Title: Manipulation of (Large) Memory-Mapped Objects (Vectors, Matrices
and Arrays)
Description: Manipulate data through memory-mapped files, as vectors, matrices or arrays.
Basic arithmetic functions are implemented, but currently no matrix arithmetic.
Can write and read descriptor files for compatibility with the 'bigmemory' package.
Author: Herve Perdry [aut, cre],
Juliette Meyniel [aut]
Maintainer: Herve Perdry <herve.perdry@universite-paris-saclay.fr>
Diff between houba versions 0.1.0 dated 2025-09-30 and 0.1.1 dated 2026-02-20
DESCRIPTION | 8 MD5 | 41 +- R/RcppExports.R | 8 R/class-marray.r | 6 R/class-mmatrix.r | 11 R/class-mvector.r | 11 R/marray.r | 7 R/method-marray-replace.r | 8 R/method-marray-subsetting.r | 6 R/method-mvector-replace.r | 14 R/method-subsetting.r | 14 build/vignette.rds |binary inst/doc/houba.Rmd | 29 + inst/doc/houba.html | 509 +++++++++++++++-------------------- inst/include/houba/MMatrix-class.h | 11 inst/include/houba/MMatrix-methods.h | 58 +++ man/marray.Rd | 7 src/RcppExports.cpp | 29 + src/apply.h | 24 + src/set_values_vector.cpp |only tests/create.r | 27 + vignettes/houba.Rmd | 29 + 22 files changed, 494 insertions(+), 363 deletions(-)
Title: Interactive 3D Brain Atlas Visualization
Description: Plot brain atlases as interactive 3D meshes using 'Three.js'
via 'htmlwidgets', or render publication-quality static images through
'rgl' and 'rayshader'. A pipe-friendly API lets you map data onto
brain regions, control camera angles, toggle region edges, overlay
glass brains, and snapshot or ray-trace the result. Additional
atlases are available through the 'ggsegverse' r-universe. Mowinckel
& Vidal-Piñeiro (2020) <doi:10.1177/2515245920928009>.
Author: Athanasia Mo Mowinckel [aut, cre] ,
Didac Vidal-Pineiro [aut]
Maintainer: Athanasia Mo Mowinckel <a.m.mowinckel@psykologi.uio.no>
Diff between ggseg3d versions 1.6.3 dated 2021-06-01 and 2.0.0 dated 2026-02-20
ggseg3d-1.6.3/ggseg3d/R/data.R |only ggseg3d-1.6.3/ggseg3d/R/ggseg3d_atlas.R |only ggseg3d-1.6.3/ggseg3d/data |only ggseg3d-1.6.3/ggseg3d/inst/logo.svg |only ggseg3d-1.6.3/ggseg3d/inst/sticker.png |only ggseg3d-1.6.3/ggseg3d/man/aseg_3d.Rd |only ggseg3d-1.6.3/ggseg3d/man/dk_3d.Rd |only ggseg3d-1.6.3/ggseg3d/man/ggseg3d_atlas-class.Rd |only ggseg3d-1.6.3/ggseg3d/man/is_ggseg3d_atlas.Rd |only ggseg3d-1.6.3/ggseg3d/man/remove_axes.Rd |only ggseg3d-1.6.3/ggseg3d/tests/testthat/test-axes.R |only ggseg3d-1.6.3/ggseg3d/tests/testthat/test-ggseg_atlas.R |only ggseg3d-2.0.0/ggseg3d/DESCRIPTION | 66 - ggseg3d-2.0.0/ggseg3d/MD5 | 145 ++- ggseg3d-2.0.0/ggseg3d/NAMESPACE | 61 + ggseg3d-2.0.0/ggseg3d/NEWS.md | 72 + ggseg3d-2.0.0/ggseg3d/R/additions.R | 557 ++++++++++--- ggseg3d-2.0.0/ggseg3d/R/atlas-types.R |only ggseg3d-2.0.0/ggseg3d/R/brain-mesh.R |only ggseg3d-2.0.0/ggseg3d/R/colour.R |only ggseg3d-2.0.0/ggseg3d/R/ggseg3d-package.R | 21 ggseg3d-2.0.0/ggseg3d/R/ggseg3d.R | 432 +++++++--- ggseg3d-2.0.0/ggseg3d/R/legend.R |only ggseg3d-2.0.0/ggseg3d/R/rayshader.R |only ggseg3d-2.0.0/ggseg3d/R/sysdata.rda |binary ggseg3d-2.0.0/ggseg3d/R/utils.R | 271 +++--- ggseg3d-2.0.0/ggseg3d/R/widget-output.R |only ggseg3d-2.0.0/ggseg3d/R/widget.R |only ggseg3d-2.0.0/ggseg3d/README.md | 112 +- ggseg3d-2.0.0/ggseg3d/build |only ggseg3d-2.0.0/ggseg3d/inst/CITATION | 22 ggseg3d-2.0.0/ggseg3d/inst/WORDLIST | 91 +- ggseg3d-2.0.0/ggseg3d/inst/doc |only ggseg3d-2.0.0/ggseg3d/inst/htmlwidgets |only ggseg3d-2.0.0/ggseg3d/man/add_glassbrain.Rd | 40 ggseg3d-2.0.0/ggseg3d/man/apply_colour_palette.Rd |only ggseg3d-2.0.0/ggseg3d/man/apply_colours_and_legend.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_centerline_data.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_continuous_legend.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_cortical_meshes.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_discrete_legend.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_legend_data.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_subcortical_meshes.Rd |only ggseg3d-2.0.0/ggseg3d/man/build_tract_meshes.Rd |only ggseg3d-2.0.0/ggseg3d/man/camera_preset_to_position.Rd |only ggseg3d-2.0.0/ggseg3d/man/compute_parallel_transp_fr.Rd |only ggseg3d-2.0.0/ggseg3d/man/create_ggseg3d_widget.Rd |only ggseg3d-2.0.0/ggseg3d/man/cross_product.Rd |only ggseg3d-2.0.0/ggseg3d/man/data_merge_mesh.Rd |only ggseg3d-2.0.0/ggseg3d/man/figures |only ggseg3d-2.0.0/ggseg3d/man/generate_tube_mesh.Rd |only ggseg3d-2.0.0/ggseg3d/man/ggseg3d-package.Rd |only ggseg3d-2.0.0/ggseg3d/man/ggseg3d-shiny.Rd |only ggseg3d-2.0.0/ggseg3d/man/ggseg3d.Rd | 134 +-- ggseg3d-2.0.0/ggseg3d/man/ggsegray.Rd |only ggseg3d-2.0.0/ggseg3d/man/look_at_origin.Rd |only ggseg3d-2.0.0/ggseg3d/man/mesh_entry_to_mesh3d.Rd |only ggseg3d-2.0.0/ggseg3d/man/pan_camera.Rd | 42 ggseg3d-2.0.0/ggseg3d/man/position_hemisphere.Rd |only ggseg3d-2.0.0/ggseg3d/man/prepare_atlas_data.Rd |only ggseg3d-2.0.0/ggseg3d/man/prepare_brain_meshes.Rd |only ggseg3d-2.0.0/ggseg3d/man/prepare_mesh_atlas_data.Rd |only ggseg3d-2.0.0/ggseg3d/man/reexports.Rd |only ggseg3d-2.0.0/ggseg3d/man/resolve_brain_mesh.Rd |only ggseg3d-2.0.0/ggseg3d/man/rotate_vector.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_background.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_dimensions.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_edges.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_flat_shading.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_legend.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_orthographic.Rd |only ggseg3d-2.0.0/ggseg3d/man/set_positioning.Rd |only ggseg3d-2.0.0/ggseg3d/man/snapshot_brain.Rd |only ggseg3d-2.0.0/ggseg3d/man/tangents_to_colors.Rd |only ggseg3d-2.0.0/ggseg3d/man/updateGgseg3dBackground.Rd |only ggseg3d-2.0.0/ggseg3d/man/updateGgseg3dCamera.Rd |only ggseg3d-2.0.0/ggseg3d/man/vertices_to_colors.Rd |only ggseg3d-2.0.0/ggseg3d/man/vertices_to_labels.Rd |only ggseg3d-2.0.0/ggseg3d/man/vertices_to_text.Rd |only ggseg3d-2.0.0/ggseg3d/tests/spelling.R | 10 ggseg3d-2.0.0/ggseg3d/tests/spelling.Rout.save |only ggseg3d-2.0.0/ggseg3d/tests/testthat.R | 10 ggseg3d-2.0.0/ggseg3d/tests/testthat/setup.R | 2 ggseg3d-2.0.0/ggseg3d/tests/testthat/test-additions.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-atlas-types.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-brain-mesh.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-camera.R | 54 - ggseg3d-2.0.0/ggseg3d/tests/testthat/test-colour.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-data-merge.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-data_merge.R | 45 - ggseg3d-2.0.0/ggseg3d/tests/testthat/test-edges.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-ggseg3d.R | 398 ++++++++- ggseg3d-2.0.0/ggseg3d/tests/testthat/test-glassbrain.R | 98 +- ggseg3d-2.0.0/ggseg3d/tests/testthat/test-legend.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-mesh-builders.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-rayshader.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-unified-meshes.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-utils.R | 175 ++-- ggseg3d-2.0.0/ggseg3d/tests/testthat/test-widget-output.R |only ggseg3d-2.0.0/ggseg3d/tests/testthat/test-widget.R |only ggseg3d-2.0.0/ggseg3d/vignettes |only 101 files changed, 2031 insertions(+), 827 deletions(-)
Title: Three Dimensional High Throughput 'GoMiner'
Description: The Gene Ontology (GO) Consortium <https://geneontology.org/> organizes genes
into hierarchical categories based on biological process (BP), molecular function (MF) and
cellular component (CC, i.e., subcellular localization). Tools such as 'GoMiner' (see Zeeberg, B.R.,
Feng, W., Wang, G. et al. (2003) <doi:10.1186/gb-2003-4-4-r28>) can leverage GO to perform
ontological analysis of microarray and proteomics studies, typically generating a list of
significant functional categories. To capture the benefit of all three ontologies,
I developed 'HTGM3D', a three-dimensional version of 'GoMiner'.
Author: Barry Zeeberg [aut, cre]
Maintainer: Barry Zeeberg <barryz2013@gmail.com>
Diff between HTGM3D versions 1.0.1 dated 2026-02-08 and 1.0.2 dated 2026-02-20
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/HTGM3D.R | 11 ++++++++--- inst/doc/HTGM3D.html | 4 ++-- 4 files changed, 17 insertions(+), 12 deletions(-)
Title: Broadcasted Array Operations Like 'NumPy'
Description: Implements efficient 'NumPy'-like broadcasted operations for atomic and recursive arrays.
In the context of operations involving 2 (or more) arrays,
“broadcasting” (AKA singleton expansion) refers to efficiently recycling array dimensions,
without making copies.
Besides linking to 'Rcpp',
'broadcast' does not use any external libraries in any way;
'broadcast' was essentially made from scratch and can be installed out-of-the-box.
The implementations available in 'broadcast' include, but are not limited to, the following.
1) Broadcasted element-wise operations on any 2 arrays;
they support a large set of
relational, arithmetic, Boolean, string, and bit-wise operations.
2) A faster, more memory efficient, and broadcasted abind-like function,
for binding arrays along an arbitrary dimension.
3) Broadcasted ifelse-like and apply-like functions.
4) Casting functions,
that cast subset-groups of an array to a new dimension, cast nested lists to dimensional lists, and vice-versa.
5) A few linear [...truncated...]
Author: Tony Wilkes [aut, cre, cph]
Maintainer: Tony Wilkes <tony_a_wilkes@outlook.com>
Diff between broadcast versions 0.1.7 dated 2025-12-14 and 0.1.8 dated 2026-02-20
broadcast-0.1.7/broadcast/R/internal_binary_names.R |only broadcast-0.1.7/broadcast/inst/tinytest/internal/test-conformable.R |only broadcast-0.1.7/broadcast/inst/tinytest/internal/test-dimmode.R |only broadcast-0.1.7/broadcast/inst/tinytest/internal/test-mergedims.R |only broadcast-0.1.7/broadcast/src/C_any_nonarray.c |only broadcast-0.1.7/broadcast/src/C_binames_consider_dim.c |only broadcast-0.1.7/broadcast/src/C_dropdims_count.c |only broadcast-0.1.7/broadcast/src/C_dropdims_which.c |only broadcast-0.1.7/broadcast/src/C_lst_ndims.c |only broadcast-0.1.7/broadcast/src/rcpp_make_dimnames.cpp |only broadcast-0.1.8/broadcast/DESCRIPTION | 8 broadcast-0.1.8/broadcast/MD5 | 115 ++- broadcast-0.1.8/broadcast/NAMESPACE | 5 broadcast-0.1.8/broadcast/NEWS.md | 11 broadcast-0.1.8/broadcast/R/RcppExports.R | 134 +++- broadcast-0.1.8/broadcast/R/aaa00_broadcast_help.R | 4 broadcast-0.1.8/broadcast/R/aaa04_broadcast_linearalgebra.R | 47 + broadcast-0.1.8/broadcast/R/bc_cplx.R | 9 broadcast-0.1.8/broadcast/R/broadcastWrappers.R | 71 -- broadcast-0.1.8/broadcast/R/checkmissing.R |only broadcast-0.1.8/broadcast/R/internal_binary.R | 157 +---- broadcast-0.1.8/broadcast/R/internal_bind.R | 2 broadcast-0.1.8/broadcast/R/internal_typefuns.R | 10 broadcast-0.1.8/broadcast/R/linear_algebra_stats.R | 141 ++++ broadcast-0.1.8/broadcast/R/ndim.R | 2 broadcast-0.1.8/broadcast/build/partial.rdb |binary broadcast-0.1.8/broadcast/inst/examples/checkmissing.R |only broadcast-0.1.8/broadcast/inst/examples/linear_algebra_stats.R | 21 broadcast-0.1.8/broadcast/inst/tinytest/binary_names/source.R | 3 broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-1d.R | 53 + broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-array.R | 29 broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-between.R | 28 broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-ortho.R | 71 ++ broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-vector.R | 55 + broadcast-0.1.8/broadcast/inst/tinytest/binary_names/test-zerolen.R | 16 broadcast-0.1.8/broadcast/inst/tinytest/binary_prep |only broadcast-0.1.8/broadcast/inst/tinytest/bind_array_1_basic/test-bind_array_internal.R | 10 broadcast-0.1.8/broadcast/inst/tinytest/checkmissing |only broadcast-0.1.8/broadcast/inst/tinytest/class/test-methods.R | 236 ++++++- broadcast-0.1.8/broadcast/inst/tinytest/internal/test-mini.R | 16 broadcast-0.1.8/broadcast/inst/tinytest/linear_algebra/test-ecumprob.R |only broadcast-0.1.8/broadcast/inst/tinytest/linear_algebra/test-ecumprob_NA.R |only broadcast-0.1.8/broadcast/inst/tinytest/linear_algebra/test-ecumprob_internal.R |only broadcast-0.1.8/broadcast/inst/tinytest/linear_algebra/test-sd_lc.R | 77 -- broadcast-0.1.8/broadcast/inst/tinytest/linear_algebra/test-sd_lc_badrp.R |only broadcast-0.1.8/broadcast/inst/tinytest/test-binary1d.R | 6 broadcast-0.1.8/broadcast/inst/tinytest/test-binary_errors.R | 23 broadcast-0.1.8/broadcast/man/aaa00_broadcast_help.Rd | 6 broadcast-0.1.8/broadcast/man/bc.cplx.Rd | 10 broadcast-0.1.8/broadcast/man/checkmissing.Rd |only broadcast-0.1.8/broadcast/man/linear_algebra_stats.Rd | 73 ++ broadcast-0.1.8/broadcast/src/C_check_conf_dim.c | 5 broadcast-0.1.8/broadcast/src/C_make_outdim.c |only broadcast-0.1.8/broadcast/src/C_pmax.c | 4 broadcast-0.1.8/broadcast/src/RcppExports.cpp | 306 +++++++--- broadcast-0.1.8/broadcast/src/broadcast.h | 182 ++++- broadcast-0.1.8/broadcast/src/rcpp_any_nonarray.cpp |only broadcast-0.1.8/broadcast/src/rcpp_bc_cplx.cpp | 12 broadcast-0.1.8/broadcast/src/rcpp_binames.cpp |only broadcast-0.1.8/broadcast/src/rcpp_bindhelpers.cpp | 3 broadcast-0.1.8/broadcast/src/rcpp_cast_dim2hier.cpp | 2 broadcast-0.1.8/broadcast/src/rcpp_checkmissing.cpp |only broadcast-0.1.8/broadcast/src/rcpp_ecp.cpp |only broadcast-0.1.8/broadcast/src/rcpp_hier2dim.cpp | 18 broadcast-0.1.8/broadcast/src/rcpp_lst_ndims.cpp |only broadcast-0.1.8/broadcast/src/rcpp_mergedims.cpp | 284 ++++----- broadcast-0.1.8/broadcast/src/rcpp_set_attr.cpp | 40 - broadcast-0.1.8/broadcast/tests/tinytest.R | 6 68 files changed, 1590 insertions(+), 721 deletions(-)
Title: Size-Power Tradeoff Visualization for Equal Predictive Ability
of Two Forecasts
Description: Offers tools for visualizing and analyzing size and power properties
of tests for equal predictive accuracy, including Diebold-Mariano and
related procedures. Provides multiple Diebold-Mariano test implementations
based on fixed-smoothing approaches, including fixed-b methods such as
Kiefer and Vogelsang (2005) <doi:10.1017/S0266466605050565>, and
applications to tests for equal predictive accuracy as in Coroneo and
Iacone (2020) <doi:10.1002/jae.2756>, alongside conventional large-sample
approximations. HAR inference involves
nonparametric estimation of the long-run variance, and a key tuning
parameter (the truncation parameter) trades off size and power. Lazarus,
Lewis, and Stock (2021) <doi:10.3982/ECTA15404> theoretically characterize
the size-power frontier for the Gaussian multivariate location model.
