Title: Fitting and Forecasting Gegenbauer ARMA Time Series Models
Description: Methods for estimating univariate long memory-seasonal/cyclical
Gegenbauer time series processes. See for example (2022) <doi:10.1007/s00362-022-01290-3>.
Refer to the vignette for details of fitting these processes.
Author: Richard Hunt [aut, cre]
Maintainer: Richard Hunt <maint@huntemail.id.au>
Diff between garma versions 0.9.22 dated 2024-09-05 and 0.9.23 dated 2024-09-12
DESCRIPTION | 8 MD5 | 13 - R/garma_main.R | 3 inst/doc/introduction.html | 4 tests/testthat/_snaps |only tests/testthat/test-garma.R |only tests/testthat/test-garma2.R |only tests/testthat/test-predict.R |only tests/testthat/test_garma.R | 492 +++++++++++++++++++++--------------------- 9 files changed, 263 insertions(+), 257 deletions(-)
Title: Visualization of Viral Protein Sequence Diversity Dynamics
Description: To ease the visualization of outputs from Diversity Motif Analyser ('DiMA';
<https://github.com/BVU-BILSAB/DiMA>). 'vDiveR' allows visualization of the diversity
motifs (index and its variants – major, minor and unique) for elucidation of
the underlying inherent dynamics. Please refer <https://vdiver-manual.readthedocs.io/en/latest/>
for more information.
Author: Pendy Tok [aut, cre],
Li Chuin Chong [aut],
Evgenia Chikina [aut],
Yin Cheng Chen [aut],
Mohammad Asif Khan [aut]
Maintainer: Pendy Tok <pendytok0518@gmail.com>
Diff between vDiveR versions 1.2.1 dated 2024-01-09 and 2.0.0 dated 2024-09-12
DESCRIPTION | 12 +- MD5 | 35 ++++---- NAMESPACE | 3 NEWS.md | 4 R/json2csv.R | 2 R/metadata_extraction.R | 182 ++++++++++++++++++++++++++++--------------- R/plot_time.R | 36 ++++---- R/plot_worldmap.R | 63 +++++++++----- R/sample_data.R | 8 - data/metadata.rda |binary inst/extdata/city_mapper.csv |only man/JSON_sample.Rd | 2 man/json2csv.Rd | 2 man/metadata.Rd | 2 man/metadata_extraction.Rd | 9 +- man/plot_time.Rd | 11 -- man/plot_worldmap.Rd | 4 man/protein_2hosts.Rd | 2 man/proteins_1host.Rd | 2 19 files changed, 226 insertions(+), 153 deletions(-)
Title: Seismic Time Series Analysis Tools
Description: Multiple interactive codes to view and analyze seismic data, via spectrum analysis, wavelet transforms, particle motion, hodograms. Includes general time-series tools, plotting, filtering, interactive display.
Author: Jonathan M. Lees [aut, cre],
Jake Anderson [ctb],
Leonard Lisapaly [ctb],
Dave Harris [aut, cph]
Maintainer: Jonathan M. Lees <jonathan.lees@unc.edu>
Diff between RSEIS versions 4.2-0 dated 2024-02-25 and 4.2-4 dated 2024-09-12
DESCRIPTION | 12 +- MD5 | 194 ++++++++++++++++++------------------ NAMESPACE | 2 R/ASCII.SEISN.R | 5 R/DECIMATE.SEISN.R | 22 +++- R/FAKEDATA.R |only R/JSAC.seis.R | 222 ++++++++--------------------------------- R/ReadSet.Instr.R | 36 ++++-- R/X2RSEIS.R | 5 R/Zdate.R | 2 R/butfilt.R | 15 ++ R/dateStamp.R | 2 R/downsample.R |only R/filedatetime.R | 2 R/getANSS.R | 4 R/getIRIS.R | 2 R/getPDEcsv.R | 2 R/getPDEscreen.R | 2 R/getseis24.R | 269 +++++++++++++++++--------------------------------- R/infoDB.R | 30 ++--- R/markseis24.R | 8 + R/pickseis24.R | 38 ++----- R/plotseis24.R | 31 ++++- R/read1segy.R | 6 - R/rseis2sac.R | 36 +----- R/rseis2segy.R | 38 ++++--- R/saveWPX.R | 4 R/view.seis.R | 19 ++- R/winseis24.R | 10 + R/wlet.do.R | 2 R/write1segy.R | 17 ++- man/ASCII.SEISN.Rd | 9 + man/AUGMENTbutfilt.Rd | 6 - man/DECIMATE.SEISN.Rd | 50 ++++++++- man/DISPLACE.SEISN.Rd | 23 ---- man/DISTxsec.Rd | 7 - man/DO.PMOT.ARR.Rd | 20 +++ man/FAKEDATA.Rd |only man/GET.seis.Rd | 87 ++++++++-------- man/Get1Dvel.Rd | 4 man/JSAC.seis.Rd | 49 ++------- man/MTMgabor.Rd | 6 - man/Mine.seis.Rd | 44 +++++--- man/P2GH.Rd | 7 - man/PLOT.ALLPX.Rd | 15 ++ man/PMOT.drive.Rd | 2 man/ReadInstr.Rd | 30 ++--- man/ReadSet.Instr.Rd | 11 -- man/SEARCHPIX.Rd | 7 + man/SEIS2list.Rd | 10 - man/SELBUT.Rd | 2 man/SPECT.drive.Rd | 31 ----- man/VELOCITY.SEISN.Rd | 20 --- man/WINGH.Rd | 2 man/X2RSEIS.Rd | 3 man/X2SAC.Rd | 6 - man/XTR.Rd | 2 man/YPIX.Rd | 2 man/ZOOM.SEISN.Rd | 4 man/Zdate.Rd | 6 - man/butfilt.Rd | 5 man/combineSEIS.Rd | 16 +- man/convert2Rseis.Rd | 62 ++--------- man/downsample.Rd |only man/editDB.Rd | 61 +++++++---- man/filedatetime.Rd | 2 man/getIRIS.Rd | 19 ++- man/getPDEcsv.Rd | 40 +++---- man/getseis24.Rd | 46 +++++++- man/grotseis.Rd | 17 ++- man/infoDB.Rd | 40 +++++-- man/lagplot.Rd | 11 -- man/longfft.Rd | 64 ++++++----- man/makeDB.Rd | 78 +++++--------- man/markseis24.Rd | 62 ++++++++--- man/parse.pde.Rd | 13 ++ man/pickseis24.Rd | 73 ++++++++++--- man/plotDB.Rd | 37 +++++- man/plotGH.Rd | 22 ++-- man/plotJGET.Rd | 19 ++- man/plotseis24.Rd | 43 ++++++- man/prepSEIS.Rd | 67 ------------ man/rdistaz.Rd | 25 ++++ man/read1segy.Rd | 21 +-- man/rseis2segy.Rd | 19 ++- man/ruler.Rd | 4 man/saveWPX.Rd | 4 man/segy2rseis.Rd | 23 ++-- man/seisorder.Rd | 2 man/setstas.Rd | 12 +- man/setupDB.Rd | 44 +++++--- man/swig.ALLPX.Rd | 13 +- man/tung.pulse.Rd | 11 +- man/view.seis.Rd | 112 +++++++++----------- man/winseis24.Rd | 49 +++++++-- man/wlet.do.Rd | 21 --- man/write1segy.Rd | 23 +++- src/ARAIC.c | 4 src/GetCornerFreq.c | 2 src/TTray.c | 48 ++++---- 100 files changed, 1410 insertions(+), 1326 deletions(-)
Title: Statistical Inference for Partially Observed Markov Processes
Description: Tools for data analysis with partially observed Markov process (POMP) models (also known as stochastic dynamical systems, hidden Markov models, and nonlinear, non-Gaussian, state-space models). The package provides facilities for implementing POMP models, simulating them, and fitting them to time series data by a variety of frequentist and Bayesian methods. It is also a versatile platform for implementation of inference methods for general POMP models.
Author: Aaron A. King [aut, cre] ,
Edward L. Ionides [aut] ,
Carles Breto [aut] ,
Stephen P. Ellner [ctb] ,
Matthew J. Ferrari [ctb] ,
Sebastian Funk [ctb] ,
Steven G. Johnson [ctb],
Bruce E. Kendall [ctb] ,
Michael Lavine [ctb],
Dao Nguyen [ctb] ,
Eamon B. [...truncated...]
Maintainer: Aaron A. King <kingaa@umich.edu>
Diff between pomp versions 5.10 dated 2024-07-01 and 5.11 dated 2024-09-12
DESCRIPTION | 8 +- MD5 | 134 +++++++++++++++++++++++----------------------- R/abc.R | 4 - R/accumulators.R | 2 R/basic_components.R | 2 R/basic_probes.R | 36 ++++++------ R/betabinom.R | 2 R/bsflu.R | 6 +- R/bsmc2.R | 2 R/bsplines.R | 4 - R/childhood.R | 2 R/conc.R | 2 R/concat.R | 4 - R/covariate_table.R | 2 R/csnippet.R | 2 R/dacca.R | 22 +++---- R/design.R | 4 - R/ebola.R | 6 +- R/eff_sample_size.R | 6 +- R/elementary_algorithms.R | 4 - R/estimation_algorithms.R | 2 R/filter_traj.R | 2 R/flow.R | 2 R/kalman.R | 9 +-- R/kf.R | 2 R/logmeanexp.R | 2 R/mcap.R | 16 ++--- R/mif2.R | 8 +- R/nlf.R | 40 ++++++------- R/objfun.R | 2 R/package.R | 4 - R/parameter_trans.R | 2 R/parmat.R | 2 R/parus.R | 3 - R/pfilter.R | 6 +- R/pmcmc.R | 8 +- R/pomp_examp.R | 6 +- R/probe.R | 2 R/probe_match.R | 12 ++-- R/profile_design.R | 6 +- R/proposals.R | 6 +- R/saved_states.R | 4 - R/sir.R | 42 +++++++------- R/skeleton_spec.R | 8 +- R/slice_design.R | 2 R/sobol_design.R | 4 - R/spect.R | 28 ++++----- R/spect_match.R | 4 - R/spy.R | 1 R/templates.R | 2 R/traj_match.R | 4 - R/trajectory.R | 4 - R/window.R | 2 R/workhorses.R | 2 R/wpfilter.R | 8 +- README.md | 2 inst/NEWS | 6 ++ inst/NEWS.Rd | 5 + man/bsplines.Rd | 2 man/macros/citations.Rd | 74 ++++++++++++------------- man/mcap.Rd | 2 man/probe_match.Rd | 5 + man/spy.Rd | 7 ++ src/distributions.c | 6 +- src/logmeanexp.c | 2 src/probe_marginal.c | 30 +++++----- src/synth_lik.c | 6 +- src/trajectory.c | 34 +++++------ 68 files changed, 359 insertions(+), 333 deletions(-)
Title: Many Ways to Make, Modify, Map, Mark, and Measure Myriad
Networks
Description: Many tools for making, modifying, mapping, marking, measuring,
and motifs and memberships of many different types of networks.
All functions operate with matrices, edge lists, and 'igraph', 'network', and 'tidygraph' objects,
and on one-mode, two-mode (bipartite), and sometimes three-mode networks.
The package includes functions for importing and exporting, creating and generating networks,
modifying networks and node and tie attributes,
and describing and visualizing networks with sensible defaults.
Author: James Hollway [cre, aut, ctb] ,
Henrique Sposito [ctb] ,
Christian Steglich [ctb]
Maintainer: James Hollway <james.hollway@graduateinstitute.ch>
Diff between manynet versions 1.0.5 dated 2024-08-30 and 1.1.0 dated 2024-09-12
manynet-1.0.5/manynet/R/map_layout_configurations.R |only manynet-1.0.5/manynet/R/map_layout_partition.R |only manynet-1.0.5/manynet/R/mark_is.R |only manynet-1.0.5/manynet/R/print_classes.R |only manynet-1.0.5/manynet/data/ison_monastery_esteem.rda |only manynet-1.0.5/manynet/data/ison_monastery_influence.rda |only manynet-1.0.5/manynet/data/ison_monastery_like.rda |only manynet-1.0.5/manynet/data/ison_monastery_praise.rda |only manynet-1.0.5/manynet/man/add_nodes.Rd |only manynet-1.0.5/manynet/man/add_ties.Rd |only manynet-1.0.5/manynet/man/as.Rd |only manynet-1.0.5/manynet/man/between_centrality.Rd |only manynet-1.0.5/manynet/man/close_centrality.Rd |only manynet-1.0.5/manynet/man/cluster.Rd |only manynet-1.0.5/manynet/man/configuration_layouts.Rd |only manynet-1.0.5/manynet/man/degree_centrality.Rd |only manynet-1.0.5/manynet/man/eigenv_centrality.Rd |only manynet-1.0.5/manynet/man/features.Rd |only manynet-1.0.5/manynet/man/from.Rd |only manynet-1.0.5/manynet/man/graphr.Rd |only manynet-1.0.5/manynet/man/graphs.Rd |only manynet-1.0.5/manynet/man/grapht.Rd |only manynet-1.0.5/manynet/man/is.Rd |only manynet-1.0.5/manynet/man/is_format.Rd |only manynet-1.0.5/manynet/man/ison_monastery.Rd |only manynet-1.0.5/manynet/man/kselect.Rd |only manynet-1.0.5/manynet/man/learning.Rd |only manynet-1.0.5/manynet/man/make_generate.Rd |only manynet-1.0.5/manynet/man/many_palettes.Rd |only manynet-1.0.5/manynet/man/measure_infection.Rd |only manynet-1.0.5/manynet/man/measure_net_diffusion.Rd |only manynet-1.0.5/manynet/man/measure_node_diffusion.Rd |only manynet-1.0.5/manynet/man/miss.Rd |only manynet-1.0.5/manynet/man/over.Rd |only manynet-1.0.5/manynet/man/partition_layouts.Rd |only manynet-1.0.5/manynet/man/play.Rd |only manynet-1.0.5/manynet/man/read.Rd |only manynet-1.0.5/manynet/man/reformat.Rd |only manynet-1.0.5/manynet/man/scales.Rd |only manynet-1.0.5/manynet/man/themes.Rd |only manynet-1.0.5/manynet/man/to_levels.Rd |only manynet-1.0.5/manynet/man/to_paths.Rd |only manynet-1.0.5/manynet/man/to_project.Rd |only manynet-1.0.5/manynet/man/to_scope.Rd |only manynet-1.0.5/manynet/man/write.Rd |only manynet-1.1.0/manynet/DESCRIPTION | 30 manynet-1.1.0/manynet/MD5 | 318 +++++----- manynet-1.1.0/manynet/NAMESPACE | 24 manynet-1.1.0/manynet/NEWS.md | 68 ++ manynet-1.1.0/manynet/R/class_marks.R | 13 manynet-1.1.0/manynet/R/class_measures.R | 11 manynet-1.1.0/manynet/R/class_networks.R |only manynet-1.1.0/manynet/R/data_ison.R | 472 +++++++-------- manynet-1.1.0/manynet/R/make_create.R | 8 manynet-1.1.0/manynet/R/make_generate.R | 179 +++-- manynet-1.1.0/manynet/R/make_play.R | 18 manynet-1.1.0/manynet/R/make_read.R | 127 +++- manynet-1.1.0/manynet/R/manip_as.R | 71 +- manynet-1.1.0/manynet/R/manip_correlation.R | 6 manynet-1.1.0/manynet/R/manip_from.R | 20 manynet-1.1.0/manynet/R/manip_miss.R | 8 manynet-1.1.0/manynet/R/manip_nodes.R | 36 - manynet-1.1.0/manynet/R/manip_reformat.R | 49 - manynet-1.1.0/manynet/R/manip_reformed.R | 69 +- manynet-1.1.0/manynet/R/manip_split.R | 10 manynet-1.1.0/manynet/R/manip_ties.R | 43 - manynet-1.1.0/manynet/R/manynet-tutorials.R | 49 - manynet-1.1.0/manynet/R/manynet-utils.R | 5 manynet-1.1.0/manynet/R/map_autograph.R | 14 manynet-1.1.0/manynet/R/map_layouts.R |only manynet-1.1.0/manynet/R/map_palettes.R | 5 manynet-1.1.0/manynet/R/map_plot.R | 6 manynet-1.1.0/manynet/R/map_theme.R | 72 +- manynet-1.1.0/manynet/R/mark_net.R |only manynet-1.1.0/manynet/R/mark_nodes.R | 10 manynet-1.1.0/manynet/R/mark_ties.R | 86 ++ manynet-1.1.0/manynet/R/measure_attributes.R | 2 manynet-1.1.0/manynet/R/measure_centrality.R | 90 +- manynet-1.1.0/manynet/R/measure_closure.R | 10 manynet-1.1.0/manynet/R/measure_cohesion.R | 2 manynet-1.1.0/manynet/R/measure_diffusion.R | 42 - manynet-1.1.0/manynet/R/measure_features.R | 20 manynet-1.1.0/manynet/R/measure_heterogeneity.R | 4 manynet-1.1.0/manynet/R/measure_hierarchy.R | 2 manynet-1.1.0/manynet/R/measure_holes.R | 2 manynet-1.1.0/manynet/R/measure_over.R | 17 manynet-1.1.0/manynet/R/measure_properties.R | 2 manynet-1.1.0/manynet/R/member_cliques.R | 4 manynet-1.1.0/manynet/R/member_community.R | 2 manynet-1.1.0/manynet/R/member_components.R | 6 manynet-1.1.0/manynet/R/member_core.R | 4 manynet-1.1.0/manynet/R/member_equivalence.R | 2 manynet-1.1.0/manynet/R/model_cluster.R | 6 manynet-1.1.0/manynet/R/model_k.R | 10 manynet-1.1.0/manynet/R/motif_census.R | 30 manynet-1.1.0/manynet/R/reexports_classes.R | 24 manynet-1.1.0/manynet/R/zzz.R |only manynet-1.1.0/manynet/README.md | 59 - manynet-1.1.0/manynet/data/ison_adolescents.rda |binary manynet-1.1.0/manynet/data/ison_algebra.rda |binary manynet-1.1.0/manynet/data/ison_brandes.rda |binary manynet-1.1.0/manynet/data/ison_friends.rda |binary manynet-1.1.0/manynet/data/ison_greys.rda |binary manynet-1.1.0/manynet/data/ison_hightech.rda |binary manynet-1.1.0/manynet/data/ison_karateka.rda |binary manynet-1.1.0/manynet/data/ison_koenigsberg.rda |binary 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manynet-1.1.0/manynet/man/ison_friends.Rd | 2 manynet-1.1.0/manynet/man/ison_greys.Rd | 2 manynet-1.1.0/manynet/man/ison_hightech.Rd | 2 manynet-1.1.0/manynet/man/ison_karateka.Rd | 2 manynet-1.1.0/manynet/man/ison_koenigsberg.Rd | 2 manynet-1.1.0/manynet/man/ison_laterals.Rd | 8 manynet-1.1.0/manynet/man/ison_lawfirm.Rd | 2 manynet-1.1.0/manynet/man/ison_lotr.Rd | 2 manynet-1.1.0/manynet/man/ison_marvel.Rd | 4 manynet-1.1.0/manynet/man/ison_monks.Rd |only manynet-1.1.0/manynet/man/ison_networkers.Rd | 2 manynet-1.1.0/manynet/man/ison_physicians.Rd | 8 manynet-1.1.0/manynet/man/ison_potter.Rd | 12 manynet-1.1.0/manynet/man/ison_southern_women.Rd | 2 manynet-1.1.0/manynet/man/ison_starwars.Rd | 14 manynet-1.1.0/manynet/man/ison_thrones.Rd |only manynet-1.1.0/manynet/man/ison_usstates.Rd | 2 manynet-1.1.0/manynet/man/make_cran.Rd |only manynet-1.1.0/manynet/man/make_create.Rd | 12 manynet-1.1.0/manynet/man/make_explicit.Rd | 12 manynet-1.1.0/manynet/man/make_learning.Rd |only manynet-1.1.0/manynet/man/make_play.Rd |only manynet-1.1.0/manynet/man/make_random.Rd |only manynet-1.1.0/manynet/man/make_read.Rd |only manynet-1.1.0/manynet/man/make_stochastic.Rd |only manynet-1.1.0/manynet/man/make_write.Rd |only manynet-1.1.0/manynet/man/manip_as.Rd |only manynet-1.1.0/manynet/man/manip_correlation.Rd | 20 manynet-1.1.0/manynet/man/manip_from.Rd |only manynet-1.1.0/manynet/man/manip_levels.Rd |only manynet-1.1.0/manynet/man/manip_miss.Rd |only manynet-1.1.0/manynet/man/manip_nodes.Rd |only manynet-1.1.0/manynet/man/manip_paths.Rd |only manynet-1.1.0/manynet/man/manip_permutation.Rd | 20 manynet-1.1.0/manynet/man/manip_project.Rd |only manynet-1.1.0/manynet/man/manip_reformat.Rd |only manynet-1.1.0/manynet/man/manip_scope.Rd |only manynet-1.1.0/manynet/man/manip_split.Rd | 20 manynet-1.1.0/manynet/man/manip_ties.Rd |only manynet-1.1.0/manynet/man/map_graphr.Rd |only manynet-1.1.0/manynet/man/map_graphs.Rd |only manynet-1.1.0/manynet/man/map_grapht.Rd |only 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manynet-1.1.0/manynet/man/reexports.Rd | 4 manynet-1.1.0/manynet/tests/testthat/test-manip_grab.R | 2 206 files changed, 1563 insertions(+), 1088 deletions(-)
Title: Comprehensive Luminescence Dating Data Analysis
Description: A collection of various R functions for the purpose of Luminescence
dating data analysis. This includes, amongst others, data import, export,
application of age models, curve deconvolution, sequence analysis and
plotting of equivalent dose distributions.
