++++ man/link_LD.Rd | 10 +++- man/link_recomb.Rd | 2 man/locus.Rd | 12 +++- vignettes/locuszoomr.Rmd | 27 +++++++++-- 17 files changed, 295 insertions(+), 112 deletions(-)
Title: Simplified Vertex-Wise Analyses of Whole-Brain and Hippocampal
Surface
Description: Provides functions to run statistical analyses on
surface-based neuroimaging data, computing measures including cortical
thickness and surface area of the whole-brain and of the hippocampi.
It can make use of 'FreeSurfer', 'fMRIprep' and 'HCP' preprocessed
datasets and 'HippUnfold' hippocampal segmentation outputs for a given
sample by restructuring the data values into a single file. The single
file can then be used by the package for analyses independently from
its base dataset and without need for its access.
Author: Junhong Yu [aut] ,
Charly Billaud [aut, cre]
Maintainer: Charly Billaud <charly.billaud@ntu.edu.sg>
Diff between VertexWiseR versions 1.0.0 dated 2024-06-13 and 1.0.1 dated 2024-09-06
VertexWiseR-1.0.0/VertexWiseR/data/MNImap_fs5.rdata |only VertexWiseR-1.0.0/VertexWiseR/data/MNImap_fs6.rdata |only VertexWiseR-1.0.0/VertexWiseR/data/edgelistHIP.rdata |only VertexWiseR-1.0.0/VertexWiseR/data/edgelistfs5.rdata |only VertexWiseR-1.0.0/VertexWiseR/data/edgelistfs6.rdata |only VertexWiseR-1.0.0/VertexWiseR/man/MNImap_fs5.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/MNImap_fs6.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/ROImap_HIP.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/TFCE.threshold.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/TFCE.vertex_analysis.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/TFCE.vertex_analysis.mixed.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/edgelistHIP.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/edgelistfs5.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/edgelistfs6.Rd |only VertexWiseR-1.0.0/VertexWiseR/man/figures/sexdiff.jpg |only VertexWiseR-1.0.0/VertexWiseR/man/figures/sigcluster.jpg |only VertexWiseR-1.0.0/VertexWiseR/man/figures/sigclusters.jpg |only VertexWiseR-1.0.0/VertexWiseR/man/vertex_analysis.Rd |only VertexWiseR-1.0.1/VertexWiseR/DESCRIPTION | 29 VertexWiseR-1.0.1/VertexWiseR/MD5 | 118 - VertexWiseR-1.0.1/VertexWiseR/NAMESPACE | 32 VertexWiseR-1.0.1/VertexWiseR/R/FSLRvextract.R |only VertexWiseR-1.0.1/VertexWiseR/R/HIPvextract.R | 22 VertexWiseR-1.0.1/VertexWiseR/R/SURFvextract.R | 53 VertexWiseR-1.0.1/VertexWiseR/R/VWRfirstrun.R |only VertexWiseR-1.0.1/VertexWiseR/R/classes.r |only VertexWiseR-1.0.1/VertexWiseR/R/data.R | 69 VertexWiseR-1.0.1/VertexWiseR/R/model_formula_reader.R |only VertexWiseR-1.0.1/VertexWiseR/R/otherfunc.R | 722 +++++----- VertexWiseR-1.0.1/VertexWiseR/R/plot_surf.R |only VertexWiseR-1.0.1/VertexWiseR/R/python_custominstall.r |only VertexWiseR-1.0.1/VertexWiseR/R/vertTFCE.R | 355 ++-- VertexWiseR-1.0.1/VertexWiseR/R/vertmixedTFCE.R | 269 +-- VertexWiseR-1.0.1/VertexWiseR/R/vertwise.R | 254 +-- VertexWiseR-1.0.1/VertexWiseR/README.md | 247 +-- VertexWiseR-1.0.1/VertexWiseR/build/vignette.rds |only VertexWiseR-1.0.1/VertexWiseR/data/MNImap_hip.rdata |binary