'ForeComp' computes and visualizes the finite-sample size-power frontier of
the Diebold-Mariano test based on fixed-b asymptotics together with the
Bartlett kernel [...truncated...]
Author: Nathan Schor [aut],
Minchul Shin [aut, cre, cph]
Maintainer: Minchul Shin <visiblehand@gmail.com>
Diff between ForeComp versions 0.9.0 dated 2023-09-05 and 1.0.0 dated 2026-02-20
ForeComp-0.9.0/ForeComp/inst |only ForeComp-0.9.0/ForeComp/tests/testthat/Rplots.pdf |only ForeComp-0.9.0/ForeComp/tests/testthat/test-Plot_Tradeoff.R |only ForeComp-1.0.0/ForeComp/DESCRIPTION | 45 ForeComp-1.0.0/ForeComp/MD5 | 55 ForeComp-1.0.0/ForeComp/NAMESPACE | 37 ForeComp-1.0.0/ForeComp/NEWS.md | 17 ForeComp-1.0.0/ForeComp/R/Plot_Tradeoff.R | 743 +++--- ForeComp-1.0.0/ForeComp/R/data.R | 96 ForeComp-1.0.0/ForeComp/R/forecast_eval_functions.R | 1082 ++++++---- ForeComp-1.0.0/ForeComp/R/forecast_util_functions.R |only ForeComp-1.0.0/ForeComp/README.md | 72 ForeComp-1.0.0/ForeComp/data/PGDP.rda |binary ForeComp-1.0.0/ForeComp/data/RGDP.rda |binary ForeComp-1.0.0/ForeComp/data/TBILL.rda |binary ForeComp-1.0.0/ForeComp/data/UNEMP.rda |binary ForeComp-1.0.0/ForeComp/data/mikedata.rda |only ForeComp-1.0.0/ForeComp/man/PGDP.Rd | 43 ForeComp-1.0.0/ForeComp/man/Plot_Tradeoff.Rd | 187 - ForeComp-1.0.0/ForeComp/man/RGDP.Rd | 43 ForeComp-1.0.0/ForeComp/man/TBILL.Rd | 43 ForeComp-1.0.0/ForeComp/man/UNEMP.Rd | 43 ForeComp-1.0.0/ForeComp/man/dm.test.bt.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.bt.fb.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.cnr.t.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.cnr.w.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.ewc.fb.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.im.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.r.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.r.m.Rd |only ForeComp-1.0.0/ForeComp/man/dm.test.wpe.fb.Rd |only ForeComp-1.0.0/ForeComp/man/loss.diff.p.Rd |only ForeComp-1.0.0/ForeComp/man/mikedata.Rd |only ForeComp-1.0.0/ForeComp/tests/testthat.R | 16 ForeComp-1.0.0/ForeComp/tests/testthat/test-bandwidth-defaults.R |only ForeComp-1.0.0/ForeComp/tests/testthat/test-dm-basic-invariants.R |only ForeComp-1.0.0/ForeComp/tests/testthat/test-input-validation.R |only ForeComp-1.0.0/ForeComp/tests/testthat/test-loss-diff-p.R |only ForeComp-1.0.0/ForeComp/tests/testthat/test-plot-tradeoff.R |only 39 files changed, 1472 insertions(+), 1050 deletions(-)
Title: Functional MRI Quality Assurance Routines
Description: Methods for performing fMRI quality assurance (QA) measurements of
test objects. Heavily based on the fBIRN procedures detailed by Friedman and
Glover (2006) <doi:10.1002/jmri.20583>.
Author: Martin Wilson [cre, aut]
Maintainer: Martin Wilson <martin.wilson111@gmail.com>
Diff between fmriqa versions 0.3.0 dated 2018-02-19 and 0.5.0 dated 2026-02-20
DESCRIPTION | 15 MD5 | 32 - NAMESPACE | 50 - NEWS.md | 49 - R/fmriqa.R | 26 R/run_fmriqa.R | 1186 +++++++++++++++++++------------------- build/vignette.rds |binary inst/doc/fmriqa-intro.R | 30 inst/doc/fmriqa-intro.Rmd | 66 +- inst/doc/fmriqa-intro.html | 552 +++++++++++++---- man/combine_res_glob.Rd |only man/fmriqa-package.Rd | 60 - man/run_fmriqa.Rd | 174 +++-- man/run_fmriqa_glob.Rd |only tests/testthat.R | 8 tests/testthat/ref_results.rds |binary tests/testthat/test_qa_measures.R | 45 - vignettes/fmriqa-intro.Rmd | 66 +- 18 files changed, 1369 insertions(+), 990 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-Gray competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grants 80NSSC19M0161 and 80NSSC23M0129 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 1.4.9 dated 2026-01-23 and 1.4.10 dated 2026-02-20
Colossus-1.4.10/Colossus/DESCRIPTION | 6 Colossus-1.4.10/Colossus/MD5 | 79 +-- Colossus-1.4.10/Colossus/NEWS.md | 4 Colossus-1.4.10/Colossus/R/Cox_Regression.R | 34 + Colossus-1.4.10/Colossus/R/PlotTypes.R | 53 +- Colossus-1.4.10/Colossus/R/Utility.R | 4 Colossus-1.4.10/Colossus/R/utils-roxygen.R | 1 Colossus-1.4.10/Colossus/inst/doc/Alt_Run_Opt.html | 2 Colossus-1.4.10/Colossus/inst/doc/Grad_Hess.R | 73 +-- Colossus-1.4.10/Colossus/inst/doc/Grad_Hess.Rmd | 73 +-- Colossus-1.4.10/Colossus/inst/doc/Grad_Hess.html | 85 ++- Colossus-1.4.10/Colossus/inst/doc/Logistic.R | 22 Colossus-1.4.10/Colossus/inst/doc/Logistic.Rmd | 22 Colossus-1.4.10/Colossus/inst/doc/Logistic.html | 76 +-- Colossus-1.4.10/Colossus/inst/doc/Matched_Case_Control.R | 24 Colossus-1.4.10/Colossus/inst/doc/Matched_Case_Control.Rmd | 24 Colossus-1.4.10/Colossus/inst/doc/Matched_Case_Control.html | 52 +- Colossus-1.4.10/Colossus/inst/doc/Plotting_And_Analysis.R | 218 +++++---- Colossus-1.4.10/Colossus/inst/doc/Plotting_And_Analysis.Rmd | 218 +++++---- Colossus-1.4.10/Colossus/inst/doc/Plotting_And_Analysis.html | 266 ++++++----- Colossus-1.4.10/Colossus/inst/doc/SMR_Analysis.R | 24 Colossus-1.4.10/Colossus/inst/doc/SMR_Analysis.Rmd | 24 Colossus-1.4.10/Colossus/inst/doc/SMR_Analysis.html | 40 + Colossus-1.4.10/Colossus/inst/doc/Starting-Description.html | 4 Colossus-1.4.10/Colossus/inst/doc/Time_Dep_Cov.R | 121 +++-- Colossus-1.4.10/Colossus/inst/doc/Time_Dep_Cov.Rmd | 121 +++-- Colossus-1.4.10/Colossus/inst/doc/Time_Dep_Cov.html | 157 ++++-- Colossus-1.4.10/Colossus/inst/doc/Wald_and_Log_Bound.R | 36 + Colossus-1.4.10/Colossus/inst/doc/Wald_and_Log_Bound.Rmd | 36 + Colossus-1.4.10/Colossus/inst/doc/Wald_and_Log_Bound.html | 166 +++--- Colossus-1.4.10/Colossus/man/Likelihood_Ratio_Test.Rd | 6 Colossus-1.4.10/Colossus/src/Plot_Extensions.cpp | 71 ++ Colossus-1.4.10/Colossus/tests/testthat/test-Utility.R | 6 Colossus-1.4.10/Colossus/vignettes/Grad_Hess.Rmd | 73 +-- Colossus-1.4.10/Colossus/vignettes/Logistic.Rmd | 22 Colossus-1.4.10/Colossus/vignettes/Matched_Case_Control.Rmd | 24 Colossus-1.4.10/Colossus/vignettes/Plotting_And_Analysis.Rmd | 218 +++++---- Colossus-1.4.10/Colossus/vignettes/SMR_Analysis.Rmd | 24 Colossus-1.4.10/Colossus/vignettes/Time_Dep_Cov.Rmd | 121 +++-- Colossus-1.4.10/Colossus/vignettes/Wald_and_Log_Bound.Rmd | 36 + Colossus-1.4.9/Colossus/tests/testthat/temp.R |only 41 files changed, 1788 insertions(+), 878 deletions(-)
Title: Generalized Reporter Score-Based Enrichment Analysis for Omics
Data
Description: Inspired by the classic 'RSA', we developed the improved 'Generalized Reporter
Score-based Analysis (GRSA)' method, implemented in the R package 'ReporterScore', along
with comprehensive visualization methods and pathway databases. 'GRSA' is a threshold-free
method that works well with all types of biomedical features, such as genes, chemical compounds,
and microbial species. Importantly, the 'GRSA' supports multi-group and longitudinal experimental
designs, because of the included multi-group-compatible statistical methods.
Author: Chen Peng [aut, cre]
Maintainer: Chen Peng <bfzede@gmail.com>
Diff between ReporterScore versions 0.1.9 dated 2024-11-28 and 0.2.5 dated 2026-02-20
DESCRIPTION | 16 - MD5 | 44 ++-- NAMESPACE | 11 + NEWS.md | 20 ++ R/check_files.R | 370 +++++++++++++++++++++++++++++++++++++-- R/enrichment.R | 32 --- R/kegg_net.R |only R/plot.R | 13 - build/vignette.rds |binary inst/doc/ReporterScore.R | 8 inst/doc/ReporterScore.html | 46 ++-- man/KO_gsva.Rd | 9 man/KO_padog.Rd | 12 - man/KO_safe.Rd | 12 - man/ReporterScore-package.Rd | 2 man/c_net_from_pathway_xml.Rd |only man/get_all_pathway_net_index.Rd |only man/get_features.Rd | 4 man/load_CAZy_info.Rd |only man/load_Enzyme_info.Rd |only man/load_htable.Rd | 7 man/load_pathway_xml_ls.Rd |only man/parse_enzyme_dat.Rd |only man/pathway_net_index.Rd |only man/plot_pathway_net.Rd |only man/update_CARDinfo.Rd | 2 man/update_CAZy_info.Rd |only man/update_Enzyme_info.Rd |only man/update_pathway_xml_ls.Rd |only 29 files changed, 476 insertions(+), 132 deletions(-)
Title: 'ICESat-2' Altimeter Data using R
Description: Programmatic connection to the 'OpenAltimetry' API <https://openaltimetry.earthdatacloud.nasa.gov/data/openapi/swagger-ui/index.html/> to download and process 'ATL03' (Global 'Geolocated' Photon Data), 'ATL06' (Land Ice Height), 'ATL07' (Sea Ice Height), 'ATL08' (Land and Vegetation Height), 'ATL10' (Sea Ice 'Freeboard'), 'ATL12' (Ocean Surface Height) and 'ATL13' (Inland Water Surface Height) 'ICESat-2' Altimeter Data. The user has the option to download the data by selecting a bounding box from a 1- or 5-degree grid globally utilizing a shiny application. The 'ICESat-2' mission collects 'altimetry' data of the Earth's surface. The sole instrument on 'ICESat-2' is the Advanced Topographic Laser Altimeter System (ATLAS) instrument that measures ice sheet elevation change and sea ice thickness, while also generating an estimate of global vegetation biomass. 'ICESat-2' continues the important observations of ice-sheet elevation change, sea-ice 'freeboard', and vegetation canopy hei [...truncated...]
Author: Lampros Mouselimis [aut, cre] ,
OpenAltimetry.org [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
This is a re-admission after prior archival of version 1.0.7 dated 2025-02-15
Diff between IceSat2R versions 1.0.7 dated 2025-02-15 and 1.0.8 dated 2026-02-20
DESCRIPTION | 27 ++++----- MD5 | 50 +++++++++++------- NAMESPACE | 7 +- NEWS.md | 11 +++ R/drawOptions_leaflet_extras.R |only R/draw_leaflet_extras.R |only R/html_dependencies_leaflet_extras.R |only R/jsFunctions_leaflet_extras.R |only R/leafletDependencies_leaflet_extras.R |only R/mission_orbits.R | 4 - R/shiny_app.R | 5 - README.md | 10 +-- build/vignette.rds |binary data/RGT_cycle_14.rda |binary data/datalist | 2 data/ne_10m_glaciated_areas.rda |binary inst/data_files/technical_specs_urls.csv | 6 +- inst/doc/IceSat-2_Atlas_products_PDF.Rmd | 4 - inst/doc/IceSat-2_Atlas_products_PDF.pdf |binary inst/doc/IceSat-2_Mission_Orbits_PDF.pdf |binary inst/doc/IceSat-2_Virtual_File_System_Orbits_PDF.Rmd | 2 inst/doc/IceSat-2_Virtual_File_System_Orbits_PDF.pdf |binary inst/htmlwidgets |only vignettes/IceSat-2_Atlas_products_PDF.Rmd | 4 - vignettes/IceSat-2_Virtual_File_System_Orbits_PDF.Rmd | 2 25 files changed, 79 insertions(+), 55 deletions(-)
Title: Efficient Learning of Word Representations and Sentence
Classification
Description: An interface to the 'fastText' <https://github.com/facebookresearch/fastText> library for efficient learning of word representations and sentence classification. The 'fastText' algorithm is explained in detail in (i) "Enriching Word Vectors with subword Information", Piotr Bojanowski, Edouard Grave, Armand Joulin, Tomas Mikolov, 2017, <doi:10.1162/tacl_a_00051>; (ii) "Bag of Tricks for Efficient Text Classification", Armand Joulin, Edouard Grave, Piotr Bojanowski, Tomas Mikolov, 2017, <doi:10.18653/v1/e17-2068>; (iii) "FastText.zip: Compressing text classification models", Armand Joulin, Edouard Grave, Piotr Bojanowski, Matthijs Douze, Herve Jegou, Tomas Mikolov, 2016, <doi:10.48550/arXiv.1612.03651>.
Author: Lampros Mouselimis [aut, cre] ,
Facebook Inc [cph]
Maintainer: Lampros Mouselimis <mouselimislampros@gmail.com>
Diff between fastText versions 1.0.6 dated 2026-02-10 and 1.0.7 dated 2026-02-20
fastText-1.0.6/fastText/README.md |only fastText-1.0.7/fastText/DESCRIPTION | 8 +++---- fastText-1.0.7/fastText/MD5 | 11 ++++------ fastText-1.0.7/fastText/NEWS.md | 5 ++++ fastText-1.0.7/fastText/inst/doc/language_identification.html | 4 +-- fastText-1.0.7/fastText/inst/doc/the_fastText_R_package.html | 4 +-- fastText-1.0.7/fastText/src/fasttext.cc | 2 - 7 files changed, 19 insertions(+), 15 deletions(-)
Title: Predicting Disease Spread from Flow Data
Description: Provides functions and classes designed to handle and visualise
epidemiological flows between locations. Also contains a statistical method
for predicting disease spread from flow data initially described in
Dorigatti et al. (2017) <doi:10.2807/1560-7917.ES.2017.22.28.30572>.
This package is part of the RECON (<https://www.repidemicsconsortium.org/>)
toolkit for outbreak analysis.
Author: Pawel Piatkowski [aut, cre] ,
Paula Moraga [aut] ,
Isobel Blake [ctb, dtc],
Thibaut Jombart [aut],
VP Nagraj [aut],
Zhian N. Kamvar [aut] ,
Salla E. Toikkanen [aut]
Maintainer: Pawel Piatkowski <pawel.piatkowski@posteo.net>
This is a re-admission after prior archival of version 0.2.1 dated 2023-04-09
Diff between epiflows versions 0.2.1 dated 2023-04-09 and 0.2.2 dated 2026-02-20
DESCRIPTION | 20 - MD5 | 28 - NAMESPACE | 1 R/data.R | 2 R/estimate_risk_spread.R | 2 R/grid_epiflows.R | 21 - R/handling.R | 2 R/print.epiflows.R | 4 build/partial.rdb |binary build/vignette.rds |binary inst/doc/epiflows-class.html | 626 +++++++++++++++++++++---------------------- inst/doc/introduction.R | 8 inst/doc/introduction.html | 206 +++++++------- man/epiflows.Rd | 28 + man/sub-.epiflows.Rd | 2 15 files changed, 501 insertions(+), 449 deletions(-)
Title: Simulation-Based Calculation of Basket Trial Operating
Characteristics
Description: Provides a unified syntax for the simulation-based comparison of
different single-stage basket trial designs with a binary endpoint and equal
sample sizes in all baskets. Methods include the designs by
Baumann et al. (2025) <doi:10.1080/19466315.2024.2402275>,
Schmitt and Baumann (2025) <doi:10.1080/19466315.2025.2486231>,
Fujikawa et al. (2020) <doi:10.1002/bimj.201800404>,
Berry et al. (2020) <doi:10.1177/1740774513497539>, and
Neuenschwander et al. (2016) <doi:10.1002/pst.1730>. For the
latter two designs, the functions are mostly
wrappers for functions provided by the package 'bhmbasket'.