Author: Sebastian Kreutzer [aut, trl, cre, dtc]
,
Christoph Burow [aut, trl, dtc]
,
Michael Dietze [aut] ,
Margret C. Fuchs [aut] ,
Christoph Schmidt [aut] ,
Manfred Fischer [aut, trl],
Johannes Friedrich [aut] ,
Norbert Mercier [aut] ,
Rachel K. Smedley [ct [...truncated...]
Maintainer: Sebastian Kreutzer <maintainer_luminescence@r-luminescence.org>
Diff between Luminescence versions 0.9.24 dated 2024-06-07 and 0.9.25 dated 2024-09-12
Luminescence-0.9.24/Luminescence/tests/testthat/test_RLum.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_analyse_IRSARRF.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_analyse_SARCWOSL.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_analyse_SARTL.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_calc_CobbeDoseRate.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_convert_XYSG2CSV.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_merge_RLumDataCurve.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_merge_RLumResults.R |only Luminescence-0.9.24/Luminescence/tests/testthat/test_merge_RisoeBINfileData.R |only Luminescence-0.9.25/Luminescence/DESCRIPTION | 79 - Luminescence-0.9.25/Luminescence/MD5 | 716 +++++----- Luminescence-0.9.25/Luminescence/NAMESPACE | 6 Luminescence-0.9.25/Luminescence/NEWS.md | 312 ++-- Luminescence-0.9.25/Luminescence/R/Analyse_SAR.OSLdata.R | 2 Luminescence-0.9.25/Luminescence/R/CW2pHMi.R | 7 Luminescence-0.9.25/Luminescence/R/PSL2Risoe.BINfileData.R | 17 Luminescence-0.9.25/Luminescence/R/RLum.Analysis-class.R | 89 - Luminescence-0.9.25/Luminescence/R/RLum.Data.Curve-class.R | 6 Luminescence-0.9.25/Luminescence/R/RLum.Data.Image-class.R | 8 Luminescence-0.9.25/Luminescence/R/RLum.Results-class.R | 37 Luminescence-0.9.25/Luminescence/R/Risoe.BINfileData-class.R | 2 Luminescence-0.9.25/Luminescence/R/Risoe.BINfileData2RLum.Analysis.R | 128 - Luminescence-0.9.25/Luminescence/R/Risoe.BINfileData2RLum.Data.Curve.R | 8 Luminescence-0.9.25/Luminescence/R/Second2Gray.R | 2 Luminescence-0.9.25/Luminescence/R/addins_RLum.R | 17 Luminescence-0.9.25/Luminescence/R/analyse_Al2O3C_CrossTalk.R | 18 Luminescence-0.9.25/Luminescence/R/analyse_Al2O3C_ITC.R | 28 Luminescence-0.9.25/Luminescence/R/analyse_Al2O3C_Measurement.R | 90 - Luminescence-0.9.25/Luminescence/R/analyse_FadingMeasurement.R | 121 - Luminescence-0.9.25/Luminescence/R/analyse_IRSAR.RF.R | 217 +-- Luminescence-0.9.25/Luminescence/R/analyse_SAR.CWOSL.R | 173 -- Luminescence-0.9.25/Luminescence/R/analyse_SAR.TL.R | 63 Luminescence-0.9.25/Luminescence/R/analyse_baSAR.R | 423 ++--- Luminescence-0.9.25/Luminescence/R/analyse_pIRIRSequence.R | 38 Luminescence-0.9.25/Luminescence/R/analyse_portableOSL.R | 52 Luminescence-0.9.25/Luminescence/R/apply_CosmicRayRemoval.R | 11 Luminescence-0.9.25/Luminescence/R/calc_AliquotSize.R | 26 Luminescence-0.9.25/Luminescence/R/calc_AverageDose.R | 28 Luminescence-0.9.25/Luminescence/R/calc_CommonDose.R | 38 Luminescence-0.9.25/Luminescence/R/calc_CosmicDoseRate.R | 13 Luminescence-0.9.25/Luminescence/R/calc_FadingCorr.R | 15 Luminescence-0.9.25/Luminescence/R/calc_FastRatio.R | 72 - Luminescence-0.9.25/Luminescence/R/calc_FiniteMixture.R | 62 Luminescence-0.9.25/Luminescence/R/calc_FuchsLang2001.R | 2 Luminescence-0.9.25/Luminescence/R/calc_Huntley2006.R | 67 Luminescence-0.9.25/Luminescence/R/calc_Lamothe2003.R | 13 Luminescence-0.9.25/Luminescence/R/calc_MinDose.R | 96 - Luminescence-0.9.25/Luminescence/R/calc_OSLLxTxDecomposed.R | 30 Luminescence-0.9.25/Luminescence/R/calc_Statistics.R | 5 Luminescence-0.9.25/Luminescence/R/calc_TLLxTxRatio.R | 1 Luminescence-0.9.25/Luminescence/R/calc_ThermalLifetime.R | 27 Luminescence-0.9.25/Luminescence/R/calc_WodaFuchs2008.R | 72 - Luminescence-0.9.25/Luminescence/R/calc_gSGC.R | 44 Luminescence-0.9.25/Luminescence/R/calc_gSGC_feldspar.R | 4 Luminescence-0.9.25/Luminescence/R/combine_De_Dr.R | 6 Luminescence-0.9.25/Luminescence/R/convert_Daybreak2CSV.R | 10 Luminescence-0.9.25/Luminescence/R/convert_Wavelength2Energy.R | 3 Luminescence-0.9.25/Luminescence/R/convert_XSYG2CSV.R | 2 Luminescence-0.9.25/Luminescence/R/extract_IrradiationTimes.R | 109 - Luminescence-0.9.25/Luminescence/R/fit_CWCurve.R | 53 Luminescence-0.9.25/Luminescence/R/fit_EmissionSpectra.R | 49 Luminescence-0.9.25/Luminescence/R/fit_LMCurve.R | 70 Luminescence-0.9.25/Luminescence/R/fit_OSLLifeTimes.R | 113 - Luminescence-0.9.25/Luminescence/R/fit_SurfaceExposure.R | 27 Luminescence-0.9.25/Luminescence/R/fit_ThermalQuenching.R | 8 Luminescence-0.9.25/Luminescence/R/get_Layout.R | 5 Luminescence-0.9.25/Luminescence/R/import_Data.R | 5 Luminescence-0.9.25/Luminescence/R/install_DevelopmentVersion.R | 7 Luminescence-0.9.25/Luminescence/R/internal_as.latex.table.R | 26 Luminescence-0.9.25/Luminescence/R/internals_RLum.R | 142 + Luminescence-0.9.25/Luminescence/R/internals_Thermochronometry.R | 149 ++ Luminescence-0.9.25/Luminescence/R/merge_RLum.Analysis.R | 21 Luminescence-0.9.25/Luminescence/R/merge_RLum.Data.Curve.R | 32 Luminescence-0.9.25/Luminescence/R/merge_RLum.R | 10 Luminescence-0.9.25/Luminescence/R/merge_RLum.Results.R | 15 Luminescence-0.9.25/Luminescence/R/merge_Risoe.BINfileData.R | 13 Luminescence-0.9.25/Luminescence/R/methods_RLum.R | 13 Luminescence-0.9.25/Luminescence/R/plot_AbanicoPlot.R | 131 - Luminescence-0.9.25/Luminescence/R/plot_DRCSummary.R | 25 Luminescence-0.9.25/Luminescence/R/plot_DRTResults.R | 23 Luminescence-0.9.25/Luminescence/R/plot_DetPlot.R | 59 Luminescence-0.9.25/Luminescence/R/plot_FilterCombinations.R | 50 Luminescence-0.9.25/Luminescence/R/plot_GrowthCurve.R | 152 -- Luminescence-0.9.25/Luminescence/R/plot_Histogram.R | 53 Luminescence-0.9.25/Luminescence/R/plot_KDE.R | 114 - Luminescence-0.9.25/Luminescence/R/plot_NRt.R | 25 Luminescence-0.9.25/Luminescence/R/plot_RLum.Analysis.R | 106 - Luminescence-0.9.25/Luminescence/R/plot_RLum.Data.Curve.R | 7 Luminescence-0.9.25/Luminescence/R/plot_RLum.Data.Spectrum.R | 89 - Luminescence-0.9.25/Luminescence/R/plot_RLum.R | 2 Luminescence-0.9.25/Luminescence/R/plot_RLum.Results.R | 23 Luminescence-0.9.25/Luminescence/R/plot_RadialPlot.R | 71 Luminescence-0.9.25/Luminescence/R/plot_Risoe.BINfileData.R | 13 Luminescence-0.9.25/Luminescence/R/plot_ViolinPlot.R | 37 Luminescence-0.9.25/Luminescence/R/read_BIN2R.R | 713 ++++----- Luminescence-0.9.25/Luminescence/R/read_Daybreak2R.R | 9 Luminescence-0.9.25/Luminescence/R/read_HeliosOSL2R.R |only Luminescence-0.9.25/Luminescence/R/read_PSL2R.R | 80 - Luminescence-0.9.25/Luminescence/R/read_RF2R.R | 7 Luminescence-0.9.25/Luminescence/R/read_SPE2R.R | 70 Luminescence-0.9.25/Luminescence/R/read_TIFF2R.R | 3 Luminescence-0.9.25/Luminescence/R/read_XSYG2R.R | 123 - Luminescence-0.9.25/Luminescence/R/report_RLum.R | 29 Luminescence-0.9.25/Luminescence/R/scale_GammaDose.R | 4 Luminescence-0.9.25/Luminescence/R/template_DRAC.R | 3 Luminescence-0.9.25/Luminescence/R/use_DRAC.R | 18 Luminescence-0.9.25/Luminescence/R/verify_SingleGrainData.R | 18 Luminescence-0.9.25/Luminescence/R/write_R2BIN.R | 38 Luminescence-0.9.25/Luminescence/R/write_R2TIFF.R | 3 Luminescence-0.9.25/Luminescence/R/write_RLum2CSV.R | 9 Luminescence-0.9.25/Luminescence/R/zzz.R | 2 Luminescence-0.9.25/Luminescence/README.md | 21 Luminescence-0.9.25/Luminescence/build/partial.rdb |binary Luminescence-0.9.25/Luminescence/build/vignette.rds |binary Luminescence-0.9.25/Luminescence/inst/CITATION | 2 Luminescence-0.9.25/Luminescence/inst/extdata/HeliosOSL_Example.osl |only Luminescence-0.9.25/Luminescence/man/Analyse_SAR.OSLdata.Rd | 4 Luminescence-0.9.25/Luminescence/man/CW2pHMi.Rd | 2 Luminescence-0.9.25/Luminescence/man/CW2pLM.Rd | 2 Luminescence-0.9.25/Luminescence/man/CW2pLMi.Rd | 2 Luminescence-0.9.25/Luminescence/man/CW2pPMi.Rd | 2 Luminescence-0.9.25/Luminescence/man/GitHub-API.Rd | 2 Luminescence-0.9.25/Luminescence/man/Luminescence-package.Rd | 5 Luminescence-0.9.25/Luminescence/man/PSL2Risoe.BINfileData.Rd | 8 Luminescence-0.9.25/Luminescence/man/RLum-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/RLum.Analysis-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/RLum.Data.Curve-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/RLum.Data.Image-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/RLum.Data.Spectrum-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/RLum.Results-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/Risoe.BINfileData-class.Rd | 2 Luminescence-0.9.25/Luminescence/man/Risoe.BINfileData2RLum.Analysis.Rd | 4 Luminescence-0.9.25/Luminescence/man/Second2Gray.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_Al2O3C_CrossTalk.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_Al2O3C_ITC.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_Al2O3C_Measurement.Rd | 6 Luminescence-0.9.25/Luminescence/man/analyse_FadingMeasurement.Rd | 7 Luminescence-0.9.25/Luminescence/man/analyse_IRSAR.RF.Rd | 6 Luminescence-0.9.25/Luminescence/man/analyse_SAR.CWOSL.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_SAR.TL.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_baSAR.Rd | 6 Luminescence-0.9.25/Luminescence/man/analyse_pIRIRSequence.Rd | 2 Luminescence-0.9.25/Luminescence/man/analyse_portableOSL.Rd | 4 Luminescence-0.9.25/Luminescence/man/apply_CosmicRayRemoval.Rd | 4 Luminescence-0.9.25/Luminescence/man/apply_EfficiencyCorrection.Rd | 2 Luminescence-0.9.25/Luminescence/man/bin_RLum.Data.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_AliquotSize.Rd | 4 Luminescence-0.9.25/Luminescence/man/calc_AverageDose.Rd | 4 Luminescence-0.9.25/Luminescence/man/calc_CentralDose.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_CobbleDoseRate.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_CommonDose.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_CosmicDoseRate.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_FadingCorr.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_FastRatio.Rd | 10 Luminescence-0.9.25/Luminescence/man/calc_FiniteMixture.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_FuchsLang2001.Rd | 4 Luminescence-0.9.25/Luminescence/man/calc_HomogeneityTest.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_Huntley2006.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_IEU.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_Kars2008.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_Lamothe2003.Rd | 4 Luminescence-0.9.25/Luminescence/man/calc_MaxDose.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_MinDose.Rd | 13 Luminescence-0.9.25/Luminescence/man/calc_OSLLxTxDecomposed.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_OSLLxTxRatio.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_SourceDoseRate.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_Statistics.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_TLLxTxRatio.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_ThermalLifetime.Rd | 2 Luminescence-0.9.25/Luminescence/man/calc_WodaFuchs2008.Rd | 8 Luminescence-0.9.25/Luminescence/man/calc_gSGC.Rd | 4 Luminescence-0.9.25/Luminescence/man/calc_gSGC_feldspar.Rd | 2 Luminescence-0.9.25/Luminescence/man/combine_De_Dr.Rd | 4 Luminescence-0.9.25/Luminescence/man/convert_Activity2Concentration.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_BIN2CSV.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_Concentration2DoseRate.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_Daybreak2CSV.Rd | 4 Luminescence-0.9.25/Luminescence/man/convert_PSL2CSV.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_RLum2Risoe.BINfileData.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_SG2MG.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_Wavelength2Energy.Rd | 2 Luminescence-0.9.25/Luminescence/man/convert_XSYG2CSV.Rd | 2 Luminescence-0.9.25/Luminescence/man/extract_IrradiationTimes.Rd | 12 Luminescence-0.9.25/Luminescence/man/extract_ROI.Rd | 2 Luminescence-0.9.25/Luminescence/man/fit_CWCurve.Rd | 15 Luminescence-0.9.25/Luminescence/man/fit_EmissionSpectra.Rd | 2 Luminescence-0.9.25/Luminescence/man/fit_LMCurve.Rd | 2 Luminescence-0.9.25/Luminescence/man/fit_OSLLifeTimes.Rd | 5 Luminescence-0.9.25/Luminescence/man/fit_SurfaceExposure.Rd | 2 Luminescence-0.9.25/Luminescence/man/fit_ThermalQuenching.Rd | 2 Luminescence-0.9.25/Luminescence/man/get_Layout.Rd | 2 Luminescence-0.9.25/Luminescence/man/get_Quote.Rd | 2 Luminescence-0.9.25/Luminescence/man/get_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/get_Risoe.BINfileData.Rd | 2 Luminescence-0.9.25/Luminescence/man/get_rightAnswer.Rd | 2 Luminescence-0.9.25/Luminescence/man/import_Data.Rd | 4 Luminescence-0.9.25/Luminescence/man/length_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/merge_RLum.Analysis.Rd | 6 Luminescence-0.9.25/Luminescence/man/merge_RLum.Data.Curve.Rd | 2 Luminescence-0.9.25/Luminescence/man/merge_RLum.Rd | 6 Luminescence-0.9.25/Luminescence/man/merge_RLum.Results.Rd | 2 Luminescence-0.9.25/Luminescence/man/merge_Risoe.BINfileData.Rd | 2 Luminescence-0.9.25/Luminescence/man/methods_RLum.Rd | 7 Luminescence-0.9.25/Luminescence/man/names_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_AbanicoPlot.Rd | 13 Luminescence-0.9.25/Luminescence/man/plot_DRCSummary.Rd | 4 Luminescence-0.9.25/Luminescence/man/plot_DRTResults.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_DetPlot.Rd | 5 Luminescence-0.9.25/Luminescence/man/plot_FilterCombinations.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_GrowthCurve.Rd | 9 Luminescence-0.9.25/Luminescence/man/plot_Histogram.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_KDE.Rd | 9 Luminescence-0.9.25/Luminescence/man/plot_NRt.Rd | 6 Luminescence-0.9.25/Luminescence/man/plot_OSLAgeSummary.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_RLum.Analysis.Rd | 9 Luminescence-0.9.25/Luminescence/man/plot_RLum.Data.Curve.Rd | 8 Luminescence-0.9.25/Luminescence/man/plot_RLum.Data.Image.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_RLum.Data.Spectrum.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_RLum.Results.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_ROI.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_RadialPlot.Rd | 7 Luminescence-0.9.25/Luminescence/man/plot_Risoe.BINfileData.Rd | 2 Luminescence-0.9.25/Luminescence/man/plot_ViolinPlot.Rd | 9 Luminescence-0.9.25/Luminescence/man/read_BIN2R.Rd | 10 Luminescence-0.9.25/Luminescence/man/read_Daybreak2R.Rd | 2 Luminescence-0.9.25/Luminescence/man/read_HeliosOSL2R.Rd |only Luminescence-0.9.25/Luminescence/man/read_PSL2R.Rd | 15 Luminescence-0.9.25/Luminescence/man/read_RF2R.Rd | 2 Luminescence-0.9.25/Luminescence/man/read_SPE2R.Rd | 8 Luminescence-0.9.25/Luminescence/man/read_TIFF2R.Rd | 2 Luminescence-0.9.25/Luminescence/man/read_XSYG2R.Rd | 12 Luminescence-0.9.25/Luminescence/man/replicate_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/report_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/sTeve.Rd | 2 Luminescence-0.9.25/Luminescence/man/scale_GammaDose.Rd | 6 Luminescence-0.9.25/Luminescence/man/set_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/set_Risoe.BINfileData.Rd | 2 Luminescence-0.9.25/Luminescence/man/smooth_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/structure_RLum.Rd | 2 Luminescence-0.9.25/Luminescence/man/subset_SingleGrainData.Rd | 2 Luminescence-0.9.25/Luminescence/man/template_DRAC.Rd | 2 Luminescence-0.9.25/Luminescence/man/trim_RLum.Data.Rd | 2 Luminescence-0.9.25/Luminescence/man/tune_Data.Rd | 2 Luminescence-0.9.25/Luminescence/man/use_DRAC.Rd | 2 Luminescence-0.9.25/Luminescence/man/verify_SingleGrainData.Rd | 14 Luminescence-0.9.25/Luminescence/man/write_R2BIN.Rd | 12 Luminescence-0.9.25/Luminescence/man/write_R2TIFF.Rd | 2 Luminescence-0.9.25/Luminescence/man/write_RLum2CSV.Rd | 2 Luminescence-0.9.25/Luminescence/tests/testthat/_data |only Luminescence-0.9.25/Luminescence/tests/testthat/test_Analyse_SAROSLdata.R | 5 Luminescence-0.9.25/Luminescence/tests/testthat/test_CW2pX.R | 2 Luminescence-0.9.25/Luminescence/tests/testthat/test_PSL2RisoeBINfiledata.R | 17 Luminescence-0.9.25/Luminescence/tests/testthat/test_RLum.Analysis-class.R | 174 ++ Luminescence-0.9.25/Luminescence/tests/testthat/test_RLum.Data.Curve.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_RLum.Data.Image.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_RLum.Data.Spectrum.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_RLum.Results-class.