VertexWiseR-1.0.1/VertexWiseR/data/ROImap_fs5.rdata |binary VertexWiseR-1.0.1/VertexWiseR/data/ROImap_fs6.rdata |binary VertexWiseR-1.0.1/VertexWiseR/data/ROImap_fslr32k.rdata |only VertexWiseR-1.0.1/VertexWiseR/data/ROImap_hip.rdata |binary VertexWiseR-1.0.1/VertexWiseR/data/edgelist_hip.rdata |only VertexWiseR-1.0.1/VertexWiseR/data/fs6_to_fs5_map.rdata |binary VertexWiseR-1.0.1/VertexWiseR/inst/demo_data/SPRENG_behdata_site1.rds |binary VertexWiseR-1.0.1/VertexWiseR/inst/doc |only VertexWiseR-1.0.1/VertexWiseR/inst/python/brainstat.stats.SLM_VWR.py |only VertexWiseR-1.0.1/VertexWiseR/man/FSLRvextract.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/HIPvextract.Rd | 2 VertexWiseR-1.0.1/VertexWiseR/man/MNIsurface-class.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/RFT_vertex_analysis.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/ROImap-class.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/ROImap_fs5.Rd | 46 VertexWiseR-1.0.1/VertexWiseR/man/ROImap_fs6.Rd | 46 VertexWiseR-1.0.1/VertexWiseR/man/ROImap_fslr32k.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/ROImap_hip.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/SURFvextract.Rd | 4 VertexWiseR-1.0.1/VertexWiseR/man/TFCE_threshold.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/TFCE_vertex_analysis.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/TFCE_vertex_analysis_mixed.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/VWRfirstrun.Rd | 19 VertexWiseR-1.0.1/VertexWiseR/man/atlas_to_surf.Rd | 58 VertexWiseR-1.0.1/VertexWiseR/man/decode_surf_data.Rd | 4 VertexWiseR-1.0.1/VertexWiseR/man/edgelist-class.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/edgelist_hip.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/figures/Flowchart.jpg |binary VertexWiseR-1.0.1/VertexWiseR/man/figures/sexdiff.png |only VertexWiseR-1.0.1/VertexWiseR/man/figures/sigcluster.png |only VertexWiseR-1.0.1/VertexWiseR/man/figures/wordcloud.jpg |binary VertexWiseR-1.0.1/VertexWiseR/man/fs5_to_fs6.Rd | 2 VertexWiseR-1.0.1/VertexWiseR/man/fs6_to_fs5.Rd | 2 VertexWiseR-1.0.1/VertexWiseR/man/fs_stats.Rd |only VertexWiseR-1.0.1/VertexWiseR/man/plot_surf.Rd | 15 VertexWiseR-1.0.1/VertexWiseR/man/smooth_surf.Rd | 2 VertexWiseR-1.0.1/VertexWiseR/man/surf_to_atlas.Rd | 66 VertexWiseR-1.0.1/VertexWiseR/man/surf_to_vol.Rd | 2 VertexWiseR-1.0.1/VertexWiseR/vignettes |only 76 files changed, 1215 insertions(+), 1223 deletions(-)
Title: Tropical Cyclone (Hurricane, Typhoon) Spatial Hazard Modelling
Description: Methods for generating modelled parametric Tropical Cyclone (TC) spatial hazard fields and time series output at point locations from TC tracks. R's compatibility to simply use fast 'cpp' code via the 'Rcpp' package and the wide range spatial analysis tools via the 'terra' package makes it an attractive open source environment to study 'TCs'. This package estimates TC vortex wind and pressure fields using parametric equations originally coded up in 'python' by 'TCRM' <https://github.com/GeoscienceAustralia/tcrm> and then coded up in 'Cuda' 'cpp' by 'TCwindgen' <https://github.com/CyprienBosserelle/TCwindgen>.