Author: Lukas Baumann [aut, cre] ,
Lukas D Sauer [aut] ,
Sabrina Schmitt [aut]
Maintainer: Lukas Baumann <baumann@imbi.uni-heidelberg.de>
This is a re-admission after prior archival of version 1.0.0 dated 2024-04-12
Diff between basksim versions 1.0.0 dated 2024-04-12 and 2.0.2 dated 2026-02-20
basksim-1.0.0/basksim/man/get_details.bma.Rd |only basksim-1.0.0/basksim/man/get_results.bma.Rd |only basksim-1.0.0/basksim/man/setup_bma.Rd |only basksim-2.0.2/basksim/DESCRIPTION | 49 - basksim-2.0.2/basksim/MD5 | 144 ++- basksim-2.0.2/basksim/NAMESPACE | 98 +- basksim-2.0.2/basksim/R/adjust_lambda.R | 45 - basksim-2.0.2/basksim/R/basksim-package.R | 2 basksim-2.0.2/basksim/R/class.R | 112 +- basksim-2.0.2/basksim/R/geoms.R |only basksim-2.0.2/basksim/R/get_data.R | 53 - basksim-2.0.2/basksim/R/get_details.R | 317 +++++-- basksim-2.0.2/basksim/R/get_evaluation.R |only basksim-2.0.2/basksim/R/get_results.R | 203 +++- basksim-2.0.2/basksim/R/helper.R | 41 basksim-2.0.2/basksim/R/helper_app.R |only basksim-2.0.2/basksim/R/helper_cpplim.R |only basksim-2.0.2/basksim/R/helper_fujikawa.R | 74 + basksim-2.0.2/basksim/R/helper_pp.R | 66 + basksim-2.0.2/basksim/R/operating_characteristics.R | 26 basksim-2.0.2/basksim/R/opt_design.R | 35 basksim-2.0.2/basksim/R/weight_matrices.R | 182 +++- basksim-2.0.2/basksim/README.md | 37 basksim-2.0.2/basksim/build |only basksim-2.0.2/basksim/man/adjust_lambda.Rd | 74 - basksim-2.0.2/basksim/man/adjust_lambda.bhm.Rd | 128 +-- basksim-2.0.2/basksim/man/adjust_lambda.default.Rd | 140 +-- basksim-2.0.2/basksim/man/adjust_lambda.exnex.Rd | 129 +-- basksim-2.0.2/basksim/man/basksim-package.Rd | 57 - basksim-2.0.2/basksim/man/ecd.Rd | 110 +- basksim-2.0.2/basksim/man/geom_borrow.Rd |only basksim-2.0.2/basksim/man/geom_borrow.fujikawa.Rd |only basksim-2.0.2/basksim/man/geom_posterior.Rd |only basksim-2.0.2/basksim/man/geom_posterior.fujikawa.Rd |only basksim-2.0.2/basksim/man/geom_prior.Rd |only basksim-2.0.2/basksim/man/geom_prior.fujikawa.Rd |only basksim-2.0.2/basksim/man/get_data.Rd | 76 - basksim-2.0.2/basksim/man/get_details.Rd | 62 - basksim-2.0.2/basksim/man/get_details.app.Rd |only basksim-2.0.2/basksim/man/get_details.bhm.Rd | 121 +- basksim-2.0.2/basksim/man/get_details.cpp.Rd | 128 +-- basksim-2.0.2/basksim/man/get_details.cppglobal.Rd | 130 +-- basksim-2.0.2/basksim/man/get_details.cpplim.Rd |only basksim-2.0.2/basksim/man/get_details.exnex.Rd | 128 +-- basksim-2.0.2/basksim/man/get_details.fujikawa.Rd | 37 basksim-2.0.2/basksim/man/get_details.jsdglobal.Rd | 138 +-- basksim-2.0.2/basksim/man/get_details.mml.Rd | 102 +- basksim-2.0.2/basksim/man/get_details.mmlglobal.Rd | 100 +- basksim-2.0.2/basksim/man/get_evaluation.Rd |only basksim-2.0.2/basksim/man/get_evaluation.app.Rd |only basksim-2.0.2/basksim/man/get_evaluation.bhm.Rd |only basksim-2.0.2/basksim/man/get_evaluation.cpp.Rd |only basksim-2.0.2/basksim/man/get_evaluation.cpplim.Rd |only basksim-2.0.2/basksim/man/get_evaluation.exnex.Rd |only basksim-2.0.2/basksim/man/get_evaluation.fujikawa.Rd |only basksim-2.0.2/basksim/man/get_results.Rd | 60 - basksim-2.0.2/basksim/man/get_results.app.Rd |only basksim-2.0.2/basksim/man/get_results.bhm.Rd | 116 +- basksim-2.0.2/basksim/man/get_results.cpp.Rd | 122 +- basksim-2.0.2/basksim/man/get_results.cppglobal.Rd | 124 +- basksim-2.0.2/basksim/man/get_results.cpplim.Rd |only basksim-2.0.2/basksim/man/get_results.exnex.Rd | 121 +- basksim-2.0.2/basksim/man/get_results.fujikawa.Rd | 126 +-- basksim-2.0.2/basksim/man/get_results.jsdglobal.Rd | 132 +-- basksim-2.0.2/basksim/man/get_results.mml.Rd | 80 - basksim-2.0.2/basksim/man/get_results.mmlglobal.Rd | 80 - basksim-2.0.2/basksim/man/opt_design.Rd | 149 ++- basksim-2.0.2/basksim/man/setup_app.Rd |only basksim-2.0.2/basksim/man/setup_cpp.Rd | 73 - basksim-2.0.2/basksim/man/setup_cppglobal.Rd | 75 - basksim-2.0.2/basksim/man/setup_cpplim.Rd |only basksim-2.0.2/basksim/man/setup_jsdglobal.Rd | 73 - basksim-2.0.2/basksim/man/setup_mmlglobal.Rd | 79 - basksim-2.0.2/basksim/man/toer.Rd | 112 +- basksim-2.0.2/basksim/tests/testthat/test-adjust_lambda.R | 20 basksim-2.0.2/basksim/tests/testthat/test-class.R | 5 basksim-2.0.2/basksim/tests/testthat/test-class_validator.R |only basksim-2.0.2/basksim/tests/testthat/test-geoms.R |only basksim-2.0.2/basksim/tests/testthat/test-get_data.R | 10 basksim-2.0.2/basksim/tests/testthat/test-get_details.R | 456 +++++++---- basksim-2.0.2/basksim/tests/testthat/test-get_evaluation.R |only basksim-2.0.2/basksim/tests/testthat/test-get_results.R | 83 +- basksim-2.0.2/basksim/tests/testthat/test-helper.R | 25 basksim-2.0.2/basksim/tests/testthat/test-helper_app.R |only basksim-2.0.2/basksim/tests/testthat/test-helper_cppglobal.R | 2 basksim-2.0.2/basksim/tests/testthat/test-helper_cpplim.R |only basksim-2.0.2/basksim/tests/testthat/test-helper_fujikawa.R | 17 basksim-2.0.2/basksim/tests/testthat/test-helper_pp.R | 28 basksim-2.0.2/basksim/tests/testthat/test-opt_design.R | 25 89 files changed, 3262 insertions(+), 2075 deletions(-)
Title: Download Infectious Disease Data from 'SurvStat' (Robert Koch
Institute)
Description: Provides an interface to the 'SurvStat' web service from the
Robert Koch Institute (<https://tools.rki.de/SurvStat/SurvStatWebService.svc>)
allowing downloads of disease time series stratified
by pathogen type and subtype, age, and geography from notifiable disease
reports in Germany.
Author: Robert Challen [aut, cre] ,
Bristol Vaccine Centre [fnd, cph]
Maintainer: Robert Challen <rob.challen@bristol.ac.uk>
Diff between rsurvstat versions 0.1.3 dated 2026-01-22 and 0.1.4 dated 2026-02-20
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NAMESPACE | 2 +- NEWS.md | 4 ++++ R/globals.R | 2 +- 5 files changed, 13 insertions(+), 9 deletions(-)
Title: Toolkit for Analysis of Genomic Data
Description: A toolkit for analysis of genomic data. The 'misha' package
implements an efficient data structure for storing genomic data, and
provides a set of functions for data extraction, manipulation and
analysis. Some of the 2D genome algorithms were described in Yaffe and Tanay
(2011) <doi:10.1038/ng.947>.
Author: Misha Hoichman [aut],
Aviezer Lifshitz [aut, cre],
Eitan Yaffe [aut],
Amos Tanay [aut],
Weizmann Institute of Science [cph]
Maintainer: Aviezer Lifshitz <aviezer.lifshitz@weizmann.ac.il>
Diff between misha versions 5.4.0 dated 2026-01-27 and 5.4.5 dated 2026-02-20
DESCRIPTION | 6 MD5 | 79 - NAMESPACE | 1 NEWS.md | 20 R/compute-sequence.R | 169 +++ R/config-defaults.R | 2 R/intervals-bigset.R | 26 R/intervals-load-save.R | 143 ++- R/intervals-management.R | 20 R/intervals-operations.R | 78 + R/vtrack.R | 5 R/zzz.R | 5 build/vignette.rds |binary inst/WORDLIST | 1 inst/doc/Misha-Basics.R |only inst/doc/Misha-Basics.Rmd |only inst/doc/Misha-Basics.html |only man/gdb.export_fasta.Rd |only man/gvtrack.create.Rd | 5 src/BufferedFile.h | 2 src/GenomeIntervalUtils.cpp | 233 ++++ src/GenomeTrack1D.h | 25 src/GenomeTrackBinnedTransform.cpp | 11 src/GenomeTrackExtract.cpp | 169 ++- src/GenomeTrackFixedBin.cpp | 855 +++++++++++++++--- src/GenomeTrackFixedBin.h | 26 src/GenomeTrackInMemory.cpp | 9 src/GenomeTrackSparse.cpp | 193 +++- src/GenomeTrackSparse.h | 65 + src/IntervalsIndexedFormat.cpp | 409 ++++++++ src/StratifiedMarkovModel.cpp | 5 src/TrackExpressionVars.cpp | 295 ++++-- src/TrackExpressionVars.h | 11 src/TrackVarProcessor.cpp | 29 src/TrackVarProcessor.h | 1 src/ValueVarProcessor.cpp | 19 src/misha-init.cpp | 16 src/rdbinterval.cpp | 235 +++- src/rdbinterval.h | 9 src/rdbutils.cpp | 2 tests/testthat/test-bigset-fast-load.R |only tests/testthat/test-gdb.export_fasta.R |only tests/testthat/test-gextract-single-chrom-multitask.R |only tests/testthat/test-vtrack-lse.R |only vignettes/Misha-Basics.Rmd |only 45 files changed, 2706 insertions(+), 473 deletions(-)
Title: Utilities to Weave Hydrologic Fabrics
Description: A collection of utilities that support creation of network attributes for hydrologic networks. Methods and algorithms implemented are documented in Moore et al. (2019) <doi:10.3133/ofr20191096>), Cormen and Leiserson (2022) <ISBN:9780262046305> and Verdin and Verdin (1999) <doi:10.1016/S0022-1694(99)00011-6>.
Author: David Blodgett [aut, cre]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between hydroloom versions 1.1.2 dated 2026-02-20 and 1.1.3 dated 2026-02-20
DESCRIPTION | 6 +++--- MD5 | 20 ++++++++++---------- NEWS.md | 5 +++++ inst/doc/flow-table.html | 6 +++--- tests/testthat/test_accumulate.R | 30 +++++++++++++++--------------- tests/testthat/test_add_measures.R | 4 ++-- tests/testthat/test_add_pathlength.R | 2 +- tests/testthat/test_get_hydro_location.R | 2 +- tests/testthat/test_get_partial_length.R | 4 ++-- tests/testthat/test_index.R | 4 ++-- tests/testthat/test_utils.R | 8 ++++---- 11 files changed, 48 insertions(+), 43 deletions(-)
Title: Elastic Functional Data Analysis
Description: Performs alignment, PCA, and modeling of multidimensional and
unidimensional functions using the square-root velocity framework
(Srivastava et al., 2011 <doi:10.48550/arXiv.1103.3817> and Tucker et al., 2014
<DOI:10.1016/j.csda.2012.12.001>). This framework allows for elastic
analysis of functional data through phase and amplitude separation.
Author: J. Derek Tucker [aut, cre] ,
Aymeric Stamm [ctb]
Maintainer: J. Derek Tucker <jdtuck@sandia.gov>
Diff between fdasrvf versions 2.4.2 dated 2025-10-03 and 2.4.3 dated 2026-02-20
DESCRIPTION | 8 MD5 | 22 NEWS.md | 5 R/curve_functions.R | 2 R/pns.R | 26 R/ppd.R | 44 + R/predict.jfpca.R | 9 R/time-warping.R | 21 README.md | 8 man/figures/README-1d_aligned_plot-2.png |binary man/ppd.Rd | 6 tests/testthat/_snaps/time-warping.md | 818 +++++++++++++++---------------- 12 files changed, 525 insertions(+), 444 deletions(-)
Title: Parse Tabled Content to Text Vector and Extract Statistical
Standard Results
Description: Features include the ability to extract tabled content from NISO-JATS-coded XML, any native HTML or HML file, DOCX, and PDF documents, and then collapse it into a text format that is readable by humans by mimicking the actions of a screen reader. As tables within PDF documents are extracted with the 'tabulapdf' package, and the table captions and footnotes cannot be extracted, the results on tables within PDF documents have to be considered less precise. The function table2matrix() returns a list of the tables within a document as character matrices. table2text() collapses the matrix content into a list of character strings by imitating the behavior of a screen reader. The textual representation of characters and numbers can be unified with unifyMatrix() before parsing. The function table2stats() extracts the tabled statistical test results from the collapsed text with the function standardStats() from the 'JATSdecoder' package and, if activated, checks the reported and coded p-values [...truncated...]
Author: Ingmar Boeschen [aut, cre]
Maintainer: Ingmar Boeschen <ingmar.boeschen@uni-hamburg.de>
Diff between tableParser versions 1.0.2 dated 2026-02-02 and 1.0.3 dated 2026-02-20
tableParser-1.0.2/tableParser/R/R_imports.R |only tableParser-1.0.2/tableParser/man/reexports.Rd |only tableParser-1.0.3/tableParser/DESCRIPTION | 8 tableParser-1.0.3/tableParser/MD5 | 44 - tableParser-1.0.3/tableParser/NAMESPACE | 11 tableParser-1.0.3/tableParser/R/docx2matrix.R | 26 - tableParser-1.0.3/tableParser/R/get.caption.R | 6 tableParser-1.0.3/tableParser/R/get.footer.R | 6 tableParser-1.0.3/tableParser/R/legendCodings.R | 83 +++ tableParser-1.0.3/tableParser/R/matrix2text.R | 13 tableParser-1.0.3/tableParser/R/parseMatrixContent.R | 94 ++-- tableParser-1.0.3/tableParser/R/prepareMatrix.R | 20 tableParser-1.0.3/tableParser/R/table2matrix.R | 77 ++- tableParser-1.0.3/tableParser/R/table2stats.R | 163 +++++-- tableParser-1.0.3/tableParser/R/table2text.R | 44 + tableParser-1.0.3/tableParser/R/tableClass.R | 23 - tableParser-1.0.3/tableParser/R/tableFunctions.R | 363 +++++++++++++--- tableParser-1.0.3/tableParser/R/unifyMatrixContent.R | 14 tableParser-1.0.3/tableParser/R/unifyStats.R | 60 +- tableParser-1.0.3/tableParser/man/docx2matrix.Rd | 21 tableParser-1.0.3/tableParser/man/table2matrix.Rd | 3 tableParser-1.0.3/tableParser/man/table2stats.Rd | 44 - tableParser-1.0.3/tableParser/man/table2text.Rd | 2 tableParser-1.0.3/tableParser/man/unifyMatrixContent.Rd | 2 24 files changed, 825 insertions(+), 302 deletions(-)
Title: ADaM Test Data for the 'Pharmaverse' Family of Packages
Description: A set of Analysis Data Model (ADaM) datasets constructed
using the Study Data Tabulation Model (SDTM) datasets contained in the
'pharmaversesdtm' package and the template scripts from the 'admiral'
family of packages. ADaM dataset specifications are described in the
CDISC ADaM implementation guide, accessible by creating a free account
on <https://www.cdisc.org/>.