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_Risoe.BINfileData2RLum.Analysis.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_Risoe.BINfileData2RLum.Data.Curve.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_RisoeBINfileData-class.R | 20 Luminescence-0.9.25/Luminescence/tests/testthat/test_Second2Gray.R | 24 Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_Al2O3C_CrossTalk.R | 40 Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_Al2O3C_ITC.R | 54 Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_Al2O3C_Measurement.R | 84 - Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_FadingMeasurement.R | 57 Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_IRSAR.RF.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_SAR.CWOSL.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_SAR.TL.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_baSAR.R | 220 ++- Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_pIRIRSequence.R | 59 Luminescence-0.9.25/Luminescence/tests/testthat/test_analyse_portableOSL.R | 72 - Luminescence-0.9.25/Luminescence/tests/testthat/test_apply_CosmicRayRemoval.R | 8 Luminescence-0.9.25/Luminescence/tests/testthat/test_apply_EfficiencyCorrection.R | 7 Luminescence-0.9.25/Luminescence/tests/testthat/test_as_latex_table.R | 37 Luminescence-0.9.25/Luminescence/tests/testthat/test_bin_RLumData.R | 2 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_AliquotSize.R | 34 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_AverageDose.R | 32 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_CentralDose.R | 14 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_CobbleDoseRate.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_CommonDose.R | 31 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_CosmicDoseRate.R | 52 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_FadingCorr.R | 27 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_FastRatio.R | 67 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_FiniteMixture.R | 30 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_FuchsLang2001.R | 12 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_HomogeneityTest.R | 14 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_Huntley2006.R | 78 - Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_IEU.R | 12 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_Lamothe2003.R | 59 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_MaxDose.R | 4 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_MinDose.R | 55 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_OSLLxTxDecomposed.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_OSLLxTxRatio.R | 8 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_SourceDoseRate.R | 3 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_Statistics.R | 19 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_TLLxTxRatio.R | 8 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_ThermalLifetime.R | 26 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_WodaFuchs2008.R | 50 Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_gSGC.R | 85 - Luminescence-0.9.25/Luminescence/tests/testthat/test_calc_gSGC_feldspar.R | 21 Luminescence-0.9.25/Luminescence/tests/testthat/test_combine_De_Dr.R | 34 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_Activity2Concentration.R | 15 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_Concentration2DoseRate.R | 3 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_Daybreak2CSV.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_PSL2CSV.R | 3 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_RLum2Risoe.BINfileData.R | 14 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_SG2MG.R | 12 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_Wavelength2Energy.R | 8 Luminescence-0.9.25/Luminescence/tests/testthat/test_convert_XSYG2CSV.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_extract_IrradiationTimes.R | 50 Luminescence-0.9.25/Luminescence/tests/testthat/test_extract_ROI.R | 2 Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_CWCurve.R | 67 Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_EmissionSpectra.R | 42 Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_LMCurve.R | 83 - Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_OSLLifeTimes.R | 102 + Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_SurfaceExposure.R | 74 - Luminescence-0.9.25/Luminescence/tests/testthat/test_fit_ThermalQuenching.R | 13 Luminescence-0.9.25/Luminescence/tests/testthat/test_get_Layout.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_get_RLum.R | 14 Luminescence-0.9.25/Luminescence/tests/testthat/test_github.R | 5 Luminescence-0.9.25/Luminescence/tests/testthat/test_import_Data.R | 8 Luminescence-0.9.25/Luminescence/tests/testthat/test_internals.R | 121 + Luminescence-0.9.25/Luminescence/tests/testthat/test_merge_RLum.Analysis.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_merge_RLum.Data.Curve.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_merge_RLum.R | 18 Luminescence-0.9.25/Luminescence/tests/testthat/test_merge_RLum.Results.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_merge_Risoe.BINfileData.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_methods_DRAC.R | 13 Luminescence-0.9.25/Luminescence/tests/testthat/test_methods_S3.R | 158 +- Luminescence-0.9.25/Luminescence/tests/testthat/test_names_RLum.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_AbanicoPlot.R | 89 + Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_DRCSummary.R | 57 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_DRTResults.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_DetPlot.R | 89 + Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_FilterCombinations.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_Functions.R | 45 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_GrowthCurve.R | 147 +- Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_Histogram.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_KDE.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_NRt.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_OSLAgeSummary.R | 5 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.Analysis.R | 95 - Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.Data.Curve.R | 11 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.Data.Image.R | 7 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.Data.Spectrum.R | 52 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RLum.Results.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_ROI.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_RadialPlot.R | 95 + Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_Risoe.BINfileData.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_plot_ViolinPlot.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_read_BIN2R.R | 211 +- Luminescence-0.9.25/Luminescence/tests/testthat/test_read_Daybreak2R.R | 75 - Luminescence-0.9.25/Luminescence/tests/testthat/test_read_HeliosOSL2R.R |only Luminescence-0.9.25/Luminescence/tests/testthat/test_read_PSL2R.R | 31 Luminescence-0.9.25/Luminescence/tests/testthat/test_read_RF2R.R | 20 Luminescence-0.9.25/Luminescence/tests/testthat/test_read_SPE2R.R | 69 Luminescence-0.9.25/Luminescence/tests/testthat/test_read_TIFF2R.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_read_XSYG2R.R | 76 - Luminescence-0.9.25/Luminescence/tests/testthat/test_replicate_RLum.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_report_RLum.R | 17 Luminescence-0.9.25/Luminescence/tests/testthat/test_scale_GammaDose.R | 12 Luminescence-0.9.25/Luminescence/tests/testthat/test_smooth_RLum.R | 2 Luminescence-0.9.25/Luminescence/tests/testthat/test_structure_RLum.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_subset_RLum.R | 12 Luminescence-0.9.25/Luminescence/tests/testthat/test_subset_SingleGrainData.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_template_DRAC.R | 20 Luminescence-0.9.25/Luminescence/tests/testthat/test_trim_RLum.Data.R | 10 Luminescence-0.9.25/Luminescence/tests/testthat/test_use_DRAC.R | 31 Luminescence-0.9.25/Luminescence/tests/testthat/test_verify_SingleGrainData.R | 49 Luminescence-0.9.25/Luminescence/tests/testthat/test_write_R2BIN.R | 72 - Luminescence-0.9.25/Luminescence/tests/testthat/test_write_R2TIFF.R | 1 Luminescence-0.9.25/Luminescence/tests/testthat/test_write_RLum2CSV.R | 27 Luminescence-0.9.25/Luminescence/tests/testthat/test_zzz.R | 7 375 files changed, 6085 insertions(+), 4646 deletions(-)
Title: Analytics & Machine Learning Sidekick
Description: Auxiliary package for better/faster analytics, visualization, data mining, and machine
learning tasks. With a wide variety of family functions, like Machine Learning, Data Wrangling,
MMM, Exploratory, API, and Scrapper, it helps the analyst or data scientist to get quick and
robust results, without the need of repetitive coding or advanced R programming skills.
Author: Bernardo Lares [aut, cre]
Maintainer: Bernardo Lares <laresbernardo@gmail.com>
Diff between lares versions 5.2.8 dated 2024-06-11 and 5.2.9 dated 2024-09-12
DESCRIPTION | 16 MD5 | 514 +++---- NAMESPACE | 1077 ++++++++-------- R/apis.R | 68 - R/audio.R | 359 ++--- R/cache.R | 326 ++-- R/chatgpt.R | 938 ++++++------- R/checks.R | 304 ++-- R/clusters.R | 694 +++++----- R/colour_palettes.R | 394 ++--- R/confidence.R | 172 +- R/correlations.R | 1116 ++++++++-------- R/cran.R | 176 +- R/credentials.R | 196 +- R/crosstab.R | 202 +-- R/currency.R | 146 +- R/dalex_explainers.R | 441 +++--- R/dataframe_str.R | 462 +++--- R/datasets.R | 160 +- R/dim_reduction.R | 336 ++--- R/distribution.R | 950 +++++++------- R/dropbox.R | 246 +-- R/encoding.R | 44 R/facebook.R | 1528 +++++++++++----------- R/forecasting.R | 710 +++++----- R/frequencies.R | 1724 ++++++++++++------------- R/gemini.R | 166 +- R/geodata.R | 524 +++---- R/google_analytics.R | 130 - R/google_sheets.R | 258 +-- R/google_trends.R | 380 ++--- R/hubspot.R | 398 ++--- R/hubspot_f1.R | 502 +++---- R/lares.R | 300 ++-- R/lasso.R | 262 +-- R/linkedin.R | 114 - R/logo.R | 98 - R/mails.R | 190 +- R/maze.R | 669 ++++----- R/missings.R | 260 +-- R/model_functions.R | 1954 ++++++++++++++--------------- R/model_metrics.R | 1232 +++++++++--------- R/model_plots.R | 2928 +++++++++++++++++++++---------------------- R/model_predict.R | 326 ++-- R/model_preprocessing.R | 490 +++---- R/numble.R | 54 R/object_detection.R | 120 - R/onehotencoding.R | 1050 +++++++-------- R/other_functions.R | 2264 ++++++++++++++++----------------- R/other_plots.R | 548 ++++---- R/outliers.R | 358 ++--- R/plot_scales.R | 224 +-- R/querieSQL.R | 64 R/robyn.R | 1169 +++++++++-------- R/rtistry.R | 96 - R/scrabble.R | 959 +++++++------- R/shapley.R | 538 ++++---- R/shiny.R | 2 R/slack.R | 92 - R/statusbar.R | 158 +- R/stocks.R | 3016 ++++++++++++++++++++++----------------------- R/sudoku.R | 178 +- R/surveys.R | 84 - R/text_mining.R | 1124 ++++++++-------- R/theme_lares.R | 818 ++++++------ R/tictoc.R | 188 +- R/trees.R | 297 ++-- R/twitter.R | 56 R/typeform.R | 98 - R/update.R | 74 - R/wordle.R | 596 ++++---- R/wrangling.R | 1722 ++++++++++++------------- R/x2y.R | 736 +++++----- R/zzz.R | 198 +- README.md | 146 +- inst/_pkgdown.yml | 20 inst/docs/config.yml | 28 inst/docs/stocksReport.Rmd | 160 +- man/ROC.Rd | 132 - man/autoline.Rd | 154 +- man/balance_data.Rd | 126 - man/bind_files.Rd | 114 - man/bring_api.Rd | 154 +- man/cache_write.Rd | 160 +- man/categ_reducer.Rd | 172 +- man/checks.Rd | 144 +- man/chr2num.Rd | 142 +- man/ci_lower.Rd | 74 - man/ci_var.Rd | 72 - man/clean_text.Rd | 214 +-- man/clusterKmeans.Rd | 236 +-- man/clusterOptimalK.Rd | 116 - man/clusterVisualK.Rd | 86 - man/conf_mat.Rd | 144 +- man/corr.Rd | 208 +-- man/corr_cross.Rd | 218 +-- man/corr_var.Rd | 230 +-- man/cran_logs.Rd | 74 - man/crosstab.Rd | 146 +- man/dalex_local.Rd | 64 man/dalex_residuals.Rd | 48 man/dalex_variable.Rd | 88 - man/date_cuts.Rd | 102 - man/date_feats.Rd | 206 +-- man/db_download.Rd | 212 +-- man/db_upload.Rd | 174 +- man/df_str.Rd | 122 - man/dfr.Rd | 70 - man/dft.Rd | 98 - man/dist2d.Rd | 70 - man/distr.Rd | 268 +-- man/errors.Rd | 132 - man/etf_sector.Rd | 68 - man/export_plot.Rd | 180 +- man/export_results.Rd | 196 +- man/fb_accounts.Rd | 144 +- man/fb_ads.Rd | 174 +- man/fb_creatives.Rd | 134 - man/fb_insights.Rd | 294 ++-- man/fb_process.Rd | 114 - man/fb_report_check.Rd | 150 +- man/fb_rf.Rd | 306 ++-- man/fb_token.Rd | 116 - man/file_name.Rd | 156 +- man/filesGD.Rd | 86 - man/files_functions.Rd | 148 +- man/filterdata.Rd | 246 +-- man/font_exists.Rd | 138 +- man/forecast_arima.Rd | 162 +- man/formatColoured.Rd | 144 +- man/format_string.Rd | 322 ++-- man/freqs.Rd | 272 ++-- man/freqs_df.Rd | 178 +- man/freqs_list.Rd | 258 +-- man/freqs_plot.Rd | 180 +- man/gain_lift.Rd | 142 +- man/gemini_ask.Rd | 200 +- man/get_credentials.Rd | 268 +-- man/get_currency.Rd | 88 - man/get_mp3.Rd | 174 +- man/get_tweets.Rd | 68 - man/gg_fill_customs.Rd | 162 +- man/glued.Rd | 192 +- man/google_sheets.Rd | 174 +- man/google_trends.Rd | 106 - man/gpt_ask.Rd | 354 ++--- man/gpt_prompter.Rd | 276 ++-- man/grepl_letters.Rd | 68 - man/grepm.Rd | 158 +- man/h2o_automl.Rd | 426 +++--- man/h2o_explainer.Rd | 140 +- man/h2o_results.Rd | 142 +- man/h2o_selectmodel.Rd | 154 +- man/h2o_shap.Rd | 154 +- man/haveInternet.Rd | 118 - man/holidays.Rd | 174 +- man/image_metadata.Rd | 112 - man/importxlsx.Rd | 114 - man/impute.Rd | 140 +- man/install_recommended.Rd | 38 man/ip_data.Rd | 156 +- man/is_url.Rd | 110 - man/iter_seeds.Rd | 84 - man/json2vector.Rd | 122 - man/lares-exports.Rd | 18 man/lares.Rd | 44 man/lares_logo.Rd | 36 man/lares_pal.Rd | 114 - man/lasso_vars.Rd | 188 +- man/left_right.Rd | 106 - man/li_auth.Rd | 88 - man/li_profile.Rd | 78 - man/list_cats.Rd | 134 - man/listfiles.Rd | 152 +- man/loglossBinary.Rd | 58 man/mail_send.Rd | 218 +-- man/markdown2df.Rd | 120 - man/maze_solve.Rd | 182 +- man/missingness.Rd | 140 +- man/model_metrics.Rd | 248 +-- man/model_preprocess.Rd | 230 +-- man/move_files.Rd | 120 - man/mplot_conf.Rd | 180 +- man/mplot_cuts.Rd | 134 - man/mplot_cuts_error.Rd | 128 - man/mplot_density.Rd | 138 +- man/mplot_full.Rd | 188 +- man/mplot_gain.Rd | 192 +- man/mplot_importance.Rd | 164 +- man/mplot_lineal.Rd | 118 - man/mplot_metrics.Rd | 104 - man/mplot_response.Rd | 186 +- man/mplot_roc.Rd | 174 +- man/mplot_splits.Rd | 158 +- man/mplot_topcats.Rd | 98 - man/msplit.Rd | 172 +- man/myip.Rd | 116 - man/ngrams.Rd | 98 - man/noPlot.Rd | 82 - man/normalize.Rd | 102 - man/num_abbr.Rd | 114 - man/ohe_commas.Rd | 140 +- man/ohse.Rd | 248 +-- man/outlier_turkey.Rd | 60 man/outlier_zscore.Rd | 68 - man/outlier_zscore_plot.Rd | 86 - man/plot_cats.Rd | 72 - man/plot_chord.Rd | 110 - man/plot_df.Rd | 72 - man/plot_nums.Rd | 80 - man/plot_palette.Rd | 82 - man/plot_survey.Rd | 74 - man/plot_timeline.Rd | 182 +- man/prophesize.Rd | 104 - man/quants.Rd | 132 - man/queryDB.Rd | 72 - man/queryGA.Rd | 160 +- man/quiet.Rd | 118 - man/read.file.Rd | 128 - man/reduce_pca.Rd | 128 - man/reduce_tsne.Rd | 102 - man/remove_stopwords.Rd | 82 - man/replaceall.Rd | 182 +- man/replacefactor.Rd | 114 - man/robyn_hypsbuilder.Rd | 124 - man/robyn_modelselector.Rd | 164 +- man/robyn_performance.Rd | 119 - man/rtistry_sphere.Rd | 36 man/scale_x_comma.Rd | 208 +-- man/scrabble.Rd | 310 ++-- man/sentimentBreakdown.Rd | 110 - man/shap_var.Rd | 118 - man/slackSend.Rd | 124 - man/spread_list.Rd | 82 - man/statusbar.Rd | 182 +- man/stocks_hist.Rd | 170 +- man/stocks_report.Rd | 334 ++-- man/sudoku_solver.Rd | 96 - man/target_set.Rd | 56 man/textCloud.Rd | 112 - man/textFeats.Rd | 134 - man/textTokenizer.Rd | 204 +-- man/theme_lares.Rd | 206 +-- man/tic.Rd | 200 +- man/topics_rake.Rd | 72 - man/tree_var.Rd | 270 +--- man/trim_mp3.Rd | 72 - man/try_require.Rd | 148 +- man/updateLares.Rd | 130 - man/vector2text.Rd | 132 - man/warnifnot.Rd | 118 - man/weighted_value.Rd | 102 - man/what_size.Rd | 146 +- man/winsorize.Rd | 64 man/wordle.Rd | 156 +- man/x2y.Rd | 256 +-- man/year_month.Rd | 110 - man/zerovar.Rd | 98 - 258 files changed, 33920 insertions(+), 33824 deletions(-)
Title: Generalized Additive Models
Description: Functions for fitting and working with generalized additive models, as described in chapter 7 of "Statistical Models in S" (Chambers and Hastie (eds), 1991), and "Generalized Additive Models" (Hastie and Tibshirani, 1990).