Author: Julian O'Grady [aut, cre]
Maintainer: Julian O'Grady <julian.ogrady@csiro.au>
Diff between TCHazaRds versions 1.1.0 dated 2024-08-18 and 1.1.1 dated 2024-09-06
DESCRIPTION | 8 MD5 | 43 ++-- NAMESPACE | 1 R/RcppExports.R | 30 +-- R/WindHazaRds.R | 268 +++++++++++++++++++++++----- README.md | 4 inst/doc/Introduction_to_TCHazaRds.R | 21 +- inst/doc/Introduction_to_TCHazaRds.Rmd | 26 ++ inst/doc/Introduction_to_TCHazaRds.html | 268 +++++++++++++++------------- inst/extdata/tuningParams/defult_params.csv | 35 +-- man/DoubleHollandPressureProfile.Rd | 4 man/DoubleHollandPressureProfilePi.Rd | 4 man/DoubleHollandWindProfile.Rd | 4 man/DoubleHollandWindProfilePi.Rd | 4 man/NewHollandWindProfile.Rd | 4 man/NewHollandWindProfilePi.Rd | 4 man/TCProfilePts.Rd | 1 man/predict_rmax.Rd |only man/rMax175ms_solver.Rd |only man/rMax2_modelsR.Rd |only man/update_Track.Rd | 25 +- src/RcppExports.cpp | 54 +++-- src/TCHazaRds.cpp | 45 ++-- vignettes/Introduction_to_TCHazaRds.Rmd | 26 ++ 24 files changed, 598 insertions(+), 281 deletions(-)
Title: Respondent-Driven Sampling
Description: Provides functionality for carrying out estimation
with data collected using Respondent-Driven Sampling. This includes
Heckathorn's RDS-I and RDS-II estimators as well as Gile's Sequential
Sampling estimator. The package is part of the "RDS Analyst" suite of
packages for the analysis of respondent-driven sampling data.
See Gile and Handcock (2010) <doi:10.1111/j.1467-9531.2010.01223.x>,
Gile and Handcock (2015) <doi:10.1111/rssa.12091> and
Gile, Beaudry, Handcock and Ott (2018) <doi:10.1146/annurev-statistics-031017-100704>.
Author: Mark S. Handcock [aut, cre] ,
Krista J. Gile [aut],
Ian E. Fellows [aut],
W. Whipple Neely [ctb]
Maintainer: Mark S. Handcock <handcock@stat.ucla.edu>
Diff between RDS versions 0.9-9 dated 2024-02-01 and 0.9-10 dated 2024-09-06
DESCRIPTION | 12 +++++------ MD5 | 36 +++++++++++++++++---------------- NAMESPACE | 1 R/MA.sampling-c.R | 27 ++++++++++++++----------- R/bootstrap-intervals.R | 8 ++++--- R/differential-activity.R | 2 - R/estimate-utils.R | 2 - R/hcg-bootstrap.R | 46 ++++++++++++++++++++++++++++--------------- R/hcg-util.R | 40 +++++++++++++++++++++++++++---------- R/rds-ss.R | 6 ++--- R/rds.estimates.local.R | 2 - R/replicate-weights.R |only R/weights.R | 11 ++++++---- build/partial.rdb |binary man/RDS-package.Rd | 2 - man/RDS.SS.estimates.Rd | 4 +-- man/hcg.replicate.weights.Rd |only man/hcg.weights.Rd | 3 ++ src/RDSSample.c | 6 +++++ src/dpoilog.c | 8 +++---- 20 files changed, 135 insertions(+), 81 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') 'SQLite' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database
Connectivity ('ADBC') 'SQLite' driver for the purposes of building high-level
database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is
an API standard for database access libraries that uses 'Arrow' for result
sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcsqlite versions 0.13.0 dated 2024-07-08 and 0.14.0 dated 2024-09-06
adbcsqlite-0.13.0/adbcsqlite/src/adbc.h |only adbcsqlite-0.13.0/adbcsqlite/src/c/driver/framework/base_connection.h |only adbcsqlite-0.13.0/adbcsqlite/src/c/driver/framework/base_database.h |only adbcsqlite-0.13.0/adbcsqlite/src/c/driver/framework/base_driver.cc |only adbcsqlite-0.13.0/adbcsqlite/src/c/driver/framework/base_statement.h |only adbcsqlite-0.14.0/adbcsqlite/DESCRIPTION | 6 adbcsqlite-0.14.0/adbcsqlite/MD5 | 80 + adbcsqlite-0.14.0/adbcsqlite/configure | 11 adbcsqlite-0.14.0/adbcsqlite/src/Makevars.in | 1 adbcsqlite-0.14.0/adbcsqlite/src/arrow-adbc |only adbcsqlite-0.14.0/adbcsqlite/src/c/driver/common/utils.c | 2 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/common/utils.h | 2 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/base_driver.h | 557 +++++++++- adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/catalog.cc | 67 + adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/catalog.h | 10 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/connection.h |only adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/database.h |only adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/objects.cc | 15 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/objects.h | 4 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/statement.h |only adbcsqlite-0.14.0/adbcsqlite/src/c/driver/framework/status.h | 67 - adbcsqlite-0.14.0/adbcsqlite/src/c/driver/postgresql |only adbcsqlite-0.14.0/adbcsqlite/src/c/driver/sqlite/sqlite.cc | 115 +- adbcsqlite-0.14.0/adbcsqlite/src/c/driver/sqlite/statement_reader.c | 17 adbcsqlite-0.14.0/adbcsqlite/src/c/driver/sqlite/statement_reader.h | 2 adbcsqlite-0.14.0/adbcsqlite/src/c/driver_manager |only adbcsqlite-0.14.0/adbcsqlite/src/c/include |only adbcsqlite-0.14.0/adbcsqlite/src/c/validation |only adbcsqlite-0.14.0/adbcsqlite/src/c/vendor/fmt/src |only adbcsqlite-0.14.0/adbcsqlite/src/c/vendor/nanoarrow/nanoarrow.hpp | 39 adbcsqlite-0.14.0/adbcsqlite/src/c/vendor/portable-snippets |only adbcsqlite-0.14.0/adbcsqlite/src/init.cc | 2 32 files changed, 823 insertions(+), 174 deletions(-)