Author: Fanny Gautier [aut, cre] ,
Stefan Bundfuss [aut] ,
Edoardo Mancini [aut] ,
Lina Patil [aut],
Gerardo Jose Rodriguez [aut] ,
Vladyslav Shuliar [aut] ,
Cytel Inc. [cph, fnd],
F. Hoffmann-La Roche AG [cph, fnd],
GlaxoSmithKline LLC [cph, fnd]
Maintainer: Fanny Gautier <fanny.gautier@cytel.com>
Diff between pharmaverseadam versions 1.2.0 dated 2025-09-06 and 1.3.0 dated 2026-02-20
DESCRIPTION | 19 MD5 | 182 NEWS.md | 32 R/adab.R |only R/adae.R | 159 R/adapet_neuro.R |only R/adbcva_ophtha.R | 89 R/adce_vaccine.R | 73 R/adcm.R | 139 R/adcoeq_metabolic.R | 117 R/adeg.R | 163 R/adex.R | 127 R/adface_vaccine.R | 51 R/adis_vaccine.R | 142 R/adlb.R | 177 R/adlb_metabolic.R | 37 R/adlbhy.R | 13 R/admh.R | 147 R/adnv_neuro.R |only R/adoe_ophtha.R | 153 R/adpc.R | 182 R/adpp.R | 107 R/adppk.R | 75 R/adrs_onco.R | 105 R/adsl.R | 54 R/adsl_vaccine.R | 39 R/adtpet_neuro.R |only R/adtr_onco.R | 145 R/adtte_onco.R | 27 R/advfq_ophtha.R | 125 R/advs.R | 157 R/advs_metabolic.R | 149 R/advs_peds.R | 107 README.md | 15 data/adab.rda |only data/adae.rda |binary data/adapet_neuro.rda |only data/adbcva_ophtha.rda |binary data/adce_vaccine.rda |binary data/adcm.rda |binary data/adcoeq_metabolic.rda |binary data/adeg.rda |binary data/adex.rda |binary data/adface_vaccine.rda |binary data/adis_vaccine.rda |binary data/adlb.rda |binary data/adlb_metabolic.rda |binary data/adlbhy.rda |binary data/admh.rda |binary data/adnv_neuro.rda |only data/adoe_ophtha.rda |binary data/adpc.rda |binary data/adpp.rda |binary data/adppk.rda |binary data/adrs_onco.rda |binary data/adsl.rda |binary data/adsl_vaccine.rda |binary data/adtpet_neuro.rda |only data/adtr_onco.rda |binary data/adtte_onco.rda |binary data/advfq_ophtha.rda |binary data/advs.rda |binary data/advs_metabolic.rda |binary data/advs_peds.rda |binary inst/WORDLIST | 54 inst/extdata/adams-specs.json |18635 ++++++++++++++++++++++------------------- inst/extdata/adams-specs.xlsx |binary man/adab.Rd |only man/adae.Rd | 161 man/adapet_neuro.Rd |only man/adbcva_ophtha.Rd | 91 man/adce_vaccine.Rd | 75 man/adcm.Rd | 141 man/adcoeq_metabolic.Rd | 119 man/adeg.Rd | 165 man/adex.Rd | 129 man/adface_vaccine.Rd | 53 man/adis_vaccine.Rd | 144 man/adlb.Rd | 179 man/adlb_metabolic.Rd | 39 man/adlbhy.Rd | 15 man/admh.Rd | 149 man/adnv_neuro.Rd |only man/adoe_ophtha.Rd | 155 man/adpc.Rd | 184 man/adpp.Rd | 109 man/adppk.Rd | 77 man/adrs_onco.Rd | 107 man/adsl.Rd | 56 man/adsl_vaccine.Rd | 41 man/adtpet_neuro.Rd |only man/adtr_onco.Rd | 147 man/adtte_onco.Rd | 29 man/advfq_ophtha.Rd | 127 man/advs.Rd | 159 man/advs_metabolic.Rd | 151 man/advs_peds.Rd | 109 man/pharmaverseadam-package.Rd | 1 98 files changed, 13548 insertions(+), 11160 deletions(-)
More information about pharmaverseadam at CRAN
Permanent link
Title: Multivariate Dependence with Copulas
Description: Classes (S4) of commonly used elliptical, Archimedean,
extreme-value and other copula families, as well as their rotations,
mixtures and asymmetrizations. Nested Archimedean copulas, related
tools and special functions. Methods for density, distribution, random
number generation, bivariate dependence measures, Rosenblatt transform,
Kendall distribution function, perspective and contour plots. Fitting of
copula models with potentially partly fixed parameters, including
standard errors. Serial independence tests, copula specification tests
(independence, exchangeability, radial symmetry, extreme-value
dependence, goodness-of-fit) and model selection based on
cross-validation. Empirical copula, smoothed versions, and
non-parametric estimators of the Pickands dependence function.
Author: Marius Hofert [aut] ,
Ivan Kojadinovic [aut] ,
Martin Maechler [aut, cre] ,
Jun Yan [aut] ,
Johanna G. Neslehova [ctb] , ORCID:
<https://orcid.org/0000-0001-9634-4796>),
Rebecca Morger [ctb] : code for free mixCopula weight
parameters)
Maintainer: Martin Maechler <maechler@stat.math.ethz.ch>
Diff between copula versions 1.1-6 dated 2025-03-18 and 1.1-7 dated 2026-02-20
DESCRIPTION | 27 ++++---- MD5 | 107 ++++++++++++++++----------------- NAMESPACE | 8 ++ R/fitMvdc.R | 22 +++--- R/gofCopula.R | 54 +++++++++++++--- R/graphics.R | 1 R/mvdc.R | 62 +++++++++++++------ R/prob.R | 50 ++++++++------- TODO | 4 + build/partial.rdb |binary build/vignette.rds |binary inst/NEWS.Rd | 32 +++++++++ inst/doc/AC_Liouville.html | 14 ++-- inst/doc/AR_Clayton.R | 5 - inst/doc/AR_Clayton.Rmd | 12 ++- inst/doc/AR_Clayton.html | 87 +++++++++++++++------------ inst/doc/Frank-Rmpfr.Rnw | 8 +- inst/doc/Frank-Rmpfr.pdf |binary inst/doc/GIG.html | 24 +++---- inst/doc/HAXC.html | 32 ++++----- inst/doc/NALC.html | 20 +++--- inst/doc/copula_GARCH.html | 14 ++-- inst/doc/dNAC.html | 12 +-- inst/doc/empiricial_copulas.html | 12 +-- inst/doc/logL_visualization.html | 101 ++++++++++++++++--------------- inst/doc/nacopula-pkg.Rnw | 17 +---- inst/doc/nacopula-pkg.pdf |binary inst/doc/qrng.html | 20 +++--- inst/doc/rhoAMH-dilog.Rnw | 4 - inst/doc/rhoAMH-dilog.pdf |binary inst/doc/wild_animals.Rmd | 2 inst/doc/wild_animals.html | 93 ++++++++++++++--------------- man/Mvdc.Rd | 5 + man/cCopula.Rd | 8 +- man/copula-package.Rd | 2 man/enacopula.Rd | 13 +--- man/fitMvdc.Rd | 21 ++++-- man/gofMMDtest.Rd |only man/gofTstat.Rd | 13 ++-- man/nacTiming.Rd | 4 - man/prob.Rd | 36 ++++++++--- src/gof.c | 120 +++++++++++++++++++++++++++++++------ src/gof.h | 4 + src/init.c | 4 + tests/copula-play.R | 125 ++++++++++++++++++++++----------------- tests/explicitCop-ex.R | 16 ++-- tests/fitting-ex.R | 40 ++++++++---- tests/khoudraji-ex.R | 62 +++++++++++-------- tests/moments.R | 2 vignettes/AR_Clayton.Rmd | 12 ++- vignettes/Frank-Rmpfr.Rnw | 8 +- vignettes/nacopula-pkg.Rnw | 17 +---- vignettes/nacopula.bib | 47 ++++++++------ vignettes/rhoAMH-dilog.Rnw | 4 - vignettes/wild_animals.Rmd | 2 55 files changed, 852 insertions(+), 557 deletions(-)
Title: Canonical Correlations and Tests of Independence
Description: A simple interface for multivariate correlation analysis that unifies various classical
statistical procedures including t-tests, tests in univariate and multivariate linear models,
parametric and nonparametric tests for correlation, Kruskal-Wallis tests, common approximate
versions of Wilcoxon rank-sum and signed rank tests, chi-squared tests of independence, score
tests of particular hypotheses in generalized linear models, canonical correlation analysis and
linear discriminant analysis.
Author: Robert Schlicht [aut, cre]
Maintainer: Robert Schlicht <robert.schlicht@tu-dresden.de>
Diff between cctest versions 2.2.2 dated 2026-02-05 and 2.3.0 dated 2026-02-20
DESCRIPTION | 6 ++-- MD5 | 8 ++--- NAMESPACE | 2 - R/cctest.R | 54 ++++++++++++++++++++++++-------------- man/cctest.Rd | 81 +++++++++++++++++++++++++++++----------------------------- 5 files changed, 83 insertions(+), 68 deletions(-)
Title: Interact with Peak Flow Data in the United Kingdom
Description: Obtain information on peak flow data from the National River Flow Archive (NRFA) in the United Kingdom, either from the Peak Flow Dataset files <https://nrfa.ceh.ac.uk/data/peak-flow-dataset> once these have been downloaded to the user's computer or using the NRFA's API. These files are in a format suitable for direct use in the 'WINFAP' software, hence the name of the package.
Author: Ilaria Prosdocimi [aut, cre] ,
Luke Shaw [aut]
Maintainer: Ilaria Prosdocimi <prosdocimi.ilaria@gmail.com>
Diff between winfapReader versions 0.1-6 dated 2025-04-01 and 0.1-7 dated 2026-02-20
DESCRIPTION | 15 ++-- MD5 | 29 ++++--- NAMESPACE | 3 NEWS.md | 6 + R/dateManupulations.R | 41 +++++++++-- R/get_winfapapi.R | 166 +-------------------------------------------- R/internals_api.R |only R/readerFuncs.R | 46 +++++++----- build/vignette.rds |binary inst/doc/winfapReader.R | 14 ++- inst/doc/winfapReader.Rmd | 19 ++--- inst/doc/winfapReader.html | 153 +++++++++++++++++++++-------------------- man/get_pot.Rd | 104 ++++++++++++++-------------- man/read_cd3.Rd | 48 ++++++------- man/water_year.Rd | 15 +++- vignettes/winfapReader.Rmd | 19 ++--- 16 files changed, 297 insertions(+), 381 deletions(-)
Title: Reading, Quality Control and Preprocessing of MBA (Multiplex
Bead Assay) Data
Description: Speeds up the process of loading raw data from MBA (Multiplex Bead Assay) examinations, performs quality control checks, and automatically normalises the data, preparing it for more advanced, downstream tasks. The main objective of the package is to create a simple environment for a user, who does not necessarily have experience with R language. The package is developed within the project 'PvSTATEM', which is an international project aiming for malaria elimination.
Author: Jakub Grzywaczewski [aut, cre],
Tymoteusz Kwiecinski [aut] ,
Mateusz Nizwantowski [aut],
Przemyslaw Biecek [ths] ,
Nuno Sepulveda [ths]
Maintainer: Jakub Grzywaczewski <jakubzgrzywaczewski@gmail.com>
Diff between SerolyzeR versions 1.4.0 dated 2026-01-21 and 1.4.1 dated 2026-02-20
SerolyzeR-1.4.0/SerolyzeR/man/move_legend_to_separate_plot.Rd |only SerolyzeR-1.4.1/SerolyzeR/DESCRIPTION | 11 SerolyzeR-1.4.1/SerolyzeR/MD5 | 17 - SerolyzeR-1.4.1/SerolyzeR/R/helpers.R | 28 - SerolyzeR-1.4.1/SerolyzeR/R/plots-standard_curve.R | 115 +++---- SerolyzeR-1.4.1/SerolyzeR/build/partial.rdb |binary SerolyzeR-1.4.1/SerolyzeR/inst/doc/example_script.html | 18 - SerolyzeR-1.4.1/SerolyzeR/inst/img/EU.jpg |binary SerolyzeR-1.4.1/SerolyzeR/inst/templates/levey_jennings_report_template.Rmd | 149 +++++++--- SerolyzeR-1.4.1/SerolyzeR/man/plot_standard_curve_stacked.Rd | 3 10 files changed, 183 insertions(+), 158 deletions(-)
Title: Compare Human Performance to Sampling Algorithms
Description: Understand human performance from the perspective of sampling, both looking at how people generate samples and how people use the samples they have generated. A longer overview and other resources can be found at <https://sampling.warwick.ac.uk>.
Author: Lucas Castillo [aut, cre, cph] ,
Yun-Xiao Li [aut, cph] ,
Adam N Sanborn [aut, cph] ,
European Research Council [fnd]
Maintainer: Lucas Castillo <lucas.castillo@warwick.ac.uk>
Diff between samplr versions 1.1.0 dated 2025-03-31 and 1.1.1 dated 2026-02-20
DESCRIPTION | 23 +++++----- MD5 | 42 +++++++++--------- NEWS.md | 9 +++ R/Z_identities.R | 8 ++- R/calc_functions.R | 17 +++---- README.md | 18 +++++++ build/partial.rdb |binary inst/REFERENCES.bib | 6 +- inst/doc/abs-simulations.html | 5 +- inst/doc/custom-density-functions.html | 19 ++++---- inst/doc/how-to-sample.html | 5 +- inst/doc/multivariate-mixtures.html | 5 +- inst/doc/samplr.Rmd | 2 inst/doc/samplr.html | 3 - inst/doc/supported-distributions.html | 5 +- inst/doc/time-comparisons.html | 29 ++++++------ man/Bayesian_Sampler.Rd | 2 man/samplr-package.Rd | 2 tests/testthat/_snaps/calc_functions/all-plot.svg | 43 ++++++++----------- tests/testthat/_snaps/calc_functions/psd-plot.svg | 8 +-- tests/testthat/_snaps/calc_functions/sig-scaling.svg | 35 +++++++-------- vignettes/samplr.Rmd | 2 22 files changed, 156 insertions(+), 132 deletions(-)
Title: Apply Function to Elements in Parallel using Futures
Description: Implementations of apply(), by(), eapply(), lapply(), Map(), .mapply(), mapply(), replicate(), sapply(), tapply(), and vapply() that can be resolved using any future-supported backend, e.g. parallel on the local machine or distributed on a compute cluster. These future_*apply() functions come with the same pros and cons as the corresponding base-R *apply() functions but with the additional feature of being able to be processed via the future framework <doi:10.32614/RJ-2021-048>.
Author: Henrik Bengtsson [aut, cre, cph] ,
R Core Team [cph, ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between future.apply versions 1.20.1 dated 2025-12-09 and 1.20.2 dated 2026-02-20
DESCRIPTION | 6 MD5 | 84 ++--- NEWS.md | 17 - R/fold.R | 2 R/future.apply-package.R | 4 R/future_Filter.R | 4 R/future_Map.R | 4 R/future_apply.R | 14 R/future_lapply.R | 12 R/future_mapply.R | 16 R/future_xapply.R | 12 R/makeChunks.R | 4 R/utils,conditions.R | 4 inst/doc/future.apply-1-overview.html | 8 inst/testme/deploy.R | 2 inst/testme/run.R | 562 ++++++++++++++++++++-------------- man/fold.Rd | 2 man/future.apply.Rd | 4 man/future_apply.Rd | 2 man/future_lapply.Rd | 12 man/future_mapply.Rd | 12 man/makeChunks.Rd | 4 tests/test-fold.R | 1 tests/test-future_Filter.R | 1 tests/test-future_apply.R | 1 tests/test-future_by.R | 1 tests/test-future_eapply.R | 1 tests/test-future_kernapply.R | 1 tests/test-future_lapply,RNG.R | 1 tests/test-future_lapply,globals.R | 1 tests/test-future_lapply.R | 1 tests/test-future_mapply,globals.R | 1 tests/test-future_mapply.R | 1 tests/test-future_replicate.R | 1 tests/test-future_sapply.R | 1 tests/test-future_tapply.R | 1 tests/test-future_vapply.R | 1 tests/test-globals,tricky2.R | 1 tests/test-globals,tricky_recursive.R | 1 tests/test-options,nested.R | 1 tests/test-rng.R | 1 tests/test-stdout.R | 1 tests/test-utils.R | 1 43 files changed, 480 insertions(+), 332 deletions(-)
Title: Visualisation and Verification of Health Economic Decision
Models
Description: Designed to help health economic modellers when building and reviewing models.
The visualisation functions allow users to more easily review the network of functions
in a project, and get lay summaries of them. The asserts included are intended to check for common errors,
thereby freeing up time for modellers to focus on tests specific to the individual model in development or review.
For more details see Smith and colleagues (2024)<doi:10.12688/wellcomeopenres.23180.1>.