Author: Trevor Hastie [aut, cre],
Balasubramanian Narasimhan [ctb]
Maintainer: Trevor Hastie <hastie@stanford.edu>
Diff between gam versions 1.22-4 dated 2024-07-18 and 1.22-5 dated 2024-09-12
ChangeLog | 14 +++++++++++--- DESCRIPTION | 21 +++++++++++++-------- MD5 | 6 +++--- src/loessc.c | 12 ++++++------ 4 files changed, 33 insertions(+), 20 deletions(-)
Title: Dynamic Web-Based Analytics for the Energy Industry
Description: A 'Shiny' web application for energy industry analytics.
Take an overview of the industry, measure Key Performance Indicators,
identify changes in the industry over time, and discover new relationships in the data.
Author: Paul Govan [aut, cre, cph]
Maintainer: Paul Govan <paul.govan2@gmail.com>
Diff between eAnalytics versions 0.3 dated 2023-06-26 and 0.3.1 dated 2024-09-12
DESCRIPTION | 16 ++++++++-------- MD5 | 7 ++++--- NEWS.md | 2 -- README.md | 14 ++++++++++---- inst/CITATION |only 5 files changed, 22 insertions(+), 17 deletions(-)
Title: Analysis and Visualization of Macroevolutionary Dynamics on
Phylogenetic Trees
Description: Provides functions for analyzing and visualizing complex
macroevolutionary dynamics on phylogenetic trees. It is a companion
package to the command line program BAMM (Bayesian Analysis of
Macroevolutionary Mixtures) and is entirely oriented towards the analysis,
interpretation, and visualization of evolutionary rates. Functionality
includes visualization of rate shifts on phylogenies, estimating
evolutionary rates through time, comparing posterior distributions of
evolutionary rates across clades, comparing diversification models using
Bayes factors, and more.
Author: Dan Rabosky [aut],
Michael Grundler [aut],
Pascal Title [aut, cre] ,
Carlos Anderson [aut],
Jeff Shi [aut],
Joseph Brown [aut],
Huateng Huang [aut],
Jon Mitchell [aut]
Maintainer: Pascal Title <ptitle@umich.edu>
Diff between BAMMtools versions 2.1.11 dated 2023-12-19 and 2.1.12 dated 2024-09-12
DESCRIPTION | 29 ++++++++++++++++++++++------- MD5 | 14 +++++++------- R/BAMMtools-package.R | 3 +-- R/cohorts.R | 2 +- man/BAMMtools.Rd | 8 ++++++++ man/cohorts.Rd | 2 +- src/jenksBrks.c | 17 +++++++++-------- src/treetraverse.c | 40 ++++++++++++++++++++-------------------- 8 files changed, 69 insertions(+), 46 deletions(-)
Title: Conducts Analyses Informing Ecosystem Restoration Decisions
Description: Three sets of data and functions for informing ecosystem restoration
decisions, particularly in the context of the U.S. Army Corps of Engineers.
First, model parameters are compiled as a data set and associated metadata
for over 300 habitat suitability models developed by the U.S. Fish and
Wildlife Service (USFWS 1980, <https://www.fws.gov/policy-library/870fw1>).
Second, functions for conducting habitat suitability analyses both for the
models described above as well as generic user-specified model parameterizations.
Third, a suite of decision support tools for conducting cost-effectiveness and
incremental cost analyses (Robinson et al. 1995, IWR Report 95-R-1, U.S.
Army Corps of Engineers).
Author: S. Kyle McKay [aut, cre] ,
Darixa D. Hernandez-Abrams [aut],
Kiara C. Cushway [aut]
Maintainer: S. Kyle McKay <kyle.mckay@usace.army.mil>
Diff between ecorest versions 1.0.0 dated 2020-06-26 and 2.0.0 dated 2024-09-12
DESCRIPTION | 30 ++++---- MD5 | 24 +++--- NAMESPACE | 2 R/HSIeqtn.R | 135 +++++++++++++++++++++++++++--------- R/HSImetadata.R | 38 +++++++++- R/HSImodels.R | 11 +- R/SIcalc.R | 3 data/HSImetadata.RData |binary data/HSImodels.RData |binary man/HSIeqtn.Rd | 24 +++++- man/HSImetadata.Rd | 182 ++++++++++++++++++++++++++++--------------------- man/HSImodels.Rd | 65 +++++++++-------- man/SIcalc.Rd | 3 13 files changed, 341 insertions(+), 176 deletions(-)
Title: Statistical Tools for Ranks
Description: Account for uncertainty when working with ranks.
Estimate standard errors consistently in linear regression with ranked variables.
Construct confidence sets of various kinds for positions of populations in a ranking
based on values of a certain feature and their estimation errors.
Theory based on Mogstad, Romano, Shaikh, and Wilhelm (2023)<doi:10.1093/restud/rdad006> and
Chetverikov and Wilhelm (2023) <doi:10.48550/arXiv.2310.15512>.
Author: Daniel Wilhelm [aut, cre],
Pawel Morgen [aut]
Maintainer: Daniel Wilhelm <d.wilhelm@lmu.de>
Diff between csranks versions 1.2.2 dated 2024-01-24 and 1.2.3 dated 2024-09-12
csranks-1.2.2/csranks/tests/spelling.Rout.save |only csranks-1.2.3/csranks/DESCRIPTION | 10 csranks-1.2.3/csranks/MD5 | 57 +-- csranks-1.2.3/csranks/NAMESPACE | 3 csranks-1.2.3/csranks/NEWS.md | 12 csranks-1.2.3/csranks/R/data.R | 4 csranks-1.2.3/csranks/R/lmranks.R | 2 csranks-1.2.3/csranks/R/lmranks_model_selection.R | 15 csranks-1.2.3/csranks/R/lmranks_model_usage.R | 2 csranks-1.2.3/csranks/R/lmranks_summary.R | 21 - csranks-1.2.3/csranks/R/plotranking.R | 3 csranks-1.2.3/csranks/R/rank_utils.R | 40 +- csranks-1.2.3/csranks/R/ranks.R | 6 csranks-1.2.3/csranks/build/partial.rdb |binary csranks-1.2.3/csranks/build/vignette.rds |binary csranks-1.2.3/csranks/inst/doc/Inference-for-Ranks.html | 17 csranks-1.2.3/csranks/inst/doc/Inference-for-Ranks.rmd | 2 csranks-1.2.3/csranks/inst/doc/Rank-Rank-Reg.html | 188 ++++------ csranks-1.2.3/csranks/inst/doc/Rank-Rank-Reg.rmd | 2 csranks-1.2.3/csranks/man/csranks.Rd | 6 csranks-1.2.3/csranks/man/cstaubest.Rd | 2 csranks-1.2.3/csranks/man/irank.Rd | 15 csranks-1.2.3/csranks/man/irank_against.Rd | 36 + csranks-1.2.3/csranks/man/lmranks.Rd | 16 csranks-1.2.3/csranks/man/pisa.Rd | 2 csranks-1.2.3/csranks/man/pisa2018.Rd | 2 csranks-1.2.3/csranks/tests/testthat/test_grouped_lmranks_vcov.R | 8 csranks-1.2.3/csranks/tests/testthat/test_lmranks_vcov.R | 8 csranks-1.2.3/csranks/vignettes/Inference-for-Ranks.rmd | 2 csranks-1.2.3/csranks/vignettes/Rank-Rank-Reg.rmd | 2 30 files changed, 272 insertions(+), 211 deletions(-)
Title: "Risk Model Regression and Analysis with Complex Non-Linear
Models"
Description: Performs survival analysis using general non-linear models. Risk models can be the sum or product of terms. Each term is the product of exponential/linear functions of covariates. Additionally sub-terms can be defined as a sum of exponential, linear threshold, and step functions. Cox Proportional hazards <https://en.wikipedia.org/wiki/Proportional_hazards_model>, Poisson <https://en.wikipedia.org/wiki/Poisson_regression>, and Fine-Grey competing risks <https://www.publichealth.columbia.edu/research/population-health-methods/competing-risk-analysis> regression are supported. This work was sponsored by NASA Grant 80NSSC19M0161 through a subcontract from the National Council on Radiation Protection and Measurements (NCRP). The computing for this project was performed on the Beocat Research Cluster at Kansas State University, which is funded in part by NSF grants CNS-1006860, EPS-1006860, EPS-0919443, ACI-1440548, CHE-1726332, and NIH P20GM113109.
Author: Eric Giunta [aut, cre] ,
Amir Bahadori [ctb] ,
Dan Andresen [ctb],
Linda Walsh [ctb] ,
Benjamin French [ctb] ,
Lawrence Dauer [ctb],
John Boice Jr [ctb] ,
Kansas State University [cph],
NASA [fnd],
NCRP [fnd],
NRC [fnd]
Maintainer: Eric Giunta <egiunta@ksu.edu>
Diff between Colossus versions 1.1.3 dated 2024-09-06 and 1.1.3.1 dated 2024-09-12
DESCRIPTION | 6 - MD5 | 48 ++++---- NEWS.md | 4 README.md | 2 inst/doc/Alt_Distrib_Starts.Rmd | 8 - inst/doc/Alt_Distrib_Starts.html | 8 - inst/doc/Alt_Run_Opt.R | 12 ++ inst/doc/Alt_Run_Opt.Rmd | 28 +++- inst/doc/Alt_Run_Opt.html | 36 ++++-- inst/doc/Control_Options.Rmd | 7 + inst/doc/Control_Options.html | 214 ++++++++++++++++++++++++++++++------ inst/doc/Plotting_And_Analysis.Rmd | 2 inst/doc/Plotting_And_Analysis.html | 2 inst/doc/Starting-Description.R | 2 inst/doc/Starting-Description.Rmd | 20 +-- inst/doc/Starting-Description.html | 20 +-- src/R_Interface.cpp | 1 tests/testthat/test-multidose.R | 14 +- tests/testthat/test-omnibus.R | 8 + tools/config/configure.R | 4 vignettes/Alt_Distrib_Starts.Rmd | 8 - vignettes/Alt_Run_Opt.Rmd | 28 +++- vignettes/Control_Options.Rmd | 7 + vignettes/Plotting_And_Analysis.Rmd | 2 vignettes/Starting-Description.Rmd | 20 +-- 25 files changed, 376 insertions(+), 135 deletions(-)
Title: Ensembles of Caret Models
Description: Functions for creating ensembles of caret models: caretList()
and caretStack(). caretList() is a convenience function for fitting multiple
caret::train() models to the same dataset. caretStack() will make linear or
non-linear combinations of these models, using a caret::train() model as a
meta-model.
Author: Zachary A. Deane-Mayer [aut, cre, cph],
Jared E. Knowles [ctb],
Anton Lopez [ctb]
Maintainer: Zachary A. Deane-Mayer <zach.mayer@gmail.com>
Diff between caretEnsemble versions 4.0.0 dated 2024-08-17 and 4.0.1 dated 2024-09-12
DESCRIPTION | 12 ++++++------ MD5 | 12 ++++++------ NEWS.md | 3 +++ R/caretStack.R | 2 +- inst/doc/Version-4.0-New-Features.html | 18 +++++++++--------- inst/doc/caretEnsemble-intro.html | 32 ++++++++++++++++---------------- man/autoplot.caretStack.Rd | 2 +- 7 files changed, 42 insertions(+), 39 deletions(-)
Title: Dereplicate and Cherry-Pick Mass Spectrometry Spectra
Description: Convenient wrapper functions for the analysis of
matrix-assisted laser desorption/ionization-time-of-flight (MALDI-TOF)
spectra data in order to select only representative spectra (also
called cherry-pick). The package covers the preprocessing and
dereplication steps (based on Strejcek, Smrhova, Junkova and Uhlik
(2018) <doi:10.3389/fmicb.2018.01294>) needed to cluster MALDI-TOF
spectra before the final cherry-picking step. It enables the easy
exclusion of spectra and/or clusters to accommodate complex
cherry-picking strategies. Alternatively, cherry-picking using
taxonomic identification MALDI-TOF data is made easy with functions to
import inconsistently formatted reports.
Author: Charlie Pauvert [aut, cre, cph]
,
David Wylensek [ctb] ,
Selina Nuechtern [ctb],
Thomas Clavel [ctb, fnd, cph]
Maintainer: Charlie Pauvert <cpauvert@ukaachen.de>
Diff between maldipickr versions 1.3.0 dated 2023-12-14 and 1.3.1 dated 2024-09-12
maldipickr-1.3.0/maldipickr/man/figures/logo.png |only maldipickr-1.3.1/maldipickr/DESCRIPTION | 13 maldipickr-1.3.1/maldipickr/MD5 | 44 +- maldipickr-1.3.1/maldipickr/NAMESPACE | 1 maldipickr-1.3.1/maldipickr/NEWS.md | 28 + maldipickr-1.3.1/maldipickr/R/gather_spectra_stats.R |only maldipickr-1.3.1/maldipickr/R/import_biotyper_spectra.R | 4 maldipickr-1.3.1/maldipickr/R/merge_processed_spectra.R | 21 + maldipickr-1.3.1/maldipickr/README.md | 163 +++------- maldipickr-1.3.1/maldipickr/build/vignette.rds |binary maldipickr-1.3.1/maldipickr/inst/WORDLIST | 17 - maldipickr-1.3.1/maldipickr/inst/doc/dereplicate-bruker-maldi-biotyper-spectra.R | 8 maldipickr-1.3.1/maldipickr/inst/doc/dereplicate-bruker-maldi-biotyper-spectra.Rmd | 8 maldipickr-1.3.1/maldipickr/inst/doc/dereplicate-bruker-maldi-biotyper-spectra.html | 12 maldipickr-1.3.1/maldipickr/inst/doc/import-data-from-bruker-maldi-biotyper.html | 14 maldipickr-1.3.1/maldipickr/inst/doc/maldipickr.R |only maldipickr-1.3.1/maldipickr/inst/doc/maldipickr.Rmd |only maldipickr-1.3.1/maldipickr/inst/doc/maldipickr.html |only maldipickr-1.3.1/maldipickr/man/figures/logo.svg |only maldipickr-1.3.1/maldipickr/man/figures/maldipickr-data-flow-portrait-thumb.png |only maldipickr-1.3.1/maldipickr/man/figures/maldipickr-data-flow-portrait.png |only maldipickr-1.3.1/maldipickr/man/figures/maldipickr-data-flow-portrait.svg |only maldipickr-1.3.1/maldipickr/man/gather_spectra_stats.Rd |only maldipickr-1.3.1/maldipickr/man/maldipickr-package.Rd | 3 maldipickr-1.3.1/maldipickr/man/merge_processed_spectra.Rd | 16 maldipickr-1.3.1/maldipickr/tests/testthat/test-gather_spectra_stats.R |only maldipickr-1.3.1/maldipickr/tests/testthat/test-merge_processed_spectra.R | 8 maldipickr-1.3.1/maldipickr/vignettes/dereplicate-bruker-maldi-biotyper-spectra.Rmd | 8 maldipickr-1.3.1/maldipickr/vignettes/maldipickr.Rmd |only 29 files changed, 218 insertions(+), 150 deletions(-)
Title: Variational Inference for Hierarchical Generalized Linear Models
Description: Estimates hierarchical models using mean-field variational Bayes.
At present, it can estimate logistic, linear, and negative binomial models.
It can accommodate models with an arbitrary number of random effects and
requires no integration to estimate. It also provides the ability to improve
the quality of the approximation using marginal augmentation.
Goplerud (2022) <doi:10.1214/21-BA1266> and Goplerud (2024) <doi:10.1017/S0003055423000035>
provide details on the variational algorithms.
Author: Max Goplerud [aut, cre]
Maintainer: Max Goplerud <mgoplerud@austin.utexas.edu>
Diff between vglmer versions 1.0.3 dated 2022-10-27 and 1.0.5 dated 2024-09-12
vglmer-1.0.3/vglmer/.Rinstignore |only vglmer-1.0.5/vglmer/DESCRIPTION | 18 vglmer-1.0.5/vglmer/MD5 | 37 vglmer-1.0.5/vglmer/NAMESPACE | 8 vglmer-1.0.5/vglmer/NEWS.md | 12 vglmer-1.0.5/vglmer/R/RcppExports.R | 4 vglmer-1.0.5/vglmer/R/mgcv_functions.R |only vglmer-1.0.5/vglmer/R/predict_functions.R | 105 ++ vglmer-1.0.5/vglmer/R/print_functions.R | 2 vglmer-1.0.5/vglmer/R/spline_functions.R | 385 +++++++--- vglmer-1.0.5/vglmer/R/vglmer_regression.R | 92 +- vglmer-1.0.5/vglmer/README.md | 8 vglmer-1.0.5/vglmer/man/LinRegChol.Rd | 4 vglmer-1.0.5/vglmer/man/Predict.matrix.randwalk.smooth.Rd |only vglmer-1.0.5/vglmer/man/fallback_subbars.Rd |only vglmer-1.0.5/vglmer/man/smooth.construct.randwalk.smooth.spec.Rd |only vglmer-1.0.5/vglmer/man/v_s.Rd | 23 vglmer-1.0.5/vglmer/man/vglmer_predict.Rd | 6 vglmer-1.0.5/vglmer/src/eigen_alpha.cpp | 4 vglmer-1.0.5/vglmer/tests/testthat/test-errors.R | 56 + vglmer-1.0.5/vglmer/tests/testthat/test-gKRLS.R |only vglmer-1.0.5/vglmer/tests/testthat/test-predict.R | 25 vglmer-1.0.5/vglmer/tests/testthat/test-splines.R | 85 +- 23 files changed, 654 insertions(+), 220 deletions(-)
Title: Star Trek Color Palettes
Description: Provides a dataset of predefined color palettes based on the Star Trek science fiction series, associated color palette functions,
and additional functions for generating customized palettes that are on theme. The package also offers functions for applying
the palettes to plots made using the 'ggplot2' package.