Title: 'Arrow' Database Connectivity ('ADBC') 'PostgreSQL' Driver
Description: Provides a developer-facing interface to the 'Arrow' Database
Connectivity ('ADBC') 'PostgreSQL' driver for the purposes of building high-level
database interfaces for users. 'ADBC' <https://arrow.apache.org/adbc/> is
an API standard for database access libraries that uses 'Arrow' for result
sets and query parameters.
Author: Dewey Dunnington [aut, cre] ,
Apache Arrow [aut, cph],
Apache Software Foundation [cph]
Maintainer: Dewey Dunnington <dewey@dunnington.ca>
Diff between adbcpostgresql versions 0.13.0 dated 2024-07-09 and 0.14.0 dated 2024-09-06
adbcpostgresql-0.13.0/adbcpostgresql/src/adbc.h |only adbcpostgresql-0.14.0/adbcpostgresql/DESCRIPTION | 6 adbcpostgresql-0.14.0/adbcpostgresql/MD5 | 89 adbcpostgresql-0.14.0/adbcpostgresql/configure | 11 adbcpostgresql-0.14.0/adbcpostgresql/src/Makevars.in | 1 adbcpostgresql-0.14.0/adbcpostgresql/src/Makevars.ucrt | 1 adbcpostgresql-0.14.0/adbcpostgresql/src/Makevars.win | 1 adbcpostgresql-0.14.0/adbcpostgresql/src/arrow-adbc |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/common/utils.c | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/common/utils.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/base_driver.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/catalog.cc | 67 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/catalog.h | 10 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/connection.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/database.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/objects.cc |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/objects.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/statement.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/status.h | 67 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/framework/type_fwd.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/bind_stream.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/connection.cc | 77 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/connection.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/copy/postgres_copy_test_common.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/copy/reader.h | 54 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/copy/writer.h | 253 ++ adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/database.cc | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/database.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/error.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/postgres_type.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/postgres_util.h | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/postgresql.cc | 2 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/postgresql_benchmark.cc |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/result_helper.cc | 184 +- adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/result_helper.h | 70 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/result_reader.cc |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/result_reader.h |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/statement.cc | 914 +--------- adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/postgresql/statement.h | 23 adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver/sqlite |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/driver_manager |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/include |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/validation |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/vendor/fmt/src |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/vendor/nanoarrow/nanoarrow.hpp | 39 adbcpostgresql-0.14.0/adbcpostgresql/src/c/vendor/portable-snippets |only adbcpostgresql-0.14.0/adbcpostgresql/src/c/vendor/sqlite3 |only adbcpostgresql-0.14.0/adbcpostgresql/src/init.cc | 2 48 files changed, 873 insertions(+), 1014 deletions(-)
More information about adbcpostgresql at CRAN
Permanent link
Title: Seeded Sequential LDA for Topic Modeling
Description: Seeded Sequential LDA can classify sentences of texts into pre-define topics with a small number of seed words (Watanabe & Baturo, 2023) <doi:10.1177/08944393231178605>.