Author: Robert Smith [aut, cre, cph] ,
Wael Mohammed [aut] ,
Jack Smith [aut],
Oliver Dolin [aut] ,
Dark Peak Analytics Ltd [cph, fnd]
Maintainer: Robert Smith <rsmith@darkpeakanalytics.com>
Diff between assertHE versions 1.0.0 dated 2025-04-24 and 1.0.1 dated 2026-02-20
DESCRIPTION | 15 LICENSE | 4 MD5 | 260 - NAMESPACE | 120 NEWS.md | 11 R/addin_handler.R | 680 +- R/check_PSAstability.R | 468 - R/check_init.R | 108 R/check_markov_trace.R | 188 R/check_trans_probs.R | 630 +- R/cheers_checker.R | 806 +-- R/get_foo_coverage.R | 148 R/project_visualiser.R | 2459 +++++----- R/summarise_function_with_LLM.R | 604 +- R/test_finder.R | 549 +- R/utils-file.R | 408 - R/utils-string.R | 76 README.md | 440 - inst/example_script/create_markov_trace.R | 196 inst/example_script/define_transition_matrix.R | 202 inst/example_script/example_script.R | 368 - inst/extdata/example_external_function/R/external_dependency.R | 36 inst/extdata/example_notests/R/foo1.R | 6 inst/extdata/example_notests/R/foo2.R | 6 inst/extdata/example_notests/tests/testthat.R | 26 inst/extdata/example_notests/tests/testthat/test-foo1.R | 6 inst/extdata/example_notests/tests/testthat/test-foo2.R | 6 inst/extdata/example_project/R/calculate_QALYs.R | 230 inst/extdata/example_project/R/calculate_costs.R | 222 inst/extdata/example_project/R/calculate_discounting_weights.R | 148 inst/extdata/example_project/R/create_markov_trace.R | 196 inst/extdata/example_project/R/define_transition_matrix.R | 202 inst/extdata/example_project/R/run_sickSicker_model.R | 338 - inst/extdata/example_project/R/utils.R | 50 inst/extdata/example_project/model.R | 24 inst/extdata/example_project/tests/testthat.R | 26 inst/extdata/example_project/tests/testthat/fixtures/make-useful-things.R | 6 inst/extdata/example_project/tests/testthat/test-calculate_QALYs.R | 84 inst/extdata/example_project/tests/testthat/test-calculate_costs.R | 100 inst/extdata/example_project/tests/testthat/test-calculate_discounting_weights.R | 66 inst/extdata/example_project/tests/testthat/test-create_Markov_trace.R | 94 inst/extdata/example_project/tests/testthat/test-define_transition_matrix.R | 98 inst/extdata/example_project/tests/testthat/test-run_sickSicker_model.R | 90 inst/extdata/example_project/tests/testthat/test-utility_functions_with_different_name.R | 22 inst/extdata/example_scripts/create_markov_trace.R | 196 inst/extdata/example_scripts/define_transition_matrix.R | 202 inst/extdata/example_scripts/example_script.R | 366 - inst/extdata/example_scripts/example_tricky_functions.R | 240 inst/extdata/example_scripts/no_funcs.R | 4 inst/rstudio/addins.dcf | 8 inst/system_prompt.md | 78 man/assertHE_example.Rd | 54 man/check_init.Rd | 62 man/check_markov_trace.Rd | 102 man/check_trans_prob_array.Rd | 98 man/check_trans_prob_mat.Rd | 96 man/create_prompt.Rd | 70 man/define_app_server.Rd | 42 man/define_app_ui.Rd | 34 man/dot-called_by.Rd | 64 man/dot-parse_function.Rd | 54 man/extract_function_name.Rd | 48 man/find_files.Rd | 82 man/find_folder_function_definitions.Rd | 68 man/find_function_calls_in_file.Rd | 70 man/find_function_calls_in_folder.Rd | 72 man/find_function_definitions.Rd | 48 man/find_next_vector_element.Rd | 56 man/find_previous_vector_element.Rd | 56 man/get_active_functions.Rd | 34 man/get_file_cheers_classifications.Rd | 62 man/get_folder_cheers_classifications.Rd | 54 man/get_foo_coverage.Rd | 66 man/get_function_data.Rd | 38 man/get_function_line.Rd | 34 man/get_function_path.Rd | 38 man/get_isolated_foo.Rd | 34 man/get_roxygen_description.Rd | 46 man/get_roxygen_description_from_foo.Rd | 34 man/identify_dependencies.Rd | 40 man/locate_funcs.Rd | 40 man/make_closable_tab.Rd | 48 man/plotNetwork.Rd | 108 man/plot_PSA_stability.Rd | 154 man/processNodes.Rd | 42 man/return_message.Rd | 38 man/run_shiny_app.Rd | 68 man/source_funcs.Rd | 46 man/source_lines.Rd | 50 man/summarise_function_from_arguments_and_body.Rd | 112 man/summarise_function_with_LLM.Rd | 74 man/summarise_model.Rd | 108 man/visualise_project.Rd | 172 man/wrap_string.Rd | 56 tests/testthat/example_external_function/R/external_dependency.R | 36 tests/testthat/example_notests/R/foo1.R | 6 tests/testthat/example_notests/R/foo2.R | 6 tests/testthat/example_notests/tests/testthat.R | 26 tests/testthat/example_notests/tests/testthat/test-foo1.R | 6 tests/testthat/example_notests/tests/testthat/test-foo2.R | 6 tests/testthat/example_project/R/calculate_QALYs.R | 230 tests/testthat/example_project/R/calculate_costs.R | 222 tests/testthat/example_project/R/calculate_discounting_weights.R | 148 tests/testthat/example_project/R/create_markov_trace.R | 196 tests/testthat/example_project/R/define_transition_matrix.R | 202 tests/testthat/example_project/R/run_sickSicker_model.R | 338 - tests/testthat/example_project/R/utils.R | 50 tests/testthat/example_project/model.R | 24 tests/testthat/example_project/tests/testthat.R | 26 tests/testthat/example_project/tests/testthat/fixtures/make-useful-things.R | 6 tests/testthat/example_project/tests/testthat/test-calculate_QALYs.R | 84 tests/testthat/example_project/tests/testthat/test-calculate_costs.R | 100 tests/testthat/example_project/tests/testthat/test-calculate_discounting_weights.R | 66 tests/testthat/example_project/tests/testthat/test-create_Markov_trace.R | 94 tests/testthat/example_project/tests/testthat/test-define_transition_matrix.R | 98 tests/testthat/example_project/tests/testthat/test-run_sickSicker_model.R | 90 tests/testthat/example_project/tests/testthat/test-utility_functions_with_different_name.R | 22 tests/testthat/example_scripts/create_markov_trace.R | 196 tests/testthat/example_scripts/define_transition_matrix.R | 202 tests/testthat/example_scripts/example_script.R | 366 - tests/testthat/example_scripts/example_tricky_functions.R | 240 tests/testthat/example_scripts/no_funcs.R | 4 tests/testthat/model_summary.docx |binary tests/testthat/test-check_PSAstability.R | 340 - tests/testthat/test-check_functions.R | 312 - tests/testthat/test-check_markov_trace.R | 284 - tests/testthat/test-check_trans_probs.R | 436 - tests/testthat/test-cheers_checker.R | 48 tests/testthat/test-get_foo_coverage.R | 22 tests/testthat/test-project_visualiser.R | 90 tests/testthat/test-test_finder.R | 292 - 131 files changed, 9809 insertions(+), 9793 deletions(-)
More information about TrustworthyMLR at CRAN
Permanent link
More information about tipitaka.critical at CRAN
Permanent link
Title: Reporting Tools for 'shiny' Modules
Description: Prebuilt 'shiny' modules containing tools for the generation
of 'rmarkdown' reports, supporting reproducible research and analysis.
Author: Dawid Kaledkowski [aut, cre] ,
Kartikeya Kirar [aut] ,
Marcin Kosinski [aut],
Maciej Nasinski [aut],
Konrad Pagacz [aut],
Mahmoud Hallal [aut],
Chendi Liao [rev],
Dony Unardi [rev],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Dawid Kaledkowski <dawid.kaledkowski@roche.com>
Diff between teal.reporter versions 0.6.0 dated 2025-11-15 and 0.6.1 dated 2026-02-20
DESCRIPTION | 8 MD5 | 242 +- NAMESPACE | 112 - NEWS.md | 232 +- R/LoadReporterModule.R | 300 +-- R/ReportCard.R | 488 ++--- R/Reporter.R | 882 +++++----- R/ResetModule.R | 172 +- R/SimpleReporter.R | 162 - R/add_card.R | 402 ++-- R/download.R | 568 +++--- R/editor_block.R | 232 +- R/editor_card.R | 106 - R/previewer_card.R | 94 - R/previewer_card_actions.R | 266 +-- R/previewer_content.R | 140 - R/previewer_deprecated.R | 516 +++--- R/previewer_report.R | 230 +- R/render.R | 142 - R/teal.reporter.R | 18 R/teal_card.R | 880 +++++----- R/teal_report-c.R | 32 R/teal_report-class.R | 300 +-- R/teal_report-eval_code.R | 68 R/teal_report-extract.R | 12 R/toHTML.R | 560 +++--- R/to_rmd.R | 556 +++--- R/utils.R | 374 ++-- R/yaml_utils.R | 626 +++---- R/zzz.R | 84 README.md | 140 - build/vignette.rds |binary inst/WORDLIST | 30 inst/css/custom.css | 306 +-- inst/css/outline_button.css | 88 - inst/doc/getting-started-with-teal-reporter.Rmd | 58 inst/doc/getting-started-with-teal-reporter.html | 600 +++---- inst/doc/reportable-shiny-application.R | 158 - inst/doc/reportable-shiny-application.Rmd | 280 +-- inst/doc/reportable-shiny-application.html | 1042 ++++++------ inst/doc/teal-report-class.R | 110 - inst/doc/teal-report-class.Rmd | 272 +-- inst/doc/teal-report-class.html | 1184 +++++++------- inst/js/accordion-toggle.js | 56 inst/js/busy-disable.js | 16 inst/js/extendShinyJs.js | 70 inst/pkgdown/_pkgdown.yml | 20 inst/pkgdown/templates/footer.html | 6 man/ReportCard.Rd | 1122 ++++++------- man/Reporter.Rd | 1430 ++++++++--------- man/add_card_button.Rd | 116 - man/as_yaml_auto.Rd | 172 +- man/c.teal_report.Rd | 34 man/code_chunk.Rd | 134 - man/conv_str_logi.Rd | 84 man/dot-action_button_busy.Rd | 76 man/dot-code_to_card.Rd | 42 man/dot-convert_teal_card_input.Rd | 60 man/dot-determine_default_dimensions.Rd | 42 man/download_report_button.Rd | 110 - man/eval_code-teal_report.Rd | 88 - man/get_yaml_field.Rd | 44 man/load_report_button.Rd | 58 man/md_header.Rd | 54 man/metadata-set.Rd | 62 man/metadata.Rd | 52 man/print.rmd_yaml_header.Rd | 50 man/render.Rd | 102 - man/report_render_and_compress.Rd | 60 man/reporter_download_inputs.Rd | 46 man/reporter_previewer.Rd | 56 man/reporter_previewer_deprecated.Rd | 136 - man/reset_report_button.Rd | 54 man/rmd_output_arguments.Rd | 40 man/rmd_outputs.Rd | 36 man/simple_reporter.Rd | 138 - man/split_text_block.Rd | 48 man/srv_editor_block.Rd | 122 - man/teal.reporter-package.Rd | 80 man/teal_card.Rd | 182 +- man/teal_report-class.Rd | 116 - man/teal_report.Rd | 162 - man/toHTML.default.Rd | 252 +- man/to_flextable.Rd | 46 man/to_rmd.Rd | 144 - man/yaml_quoted.Rd | 54 tests/testthat.R | 6 tests/testthat/helper-Reporter.R | 132 - tests/testthat/helper-waldo_compare.R | 60 tests/testthat/helpers-previewer-shinytest2.R | 108 - tests/testthat/helpers-testing-depth.R | 102 - tests/testthat/setup-options.R | 40 tests/testthat/test-DownloadModule.R | 72 tests/testthat/test-DownloadReportModule.R | 232 +- tests/testthat/test-LoadReporterModule.R | 212 +- tests/testthat/test-PreviewerReportModule-shinytest2.R | 108 - tests/testthat/test-PreviewerReportModule.R | 248 +- tests/testthat/test-ReportCard.R | 380 ++-- tests/testthat/test-Reporter.R | 872 +++++----- tests/testthat/test-ResetModule.R | 112 - tests/testthat/test-SimpleReporter.R | 120 - tests/testthat/test-addCardModule.R | 462 ++--- tests/testthat/test-editor_block.R | 46 tests/testthat/test-editor_card.R | 20 tests/testthat/test-previewer_card.R | 114 - tests/testthat/test-previewer_card_actions.R | 170 +- tests/testthat/test-previewer_deprecated.R | 112 - tests/testthat/test-previewer_report.R | 118 - tests/testthat/test-render.R | 450 ++--- tests/testthat/test-teal_card.R | 686 ++++---- tests/testthat/test-teal_report-c.R | 76 tests/testthat/test-teal_report-class.R | 153 - tests/testthat/test-teal_report-eval_code.R | 124 - tests/testthat/test-teal_report-extract.R | 14 tests/testthat/test-toHTML.R | 218 +- tests/testthat/test-to_rmd.R | 262 +-- tests/testthat/test-utils.R | 136 - tests/testthat/test-yaml_utils.R | 320 +-- tests/testthat/test-zzz.R | 74 vignettes/getting-started-with-teal-reporter.Rmd | 58 vignettes/reportable-shiny-application.Rmd | 280 +-- vignettes/teal-report-class.Rmd | 272 +-- 122 files changed, 12960 insertions(+), 12953 deletions(-)
Title: Visually Guided Preprocessing of Bioanalytical Laboratory Data
Description: Reproducible cleaning of biomedical laboratory data using visualization, error correction, and transformation methods implemented as interactive R notebooks. A detailed description of the methods ca ben found in Malkusch, S., Hahnefeld, L., Gurke, R. and J. Lotsch. (2021) <doi:10.1002/psp4.12704>.
Author: Sebastian Malkusch [aut] ,
Jorn Lotsch [aut, cre]
Maintainer: Jorn Lotsch <j.lotsch@em.uni-frankfurt.de>
This is a re-admission after prior archival of version 0.0.0.3 dated 2021-09-30
Diff between pguIMP versions 0.0.0.3 dated 2021-09-30 and 0.1.1 dated 2026-02-20
pguIMP-0.0.0.3/pguIMP/README.md |only pguIMP-0.0.0.3/pguIMP/inst/application/www/_site/site_libs/bootstrap-3.3.5/fonts/glyphicons-halflings-regular.svg |only pguIMP-0.1.1/pguIMP/DESCRIPTION | 41 pguIMP-0.1.1/pguIMP/MD5 | 124 +- pguIMP-0.1.1/pguIMP/R/dLogLikelihood.R | 2 pguIMP-0.1.1/pguIMP/R/importDataSet.R | 2 pguIMP-0.1.1/pguIMP/R/normalDistribution.R | 2 pguIMP-0.1.1/pguIMP/R/pguCorrValidator.R | 2 pguIMP-0.1.1/pguIMP/R/pguCorrelator.R | 2 pguIMP-0.1.1/pguIMP/R/pguData.R | 2 pguIMP-0.1.1/pguIMP/R/pguDelegate.R | 2 pguIMP-0.1.1/pguIMP/R/pguExplorer.R | 2 pguIMP-0.1.1/pguIMP/R/pguExporter.R | 2 pguIMP-0.1.1/pguIMP/R/pguFile.R | 2 pguIMP-0.1.1/pguIMP/R/pguFilter.R | 2 pguIMP-0.1.1/pguIMP/R/pguIMP.R | 2 pguIMP-0.1.1/pguIMP/R/pguImporter.R | 2 pguIMP-0.1.1/pguIMP/R/pguImputation.R | 17 pguIMP-0.1.1/pguIMP/R/pguLimitsOfQuantification.R | 2 pguIMP-0.1.1/pguIMP/R/pguMissings.R | 2 pguIMP-0.1.1/pguIMP/R/pguMissingsCharacterizer.R | 2 pguIMP-0.1.1/pguIMP/R/pguModel.R | 2 pguIMP-0.1.1/pguIMP/R/pguNormDist.R | 27 pguIMP-0.1.1/pguIMP/R/pguNormalizer.R | 2 pguIMP-0.1.1/pguIMP/R/pguOptimizer.R | 4 pguIMP-0.1.1/pguIMP/R/pguOutliers.R | 2 pguIMP-0.1.1/pguIMP/R/pguRegressor.R | 2 pguIMP-0.1.1/pguIMP/R/pguReporter.R | 18 pguIMP-0.1.1/pguIMP/R/pguStatus.R | 2 pguIMP-0.1.1/pguIMP/R/pguTransformator.R | 2 pguIMP-0.1.1/pguIMP/R/pguValidator.R | 2 pguIMP-0.1.1/pguIMP/R/sLogLikelihood.R | 2 pguIMP-0.1.1/pguIMP/R/transposeTibble.R | 2 pguIMP-0.1.1/pguIMP/build |only pguIMP-0.1.1/pguIMP/inst/CITATION | 26 pguIMP-0.1.1/pguIMP/man/dLogLikelihood.Rd | 2 pguIMP-0.1.1/pguIMP/man/importDataSet.Rd | 2 pguIMP-0.1.1/pguIMP/man/normalDistribution.Rd | 2 pguIMP-0.1.1/pguIMP/man/pgu.corrValidator.Rd | 70 - pguIMP-0.1.1/pguIMP/man/pgu.correlator.Rd | 156 +- pguIMP-0.1.1/pguIMP/man/pgu.data.Rd | 46 pguIMP-0.1.1/pguIMP/man/pgu.delegate.Rd | 68 - pguIMP-0.1.1/pguIMP/man/pgu.explorer.Rd | 84 - pguIMP-0.1.1/pguIMP/man/pgu.exporter.Rd | 48 pguIMP-0.1.1/pguIMP/man/pgu.file.Rd | 48 pguIMP-0.1.1/pguIMP/man/pgu.filter.Rd | 34 pguIMP-0.1.1/pguIMP/man/pgu.importer.Rd | 60 - pguIMP-0.1.1/pguIMP/man/pgu.imputation.Rd | 190 +-- pguIMP-0.1.1/pguIMP/man/pgu.limitsOfQuantification.Rd | 561 ---------- pguIMP-0.1.1/pguIMP/man/pgu.missings.Rd | 384 ------ pguIMP-0.1.1/pguIMP/man/pgu.missingsCharacterizer.Rd | 54 pguIMP-0.1.1/pguIMP/man/pgu.model.Rd | 184 +-- pguIMP-0.1.1/pguIMP/man/pgu.normDist.Rd | 196 +-- pguIMP-0.1.1/pguIMP/man/pgu.normalizer.Rd | 146 +- pguIMP-0.1.1/pguIMP/man/pgu.optimizer.Rd | 108 - pguIMP-0.1.1/pguIMP/man/pgu.outliers.Rd | 218 +-- pguIMP-0.1.1/pguIMP/man/pgu.regressor.Rd | 140 +- pguIMP-0.1.1/pguIMP/man/pgu.reporter.Rd | 42 pguIMP-0.1.1/pguIMP/man/pgu.status.Rd | 56 pguIMP-0.1.1/pguIMP/man/pgu.transformator.Rd | 334 ++--- pguIMP-0.1.1/pguIMP/man/pgu.validator.Rd | 110 - pguIMP-0.1.1/pguIMP/man/pguIMP-package.Rd |only pguIMP-0.1.1/pguIMP/man/pguIMP.Rd | 2 pguIMP-0.1.1/pguIMP/man/sLogLikelihood.Rd | 2 pguIMP-0.1.1/pguIMP/man/transposeTibble.Rd | 2 65 files changed, 1405 insertions(+), 2251 deletions(-)
More information about LifeTableBuilder at CRAN
Permanent link
Title: Interface to the Lake Multi-Scaled Geospatial and Temporal
Database
Description: Client for programmatic access to the Lake
Multi-scaled Geospatial and Temporal database <https://lagoslakes.org>, with functions
for accessing lake water quality and ecological context data for the US.