Author: Matthew Leonawicz [aut, cre]
Maintainer: Matthew Leonawicz <rpkgs@pm.me>
Diff between trekcolors versions 0.1.3 dated 2021-06-01 and 0.2.0 dated 2024-09-12
DESCRIPTION | 16 ++-- MD5 | 51 ++++++------- NEWS.md | 4 + R/lcars.R | 59 ++++++++------- R/trekcolors.R | 30 +++++-- README.md | 97 +++++++++++++----------- inst/WORDLIST | 8 -- man/figures/README-ex2-1.png |binary man/figures/README-ex3-1.png |binary man/figures/README-ex3-2.png |binary man/figures/README-ex3-3.png |binary man/figures/README-ex3-4.png |binary man/figures/README-ex3-5.png |binary man/figures/README-ex3-6.png |binary man/figures/README-ex3-7.png |binary man/figures/README-ex3-8.png |binary man/figures/README-ex3-9.png |binary man/figures/README-ex5-1.png |binary man/figures/README-ex5-2.png |binary man/figures/README-ex5-3.png |binary man/figures/README-ex6-1.png |binary man/lcars_colors.Rd | 81 ++++++++++---------- man/lcars_pals.Rd | 112 +++++++++++++++------------- man/scale_lcars.Rd | 168 ++++++++++++++++++++++--------------------- man/scale_trek.Rd | 74 +++++++++--------- man/trek_pal.Rd | 81 ++++++++++---------- man/trekcolors.Rd |only 27 files changed, 413 insertions(+), 368 deletions(-)
Title: Read Cancer Records in the NAACCR Format
Description: Functions for reading cancer record files which follow a format
defined by the North American Association of Central Cancer Registries
(NAACCR).
Author: Nathan Werth [aut, cre],
Pennsylvania Department of Health [cph],
North American Association of Cancer Registries [cph],
World Health Organization [cph],
United States Centers for Disease Control and Prevention [cph],
United States Bureau of the Cens [...truncated...]
Maintainer: Nathan Werth <nwerth@pa.gov>
Diff between naaccr versions 2.0.2 dated 2022-11-23 and 3.0.1 dated 2024-09-12
DESCRIPTION | 52 ++++++-- MD5 | 43 +++--- NAMESPACE | 12 + NEWS | 21 +++ R/data-item-interpreting.R | 37 ++++- R/gis.R |only R/onLoad.R | 5 R/read_naaccr.R | 2 R/record_format.R | 8 + R/sysdata.rda |binary R/write_naaccr.R | 207 +++++++++++++++++++------------- README.md | 3 data/field_levels.RData |binary man/field_levels.Rd | 2 man/naaccr_datetime.Rd | 15 +- man/naaccr_formats.Rd | 12 + man/parse_geocoding_quality_codes.Rd |only man/read_naaccr.Rd | 2 man/write_naaccr_xml.Rd | 5 tests/testthat/test-gis.R |only tests/testthat/test-item-interpreting.R | 67 ++++++++-- tests/testthat/test-naaccr_record.R | 30 ++++ tests/testthat/test-utilities.R | 17 +- tests/testthat/test-write_naaccr.R | 2 24 files changed, 382 insertions(+), 160 deletions(-)
Title: Practical Functions for Biostatistics Beginners
Description: A set of user-friendly functions designed to fill gaps in existing introductory biostatistics R tools, making it easier for newcomers to perform basic biostatistical analyses without needing advanced programming skills.
The methods implemented in this package are based on the works:
Connor (1987) <doi:10.2307/2531961>
Fleiss, Levin, & Paik (2013, ISBN:978-1-118-62561-3)
Levin & Chen (1999) <doi:10.1080/00031305.1999.10474431>
McNemar (1947) <doi:10.1007/BF02295996>.
Author: Marina Mautner Wizentier [aut, cre]
,
Melody S. Goodman [aut] ,
Jemar R. Bather [aut]
Maintainer: Marina Mautner Wizentier <mm12025@nyu.edu>
Diff between biostats101 versions 0.1.0 dated 2024-09-04 and 0.1.1 dated 2024-09-12
DESCRIPTION | 6 - MD5 | 12 +-- R/power.2p.2n.R | 6 + R/power.paired.prop.R | 156 +++++++++++++++++++++++++++++++++-------------- README.md | 2 inst/CITATION | 2 man/power.paired.prop.Rd | 13 +-- 7 files changed, 135 insertions(+), 62 deletions(-)
Title: Stock Status Plots (SSPs)
Description: Pauly et al. (2008) <http://legacy.seaaroundus.s3.amazonaws.com/doc/Researcher+Publications/dpauly/PDF/2008/Books%26Chapters/FisheriesInLargeMarineEcosystems.pdf> created (and coined the name) 'Stock Status Plots' for a UNEP compendium on Large Marine Ecosystems(LMEs, Sherman and Hempel (2009)<https://marineinfo.org/imis?module=ref&refid=142061&printversion=1&dropIMIStitle=1>). Stock status plots are bivariate graphs summarizing the status (e.g., developing, fully exploited, overexploited, etc.), through time, of the multispecies fisheries of a fished area or ecosystem. This package contains three functions to generate stock status plots viz., SSplots_pauly() (as per the criteria proposed by Pauly et al.,2008), SSplots_kleisner() (as per the criteria proposed by Kleisner and Pauly (2011) <http://www.ecomarres.com/downloads/regional.pdf> and Kleisner et al. (2013) <doi:10.1111/j.1467-2979.2012.00469.x>)and SSplots_EPI() (as per the criteria proposed b [...truncated...]
Author: Eldho Varghese [aut, cre],
J Jayasankar [aut],
Sreepriya V [aut],
Reshma Gills [ctb],
Ashutosh Dalal [ctb]
Maintainer: Eldho Varghese <eldhoiasri@gmail.com>
Diff between SSplots versions 0.1.1 dated 2023-05-08 and 0.1.2 dated 2024-09-12
DESCRIPTION | 10 +++++----- MD5 | 12 +++++++----- NAMESPACE | 1 + R/SSplots_EPI.R |only R/SSplots_kleisner.R | 43 ++++++++++++++++++------------------------- R/SSplots_pauly.R | 41 ++++++++++++++++++----------------------- man/SSplots_EPI.Rd |only man/SSplots_pauly.Rd | 5 +++-- 8 files changed, 52 insertions(+), 60 deletions(-)
Title: List, Query, Manipulate System Processes
Description: List, query and manipulate all system processes, on
'Windows', 'Linux' and 'macOS'.
Author: Jay Loden [aut],
Dave Daeschler [aut],
Giampaolo Rodola' [aut],
Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between ps versions 1.7.7 dated 2024-07-02 and 1.8.0 dated 2024-09-12
DESCRIPTION | 10 MD5 | 112 +++--- NAMESPACE | 6 NEWS.md | 31 + R/cleancall.R |only R/disk.R | 302 ++++++++++++++++ R/iso-date.R |only R/kill-tree.R | 39 +- R/linux.R | 107 +++++ R/low-level.R | 260 ++++++++++++-- R/macos.R |only R/ps.R | 10 R/rematch2.R |only R/testthat-reporter.R | 59 ++- R/utils.R | 42 ++ README.md | 449 ++++++++---------------- configure | 9 man/CleanupReporter.Rd | 5 man/ps-package.Rd | 1 man/ps_apps.Rd |only man/ps_disk_io_counters.Rd |only man/ps_disk_partitions.Rd | 1 man/ps_disk_usage.Rd | 1 man/ps_environ.Rd | 25 + man/ps_fs_info.Rd |only man/ps_fs_mount_point.Rd |only man/ps_fs_stat.Rd |only man/ps_interrupt.Rd | 2 man/ps_kill.Rd | 26 + man/ps_kill_tree.Rd | 8 man/ps_memory_info.Rd | 2 man/ps_resume.Rd | 2 man/ps_send_signal.Rd | 2 man/ps_status.Rd | 28 + man/ps_suspend.Rd | 2 man/ps_terminate.Rd | 2 man/ps_wait.Rd |only src/api-linux.c | 582 +++++++++++++++++++++++++++++-- src/api-macos.c | 446 +++++++++++++++++++++--- src/api-posix.c | 301 ++++++++++++++++ src/api-windows.c | 603 +++++++++++++++++++++++++++++---- src/arch/macos/apps.m |only src/arch/macos/disk.c |only src/cleancall.c |only src/cleancall.h |only src/dummy.c | 16 src/extra.c | 24 - src/init.c | 17 src/ps-internal.h | 9 src/ps.h | 9 src/px.c | 57 +++ tests/testthat.R | 4 tests/testthat/_snaps |only tests/testthat/fixtures |only tests/testthat/helpers.R | 1 tests/testthat/test-cleanup-reporter.R | 14 tests/testthat/test-common.R | 83 ++++ tests/testthat/test-connections.R | 2 tests/testthat/test-disk.R |only tests/testthat/test-finished.R | 4 tests/testthat/test-kill-tree.R | 1 tests/testthat/test-macos.R | 8 tests/testthat/test-pid-reuse.R | 4 tests/testthat/test-posix.R | 49 ++ tests/testthat/test-wait-inotify.R |only tests/testthat/test-wait.R |only tools |only 67 files changed, 3168 insertions(+), 609 deletions(-)
Title: Package Dependency Resolution and Downloads
Description: Find recursive dependencies of 'R' packages from various
sources. Solve the dependencies to obtain a consistent set of packages
to install. Download packages, and install them. It supports packages
on 'CRAN', 'Bioconductor' and other 'CRAN-like' repositories,
'GitHub', package 'URLs', and local package trees and files. It caches
metadata and package files via the 'pkgcache' package, and performs
all 'HTTP' requests, downloads, builds and installations in parallel.
'pkgdepends' is the workhorse of the 'pak' package.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgdepends versions 0.7.2 dated 2024-03-17 and 0.8.0 dated 2024-09-12
DESCRIPTION | 15 MD5 | 289 ++++++------ NAMESPACE | 4 R/builder.R |only R/gh-mirror.R |only R/gh-releases.R |only R/gh-repo.R |only R/ghcr.R |only R/git-app.R | 7 R/git-auth.R | 21 R/git-protocol.R | 79 ++- R/git-submodules.R |only R/install-plan.R | 58 +- R/iso-date.R |only R/parse-remotes.R | 13 R/repo.R |only R/resolution-df.R | 14 R/resolution.R | 2 R/solve.R | 34 + R/sysreqs2.R | 12 R/system-packages.R | 42 + R/time.R | 2 R/type-cran.R | 4 R/type-git.R | 43 - R/type-gitlab.R | 34 + R/utils.R | 14 R/zzz-pkgdepends-config.R | 12 inst/WORDLIST | 3 inst/docs/pak-config-docs.rds |binary inst/docs/pkg-refs.rds |binary inst/sysreqs/HEAD | 2 inst/sysreqs/rules/apparmor.json | 11 inst/sysreqs/rules/atk.json | 41 + inst/sysreqs/rules/automake.json | 9 inst/sysreqs/rules/berkeleydb.json | 9 inst/sysreqs/rules/blender.json | 10 inst/sysreqs/rules/boost.json |only inst/sysreqs/rules/cairo.json | 9 inst/sysreqs/rules/chrome.json | 38 + inst/sysreqs/rules/cmake.json | 9 inst/sysreqs/rules/eigen.json |only inst/sysreqs/rules/exiftool.json | 9 inst/sysreqs/rules/fftw3.json | 9 inst/sysreqs/rules/flint.json |only inst/sysreqs/rules/fluidsynth.json |only inst/sysreqs/rules/fontconfig.json | 9 inst/sysreqs/rules/freetype.json | 9 inst/sysreqs/rules/fribidi.json | 9 inst/sysreqs/rules/gdal.json | 14 inst/sysreqs/rules/geos.json | 9 inst/sysreqs/rules/git.json | 11 inst/sysreqs/rules/glib.json | 9 inst/sysreqs/rules/glpk.json | 14 inst/sysreqs/rules/glu.json | 9 inst/sysreqs/rules/gmp.json | 9 inst/sysreqs/rules/gnumake.json | 9 inst/sysreqs/rules/gpgme.json | 9 inst/sysreqs/rules/grpcpp.json |only inst/sysreqs/rules/gsl.json | 9 inst/sysreqs/rules/gtk.json | 9 inst/sysreqs/rules/harfbuzz.json | 9 inst/sysreqs/rules/haveged.json | 9 inst/sysreqs/rules/hdf5.json | 9 inst/sysreqs/rules/hiredis.json | 9 inst/sysreqs/rules/imagemagick.json | 9 inst/sysreqs/rules/java.json | 13 inst/sysreqs/rules/latex.json | 9 inst/sysreqs/rules/leptonica.json | 9 inst/sysreqs/rules/libarchive.json | 9 inst/sysreqs/rules/libavfilter.json | 11 inst/sysreqs/rules/libbsd.json | 9 inst/sysreqs/rules/libcurl.json | 10 inst/sysreqs/rules/libgit2.json | 15 inst/sysreqs/rules/libicu.json | 28 + inst/sysreqs/rules/libjpeg.json | 9 inst/sysreqs/rules/libjq.json | 9 inst/sysreqs/rules/libmagic.json | 9 inst/sysreqs/rules/libmysqlclient.json | 13 inst/sysreqs/rules/libpng.json | 9 inst/sysreqs/rules/libprotobuf.json | 9 inst/sysreqs/rules/librsvg2.json | 9 inst/sysreqs/rules/libsecret.json | 9 inst/sysreqs/rules/libsndfile.json | 9 inst/sysreqs/rules/libsodium.json | 9 inst/sysreqs/rules/libssh.json |only inst/sysreqs/rules/libssh2.json | 9 inst/sysreqs/rules/libtiff.json | 9 inst/sysreqs/rules/libtool.json |only inst/sysreqs/rules/libwebp.json | 9 inst/sysreqs/rules/libxml2.json | 9 inst/sysreqs/rules/libxslt.json | 9 inst/sysreqs/rules/libzstd.json |only inst/sysreqs/rules/mongodb.json | 9 inst/sysreqs/rules/mpfr.json | 9 inst/sysreqs/rules/mysql.json | 9 inst/sysreqs/rules/netcdf4.json | 9 inst/sysreqs/rules/odbc.json | 9 inst/sysreqs/rules/openbabel.json |only inst/sysreqs/rules/opencl.json | 10 inst/sysreqs/rules/opencv.json | 11 inst/sysreqs/rules/opengl.json | 9 inst/sysreqs/rules/openmpi.json | 9 inst/sysreqs/rules/openssl.json | 9 inst/sysreqs/rules/pandoc-citeproc.json | 3 inst/sysreqs/rules/pandoc.json | 20 inst/sysreqs/rules/pango.json | 9 inst/sysreqs/rules/perl.json | 9 inst/sysreqs/rules/pkg-config.json | 9 inst/sysreqs/rules/poppler.json | 11 inst/sysreqs/rules/postgresql.json | 35 - inst/sysreqs/rules/proj.json | 11 inst/sysreqs/rules/protobuf-compiler.json | 11 inst/sysreqs/rules/protobuf-grpc.json |only inst/sysreqs/rules/python.json | 9 inst/sysreqs/rules/python3.json | 9 inst/sysreqs/rules/redland.json | 9 inst/sysreqs/rules/rust.json | 9 inst/sysreqs/rules/sasl.json | 9 inst/sysreqs/rules/sdl2.json |only inst/sysreqs/rules/sqlite3.json | 9 inst/sysreqs/rules/suitesparse.json | 9 inst/sysreqs/rules/tcltk.json | 9 inst/sysreqs/rules/tesseract.json | 9 inst/sysreqs/rules/tk.json | 11 inst/sysreqs/rules/udunits2.json | 14 inst/sysreqs/rules/v8.json | 2 inst/sysreqs/rules/wget.json | 9 inst/sysreqs/rules/xft.json | 9 inst/sysreqs/rules/xz.json |only inst/sysreqs/rules/zeromq.json | 9 inst/sysreqs/rules/zlib.json | 9 man/ghr.Rd |only man/ghrepo.Rd |only man/pkg_build.Rd |only man/pkg_config.Rd | 5 man/pkg_refs.Rd | 22 man/repo.Rd |only tests/testthat/_snaps/assertions.md | 6 tests/testthat/_snaps/git-protocol.md | 49 +- tests/testthat/_snaps/git-submodules.md |only tests/testthat/_snaps/parse-remotes.md | 561 +++++++++++++++++++++--- tests/testthat/_snaps/pillar-1.9.0/type-bioc.md | 3 tests/testthat/_snaps/pillar-1.9.0/type-git.md | 5 tests/testthat/_snaps/pkg-dependencies.md | 22 tests/testthat/_snaps/pkg-downloads.md | 22 tests/testthat/_snaps/pkg-installation.md | 22 tests/testthat/_snaps/pkgdepends-config.md | 22 tests/testthat/_snaps/sysreqs.md | 22 tests/testthat/_snaps/type-cran.md | 84 +-- tests/testthat/_snaps/type-gitlab.md | 2 tests/testthat/fixtures/git-repo.tar.gz |binary tests/testthat/fixtures/submodules.ini |only tests/testthat/fixtures/submodules2.ini |only tests/testthat/fixtures/submodules3.ini |only tests/testthat/helper-install.R | 2 tests/testthat/test-git-submodules.R |only tests/testthat/test-parse-remotes.R | 27 - tests/testthat/test-sysreqs.R | 2 tests/testthat/test-type-git.R | 21 tests/testthat/test-type-gitlab.R | 4 160 files changed, 2054 insertions(+), 497 deletions(-)
Title: Cache 'CRAN'-Like Metadata and R Packages
Description: Metadata and package cache for CRAN-like repositories. This
is a utility package to be used by package management tools that want
to take advantage of caching.
Author: Gabor Csardi [aut, cre],
Posit Software, PBC [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between pkgcache versions 2.2.2 dated 2024-04-04 and 2.2.3 dated 2024-09-12
DESCRIPTION | 8 MD5 | 46 +-- NAMESPACE | 1 NEWS.md | 15 + R/aaa-async.R | 1 R/archive.R | 2 R/bioc.R | 1 R/installed.R | 2 R/metadata-cache.R | 3 R/onload.R | 438 ------------------------------------- R/packages-gz.R | 15 - R/ppm.R | 39 --- R/repo-set.R | 16 - man/pkgcache-package.Rd | 83 +++---- man/repo_get.Rd | 2 src/lib.c | 4 tests/async/test-call-function.R | 1 tests/testthat/_snaps/installed.md | 7 tests/testthat/_snaps/platform.md | 11 tests/testthat/_snaps/ppm.md | 39 +-- tests/testthat/test-installed.R | 9 tests/testthat/test-platform.R | 7 tests/testthat/test-ppm.R | 35 -- tests/testthat/test-repo-set.R | 25 -- 24 files changed, 169 insertions(+), 641 deletions(-)
Title: Methods for Graphical Models and Causal Inference
Description: Functions for causal structure
learning and causal inference using graphical models. The main algorithms
for causal structure learning are PC (for observational data without hidden
variables), FCI and RFCI (for observational data with hidden variables),
and GIES (for a mix of data from observational studies
(i.e. observational data) and data from experiments
involving interventions (i.e. interventional data) without hidden
variables). For causal inference the IDA algorithm, the Generalized
Backdoor Criterion (GBC), the Generalized Adjustment Criterion (GAC)
and some related functions are implemented. Functions for incorporating
background knowledge are provided.