Implements Seeded LDA (Lu et al., 2010) <doi:10.1109/ICDMW.2011.125> and Sequential LDA (Du et al., 2012) <doi:10.1007/s10115-011-0425-1> with the distributed LDA algorithm (Newman, et al., 2009) for parallel computing.
Author: Kohei Watanabe [aut, cre, cph],
Phan Xuan-Hieu [aut, cph]
Maintainer: Kohei Watanabe <watanabe.kohei@gmail.com>
Diff between seededlda versions 1.4.0 dated 2024-09-05 and 1.4.1 dated 2024-09-06
DESCRIPTION | 6 +++--- MD5 | 6 +++--- NEWS.md | 4 ++++ src/Makevars.in | 3 ++- 4 files changed, 12 insertions(+), 7 deletions(-)
Title: Create Interactive Chart with the JavaScript 'ApexCharts'
Library
Description: Provides an 'htmlwidgets' interface to 'apexcharts.js'.
'Apexcharts' is a modern JavaScript charting library to build interactive charts and visualizations with simple API.
'Apexcharts' examples and documentation are available here: <https://apexcharts.com/>.
Author: Victor Perrier [aut, cre],
Fanny Meyer [aut],
Juned Chhipa [cph] ,
Mike Bostock [cph]
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between apexcharter versions 0.4.3 dated 2024-05-15 and 0.4.4 dated 2024-09-06
DESCRIPTION | 8 - MD5 | 26 ++--- NEWS.md | 8 + R/facets.R | 6 - R/grid.R | 20 ++-- build/vignette.rds |binary data/life_expec.rda |binary data/life_expec_long.rda |binary inst/doc/apexcharter.R | 10 +- inst/doc/apexcharter.Rmd | 10 +- inst/doc/apexcharter.html | 122 ++++++++++++++-------------- inst/htmlwidgets/apexcharter.js | 2 inst/htmlwidgets/apexcharter.js.LICENSE.txt | 2 vignettes/apexcharter.Rmd | 10 +- 14 files changed, 124 insertions(+), 100 deletions(-)
Title: Model Visualisation Toolbox for 'easystats' and 'ggplot2'
Description: Provides plotting utilities supporting packages in the 'easystats'
ecosystem (<https://github.com/easystats/easystats>) and some extra themes,
geoms, and scales for 'ggplot2'. Color scales are based on
<https://materialui.co/>.
References: Lüdecke et al. (2021) <doi:10.21105/joss.03393>.
Author: Daniel Luedecke [aut, ctb] ,
Dominique Makowski [aut, inv] ,
Indrajeet Patil [aut, cre] ,
Mattan S. Ben-Shachar [aut, ctb]
,
Brenton M. Wiernik [aut, ctb] ,
Philip Waggoner [aut, ctb] ,
Jeffrey R. Stevens [ctb] ,
Matthew Smith [rev] ,
Jakob Bossek [re [...truncated...]
Maintainer: Indrajeet Patil <patilindrajeet.science@gmail.com>
Diff between see versions 0.8.5 dated 2024-07-17 and 0.9.0 dated 2024-09-06
DESCRIPTION | 20 MD5 | 31 - NAMESPACE | 1 NEWS.md | 14 R/plot.check_dag.R |only R/plot.check_predictions.R | 2 R/plot.equivalence_test.R | 897 ++++++++++++++---------------- R/plot.p_direction.R | 471 +++++++-------- R/plot.p_significance.R | 522 ++++++++--------- R/plot.parameters_brms_meta.R | 488 ++++++++-------- R/plot.performance_simres.R | 16 R/utils.R | 2 inst/WORDLIST | 2 man/plot.see_check_dag.Rd |only man/plot.see_parameters_brms_meta.Rd | 2 tests/testthat/test-plot.check_dag.R |only tests/testthat/test-plot.p_direction.R | 56 + tests/testthat/test-plot.p_significance.R | 78 ++ 18 files changed, 1374 insertions(+), 1228 deletions(-)