Author: Jemma Stachelek [aut, cre] ,
Samantha Oliver [aut] ,
Farzan Masrour [aut]
Maintainer: Jemma Stachelek <jemma.stachelek@gmail.com>
Diff between LAGOSNE versions 2.0.4 dated 2025-11-26 and 2.0.5 dated 2026-02-20
DESCRIPTION | 15 +++++++-------- MD5 | 12 ++++++------ NAMESPACE | 1 - NEWS.md | 6 ++++++ R/info.R | 18 +++++++----------- build/partial.rdb |binary build/vignette.rds |binary 7 files changed, 26 insertions(+), 26 deletions(-)
Title: Acceptance Sampling Plans Design
Description: Provides tools for designing and analyzing Acceptance Sampling plans.
Supports both Attributes Sampling (Binomial and Poisson distributions) and
Variables Sampling (Normal and Beta distributions), enabling quality control
for fractional and compositional data. Uses nonlinear programming for sampling
plan optimization, minimizing sample size while controlling producer's and
consumer's risks. Operating Characteristic curves are available for plan visualization.
Author: Ha Truong [aut, cre, cph],
Victor Miranda [ths, rev],
Roger Kissling [ths, rev]
Maintainer: Ha Truong <truongvietha87@gmail.com>
Diff between AccSamplingDesign versions 0.0.7 dated 2025-11-15 and 0.0.8 dated 2026-02-20
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/accProb.R | 1 + R/optVarPlan.R | 11 ++++++++++- inst/doc/introduction.html | 28 ++++++++++++++-------------- 5 files changed, 32 insertions(+), 22 deletions(-)
More information about AccSamplingDesign at CRAN
Permanent link
Title: Systematically Run R CMD Checks
Description: Systematically Run R checks against multiple packages. Checks are run in
parallel with strategies to minimize dependency installation. Provides
out of the box interface for running reverse dependency check.
Author: Szymon Maksymiuk [cre, aut] ,
Doug Kelkhoff [aut] ,
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Szymon Maksymiuk <sz.maksymiuk@gmail.com>
Diff between checked versions 0.2.9 dated 2025-06-10 and 0.5.0 dated 2026-02-20
checked-0.2.9/checked/R/check_design.R |only checked-0.2.9/checked/R/checks_df.R |only checked-0.2.9/checked/R/package_spec.R |only checked-0.2.9/checked/R/task_spec.R |only checked-0.2.9/checked/man/check_design.Rd |only checked-0.2.9/checked/man/check_dev_rev_deps.Rd |only checked-0.2.9/checked/man/check_dir.Rd |only checked-0.2.9/checked/man/check_task_spec.Rd |only checked-0.2.9/checked/man/checked-task-df.Rd |only checked-0.2.9/checked/man/custom_install_task_spec.Rd |only checked-0.2.9/checked/man/figures |only checked-0.2.9/checked/man/install_task_spec.Rd |only checked-0.2.9/checked/man/new_check_design.Rd |only checked-0.2.9/checked/man/package_spec.Rd |only checked-0.2.9/checked/man/results_to_file.Rd |only checked-0.2.9/checked/man/rev_dep_check_tasks_df.Rd |only checked-0.2.9/checked/man/revdep_check_task_spec.Rd |only checked-0.2.9/checked/man/source_check_tasks_df.Rd |only checked-0.2.9/checked/man/task_graph_create.Rd |only checked-0.2.9/checked/man/task_spec.Rd |only checked-0.2.9/checked/tests/testthat/test-checks_df.R |only checked-0.2.9/checked/tests/testthat/test-results.R |only checked-0.2.9/checked/tests/testthat/testing_pkgs |only checked-0.5.0/checked/DESCRIPTION | 19 checked-0.5.0/checked/LICENSE | 2 checked-0.5.0/checked/MD5 | 306 +-- checked-0.5.0/checked/NAMESPACE | 268 +- checked-0.5.0/checked/NEWS.md | 195 -- checked-0.5.0/checked/R/check.R | 319 +-- checked-0.5.0/checked/R/check_process.R | 492 +++-- checked-0.5.0/checked/R/checker.R |only checked-0.5.0/checked/R/cli.R | 179 + checked-0.5.0/checked/R/install.R | 218 +- checked-0.5.0/checked/R/lib.R |only checked-0.5.0/checked/R/next_task.R | 230 +- checked-0.5.0/checked/R/options.R | 146 - checked-0.5.0/checked/R/package.R |only checked-0.5.0/checked/R/pkg_origin.R |only checked-0.5.0/checked/R/plan.R |only checked-0.5.0/checked/R/remotes.R |only checked-0.5.0/checked/R/reporter.R | 226 +- checked-0.5.0/checked/R/reporter_ansi_tty.R | 747 +++++--- checked-0.5.0/checked/R/reporter_basic_tty.R | 207 +- checked-0.5.0/checked/R/reporter_null.R | 32 checked-0.5.0/checked/R/results.R | 814 ++++---- checked-0.5.0/checked/R/run.R | 86 checked-0.5.0/checked/R/task-formatting.R |only checked-0.5.0/checked/R/task.R |only checked-0.5.0/checked/R/task_graph.R | 910 +++++----- checked-0.5.0/checked/R/utils-ansi.R | 53 checked-0.5.0/checked/R/utils-available-packages.R |only checked-0.5.0/checked/R/utils-cli.R | 252 ++ checked-0.5.0/checked/R/utils-deps.R |only checked-0.5.0/checked/R/utils-enums.R | 137 - checked-0.5.0/checked/R/utils-igraph.R |only checked-0.5.0/checked/R/utils-paths.R | 162 + checked-0.5.0/checked/R/utils-pkg-source.R | 172 - checked-0.5.0/checked/R/utils-remotes.R |only checked-0.5.0/checked/R/utils.R | 127 - checked-0.5.0/checked/README.md | 122 - checked-0.5.0/checked/inst/example_packages/exampleBad/DESCRIPTION | 40 checked-0.5.0/checked/inst/example_packages/exampleBad/NAMESPACE | 8 checked-0.5.0/checked/inst/example_packages/exampleBad/R/hypotenuse.R | 42 checked-0.5.0/checked/inst/example_packages/exampleBad/man/undocumented_args.Rd | 22 checked-0.5.0/checked/inst/example_packages/exampleBad/vignettes/test_vignette.Rmd | 46 checked-0.5.0/checked/inst/example_packages/exampleGood/DESCRIPTION | 46 checked-0.5.0/checked/inst/example_packages/exampleGood/LICENSE | 2 checked-0.5.0/checked/inst/example_packages/exampleGood/NAMESPACE | 30 checked-0.5.0/checked/inst/example_packages/exampleGood/NEWS.md | 30 checked-0.5.0/checked/inst/example_packages/exampleGood/R/example-good.R | 10 checked-0.5.0/checked/inst/example_packages/exampleGood/R/hypotenuse.R | 18 checked-0.5.0/checked/inst/example_packages/exampleGood/R/r6_example.R | 190 +- checked-0.5.0/checked/inst/example_packages/exampleGood/R/rd_data_sampler.R | 38 checked-0.5.0/checked/inst/example_packages/exampleGood/R/rd_sampler.R | 114 - checked-0.5.0/checked/inst/example_packages/exampleGood/R/reexport.R | 11 checked-0.5.0/checked/inst/example_packages/exampleGood/R/s3_example.R | 48 checked-0.5.0/checked/inst/example_packages/exampleGood/R/s4_example.R | 26 checked-0.5.0/checked/inst/example_packages/exampleGood/man/Accumulator.Rd | 172 - checked-0.5.0/checked/inst/example_packages/exampleGood/man/Person.Rd | 150 - checked-0.5.0/checked/inst/example_packages/exampleGood/man/Rando.Rd | 88 checked-0.5.0/checked/inst/example_packages/exampleGood/man/S4Example-class.Rd | 32 checked-0.5.0/checked/inst/example_packages/exampleGood/man/exampleGood-package.Rd | 28 checked-0.5.0/checked/inst/example_packages/exampleGood/man/hypotenuse.Rd | 28 checked-0.5.0/checked/inst/example_packages/exampleGood/man/names-S4Example-method.Rd | 28 checked-0.5.0/checked/inst/example_packages/exampleGood/man/rd_data_sampler.Rd | 54 checked-0.5.0/checked/inst/example_packages/exampleGood/man/rd_sampler.Rd | 144 - checked-0.5.0/checked/inst/example_packages/exampleGood/man/reexport_help.Rd | 68 checked-0.5.0/checked/inst/example_packages/exampleGood/man/s3_example_func.Rd | 48 checked-0.5.0/checked/inst/example_packages/exampleGood/tests/testthat.R | 8 checked-0.5.0/checked/inst/example_packages/exampleGood/tests/testthat/test-hypotenuse.R | 6 checked-0.5.0/checked/inst/example_packages/exampleGood/tests/testthat/test-r6-example.R | 38 checked-0.5.0/checked/inst/example_packages/exampleGood/tests/testthat/test-s3-example.R | 8 checked-0.5.0/checked/inst/example_packages/exampleGood/tests/testthat/test-s4-example.R | 8 checked-0.5.0/checked/inst/example_packages/exampleGood/vignettes/test_vignette.Rmd | 46 checked-0.5.0/checked/inst/example_packages/exampleOkay/DESCRIPTION | 32 checked-0.5.0/checked/inst/example_packages/exampleOkay/NAMESPACE | 6 checked-0.5.0/checked/inst/example_packages/exampleOkay/NEWS | 16 checked-0.5.0/checked/inst/example_packages/exampleOkay/R/hypotenuse.R | 24 checked-0.5.0/checked/inst/example_packages/exampleOkay/man/hypotenuse.Rd | 28 checked-0.5.0/checked/inst/example_packages/exampleOkay/tests/tests.R | 10 checked-0.5.0/checked/man/DB_COLNAMES.Rd | 32 checked-0.5.0/checked/man/DEP.Rd | 32 checked-0.5.0/checked/man/DEP_STRONG.Rd | 32 checked-0.5.0/checked/man/RELATION.Rd |only checked-0.5.0/checked/man/STATUS.Rd | 32 checked-0.5.0/checked/man/ansi.Rd | 57 checked-0.5.0/checked/man/as.package.remotes.Rd |only checked-0.5.0/checked/man/as_pkg_dependencies.Rd |only checked-0.5.0/checked/man/available_packages.Rd |only checked-0.5.0/checked/man/check_functions.Rd | 84 checked-0.5.0/checked/man/check_pkgs.Rd | 115 - checked-0.5.0/checked/man/check_rev_deps.Rd | 144 - checked-0.5.0/checked/man/check_task.Rd |only checked-0.5.0/checked/man/checked-package.Rd |only checked-0.5.0/checked/man/checker.Rd |only checked-0.5.0/checked/man/checks_capture.Rd | 72 checked-0.5.0/checked/man/checks_simplify.Rd | 36 checked-0.5.0/checked/man/cli.Rd | 71 checked-0.5.0/checked/man/devnull.Rd | 24 checked-0.5.0/checked/man/fmt.Rd |only checked-0.5.0/checked/man/graph_dedup_attrs.Rd |only checked-0.5.0/checked/man/install_task.Rd |only checked-0.5.0/checked/man/lib.Rd |only checked-0.5.0/checked/man/lib_path.Rd |only checked-0.5.0/checked/man/meta_task.Rd |only checked-0.5.0/checked/man/new_checker.Rd |only checked-0.5.0/checked/man/options.Rd | 194 +- checked-0.5.0/checked/man/options_params.Rd | 87 checked-0.5.0/checked/man/path_parts.Rd |only checked-0.5.0/checked/man/pkg_dependencies.Rd |only checked-0.5.0/checked/man/pkg_origin.Rd |only checked-0.5.0/checked/man/plan_local_checks.Rd |only checked-0.5.0/checked/man/plan_local_install.Rd |only checked-0.5.0/checked/man/plan_rev_dep_checks.Rd |only checked-0.5.0/checked/man/print.checked_results.Rd | 67 checked-0.5.0/checked/man/reporters-internal.Rd | 90 checked-0.5.0/checked/man/reporters.Rd | 87 checked-0.5.0/checked/man/results.Rd | 76 checked-0.5.0/checked/man/run.Rd | 48 checked-0.5.0/checked/man/silent_spinner.Rd | 46 checked-0.5.0/checked/man/start_task.Rd |only checked-0.5.0/checked/man/task.Rd |only checked-0.5.0/checked/man/task_formats.Rd |only checked-0.5.0/checked/man/task_graph.Rd |only checked-0.5.0/checked/man/task_graph_libpaths.Rd |only checked-0.5.0/checked/man/task_graph_neighborhoods.Rd | 36 checked-0.5.0/checked/man/task_graph_sort.Rd | 60 checked-0.5.0/checked/man/task_graph_update_ready.Rd | 90 checked-0.5.0/checked/man/task_graph_which_ready.Rd | 38 checked-0.5.0/checked/man/throttle.Rd | 42 checked-0.5.0/checked/tests/testthat.R | 17 checked-0.5.0/checked/tests/testthat/_snaps |only checked-0.5.0/checked/tests/testthat/fixtures |only checked-0.5.0/checked/tests/testthat/test-check-reverse.R | 382 +--- checked-0.5.0/checked/tests/testthat/test-check.R | 121 - checked-0.5.0/checked/tests/testthat/test-dep-graph-next-package.R | 66 checked-0.5.0/checked/tests/testthat/test-deps.R |only checked-0.5.0/checked/tests/testthat/test-plan.R |only checked-0.5.0/checked/tests/testthat/test-reporters.R |only checked-0.5.0/checked/tests/testthat/test-results-utils.R |only 160 files changed, 5692 insertions(+), 4798 deletions(-)
Title: Web Application Framework for R
Description: Makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive prebuilt widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: Winston Chang [aut] ,
Joe Cheng [aut],
JJ Allaire [aut],
Carson Sievert [aut, cre] ,
Barret Schloerke [aut] ,
Garrick Aden-Buie [aut] ,
Yihui Xie [aut],
Jeff Allen [aut],
Jonathan McPherson [aut],
Alan Dipert [aut],
Barbara Borges [aut],
Posit Softwa [...truncated...]