Author: Markus Kalisch [aut, cre],
Alain Hauser [aut],
Martin Maechler [aut],
Diego Colombo [ctb],
Doris Entner [ctb],
Patrik Hoyer [ctb],
Antti Hyttinen [ctb],
Jonas Peters [ctb],
Nicoletta Andri [ctb],
Emilija Perkovic [ctb],
Preetam Nandy [ctb],
Philipp R [...truncated...]
Maintainer: Markus Kalisch <kalisch@stat.math.ethz.ch>
Diff between pcalg versions 2.7-11 dated 2024-02-12 and 2.7-12 dated 2024-09-12
pcalg-2.7-11/pcalg/tests/test_randDAG.Rout.save |only pcalg-2.7-12/pcalg/DESCRIPTION | 8 +-- pcalg-2.7-12/pcalg/MD5 | 56 ++++++++++++------------ pcalg-2.7-12/pcalg/build/partial.rdb |binary pcalg-2.7-12/pcalg/build/vignette.rds |binary pcalg-2.7-12/pcalg/inst/doc/vignette2018.pdf |binary pcalg-2.7-12/pcalg/man/LINGAM.Rd | 2 pcalg-2.7-12/pcalg/man/ages.Rd | 8 ++- pcalg-2.7-12/pcalg/man/amatType.Rd | 2 pcalg-2.7-12/pcalg/man/corGraph.Rd | 2 pcalg-2.7-12/pcalg/man/dag2essgraph.Rd | 4 - pcalg-2.7-12/pcalg/man/fciPlus.Rd | 5 +- pcalg-2.7-12/pcalg/man/ges.Rd | 4 + pcalg-2.7-12/pcalg/man/getGraph.Rd | 8 +-- pcalg-2.7-12/pcalg/man/gmG.Rd | 2 pcalg-2.7-12/pcalg/man/gmI.Rd | 2 pcalg-2.7-12/pcalg/man/opt.target.Rd | 2 pcalg-2.7-12/pcalg/man/optAdjSet.Rd | 2 pcalg-2.7-12/pcalg/man/pcAlgo-class.Rd | 2 pcalg-2.7-12/pcalg/man/pdag2allDags.Rd | 2 pcalg-2.7-12/pcalg/man/possAn.Rd | 2 pcalg-2.7-12/pcalg/man/possDe.Rd | 2 pcalg-2.7-12/pcalg/man/randDAG.Rd | 33 +++++++------- pcalg-2.7-12/pcalg/man/randomDAG.Rd | 3 - pcalg-2.7-12/pcalg/tests/Rplots.pdf |binary pcalg-2.7-12/pcalg/tests/filesToFix_Tests.txt |only pcalg-2.7-12/pcalg/tests/test_addBgKnowledge.R | 2 pcalg-2.7-12/pcalg/tests/test_possDeAn.R | 2 pcalg-2.7-12/pcalg/tests/test_randDAG.R | 18 ++++--- pcalg-2.7-12/pcalg/tests/test_rfci.R | 7 +-- 30 files changed, 97 insertions(+), 83 deletions(-)
Title: Interface to 'Lp_solve' v. 5.5 to Solve Linear/Integer Programs
Description: Lp_solve is freely available (under LGPL 2) software for
solving linear, integer and mixed integer programs. In this
implementation we supply a "wrapper" function in C and some R
functions that solve general linear/integer problems,
assignment problems, and transportation problems. This version
calls lp_solve version 5.5.
Author: Gabor Csardi [cre],
Michel Berkelaar [aut]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between lpSolve versions 5.6.20 dated 2023-12-10 and 5.6.21 dated 2024-09-12
DESCRIPTION | 15 ++++++++++----- MD5 | 7 ++++--- NEWS.md |only src/commonlib.c | 6 +----- src/lp_utils.c | 1 - 5 files changed, 15 insertions(+), 14 deletions(-)
Title: Local Likelihood Inference for Conditional Copula Models
Description: Implements a local likelihood estimator for the dependence parameter in bivariate conditional copula models. Copula family and local likelihood bandwidth parameters are selected by leave-one-out cross-validation. The models are implemented in 'TMB', meaning that the local score function is efficiently calculated via automated differentiation (AD), such that quasi-Newton algorithms may be used for parameter estimation.
Author: Elif Fidan Acar [aut],
Martin Lysy [aut, cre],
Alan Kuchinsky [ctb]
Maintainer: Martin Lysy <mlysy@uwaterloo.ca>
Diff between LocalCop versions 0.0.1 dated 2024-03-21 and 0.0.2 dated 2024-09-12
LocalCop-0.0.1/LocalCop/inst/doc/LocalCop-vignette.R |only LocalCop-0.0.1/LocalCop/inst/doc/LocalCop-vignette.Rmd |only LocalCop-0.0.1/LocalCop/inst/doc/LocalCop-vignette.html |only LocalCop-0.0.1/LocalCop/vignettes/LocalCop-vignette.Rmd |only LocalCop-0.0.2/LocalCop/DESCRIPTION | 17 ++-- LocalCop-0.0.2/LocalCop/MD5 | 58 ++++++++-------- LocalCop-0.0.2/LocalCop/NEWS.md | 14 +++ LocalCop-0.0.2/LocalCop/R/CondiCopLikCV.R | 4 - LocalCop-0.0.2/LocalCop/R/CondiCopLocFit.R | 4 - LocalCop-0.0.2/LocalCop/R/CondiCopLocFun.R | 7 - LocalCop-0.0.2/LocalCop/R/CondiCopSelect.R | 26 ++++--- LocalCop-0.0.2/LocalCop/R/ConvertPar.R | 16 +++- LocalCop-0.0.2/LocalCop/R/utils.R | 26 ++++++- LocalCop-0.0.2/LocalCop/build/vignette.rds |binary LocalCop-0.0.2/LocalCop/inst/doc/LocalCop.R |only LocalCop-0.0.2/LocalCop/inst/doc/LocalCop.Rmd |only LocalCop-0.0.2/LocalCop/inst/doc/LocalCop.html |only LocalCop-0.0.2/LocalCop/man/ConvertPar.Rd | 6 + LocalCop-0.0.2/LocalCop/src/TMB/LocalLikelihood.hpp | 40 ++++++++--- LocalCop-0.0.2/LocalCop/src/TMB/dclayton.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/dfrank.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/dgumbel.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/hclayton.hpp | 22 +++--- LocalCop-0.0.2/LocalCop/src/TMB/hfrank.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/hgaussian.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/hgumbel.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/pclayton.hpp | 22 +++--- LocalCop-0.0.2/LocalCop/src/TMB/pfrank.hpp | 2 LocalCop-0.0.2/LocalCop/src/TMB/pgumbel.hpp | 22 +++--- LocalCop-0.0.2/LocalCop/src/TMB/pt.hpp | 18 ++-- LocalCop-0.0.2/LocalCop/src/TMB/qt.hpp | 18 ++-- LocalCop-0.0.2/LocalCop/tests/testthat/helper.R | 16 +++- LocalCop-0.0.2/LocalCop/tests/testthat/test-LocLikFun.R | 29 +++++--- LocalCop-0.0.2/LocalCop/vignettes/LocalCop.Rmd |only 34 files changed, 236 insertions(+), 143 deletions(-)
Title: Likelihood-Based Intrinsic Dimension Estimators
Description: Provides functions to estimate the intrinsic dimension of a dataset
via likelihood-based approaches. Specifically, the package implements the
'TWO-NN' and 'Gride' estimators and the 'Hidalgo' Bayesian mixture model.
In addition, the first reference contains an extended vignette on the usage of
the 'TWO-NN' and 'Hidalgo' models. References:
Denti (2023, <doi:10.18637/jss.v106.i09>);
Allegra et al. (2020, <doi:10.1038/s41598-020-72222-0>);
Denti et al. (2022, <doi:10.1038/s41598-022-20991-1>);
Facco et al. (2017, <doi:10.1038/s41598-017-11873-y>);
Santos-Fernandez et al. (2021, <doi:10.1038/s41598-022-20991-1>).
Author: Francesco Denti [aut, cre, cph]
,
Andrea Gilardi [aut]
Maintainer: Francesco Denti <francescodenti.personal@gmail.com>
Diff between intRinsic versions 1.0.2 dated 2024-01-15 and 1.1.0 dated 2024-09-12
intRinsic-1.0.2/intRinsic/src/intR_source.cpp |only intRinsic-1.1.0/intRinsic/DESCRIPTION | 11 - intRinsic-1.1.0/intRinsic/MD5 | 27 ++- intRinsic-1.1.0/intRinsic/NEWS.md | 9 + intRinsic-1.1.0/intRinsic/R/RcppExports.R | 24 +- intRinsic-1.1.0/intRinsic/R/hidalgo.R | 67 ++------ intRinsic-1.1.0/intRinsic/R/rdir_exmcmcPack.R | 16 - intRinsic-1.1.0/intRinsic/README.md | 49 +++-- intRinsic-1.1.0/intRinsic/build/partial.rdb |binary intRinsic-1.1.0/intRinsic/man/figures/README-pressure-1.png |only intRinsic-1.1.0/intRinsic/src/A_AUX.cpp |only intRinsic-1.1.0/intRinsic/src/A_AUX.h |only intRinsic-1.1.0/intRinsic/src/B_FULLCOND.cpp |only intRinsic-1.1.0/intRinsic/src/B_FULLCOND.h |only intRinsic-1.1.0/intRinsic/src/C_GAMMA.cpp |only intRinsic-1.1.0/intRinsic/src/C_GAMMA.h |only intRinsic-1.1.0/intRinsic/src/G_GRIDE.cpp |only intRinsic-1.1.0/intRinsic/src/G_GRIDE.h |only intRinsic-1.1.0/intRinsic/src/RcppExports.cpp | 100 ++++++------ intRinsic-1.1.0/intRinsic/src/Z_unused.cpp |only 20 files changed, 154 insertions(+), 149 deletions(-)
Title: Visualization and Tools for Ichimoku Kinko Hyo Strategies
Description: An implementation of 'Ichimoku Kinko Hyo', also commonly known as
'cloud charts'. Static and interactive visualizations with tools for
creating, backtesting and development of quantitative 'ichimoku' strategies.
As described in Sasaki (1996, ISBN:4925152009), the technique is a refinement
on candlestick charting, originating from Japan and now in widespread use in
technical analysis worldwide. Translating as 'one-glance equilibrium chart',
it allows the price action and market structure of financial securities to
be determined 'at-a-glance'. Incorporates an interface with the OANDA
fxTrade API <https://developer.oanda.com/> for retrieving historical and
live streaming price data for major currencies, metals, commodities,
government bonds and stock indices.
Author: Charlie Gao [aut, cre] ,
Hibiki AI Limited [cph]
Maintainer: Charlie Gao <charlie.gao@shikokuchuo.net>
Diff between ichimoku versions 1.5.4 dated 2024-08-18 and 1.5.5 dated 2024-09-12
DESCRIPTION | 8 +-- MD5 | 108 ++++++++++++++++++++--------------------- NAMESPACE | 3 - NEWS.md | 10 +++ R/archive.R | 4 - R/data.R | 38 +++++++------- R/ichimoku-package.R | 9 ++- R/ichimoku.R | 14 +++-- R/iplot.R | 24 ++++----- R/methods.R | 67 +++++++++++++------------ R/mltools.R | 36 +++++++------ R/oanda.R | 47 +++++++++++------ R/plot.R | 50 ++++++++++-------- R/strat.R | 22 ++++---- R/switch.R | 5 + R/utils.R | 89 ++++++++++++++++++--------------- inst/doc/utilities.html | 94 +++++++++++++++++------------------ man/as.data.frame.ichimoku.Rd | 10 +-- man/autoplot.ichimoku.Rd | 27 +++++----- man/autostrat.Rd | 13 ++-- man/coredata.ichimoku.Rd | 15 +++-- man/df_append.Rd | 23 ++++---- man/df_merge.Rd | 10 +-- man/dot-ichimoku.Rd | 10 ++- man/grid_dup.Rd | 6 +- man/ichimoku.Rd | 8 +-- man/index.ichimoku.Rd | 15 +++-- man/iplot.Rd | 32 ++++++------ man/is.ichimoku.Rd | 3 - man/look.Rd | 8 +-- man/matrix_df.Rd | 2 man/mlgrid.Rd | 29 ++++++----- man/oanda.Rd | 27 +++++----- man/oanda_chart.Rd | 23 ++++---- man/oanda_instruments.Rd | 10 +-- man/oanda_orders.Rd | 10 +-- man/oanda_positions.Rd | 10 +-- man/oanda_quote.Rd | 14 ++--- man/oanda_stream.Rd | 10 +-- man/oanda_studio.Rd | 30 ++++++----- man/oanda_switch.Rd | 5 + man/oanda_view.Rd | 14 ++--- man/plot.ichimoku.Rd | 29 ++++++----- man/print.ichimoku.Rd | 6 +- man/str.ichimoku.Rd | 8 +-- man/strat.Rd | 15 +++-- man/stratcombine.Rd | 7 +- man/summary.ichimoku.Rd | 13 ++-- man/tradingDays.Rd | 10 +-- man/xts_df.Rd | 6 +- src/shikokuchuo.c | 78 +++++++++++++---------------- tests/testthat/test-ichimoku.R | 11 ++-- tests/testthat/test-mltools.R | 15 +++-- tests/testthat/test-strat.R | 14 +++-- tests/testthat/test-utils.R | 6 -- 55 files changed, 642 insertions(+), 568 deletions(-)
Title: ASCII Formatting for Values and Tables
Description: We provide a framework for rendering complex tables to ASCII,
and a set of formatters for transforming values or sets of values into
ASCII-ready display strings.
Author: Gabriel Becker [aut] ,
Adrian Waddell [aut],
Davide Garolini [ctb],
Emily de la Rua [ctb],
Abinaya Yogasekaram [ctb],
Joe Zhu [ctb, cre],
F. Hoffmann-La Roche AG [cph, fnd]
Maintainer: Joe Zhu <joe.zhu@roche.com>
Diff between formatters versions 0.5.8 dated 2024-06-19 and 0.5.9 dated 2024-09-12
DESCRIPTION | 18 +++++------ MD5 | 36 +++++++++++----------- NAMESPACE | 4 ++ NEWS.md | 6 ++- R/format_value.R | 42 +++++++++++++++++-------- R/matrix_form.R | 1 R/package.R | 1 README.md | 62 +++++++++++--------------------------- inst/WORDLIST | 2 - inst/doc/formatters.html | 9 ++++- man/format_value.Rd | 9 +++-- man/test_matrix_form.Rd | 3 + tests/testthat/setup.R | 1 tests/testthat/test-exporters.R | 15 ++++----- tests/testthat/test-formatters.R | 40 ++++++++++++++++++++---- tests/testthat/test-listings.R | 8 +++- tests/testthat/test-matrix_form.R | 5 +++ tests/testthat/test-pagination.R | 16 ++++----- tests/testthat/test-print.R | 4 ++ 19 files changed, 162 insertions(+), 120 deletions(-)
Title: Generating Features for a Cohort
Description: An R interface for generating features for a cohort using data in the Common Data Model. Features can be constructed using default or custom made feature definitions. Furthermore it's possible to aggregate features and get the summary statistics.
Author: Martijn Schuemie [aut],
Marc Suchard [aut],
Patrick Ryan [aut],
Jenna Reps [aut],
Anthony Sena [aut],
Ger Inberg [aut, cre],
Observational Health Data Science and Informatics [cph]
Maintainer: Ger Inberg <g.inberg@erasmusmc.nl>
Diff between FeatureExtraction versions 3.7.0 dated 2024-09-03 and 3.7.1 dated 2024-09-12
FeatureExtraction-3.7.0/FeatureExtraction/inst/java/featureExtraction-3.7.0-SNAPSHOT.jar |only FeatureExtraction-3.7.1/FeatureExtraction/DESCRIPTION | 8 +- FeatureExtraction-3.7.1/FeatureExtraction/MD5 | 38 +++++----- FeatureExtraction-3.7.1/FeatureExtraction/NEWS.md | 12 +++ FeatureExtraction-3.7.1/FeatureExtraction/inst/csv/jarChecksum.txt | 2 FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/CreatingCovariatesBasedOnOtherCohorts.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/CreatingCovariatesUsingCohortAttributes.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/CreatingCustomCovariateBuilders.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/CreatingCustomCovariateBuildersKorean.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/UsingFeatureExtraction.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/doc/UsingFeatureExtractionKorean.pdf |binary FeatureExtraction-3.7.1/FeatureExtraction/inst/java/featureExtraction-3.7.1-SNAPSHOT.jar |only FeatureExtraction-3.7.1/FeatureExtraction/java/org/ohdsi/featureExtraction/FeatureExtraction.java | 2 FeatureExtraction-3.7.1/FeatureExtraction/tests/testBigQuery.R | 2 FeatureExtraction-3.7.1/FeatureExtraction/tests/testOracle.R | 4 - FeatureExtraction-3.7.1/FeatureExtraction/tests/testPostgres.R | 4 - FeatureExtraction-3.7.1/FeatureExtraction/tests/testRedshift.R | 4 - FeatureExtraction-3.7.1/FeatureExtraction/tests/testSnowflake.R | 2 FeatureExtraction-3.7.1/FeatureExtraction/tests/testSpark.R | 2 FeatureExtraction-3.7.1/FeatureExtraction/tests/testSqlServer.R | 4 - FeatureExtraction-3.7.1/FeatureExtraction/tests/testthat/test-query-no-fail.R | 6 + 21 files changed, 52 insertions(+), 38 deletions(-)
More information about FeatureExtraction at CRAN
Permanent link
Title: Estimation Statistics with Confidence Intervals
Description: A collection of functions and 'jamovi' module for the estimation approach to inferential statistics, the approach which emphasizes effect sizes, interval estimates, and meta-analysis. Nearly all functions are based on 'statpsych' and 'metafor'. This package is still under active development, and breaking changes are likely, especially with the plot and hypothesis test functions. Data sets are included for all examples from Cumming & Calin-Jageman (2024) <ISBN:9780367531508>.