Maintainer: Carson Sievert <carson@posit.co>
Diff between shiny versions 1.12.1 dated 2025-12-09 and 1.13.0 dated 2026-02-20
DESCRIPTION | 10 LICENSE | 1016 -------------------- LICENSE.note |only MD5 | 70 - NEWS.md | 15 R/conditions.R | 189 +++ R/input-action.R | 10 R/otel-attr-srcref.R | 4 R/reactives.R | 22 R/runapp.R | 10 R/shinywrappers.R | 12 R/utils.R | 71 + README.md | 2 inst/www/shared/busy-indicators/busy-indicators.css | 2 inst/www/shared/shiny-autoreload.js | 2 inst/www/shared/shiny-showcase.css | 2 inst/www/shared/shiny-showcase.js | 2 inst/www/shared/shiny-testmode.js | 2 inst/www/shared/shiny.js | 4 inst/www/shared/shiny.min.css | 2 inst/www/shared/shiny.min.js | 4 inst/www/shared/shiny_scss/shiny.scss | 7 tests/testthat/_snaps/actionButton.md | 25 tests/testthat/_snaps/stacks.md | 190 +-- tests/testthat/_snaps/tabPanel.md | 2 tests/testthat/helper-otel.R | 6 tests/testthat/helper-stacks.R |only tests/testthat/test-actionButton.R | 27 tests/testthat/test-bind-cache.R | 2 tests/testthat/test-otel-extended-task.R | 1 tests/testthat/test-otel-label.R | 1 tests/testthat/test-plot-coordmap.R | 1 tests/testthat/test-reactives.R | 134 ++ tests/testthat/test-stacks-deep.R | 1 tests/testthat/test-stacks.R | 270 +++-- tests/testthat/test-test-server-app.R | 1 tests/testthat/test-test-server.R | 3 37 files changed, 772 insertions(+), 1350 deletions(-)
Title: Helper Functions for 'mlr3'
Description: Frequently used helper functions and assertions used in
'mlr3' and its companion packages. Comes with helper functions for
functional programming, for printing, to work with 'data.table', as
well as some generally useful 'R6' classes. This package also
supersedes the package 'BBmisc'.
Author: Marc Becker [cre, aut] ,
Michel Lang [aut] ,
Patrick Schratz [aut]
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3misc versions 0.19.0 dated 2025-09-12 and 0.20.0 dated 2026-02-20
DESCRIPTION | 12 ++-- MD5 | 96 +++++++++++++++++----------------- NAMESPACE | 2 NEWS.md | 14 +++- R/Context.R | 2 R/Dictionary.R | 2 R/as_short_string.R | 2 R/cat_cli.R | 2 R/catn.R | 2 R/compose.R | 4 - R/conditions.R | 5 - R/dictionary_sugar.R | 2 R/encapsulate.R | 49 ++++------------- R/formulate.R | 2 R/leanify.R | 2 R/printf.R | 2 R/purrr_map.R | 7 ++ R/rd_info.R | 4 - R/require_namespaces.R | 2 R/set_params.R | 2 R/str_collapse.R | 2 R/strip_srcrefs.R | 2 R/topo_sort.R | 14 ++-- R/unnest.R | 6 +- R/warn_deprecated.R |only R/with_package.R | 2 README.md | 14 ++++ man/Context.Rd | 2 man/Dictionary.Rd | 2 man/as_short_string.Rd | 2 man/cat_cli.Rd | 2 man/catn.Rd | 2 man/compose.Rd | 2 man/deprecated_binding.Rd |only man/dictionary_sugar_inc_get.Rd | 2 man/encapsulate.Rd | 6 +- man/mlr_conditions.Rd | 5 - man/printf.Rd | 2 man/rd_info.Rd | 2 man/require_namespaces.Rd | 2 man/set_params.Rd | 2 man/str_collapse.Rd | 2 man/strip_srcrefs.Rd | 2 man/unnest.Rd | 2 man/warn_deprecated.Rd |only man/with_package.Rd | 2 src/keep_in_bounds.c | 2 tests/testthat/test_encapsulate.R | 25 ++++---- tests/testthat/test_map.R | 7 ++ tests/testthat/test_unnest.R | 11 +++ tests/testthat/test_warn_deprecated.R |only 51 files changed, 179 insertions(+), 162 deletions(-)
Title: Join Tables Together on Inexact Matching
Description: Join tables together based not on whether columns
match exactly, but whether they are similar by some comparison.
Implementations include string distance and regular expression
matching.
Author: David Robinson [aut, cre],
Jennifer Bryan [ctb],
Joran Elias [ctb],
Steffen Ehrmann [ctb]
Maintainer: David Robinson <admiral.david@gmail.com>
This is a re-admission after prior archival of version 0.1.6.1 dated 2025-07-10
Diff between fuzzyjoin versions 0.1.6.1 dated 2025-07-10 and 0.1.8 dated 2026-02-20
fuzzyjoin-0.1.6.1/fuzzyjoin/tests/testthat/helper-packages.R |only fuzzyjoin-0.1.8/fuzzyjoin/DESCRIPTION | 14 - fuzzyjoin-0.1.8/fuzzyjoin/MD5 | 83 +++++----- fuzzyjoin-0.1.8/fuzzyjoin/NEWS.md | 8 fuzzyjoin-0.1.8/fuzzyjoin/R/difference_join.R | 14 - fuzzyjoin-0.1.8/fuzzyjoin/R/distance_join.R | 20 +- fuzzyjoin-0.1.8/fuzzyjoin/R/fuzzy_join.R | 72 ++++---- fuzzyjoin-0.1.8/fuzzyjoin/R/genome_join.R | 25 +-- fuzzyjoin-0.1.8/fuzzyjoin/R/geo_join.R | 56 +++--- fuzzyjoin-0.1.8/fuzzyjoin/R/interval_join.R | 19 +- fuzzyjoin-0.1.8/fuzzyjoin/R/misspellings.R | 13 - fuzzyjoin-0.1.8/fuzzyjoin/R/regex_join.R | 33 +-- fuzzyjoin-0.1.8/fuzzyjoin/R/stringdist_join.R | 71 ++++---- fuzzyjoin-0.1.8/fuzzyjoin/README.md | 6 fuzzyjoin-0.1.8/fuzzyjoin/build/vignette.rds |binary fuzzyjoin-0.1.8/fuzzyjoin/data/misspellings.rda |binary fuzzyjoin-0.1.8/fuzzyjoin/inst/doc/stringdist_join.R | 2 fuzzyjoin-0.1.8/fuzzyjoin/inst/doc/stringdist_join.Rmd | 2 fuzzyjoin-0.1.8/fuzzyjoin/inst/doc/stringdist_join.html | 35 +--- fuzzyjoin-0.1.8/fuzzyjoin/man/difference_join.Rd | 14 - fuzzyjoin-0.1.8/fuzzyjoin/man/distance_join.Rd | 20 +- fuzzyjoin-0.1.8/fuzzyjoin/man/fuzzy_join.Rd | 46 ++--- fuzzyjoin-0.1.8/fuzzyjoin/man/genome_join.Rd | 25 +-- fuzzyjoin-0.1.8/fuzzyjoin/man/geo_join.Rd | 56 +++--- fuzzyjoin-0.1.8/fuzzyjoin/man/interval_join.Rd | 17 +- fuzzyjoin-0.1.8/fuzzyjoin/man/misspellings.Rd | 10 - fuzzyjoin-0.1.8/fuzzyjoin/man/regex_join.Rd | 33 +-- fuzzyjoin-0.1.8/fuzzyjoin/man/stringdist_join.Rd | 57 +++--- fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/_problems |only fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_difference_join.R | 1 fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_distance_join.R | 18 +- fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_genome_join.R | 5 fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_geo_join.R | 18 +- fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_regex_join.R | 6 fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/test_stringdist_join.R | 53 +++--- fuzzyjoin-0.1.8/fuzzyjoin/tests/testthat/testthat-problems.rds |only fuzzyjoin-0.1.8/fuzzyjoin/vignettes/stringdist_join.Rmd | 2 37 files changed, 444 insertions(+), 410 deletions(-)
Title: Matched Samples that are Balanced and Representative by Design
Description: Includes functions for the construction of matched samples that are balanced and representative by design. Among others, these functions can be used for matching in observational studies with treated and control units, with cases and controls, in related settings with instrumental variables, and in discontinuity designs. Also, they can be used for the design of randomized experiments, for example, for matching before randomization. By default, 'designmatch' uses the 'highs' optimization solver, but its performance is greatly enhanced by the 'Gurobi' optimization solver and its associated R interface. For their installation, please follow the instructions at <https://www.gurobi.com/getting-started/> and <https://docs.gurobi.com/projects/optimizer/en/current/reference/r/setup.html>. We have also included directions in the gurobi_installation file in the inst folder.
Author: Jose R. Zubizarreta [aut, cre] ,
Cinar Kilcioglu [aut],
Juan P. Vielma [aut],
Eric R. Cohn [aut],
Noah Greifer [ctb]
Maintainer: Jose R. Zubizarreta <zubizarreta@hcp.med.harvard.edu>
This is a re-admission after prior archival of version 0.5.4 dated 2023-08-29
Diff between designmatch versions 0.5.4 dated 2023-08-29 and 0.5.5 dated 2026-02-20
designmatch-0.5.4/designmatch/R/errorhandling.r |only designmatch-0.5.4/designmatch/R/problemparameters_profmatch.R |only designmatch-0.5.5/designmatch/DESCRIPTION | 37 designmatch-0.5.5/designmatch/MD5 | 81 designmatch-0.5.5/designmatch/NAMESPACE | 12 designmatch-0.5.5/designmatch/NEWS.md |only designmatch-0.5.5/designmatch/R/absstddif.r | 23 designmatch-0.5.5/designmatch/R/addcalip.r | 14 designmatch-0.5.5/designmatch/R/bmatch.r | 799 ++++----- designmatch-0.5.5/designmatch/R/cardmatch.r | 507 ++--- designmatch-0.5.5/designmatch/R/constraintmatrix.r | 87 - designmatch-0.5.5/designmatch/R/distmat.r | 32 designmatch-0.5.5/designmatch/R/distmatch.r | 17 designmatch-0.5.5/designmatch/R/ecdfplot.r | 33 designmatch-0.5.5/designmatch/R/finetab.r | 15 designmatch-0.5.5/designmatch/R/loveplot.r | 41 designmatch-0.5.5/designmatch/R/meantab.r | 114 - designmatch-0.5.5/designmatch/R/nmatch.r | 867 +++++----- designmatch-0.5.5/designmatch/R/onattach.r | 9 designmatch-0.5.5/designmatch/R/oneprob_profmatch.r | 435 ++--- designmatch-0.5.5/designmatch/R/pairsplot.r | 31 designmatch-0.5.5/designmatch/R/problemparameters.r | 628 +++---- designmatch-0.5.5/designmatch/R/problemparameters_cardmatch.r | 117 - designmatch-0.5.5/designmatch/R/problemparameters_profmatch.r |only designmatch-0.5.5/designmatch/R/profmatch.r | 38 designmatch-0.5.5/designmatch/R/relaxation_b.r | 317 +-- designmatch-0.5.5/designmatch/R/relaxation_n.r | 345 ++- designmatch-0.5.5/designmatch/R/smahal.r | 53 designmatch-0.5.5/designmatch/build |only designmatch-0.5.5/designmatch/inst/gurobi_installation.txt | 51 designmatch-0.5.5/designmatch/inst/symphony_installation.txt | 2 designmatch-0.5.5/designmatch/man/absstddif.Rd | 8 designmatch-0.5.5/designmatch/man/bmatch.Rd | 151 - designmatch-0.5.5/designmatch/man/cardmatch.Rd | 77 designmatch-0.5.5/designmatch/man/designmatch-package.Rd | 20 designmatch-0.5.5/designmatch/man/distmatch.Rd | 67 designmatch-0.5.5/designmatch/man/ecdfplot.Rd | 24 designmatch-0.5.5/designmatch/man/finetab.Rd | 16 designmatch-0.5.5/designmatch/man/germancities.Rd | 86 designmatch-0.5.5/designmatch/man/loveplot.Rd | 24 designmatch-0.5.5/designmatch/man/meantab.Rd | 42 designmatch-0.5.5/designmatch/man/nmatch.Rd | 87 - designmatch-0.5.5/designmatch/man/pairsplot.Rd | 24 designmatch-0.5.5/designmatch/man/profmatch.Rd | 35 44 files changed, 2664 insertions(+), 2702 deletions(-)
More information about ExploreTheData at CRAN
Permanent link
Title: Test Robustness with Directed Acyclic Graphs
Description: Provides robustness checks to align estimands with the identification
that they require. Given a 'dagitty' object and a model specification,
'DAGassist' classifies variables by causal roles, recovers a target estimand,
and generates a report comparing the original model with DAG-derived
adjustment sets. Exports publication-grade reports in 'LaTeX', 'Word', 'Excel',
'dotwhisker', or plain text/'markdown'. 'DAGassist' is built on 'dagitty', an
'R' package that uses the 'DAGitty' web tool (<https://dagitty.net/>) for
creating and analyzing DAGs. Methods draw on Pearl (2009) <doi:10.1017/CBO9780511803161>
and Textor et al. (2016) <doi:10.1093/ije/dyw341>.
Author: Graham Goff [aut, cre] ,
Michael Denly [aut]
Maintainer: Graham Goff <goffgrahamc@gmail.com>
Diff between DAGassist versions 0.2.7 dated 2025-11-11 and 0.2.8 dated 2026-02-20
DAGassist-0.2.7/DAGassist/inst/doc/get-started.R |only DAGassist-0.2.7/DAGassist/inst/doc/get-started.Rmd |only DAGassist-0.2.7/DAGassist/inst/doc/get-started.html |only DAGassist-0.2.7/DAGassist/inst/doc/making-reports.R |only DAGassist-0.2.7/DAGassist/inst/doc/making-reports.Rmd |only DAGassist-0.2.7/DAGassist/inst/doc/making-reports.html |only DAGassist-0.2.7/DAGassist/inst/doc/quick-tour.R |only DAGassist-0.2.7/DAGassist/inst/doc/quick-tour.Rmd |only DAGassist-0.2.7/DAGassist/inst/doc/quick-tour.html |only DAGassist-0.2.7/DAGassist/vignettes/get-started.Rmd |only DAGassist-0.2.7/DAGassist/vignettes/making-reports.Rmd |only DAGassist-0.2.7/DAGassist/vignettes/quick-tour.Rmd |only DAGassist-0.2.8/DAGassist/DESCRIPTION | 15 DAGassist-0.2.8/DAGassist/MD5 | 41 DAGassist-0.2.8/DAGassist/NAMESPACE | 13 DAGassist-0.2.8/DAGassist/NEWS.md | 9 DAGassist-0.2.8/DAGassist/R/assist.R | 326 +++-- DAGassist-0.2.8/DAGassist/R/assist_helpers.R | 928 +++++++++++++++-- DAGassist-0.2.8/DAGassist/R/classify.R | 8 DAGassist-0.2.8/DAGassist/R/dotwhisker.R | 50 DAGassist-0.2.8/DAGassist/R/seqg.R |only DAGassist-0.2.8/DAGassist/R/weights.R |only DAGassist-0.2.8/DAGassist/README.md | 133 +- DAGassist-0.2.8/DAGassist/build/vignette.rds |binary DAGassist-0.2.8/DAGassist/inst/doc/DAGassist.R |only DAGassist-0.2.8/DAGassist/inst/doc/DAGassist.Rmd |only DAGassist-0.2.8/DAGassist/inst/doc/DAGassist.html |only DAGassist-0.2.8/DAGassist/man/DAGassist.Rd | 227 ++-- DAGassist-0.2.8/DAGassist/man/bad_controls_in.Rd | 2 DAGassist-0.2.8/DAGassist/vignettes/DAGassist.Rmd |only DAGassist-0.2.8/DAGassist/vignettes/references.bib |only 31 files changed, 1324 insertions(+), 428 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-09-13 1.3.3
2023-11-13 1.3.1
2022-05-25 1.2.4
2022-05-16 1.2.3
2021-03-17 1.1.0
2020-04-07 1.0.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-11-20 1.10.1
2024-01-23 1.9.1
2023-07-10 1.7
2019-12-17 1.5
2016-07-30 1.3
2016-07-13 1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-06-19 0.1.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2025-10-24 4.3.2
2025-09-23 4.3.1
2025-09-15 4.3
2025-04-08 4.2.2
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2024-08-17 1.3.0
2023-11-06 1.1.0
Title: Nonparametric Circular Methods
Description: Nonparametric smoothing methods for density and regression estimation and inference with circular data. The package provides kernel density estimation along with inferential tools such as circular SiZer for feature significance, mode estimation, and modal clustering. It includes multiple methods for selecting the smoothing parameter, allowing users to optimize the trade-off between bias and variance. Various plotting functions help visualize estimated densities, modes, clusters, and significance features. For regression, the package implements nonparametric estimation of the mean regression function as well as other conditional characteristics, including modal regression and generalized regression. Bandwidth selection is also supported in the regression context, and testing procedures are available to assess structural features or effects in circular regression models.