Author: Robert Calin-Jageman [aut, cre, cph]
Maintainer: Robert Calin-Jageman <rcalinjageman@dom.edu>
Diff between esci versions 1.0.3 dated 2024-07-08 and 1.0.4 dated 2024-09-12
DESCRIPTION | 10 - MD5 | 138 +++++++-------- NEWS.md | 15 + R/data.R | 68 ++++--- R/estimate_mdiff_ind_contrast.R | 15 + R/jamovidescribe.b.R | 2 R/jamovidescribe.h.R | 28 --- R/jamovimdifftwo.b.R | 4 R/jamovirdifftwo.b.R | 2 R/plot_mdiff.R | 13 - R/statpsych_wrapper.R | 18 +- R/tools_jamovi.R | 14 - README.md | 7 build/stage23.rdb |binary man/data_altruism_happiness.Rd | 76 ++++---- man/data_anchor_estimate_ma.Rd | 86 ++++----- man/data_basol_badnews.Rd | 96 +++++------ man/data_bem_psychic.Rd | 96 +++++------ man/data_bodywellf.Rd | 48 ++--- man/data_bodywellfm.Rd | 48 ++--- man/data_bodywellm.Rd | 48 ++--- man/data_campus_involvement.Rd | 66 +++---- man/data_chap_8_paired_ex_8.18.Rd | 54 +++--- man/data_clean_moral.Rd | 78 ++++----- man/data_college_survey_1.Rd | 90 +++++----- man/data_college_survey_2.Rd | 76 ++++---- man/data_damischrcj.Rd | 52 +++--- man/data_effronraj_fakenews.Rd | 90 +++++----- man/data_emotion_heartrate.Rd | 64 +++---- man/data_exam_scores.Rd | 58 +++--- man/data_flag_priming_ma.Rd | 76 ++++---- man/data_gender_math_iat.Rd | 78 ++++----- man/data_gender_math_iat_ma.Rd | 84 ++++----- man/data_halagappa.Rd | 82 ++++----- man/data_home_prices.Rd | 66 +++---- man/data_kardas_expt_3.Rd | 86 ++++----- man/data_kardas_expt_4.Rd | 94 +++++----- man/data_labels_flavor.Rd | 78 ++++----- man/data_latimier_3groups.Rd | 81 ++++----- man/data_latimier_prequiz.Rd | 56 +++--- man/data_latimier_quiz.Rd | 56 +++--- man/data_latimier_quiz_prequiz.Rd | 56 +++--- man/data_latimier_reread.Rd | 56 +++--- man/data_latimier_reread_prequiz.Rd | 56 +++--- man/data_latimier_reread_quiz.Rd | 56 +++--- man/data_macnamara_r_ma.Rd | 86 ++++----- man/data_mccabemichael_brain.Rd | 130 +++++++-------- man/data_mccabemichael_brain2.Rd | 68 +++---- man/data_meditationbrain.Rd | 92 +++++----- man/data_organicmoral.Rd | 92 +++++----- man/data_penlaptop1.Rd | 52 +++--- man/data_powerperformance_ma.Rd | 94 +++++----- man/data_rattanmotivation.Rd | 82 ++++----- man/data_religionsharing.Rd | 67 ++++--- man/data_religious_belief.Rd | 54 +++--- man/data_selfexplain.Rd | 78 ++++----- man/data_simmonscredibility.Rd | 120 ++++++------- man/data_sleep_beauty.Rd | 58 +++--- man/data_smithrecall.Rd | 54 +++--- man/data_stickgold.Rd | 74 ++++---- man/data_studystrategies.Rd | 82 ++++----- man/data_thomason_1.Rd | 60 +++--- man/data_videogameaggression.Rd | 74 ++++---- man/estimate_magnitude.Rd | 4 man/estimate_mdiff_one.Rd | 4 man/estimate_pdiff_one.Rd | 2 man/estimate_proportion.Rd | 2 man/estimate_r.Rd | 312 ++++++++++++++++++------------------ man/jamovidescribe.Rd | 5 man/overview.Rd | 4 70 files changed, 2147 insertions(+), 2124 deletions(-)
Title: Official R API for Fetching Data from 'EODHD'
Description: Second and backward-incompatible version of R package 'eodhd' <https://eodhd.com/>, extended with a cache and quota system,
also offering functions for cleaning and aggregating the financial data.
Author: Marcelo S. Perlin [aut, cre, ctr],
Unicorn Data Services [cph]
Maintainer: Marcelo S. Perlin <marceloperlin@gmail.com>
Diff between eodhdR2 versions 0.5.0 dated 2024-09-03 and 0.5.1 dated 2024-09-12
DESCRIPTION | 6 +- MD5 | 20 +++++--- NAMESPACE | 2 NEWS.md | 7 ++- R/base-query.R | 3 - R/cache.R | 2 R/ipos.R |only R/news.R |only README.md | 70 +++++++++++++++---------------- man/figures/README-unnamed-chunk-6-1.png |binary man/get_ipos.Rd |only man/get_news.Rd |only tests/testthat/test-ipos.R |only tests/testthat/test-news.R |only 14 files changed, 62 insertions(+), 48 deletions(-)
Title: Beta Regression
Description: Beta regression for modeling beta-distributed dependent variables on the open unit interval (0, 1),
e.g., rates and proportions, see Cribari-Neto and Zeileis (2010) <doi:10.18637/jss.v034.i02>.
Moreover, extended-support beta regression models can accommodate dependent variables with
boundary observations at 0 and/or 1. For the classical beta regression model, alternative specifications are
provided: Bias-corrected and bias-reduced estimation, finite mixture models, and recursive partitioning for
beta regression, see Grün, Kosmidis, and Zeileis (2012) <doi:10.18637/jss.v048.i11>.
Author: Achim Zeileis [aut, cre] ,
Francisco Cribari-Neto [aut] ,
Bettina Gruen [aut] ,
Ioannis Kosmidis [aut] ,
Alexandre B. Simas [ctb] ,
Andrea V. Rocha [ctb]
Maintainer: Achim Zeileis <Achim.Zeileis@R-project.org>
Diff between betareg versions 3.2-0 dated 2024-07-07 and 3.2-1 dated 2024-09-12
betareg-3.2-0/betareg/inst/doc/betareg-ext.Rnw |only betareg-3.2-0/betareg/inst/doc/betareg-ext.pdf |only betareg-3.2-0/betareg/inst/doc/betareg.Rnw |only betareg-3.2-0/betareg/inst/doc/betareg.pdf |only betareg-3.2-0/betareg/vignettes/betareg-ext.Rnw |only betareg-3.2-0/betareg/vignettes/betareg.Rnw |only betareg-3.2-1/betareg/DESCRIPTION | 29 betareg-3.2-1/betareg/MD5 | 66 - betareg-3.2-1/betareg/NEWS.md | 17 betareg-3.2-1/betareg/R/betareg.R | 92 - betareg-3.2-1/betareg/README.md | 129 +- betareg-3.2-1/betareg/build/vignette.rds |binary betareg-3.2-1/betareg/inst/CITATION | 10 betareg-3.2-1/betareg/inst/doc/betareg-ext.R | 253 +--- betareg-3.2-1/betareg/inst/doc/betareg-ext.html |only betareg-3.2-1/betareg/inst/doc/betareg-ext.qmd |only betareg-3.2-1/betareg/inst/doc/betareg.R | 287 +--- betareg-3.2-1/betareg/inst/doc/betareg.html |only betareg-3.2-1/betareg/inst/doc/betareg.qmd |only betareg-3.2-1/betareg/man/CarTask.Rd | 5 betareg-3.2-1/betareg/man/ImpreciseTask.Rd | 11 betareg-3.2-1/betareg/man/LossAversion.Rd | 31 betareg-3.2-1/betareg/man/MockJurors.Rd | 4 betareg-3.2-1/betareg/man/ReadingSkills.Rd | 11 betareg-3.2-1/betareg/man/StressAnxiety.Rd | 2 betareg-3.2-1/betareg/man/WeatherTask.Rd | 11 betareg-3.2-1/betareg/man/betamix.Rd | 8 betareg-3.2-1/betareg/man/betareg.Rd | 3 betareg-3.2-1/betareg/man/betatree.Rd | 6 betareg-3.2-1/betareg/man/gleverage.Rd | 6 betareg-3.2-1/betareg/man/plot.betareg.Rd | 4 betareg-3.2-1/betareg/man/predict.betareg.Rd | 62 - betareg-3.2-1/betareg/man/residuals.betareg.Rd | 19 betareg-3.2-1/betareg/man/summary.betareg.Rd | 6 betareg-3.2-1/betareg/tests/Examples/betareg-Ex.Rout.save | 18 betareg-3.2-1/betareg/vignettes/betareg-ext.Rout.save | 186 +-- betareg-3.2-1/betareg/vignettes/betareg-ext.qmd |only betareg-3.2-1/betareg/vignettes/betareg.Rout.save | 219 +-- betareg-3.2-1/betareg/vignettes/betareg.bib | 839 +++++++------- betareg-3.2-1/betareg/vignettes/betareg.qmd |only 40 files changed, 1144 insertions(+), 1190 deletions(-)
Title: Multi-Format Archive and Compression Support
Description: Bindings to 'libarchive' <http://www.libarchive.org> the
Multi-format archive and compression library. Offers R connections and
direct extraction for many archive formats including 'tar', 'ZIP',
'7-zip', 'RAR', 'CAB' and compression formats including 'gzip',
'bzip2', 'compress', 'lzma' and 'xz'.
Author: Jim Hester [aut] ,
Gabor Csardi [aut, cre],
Ondrej Holy [cph] ,
RStudio [cph, fnd]
Maintainer: Gabor Csardi <csardi.gabor@gmail.com>
Diff between archive versions 1.1.8 dated 2024-04-28 and 1.1.9 dated 2024-09-12
archive-1.1.8/archive/tests/version.R |only archive-1.1.8/archive/tests/version.Rout.save |only archive-1.1.9/archive/DESCRIPTION | 6 archive-1.1.9/archive/MD5 | 40 archive-1.1.9/archive/NEWS.md | 4 archive-1.1.9/archive/src/cpp11/include/cpp11/R.hpp | 69 archive-1.1.9/archive/src/cpp11/include/cpp11/data_frame.hpp | 12 archive-1.1.9/archive/src/cpp11/include/cpp11/doubles.hpp | 123 archive-1.1.9/archive/src/cpp11/include/cpp11/environment.hpp | 10 archive-1.1.9/archive/src/cpp11/include/cpp11/external_pointer.hpp | 8 archive-1.1.9/archive/src/cpp11/include/cpp11/function.hpp | 56 archive-1.1.9/archive/src/cpp11/include/cpp11/integers.hpp | 117 archive-1.1.9/archive/src/cpp11/include/cpp11/list.hpp | 134 - archive-1.1.9/archive/src/cpp11/include/cpp11/list_of.hpp | 4 archive-1.1.9/archive/src/cpp11/include/cpp11/logicals.hpp | 117 archive-1.1.9/archive/src/cpp11/include/cpp11/matrix.hpp | 5 archive-1.1.9/archive/src/cpp11/include/cpp11/protect.hpp | 156 - archive-1.1.9/archive/src/cpp11/include/cpp11/r_bool.hpp | 2 archive-1.1.9/archive/src/cpp11/include/cpp11/r_vector.hpp | 1312 ++++++---- archive-1.1.9/archive/src/cpp11/include/cpp11/raws.hpp | 129 archive-1.1.9/archive/src/cpp11/include/cpp11/sexp.hpp | 36 archive-1.1.9/archive/src/cpp11/include/cpp11/strings.hpp | 129 22 files changed, 1330 insertions(+), 1139 deletions(-)
Title: Import, Manipulate and Explore the Results of an 'Antares'
Simulation
Description: Import, manipulate and explore results generated by 'Antares', a
powerful open source software developed by RTE (Réseau de Transport d’Électricité) to simulate and study electric power systems
(more information about 'Antares' here : <https://antares-simulator.org/>).
Author: Tatiana Vargas [aut, cre],
Jalal-Edine ZAWAM [aut],
Frederic Breant [ctb],
Francois Guillem [aut],
Benoit Thieurmel [aut],
Titouan Robert [aut],
Victor Perrier [ctb],
Etienne Sanchez [ctb],
Assil Mansouri [ctb],
Clement Berthet [ctb],
Kamel Kemiha [c [...truncated...]
Maintainer: Tatiana Vargas <tatiana.vargas@rte-france.com>
Diff between antaresRead versions 2.7.1 dated 2024-08-30 and 2.7.2 dated 2024-09-12
DESCRIPTION | 6 MD5 | 50 +- NAMESPACE | 2 NEWS.md | 19 + R/importOutput.R | 26 - R/readAntares.R | 4 R/readAntaresClusters.R | 54 +++ R/readBindingConstraints.R | 2 R/readClusterDesc.R | 203 ++++++++--- R/setSimulationPathAPI.R |only R/utils.R | 1 R/utils_api.R | 448 -------------------------- R/zzz.R | 32 + inst/doc/antaresRead.html | 4 inst/referential_properties |only man/readAntares.Rd | 2 man/readAntaresSTClusters.Rd |only man/readClusterDesc.Rd | 2 man/setSimulationPath.Rd | 2 tests/testthat/helper_init.R | 1 tests/testthat/test-importOutputForClusters.R | 124 +++---- tests/testthat/test-readAntares_STclusters.R | 58 ++- tests/testthat/test-readBindingConstraints.R | 1 tests/testthat/test-readClusterDesc.R | 83 +++- tests/testthat/test-readInputClusters.R | 32 + tests/testthat/test-setSimulationPath.R | 1 26 files changed, 516 insertions(+), 641 deletions(-)
Title: Combine Multidimensional Arrays
Description: Combine multidimensional arrays into a single array.
This is a generalization of 'cbind' and 'rbind'. Works with
vectors, matrices, and higher-dimensional arrays (aka tensors).
Also provides functions 'adrop', 'asub', and 'afill' for
manipulating, extracting and replacing data in arrays.
Author: Tony Plate [aut, cre],
Richard Heiberger [aut]
Maintainer: Tony Plate <tplate@acm.org>
Diff between abind versions 1.4-5 dated 2016-07-21 and 1.4-8 dated 2024-09-12
abind-1.4-5/abind/inst |only abind-1.4-8/abind/ChangeLog | 10 ++++ abind-1.4-8/abind/DESCRIPTION | 20 +++++---- abind-1.4-8/abind/LICENSE |only abind-1.4-8/abind/MD5 | 27 ++++++------- abind-1.4-8/abind/NAMESPACE | 1 abind-1.4-8/abind/R/abind.R | 32 +++++++-------- abind-1.4-8/abind/R/acorn.R | 10 ++-- abind-1.4-8/abind/R/adrop.R | 2 abind-1.4-8/abind/R/afill.R | 12 ++--- abind-1.4-8/abind/R/asub.R | 6 +- abind-1.4-8/abind/man/abind.Rd | 6 +- abind-1.4-8/abind/man/asub.Rd | 2 abind-1.4-8/abind/tests/afill.R | 17 -------- abind-1.4-8/abind/tests/afill.Rout.save | 65 +++++++------------------------- 15 files changed, 85 insertions(+), 125 deletions(-)
Title: Blind Source Separation Methods for Tensor-Valued Observations
Description: Contains several utility functions for manipulating tensor-valued data (centering, multiplication from a single mode etc.) and the implementations of the following blind source separation methods for tensor-valued data: 'tPCA', 'tFOBI', 'tJADE', k-tJADE', 'tgFOBI', 'tgJADE', 'tSOBI', 'tNSS.SD', 'tNSS.JD', 'tNSS.TD.JD', 'tPP' and 'tTUCKER'.
Author: Joni Virta [aut, cre] ,
Christoph L. Koesner [aut] ,
Bing Li [aut],
Klaus Nordhausen [aut] ,
Hannu Oja [aut],
Una Radojicic [aut]
Maintainer: Joni Virta <joni.virta@outlook.com>
Diff between tensorBSS versions 0.3.8 dated 2021-06-02 and 0.3.9 dated 2024-09-12
DESCRIPTION | 8 +-- MD5 | 16 +++--- R/RcppExports.R | 118 +++++++++++++++++++++++------------------------ R/tPCAaug.R | 2 build/partial.rdb |binary inst/ChangeLog | 6 +- man/tPCAaug.Rd | 7 +- man/tensorBSS-package.Rd | 8 ++- src/RcppExports.cpp | 5 + 9 files changed, 93 insertions(+), 77 deletions(-)
Title: Genetic Analysis of Pooled Samples
Description: Analyzing genetic data obtained from pooled samples.
This package can read in Fragment Analysis output files, process the data,
and score peaks, as well as facilitate various analyses, including cluster
analysis, calculation of genetic distances and diversity indices,
as well as bootstrap resampling for statistical inference. Specifically
tailored to handle genetic data efficiently, researchers can explore
population structure, genetic differentiation, and genetic relatedness
among samples. We updated some functions from Covarrubias-Pazaran et al.
(2016) <doi:10.1186/s12863-016-0365-6> to allow for the use of new file formats
and referenced the following to write our genetic analysis functions:
Long et al. (2022) <doi:10.1038/s41598-022-04776-0>, Jost (2008)
<doi:10.1111/j.1365-294x.2008.03887.x>, Nei (1973)
<doi:10.1073/pnas.70.12.3321>, Foulley et al. (2006)
<doi:10.1016/j.livprodsci.2005.10.021>, Chao et al. (2008)
<doi:10.1111/j.1541-0420.2008.01010 [...truncated...]
Author: Kathleen Kuesters [aut, cre, cph]
,
Jeffrey Long [aut],
Jessica Blanton [aut],
Walter Blank [ctb],
Jeffrey Kovach [ctb],
Ronald Blanton [ctb]
Maintainer: Kathleen Kuesters <kathleen.kuesters@gmail.com>
Diff between pooledpeaks versions 1.0.5 dated 2024-09-03 and 1.0.6 dated 2024-09-12
DESCRIPTION | 14 +++++++------- MD5 | 8 ++++---- NEWS.md | 2 ++ man/pooledpeaks-package.Rd | 8 ++++++-- tests/testthat/test-Replicate_check.R | 5 +++-- 5 files changed, 22 insertions(+), 15 deletions(-)
Title: Mobility Network Analysis
Description: Implements the method to analyse weighted mobility networks or distribution networks as outlined in:
Block, P., Stadtfeld, C., & Robins, G. (2022) <doi:10.1016/j.socnet.2021.08.003>.
The purpose of the model is to analyse the structure of mobility,
incorporating exogenous predictors pertaining to individuals and locations
known from classical mobility analyses, as well as modelling emergent mobility
patterns akin to structural patterns known from the statistical analysis of social networks.
Author: Per Block [cre, aut, cph] ,
Christoph Stadtfeld [aut] ,
Nico Keiser [aut] ,
Marion Hoffman [aut]
Maintainer: Per Block <block@soziologie.uzh.ch>
Diff between MoNAn versions 1.0.0 dated 2024-04-25 and 1.1.0 dated 2024-09-12
DESCRIPTION | 18 - MD5 | 57 ++-- NAMESPACE | 14 - NEWS.md | 13 + R/1_hiddenFunctions.R | 2 R/2_effectFunctions.R | 73 +++++ R/2b_effectFunctions_loops.R | 81 ++++++ R/2c_effectFunctions_concentration.R | 293 +++++++++++++++++++++++- R/2d_effectFunctions_reciprocity.R | 195 +++++++++++++++ R/2e_effectFunctions_transitivity.R | 81 ++++++ R/2f_effectFunctions_endogenousCovariateBased.R | 170 +++++++++++++ R/4_auxiliaryFunctions.R | 188 +++++++++------ README.md | 188 ++++----------- build/partial.rdb |binary data/myEffects.rda |binary data/myResDN.rda |binary data/mySimDN.rda |binary man/MoNAn-package.Rd | 4 man/associativity_all_AC_covar_bin.Rd |only man/associativity_one_AC_covar_bin.Rd |only man/concentration_AC.Rd |only man/concentration_AC_dyad_covar.Rd |only man/concentration_AC_resource_covar_bin.Rd |only man/concentration_basic_cube.Rd |only man/figures/README-unnamed-chunk-18-1.png |binary man/figures/README-unnamed-chunk-18-2.png |binary man/figures/README-unnamed-chunk-18-3.png |binary man/figures/README-unnamed-chunk-18-4.png |only man/figures/README-unnamed-chunk-20-1.png |binary man/figures/README-unnamed-chunk-20-2.png |binary man/in_weights_AC.Rd |only man/loops_AC.Rd |only man/reciprocity_AC.Rd |only man/reciprocity_AC_dyad_covar.Rd |only man/reciprocity_AC_dyad_covar_bin.Rd |only man/transitivity_AC.Rd |only 36 files changed, 1119 insertions(+), 258 deletions(-)
Title: Create ToxPi Prioritization Models
Description: Enables users to build 'ToxPi' prioritization models and provides
functionality within the grid framework for plotting ToxPi graphs.