Author: Maria Alonso-Pena [aut, cre],
Maria Oliveira [aut],
Jose Ameijeiras-Alonso [aut],
Rosa M. Crujeiras [aut],
Irene Gijbels [aut],
Alberto Rodriguez-Casal [aut],
Felicita Scapini [dtc]
Maintainer: Maria Alonso-Pena <mariaalonso.pena@usc.es>
Diff between NPCirc versions 3.1.2 dated 2025-11-12 and 3.2.1 dated 2026-02-20
NPCirc-3.1.2/NPCirc/data/HumanMotorResonance.txt.gz |only NPCirc-3.1.2/NPCirc/data/flywheels.txt.gz |only NPCirc-3.1.2/NPCirc/data/pm10.txt.gz |only NPCirc-3.1.2/NPCirc/data/spikes.txt.gz |only NPCirc-3.1.2/NPCirc/data/zebrafish.txt.gz |only NPCirc-3.2.1/NPCirc/DESCRIPTION | 11 +++---- NPCirc-3.2.1/NPCirc/MD5 | 29 ++++++++++++-------- NPCirc-3.2.1/NPCirc/NAMESPACE | 4 ++ NPCirc-3.2.1/NPCirc/R/circ.modes.R |only NPCirc-3.2.1/NPCirc/R/internas_meanshift.R |only NPCirc-3.2.1/NPCirc/R/modal.clustering.R |only NPCirc-3.2.1/NPCirc/data/HumanMotorResonance.txt |only NPCirc-3.2.1/NPCirc/data/flywheels.txt |only NPCirc-3.2.1/NPCirc/data/inclusion.trails.txt |only NPCirc-3.2.1/NPCirc/data/pm10.txt |only NPCirc-3.2.1/NPCirc/data/spikes.txt |only NPCirc-3.2.1/NPCirc/data/zebrafish.txt |only NPCirc-3.2.1/NPCirc/inst/CITATION | 4 +- NPCirc-3.2.1/NPCirc/man/NPCirc-internal.Rd | 5 +++ NPCirc-3.2.1/NPCirc/man/bw.AA.Rd | 2 - NPCirc-3.2.1/NPCirc/man/circ.modes.Rd |only NPCirc-3.2.1/NPCirc/man/inclusion.trails.Rd |only NPCirc-3.2.1/NPCirc/man/kern.den.circ.Rd | 4 +- NPCirc-3.2.1/NPCirc/man/modal.clustering.Rd |only 24 files changed, 36 insertions(+), 23 deletions(-)
Title: Utilities to Weave Hydrologic Fabrics
Description: A collection of utilities that support creation of network attributes for hydrologic networks. Methods and algorithms implemented are documented in Moore et al. (2019) <doi:10.3133/ofr20191096>), Cormen and Leiserson (2022) <ISBN:9780262046305> and Verdin and Verdin (1999) <doi:10.1016/S0022-1694(99)00011-6>.
Author: David Blodgett [aut, cre]
Maintainer: David Blodgett <dblodgett@usgs.gov>
Diff between hydroloom versions 1.1.1 dated 2025-10-01 and 1.1.2 dated 2026-02-20
hydroloom-1.1.1/hydroloom/R/make_fromids.R |only hydroloom-1.1.1/hydroloom/tests/testthat/test_make_fromids.R |only hydroloom-1.1.1/hydroloom/vignettes/flow-table-fig.jpeg |only hydroloom-1.1.2/hydroloom/DESCRIPTION | 10 hydroloom-1.1.2/hydroloom/MD5 | 223 +- hydroloom-1.1.2/hydroloom/NAMESPACE | 12 hydroloom-1.1.2/hydroloom/NEWS.md | 15 hydroloom-1.1.2/hydroloom/R/00_hydroloom.R | 438 ++-- hydroloom-1.1.2/hydroloom/R/accumulate_downstream.R | 326 ++- hydroloom-1.1.2/hydroloom/R/add_divergence.R | 917 ++++---- hydroloom-1.1.2/hydroloom/R/add_levelpaths.R | 726 +++--- hydroloom-1.1.2/hydroloom/R/add_measures.R |only hydroloom-1.1.2/hydroloom/R/add_pathlength.R | 131 - hydroloom-1.1.2/hydroloom/R/add_pfafstetter.R | 438 ++-- hydroloom-1.1.2/hydroloom/R/add_streamorder-level.R | 532 ++-- hydroloom-1.1.2/hydroloom/R/add_toids.R | 241 +- hydroloom-1.1.2/hydroloom/R/align_names.R | 278 +- hydroloom-1.1.2/hydroloom/R/check_hy_graph.R | 448 ++-- hydroloom-1.1.2/hydroloom/R/disambiguate.R | 232 +- hydroloom-1.1.2/hydroloom/R/get_bridges.R |only hydroloom-1.1.2/hydroloom/R/get_hydro_location.R | 150 - hydroloom-1.1.2/hydroloom/R/hy.R | 266 +- hydroloom-1.1.2/hydroloom/R/index_points_to_lines.R | 1074 ++++------ hydroloom-1.1.2/hydroloom/R/make_attribute_topology.R | 201 - hydroloom-1.1.2/hydroloom/R/make_index_ids.R | 621 ++++- hydroloom-1.1.2/hydroloom/R/make_node_topology.R | 420 +-- hydroloom-1.1.2/hydroloom/R/navigate_connected_paths.R | 380 +-- hydroloom-1.1.2/hydroloom/R/navigate_network_dfs.R | 536 ++-- hydroloom-1.1.2/hydroloom/R/navigation_network.R | 697 +++--- hydroloom-1.1.2/hydroloom/R/sort_network.R | 502 ++-- hydroloom-1.1.2/hydroloom/R/subset_network.R |only hydroloom-1.1.2/hydroloom/R/to_flownetwork.R | 138 - hydroloom-1.1.2/hydroloom/R/utils.R | 625 +++-- hydroloom-1.1.2/hydroloom/README.md | 127 - hydroloom-1.1.2/hydroloom/build/vignette.rds |binary hydroloom-1.1.2/hydroloom/inst/WORDLIST | 24 hydroloom-1.1.2/hydroloom/inst/doc/accumulate_downstream.R |only hydroloom-1.1.2/hydroloom/inst/doc/accumulate_downstream.Rmd |only hydroloom-1.1.2/hydroloom/inst/doc/accumulate_downstream.html |only hydroloom-1.1.2/hydroloom/inst/doc/advanced_network.R | 67 hydroloom-1.1.2/hydroloom/inst/doc/advanced_network.Rmd | 85 hydroloom-1.1.2/hydroloom/inst/doc/advanced_network.html | 63 hydroloom-1.1.2/hydroloom/inst/doc/flow-table.R | 37 hydroloom-1.1.2/hydroloom/inst/doc/flow-table.Rmd | 41 hydroloom-1.1.2/hydroloom/inst/doc/flow-table.html | 58 hydroloom-1.1.2/hydroloom/inst/doc/hydroloom.R | 68 hydroloom-1.1.2/hydroloom/inst/doc/hydroloom.Rmd | 127 - hydroloom-1.1.2/hydroloom/inst/doc/hydroloom.html | 150 - hydroloom-1.1.2/hydroloom/inst/doc/network_navigation.R | 108 - hydroloom-1.1.2/hydroloom/inst/doc/network_navigation.Rmd | 128 - hydroloom-1.1.2/hydroloom/inst/doc/network_navigation.html | 406 +-- hydroloom-1.1.2/hydroloom/inst/doc/non-dendritic.R | 27 hydroloom-1.1.2/hydroloom/inst/doc/non-dendritic.Rmd | 45 hydroloom-1.1.2/hydroloom/inst/doc/non-dendritic.html | 118 - hydroloom-1.1.2/hydroloom/man/accumulate_downstream.Rd | 87 hydroloom-1.1.2/hydroloom/man/add_divergence.Rd | 15 hydroloom-1.1.2/hydroloom/man/add_levelpaths.Rd | 10 hydroloom-1.1.2/hydroloom/man/add_measures.Rd |only hydroloom-1.1.2/hydroloom/man/add_pathlength.Rd | 5 hydroloom-1.1.2/hydroloom/man/add_pfafstetter.Rd | 67 hydroloom-1.1.2/hydroloom/man/add_return_divergence.Rd | 4 hydroloom-1.1.2/hydroloom/man/add_streamlevel.Rd | 11 hydroloom-1.1.2/hydroloom/man/add_streamorder.Rd | 20 hydroloom-1.1.2/hydroloom/man/add_toids.Rd | 8 hydroloom-1.1.2/hydroloom/man/add_topo_sort.Rd | 7 hydroloom-1.1.2/hydroloom/man/check_hy_graph.Rd | 7 hydroloom-1.1.2/hydroloom/man/disambiguate_indexes.Rd | 50 hydroloom-1.1.2/hydroloom/man/format_index_ids.Rd | 17 hydroloom-1.1.2/hydroloom/man/get_bridge_flowlines.Rd |only hydroloom-1.1.2/hydroloom/man/get_hydro_location.Rd | 16 hydroloom-1.1.2/hydroloom/man/get_node.Rd | 4 hydroloom-1.1.2/hydroloom/man/get_partial_length.Rd | 8 hydroloom-1.1.2/hydroloom/man/hy.Rd | 2 hydroloom-1.1.2/hydroloom/man/index_points_to_lines.Rd | 60 hydroloom-1.1.2/hydroloom/man/index_points_to_waterbodies.Rd | 26 hydroloom-1.1.2/hydroloom/man/make_attribute_topology.Rd | 6 hydroloom-1.1.2/hydroloom/man/make_fromids.Rd | 19 hydroloom-1.1.2/hydroloom/man/make_index_ids.Rd | 49 hydroloom-1.1.2/hydroloom/man/make_node_topology.Rd | 9 hydroloom-1.1.2/hydroloom/man/navigate_connected_paths.Rd | 9 hydroloom-1.1.2/hydroloom/man/navigate_hydro_network.Rd | 17 hydroloom-1.1.2/hydroloom/man/navigate_network_dfs.Rd | 8 hydroloom-1.1.2/hydroloom/man/rename_geometry.Rd | 2 hydroloom-1.1.2/hydroloom/man/rescale_measures.Rd | 14 hydroloom-1.1.2/hydroloom/man/sort_network.Rd | 5 hydroloom-1.1.2/hydroloom/man/subset_network.Rd |only hydroloom-1.1.2/hydroloom/man/to_flownetwork.Rd | 2 hydroloom-1.1.2/hydroloom/tests/testthat.R | 24 hydroloom-1.1.2/hydroloom/tests/testthat/data/diversions.csv |only hydroloom-1.1.2/hydroloom/tests/testthat/data/diversions.geojson |only hydroloom-1.1.2/hydroloom/tests/testthat/data/simple_diversions.geojson |only hydroloom-1.1.2/hydroloom/tests/testthat/test_accumulate.R | 269 ++ hydroloom-1.1.2/hydroloom/tests/testthat/test_add_divergence.R | 580 ++--- hydroloom-1.1.2/hydroloom/tests/testthat/test_add_levelpaths.R | 350 +-- hydroloom-1.1.2/hydroloom/tests/testthat/test_add_measures.R |only hydroloom-1.1.2/hydroloom/tests/testthat/test_add_pathlength.R | 22 hydroloom-1.1.2/hydroloom/tests/testthat/test_add_pfafstetter.R | 112 - hydroloom-1.1.2/hydroloom/tests/testthat/test_add_toids.R | 92 hydroloom-1.1.2/hydroloom/tests/testthat/test_align_names.R | 68 hydroloom-1.1.2/hydroloom/tests/testthat/test_check_hy_graph.R | 237 +- hydroloom-1.1.2/hydroloom/tests/testthat/test_get_bridges.R |only hydroloom-1.1.2/hydroloom/tests/testthat/test_get_hydro_location.R | 64 hydroloom-1.1.2/hydroloom/tests/testthat/test_get_partial_length.R | 90 hydroloom-1.1.2/hydroloom/tests/testthat/test_hydroloom.R | 110 - hydroloom-1.1.2/hydroloom/tests/testthat/test_index.R | 651 +++--- hydroloom-1.1.2/hydroloom/tests/testthat/test_make_attribute_topology.R | 76 hydroloom-1.1.2/hydroloom/tests/testthat/test_make_index_ids.R | 302 +- hydroloom-1.1.2/hydroloom/tests/testthat/test_make_node_topology.R | 270 +- hydroloom-1.1.2/hydroloom/tests/testthat/test_navigate_connected_paths.R | 75 hydroloom-1.1.2/hydroloom/tests/testthat/test_navigate_hydro_network.R | 339 +-- hydroloom-1.1.2/hydroloom/tests/testthat/test_navigate_network_dfs.R | 316 +- hydroloom-1.1.2/hydroloom/tests/testthat/test_sort_network.R | 472 ++-- hydroloom-1.1.2/hydroloom/tests/testthat/test_streamorder-level.R | 160 - hydroloom-1.1.2/hydroloom/tests/testthat/test_subset_network.R |only hydroloom-1.1.2/hydroloom/tests/testthat/test_to_flownetwork.R | 70 hydroloom-1.1.2/hydroloom/tests/testthat/test_utils.R | 257 +- hydroloom-1.1.2/hydroloom/vignettes/accumulate_downstream.Rmd |only hydroloom-1.1.2/hydroloom/vignettes/advanced_network.Rmd | 85 hydroloom-1.1.2/hydroloom/vignettes/flow-table.Rmd | 41 hydroloom-1.1.2/hydroloom/vignettes/hydroloom.Rmd | 127 - hydroloom-1.1.2/hydroloom/vignettes/network_navigation.Rmd | 128 - hydroloom-1.1.2/hydroloom/vignettes/non-dendritic.Rmd | 45 122 files changed, 9729 insertions(+), 8523 deletions(-)
Title: HTTP Error Helpers
Description: HTTP error helpers. Methods included for general purpose HTTP
error handling, as well as individual methods for every HTTP status
code, both via status code numbers as well as their descriptive names.
Supports ability to adjust behavior to stop, message or warning.
Includes ability to use custom whisker template to have any configuration
of status code, short description, and verbose message. Currently
supports integration with 'crul', 'curl', and 'httr'.
Author: Scott Chamberlain [aut, cre]
Maintainer: Scott Chamberlain <myrmecocystus@gmail.com>
Diff between fauxpas versions 0.5.2 dated 2023-05-03 and 0.6.0 dated 2026-02-20
DESCRIPTION | 17 + MD5 | 38 ++-- NAMESPACE | 45 +++++ NEWS.md | 10 + R/error_http_generated.R | 234 +++++++++++++++++++++++++++ R/errors-children.R | 284 +++++++++++++++++++++------------ R/errors.R | 123 +++++++++----- R/fauxpas-package.R | 12 - R/find_error_class.R | 15 + R/s3-classes.R | 63 +++++-- README.md | 69 +++----- build/vignette.rds |binary inst/doc/fauxpas-vignette.R | 122 +++++++------- inst/doc/fauxpas-vignette.html | 20 -- man/Error-Classes.Rd | 34 +-- man/Error.Rd | 72 ++++---- man/fauxpas-package.Rd | 20 +- man/find_error_class.Rd | 4 man/http.Rd | 59 +++++- tests/testthat/test-http_star.R | 342 ++++++++++++++++++++++++++++++++++++++++ 20 files changed, 1195 insertions(+), 388 deletions(-)
Title: Use Foreach to Parallelize via the Future Framework
Description: The 'future' package provides a unifying parallelization framework for R that supports many parallel and distributed backends <doi:10.32614/RJ-2021-048>. The 'foreach' package provides a powerful API for iterating over an R expression in parallel. The 'doFuture' package brings the best of the two together. There are two alternative ways to use this package. The recommended approach is to use 'y <- foreach(...) %dofuture% { ... }', which does not require using 'registerDoFuture()' and has many advantages over '%dopar%'. The alternative is the traditional 'foreach' approach by registering the 'foreach' adapter 'registerDoFuture()' and so that 'y <- foreach(...) %dopar% { ... }' runs in parallelizes with the 'future' framework.
Author: Henrik Bengtsson [aut, cre, cph]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between doFuture versions 1.2.0 dated 2026-01-15 and 1.2.1 dated 2026-02-20
DESCRIPTION | 6 +-- MD5 | 56 +++++++++++++++++------------------ NEWS.md | 16 +++++++--- R/doFuture-package.R | 6 +-- R/doFuture.R | 20 +++++++----- R/doFuture2.R | 20 +++++++----- R/dofuture_OP.R | 22 ++++++------- R/globals.R | 2 - R/makeChunks.R | 10 +++--- R/options.R | 2 - R/registerDoFuture.R | 22 ++++++------- R/with.DoPar.R | 4 +- R/withDoRNG.R | 2 - inst/doc/doFuture-1-overview.html | 6 +-- inst/doc/doFuture-1-overview.md.rsp | 6 +-- inst/doc/doFuture-2-dopar.html | 12 +++---- inst/doc/doFuture-2-dopar.md.rsp | 12 +++---- inst/doc/doFuture-3-dofuture.html | 2 - inst/doc/doFuture-3-dofuture.md.rsp | 2 - man/doFuture.Rd | 4 +- man/doFuture.options.Rd | 2 - man/grapes-dofuture-grapes.Rd | 22 ++++++------- man/makeChunks.Rd | 10 +++--- man/registerDoFuture.Rd | 22 ++++++------- man/with.DoPar.Rd | 2 - man/withDoRNG.Rd | 2 - vignettes/doFuture-1-overview.md.rsp | 6 +-- vignettes/doFuture-2-dopar.md.rsp | 12 +++---- vignettes/doFuture-3-dofuture.md.rsp | 2 - 29 files changed, 164 insertions(+), 148 deletions(-)