'toxpiR' allows for more customization than the 'ToxPi GUI'
(<https://toxpi.org>) and integration into existing workflows for greater
ease-of-use, reproducibility, and transparency.
toxpiR package behaves nearly identically to the GUI; the package
documentation includes notes about all differences.
The vignettes download example files from
<https://github.com/ToxPi/ToxPi-example-files>.
Author: Jonathon F Fleming [aut, cre] ,
Dayne L Filer [aut, fnd] ,
Dillon T Lloyd [aut],
Preethi Thunga [aut] ,
Skylar W Marvel [aut],
Alison A Motsinger-Reif [fnd] ,
David M Reif [aut, fnd]
Maintainer: Jonathon F Fleming <jffleming0129@gmail.com>
Diff between toxpiR versions 1.2.1 dated 2022-07-20 and 1.3.0 dated 2024-09-12
DESCRIPTION | 23 MD5 | 158 - NAMESPACE | 174 - NEWS.md | 29 R/allClasses.R | 259 +- R/allGenerics.R | 141 - R/methods-NamedList.R | 56 R/methods-TxpModel.R | 516 ++--- R/methods-TxpModelList.R | 286 +- R/methods-TxpResult-plot.R | 643 ++++-- R/methods-TxpResult.R | 730 +++---- R/methods-TxpResultList.R | 194 - R/methods-TxpResultParam.R | 180 - R/methods-TxpSlice.R | 376 +-- R/methods-TxpSliceList.R | 250 +- R/methods-TxpTransFunc.R | 260 +- R/methods-TxpTransFuncList.R | 242 +- R/plotting-annScatterGrob.R | 188 - R/plotting-boxLegendGrob.R | 106 - R/plotting-pieGridGrob.R | 374 +-- R/plotting-pieGrob.R | 268 +- R/toxpiR-package.R | 127 - R/txpCalculateScores.R | 236 +- R/txpExportGui.R | 316 +-- R/txpImportGui.R | 260 +- R/utils.R | 138 - build/vignette.rds |binary inst/doc/exportToGui.R | 106 - inst/doc/exportToGui.html | 1717 ++++++++--------- inst/doc/exportToGui.rmd | 220 +- inst/doc/importFromGui.R | 122 - inst/doc/importFromGui.Rmd | 192 - inst/doc/importFromGui.html | 931 ++++----- inst/doc/introduction.R | 428 +++- inst/doc/introduction.Rmd | 900 ++++++-- inst/doc/introduction.html | 1694 ++++++++++------ man/TxpModel-class.Rd | 270 +- man/TxpModelList-class.Rd | 122 - man/TxpResult-class.Rd | 477 ++-- man/TxpResult-plot.Rd | 247 +- man/TxpResultList-class.Rd | 106 - man/TxpResultParam-class.Rd | 86 man/TxpSlice-class.Rd | 234 +- man/TxpSliceList-class.Rd | 154 - man/TxpTransFunc-class.Rd | 104 - man/TxpTransFuncList-class.Rd | 120 - man/boxLegendGrob.Rd | 56 man/pieGridGrob.Rd | 182 - man/pieGrob.Rd | 102 - man/toxpiR-datasets.Rd | 108 - man/toxpiR-package.Rd | 75 man/txpCalculateScores.Rd | 173 - man/txpExportGui.Rd | 90 man/txpGenerics.Rd | 133 - man/txpImportGui.Rd | 54 tests/testthat.R | 8 tests/testthat/Rplots.pdf |binary tests/testthat/guiFiles/gui_bad_input.csv | 28 tests/testthat/guiFiles/gui_distributions.csv | 2016 ++++++++++---------- tests/testthat/guiFiles/gui_output_data.csv | 34 tests/testthat/guiFiles/gui_output_missingFuncs.csv | 34 tests/testthat/guiFiles/gui_output_nonNumeric.csv | 34 tests/testthat/guiFiles/gui_test_data.csv | 132 - tests/testthat/guiFiles/gui_test_results.csv | 52 tests/testthat/test-TxpModel.R | 246 +- tests/testthat/test-TxpModelList.R | 134 - tests/testthat/test-TxpResult.R | 384 +-- tests/testthat/test-TxpResultList.R | 256 +- tests/testthat/test-TxpSlice.R | 160 - tests/testthat/test-TxpSliceList.R | 148 - tests/testthat/test-TxpTransFunc.R | 50 tests/testthat/test-TxpTransFuncList.R | 148 - tests/testthat/test-txpExportGui.R | 168 - tests/testthat/test-txpImportGui.R | 54 tests/testthat/test-vsGuiResults.R | 284 +- vignettes/embeddedFigures/coord_munch_new.png |only vignettes/embeddedFigures/coord_munch_orig.png |only vignettes/embeddedFigures/txp_PDF.pdf |only vignettes/embeddedFigures/txp_explain1.png |only vignettes/exportToGui.rmd | 220 +- vignettes/importFromGui.Rmd | 192 - vignettes/introduction.Rmd | 900 ++++++-- 82 files changed, 11585 insertions(+), 9830 deletions(-)
Title: Global Surface Summary of the Day ('GSOD') Weather Data Client
Description: Provides automated downloading, parsing, cleaning, unit
conversion and formatting of Global Surface Summary of the Day
('GSOD') weather data from the from the USA National Centers for
Environmental Information ('NCEI'). Units are converted from from
United States Customary System ('USCS') units to International System
of Units ('SI'). Stations may be individually checked for number of
missing days defined by the user, where stations with too many missing
observations are omitted. Only stations with valid reported latitude
and longitude values are permitted in the final data. Additional
useful elements, saturation vapour pressure ('es'), actual vapour
pressure ('ea') and relative humidity ('RH') are calculated from the
original data using the improved August-Roche-Magnus approximation
(Alduchov & Eskridge 1996) and included in the final data set. The
resulting metadata include station identification information,
country, state, latitude, longitude, elevation, weather observatio [...truncated...]
Author: Adam H. Sparks [aut, cre] ,
Tomislav Hengl [aut] ,
Andrew Nelson [aut] ,
Hugh Parsonage [cph, ctb] ,
Taras Kaduk [ctb] ,
Gwenael Giboire [ctb] ,
Lukasz Pawlik [ctb] ,
Ross Darnell [ctb] ,
Tyler Widdison [ctb] ` did not
return stations in order of nea [...truncated...]
Maintainer: Adam H. Sparks <adamhsparks@gmail.com>
Diff between GSODR versions 4.1.1 dated 2024-07-23 and 4.1.2 dated 2024-09-12
DESCRIPTION | 12 +++--- MD5 | 16 ++++---- NEWS.md | 10 ++++- R/internal_functions.R | 25 +++++++++--- README.md | 85 +++++++++++++++++++++++++++---------------- inst/WORDLIST | 10 ++++- inst/extdata/isd_diff.rda |binary inst/extdata/isd_history.rda |binary man/GSODR-package.Rd | 1 9 files changed, 106 insertions(+), 53 deletions(-)
Title: Fisher's z-Tests Concerning Differences Between Correlations
Description: Computations of Fisher's z-tests concerning different kinds of correlation differences. The 'diffpwr' family entails approaches to estimating statistical power via Monte Carlo simulations. Important to note, the Pearson correlation coefficient is sensitive to linear association, but also to a host of statistical issues such as univariate and bivariate outliers, range restrictions, and heteroscedasticity (e.g., Duncan & Layard, 1973 <doi:10.1093/BIOMET/60.3.551>; Wilcox, 2013 <doi:10.1016/C2010-0-67044-1>). Thus, every power analysis requires that specific statistical prerequisites are fulfilled and can be invalid if the prerequisites do not hold. To this end, the 'bootcor' family provides bootstrapping confidence intervals for the incorporated correlation difference tests.
Author: Christian Bloetner [aut, cre]
Maintainer: Christian Bloetner <c.bloetner@gmail.com>
Diff between diffcor versions 0.8.3 dated 2024-05-03 and 0.8.4 dated 2024-09-12
DESCRIPTION | 18 +++++++++++------- MD5 | 14 ++++++++++---- NAMESPACE | 2 +- R/bootcor.dep.R |only R/bootcor.one.R |only R/bootcor.two.R |only man/bootcor.dep.Rd |only man/bootcor.one.Rd |only man/bootcor.two.Rd |only man/diffpwr.one.Rd | 8 ++++---- man/diffpwr.two.Rd | 2 +- 11 files changed, 27 insertions(+), 17 deletions(-)
Title: Custom Gov Style Inputs for Shiny
Description: Collection of 'shiny' application styling that are the based
on the GOV.UK Design System. See
<https://design-system.service.gov.uk/components/> for details.
Author: Ross Wyatt [aut, cre],
Cameron Race [ctb],
Sarah Wong [ctb],
Richard Bielby [ctb],
Charlotte Foster [ctb],
Jeni Martin [ctb]
Maintainer: Ross Wyatt <ross.wyatt@justice.gov.uk>
Diff between shinyGovstyle versions 0.0.8 dated 2022-02-22 and 0.1.0 dated 2024-09-12
DESCRIPTION | 41 MD5 | 79 NAMESPACE | 3 NEWS.md | 10 R/accordion.R | 1 R/attachDependency.R | 12 R/backlink_Input.R | 10 R/banner.R | 2 R/clean_heading_text.R |only R/contents_links.R |only R/cookieBanner.R | 14 R/govTabs.R | 2 R/header.R | 2 R/heading_text.R | 11 R/run_example.R | 274 + R/tag.R | 4 R/utils-pipe.R |only R/warning_text.R | 2 README.md | 178 + inst/www/css/font.css | 5 inst/www/css/govuk-frontend-norem.css | 5198 ++++++++++++++++-------------- inst/www/fonts/bold-affa96571d-v2.woff |only inst/www/fonts/bold-b542beb274-v2.woff2 |only inst/www/fonts/light-94a07e06a1-v2.woff2 |only inst/www/fonts/light-f591b13f7d-v2.woff |only inst/www/images/favicon.ico |only inst/www/images/favicon.svg |only inst/www/images/govuk-icon-180.png |only inst/www/images/govuk-icon-192.png |only inst/www/images/govuk-icon-512.png |only inst/www/images/govuk-icon-mask.svg |only inst/www/images/govuk-opengraph-image.png |only inst/www/js/accordion.js | 87 inst/www/js/contents_link.js |only inst/www/js/govuk-frontend-5.4.0.min.js |only man/backlink_Input.Rd | 4 man/banner.Rd | 2 man/clean_heading_text.Rd |only man/contents_link.Rd |only man/cookieBanner.Rd | 2 man/figures/accordion.png |binary man/figures/contents_link.png |only man/figures/header_text.png |only man/figures/tags.png |binary man/heading_text.Rd | 4 man/pipe.Rd |only man/subcontents_links.Rd |only man/tag_Input.Rd | 4 tests/testthat/test-backlink_Input.R | 2 tests/testthat/test-clean_heading_text.R |only tests/testthat/test-contents_links.R |only tests/testthat/test-subcontents_links.R |only tests/testthat/test-tag.R | 6 53 files changed, 3545 insertions(+), 2414 deletions(-)
Title: Automatic Calculation of Effects for Piecewise Structural
Equation Models
Description: Automatically calculate direct, indirect, and total effects for
piecewise structural equation models, comprising lists of fitted models
representing structured equations (Lefcheck, 2016 <doi:10/f8s8rb>).
Confidence intervals are provided via bootstrapping.
Author: Mark V. Murphy [aut, cre]
Maintainer: Mark V. Murphy <murphymv@gmail.com>
Diff between semEff versions 0.6.1 dated 2022-08-22 and 0.7.2 dated 2024-09-12
DESCRIPTION | 13 MD5 | 47 NAMESPACE | 6 NEWS.md | 33 R/bootEff-fun.R | 26 R/semEff-fun.R | 424 ++-- R/stdEff-fun.R | 63 README.md | 33 build/partial.rdb |binary build/vignette.rds |binary data/shipley.rda |binary inst/doc/predicting-effects.html | 313 +-- inst/doc/semEff.html | 421 ++-- man/R2.Rd | 12 man/VIF.Rd | 6 man/bootCI.Rd | 6 man/bootEff.Rd | 18 man/getEff.Rd | 47 man/getFamily.Rd |only man/predEff.Rd | 9 man/print.semEff.Rd | 7 man/semEff-package.Rd | 2 man/semEff.Rd | 19 vignettes/apa.csl | 3832 +++++++++++++++++++-------------------- vignettes/references.bib | 96 25 files changed, 2768 insertions(+), 2665 deletions(-)
Title: Price Index Aggregation
Description: Most price indexes are made with a two-step procedure, where
period-over-period elemental indexes are first calculated for a collection
of elemental aggregates at each point in time, and then aggregated according
to a price index aggregation structure. These indexes can then be chained
together to form a time series that gives the evolution of prices with
respect to a fixed base period. This package contains a collection of
functions that revolve around this work flow, making it easy to build
standard price indexes, and implement the methods described by
Balk (2008, <doi:10.1017/CBO9780511720758>), von der Lippe (2007,
<doi:10.3726/978-3-653-01120-3>), and the CPI manual (2020,
<doi:10.5089/9781484354841.069>) for bilateral price indexes.
Author: Steve Martin [aut, cre, cph]
Maintainer: Steve Martin <marberts@protonmail.com>
Diff between piar versions 0.7.0 dated 2024-03-08 and 0.8.1 dated 2024-09-12
piar-0.7.0/piar/R/summary.piar_index.R |only piar-0.7.0/piar/R/vcov.aggregate_piar_index.R |only piar-0.7.0/piar/man/summary.piar_index.Rd |only piar-0.7.0/piar/man/vcov.aggregate_piar_index.Rd |only piar-0.7.0/piar/tests/testthat/test-summary.R |only piar-0.7.0/piar/tests/testthat/test-vcov.R |only piar-0.8.1/piar/DESCRIPTION | 16 piar-0.8.1/piar/MD5 | 166 - piar-0.8.1/piar/NAMESPACE | 42 piar-0.8.1/piar/NEWS.md | 63 piar-0.8.1/piar/R/aggregate.piar_index.R | 208 +- piar-0.8.1/piar/R/aggregation_structure-class.R | 16 piar-0.8.1/piar/R/aggregation_structure.R | 8 piar-0.8.1/piar/R/as_aggregation_structure.R | 25 piar-0.8.1/piar/R/as_index.R | 46 piar-0.8.1/piar/R/chain.R | 61 piar-0.8.1/piar/R/coerce-aggregation_structure.R | 15 piar-0.8.1/piar/R/coerce-index.R | 24 piar-0.8.1/piar/R/contrib.R | 79 piar-0.8.1/piar/R/elemental_index.R | 119 - piar-0.8.1/piar/R/expand_classification.R | 53 piar-0.8.1/piar/R/extract.piar_index.R | 47 piar-0.8.1/piar/R/head.piar_index.R | 6 piar-0.8.1/piar/R/impute_prices.R | 127 + piar-0.8.1/piar/R/index-class.R | 119 - piar-0.8.1/piar/R/levels.piar_index.R | 14 piar-0.8.1/piar/R/mean.piar_index.R | 154 - piar-0.8.1/piar/R/merge.piar_index.R | 49 piar-0.8.1/piar/R/price_relative.R | 30 piar-0.8.1/piar/R/stack.piar_index.R | 79 piar-0.8.1/piar/R/time.piar_index.R | 13 piar-0.8.1/piar/R/update.aggregation_structure.R | 23 piar-0.8.1/piar/R/weights.piar_aggregation_structure.R | 8 piar-0.8.1/piar/R/window.piar_index.R |only piar-0.8.1/piar/README.md | 82 piar-0.8.1/piar/build/partial.rdb |only piar-0.8.1/piar/build/vignette.rds |binary piar-0.8.1/piar/inst/CITATION | 13 piar-0.8.1/piar/inst/doc/piar.R | 111 - piar-0.8.1/piar/inst/doc/piar.Rmd | 138 + piar-0.8.1/piar/inst/doc/piar.html | 887 +++++----- piar-0.8.1/piar/man/aggregate.piar_index.Rd | 43 piar-0.8.1/piar/man/aggregation_structure.Rd | 2 piar-0.8.1/piar/man/as.data.frame.piar_index.Rd | 15 piar-0.8.1/piar/man/as_aggregation_structure.Rd | 8 piar-0.8.1/piar/man/as_index.Rd | 16 piar-0.8.1/piar/man/chain.Rd | 14 piar-0.8.1/piar/man/contrib.Rd | 33 piar-0.8.1/piar/man/elemental_index.Rd | 63 piar-0.8.1/piar/man/expand_classification.Rd | 20 piar-0.8.1/piar/man/head.piar_index.Rd | 10 piar-0.8.1/piar/man/impute_prices.Rd | 54 piar-0.8.1/piar/man/is.na.piar_index.Rd | 6 piar-0.8.1/piar/man/is_index.Rd | 8 piar-0.8.1/piar/man/levels.piar_index.Rd | 10 piar-0.8.1/piar/man/mean.piar_index.Rd | 42 piar-0.8.1/piar/man/merge.piar_index.Rd | 18 piar-0.8.1/piar/man/piar-package.Rd | 2 piar-0.8.1/piar/man/piar_index.Rd | 17 piar-0.8.1/piar/man/price_relative.Rd | 23 piar-0.8.1/piar/man/split.piar_index.Rd | 6 piar-0.8.1/piar/man/stack.piar_index.Rd | 25 piar-0.8.1/piar/man/sub-.piar_index.Rd | 17 piar-0.8.1/piar/man/time.piar_index.Rd | 13 piar-0.8.1/piar/man/update.piar_aggregation_structure.Rd | 7 piar-0.8.1/piar/man/window.piar_index.Rd |only piar-0.8.1/piar/tests/Examples/piar-Ex.Rout.save | 194 -- piar-0.8.1/piar/tests/test-making-price-indexes.R | 247 +- piar-0.8.1/piar/tests/test-making-price-indexes.Rout.save | 325 ++- piar-0.8.1/piar/tests/testthat/test-aggregate.R | 170 + piar-0.8.1/piar/tests/testthat/test-aggregation-structure-attributes.R | 95 - piar-0.8.1/piar/tests/testthat/test-aggregation_structure.R | 2 piar-0.8.1/piar/tests/testthat/test-as_aggregation_structure.R | 3 piar-0.8.1/piar/tests/testthat/test-as_index.R | 19 piar-0.8.1/piar/tests/testthat/test-chain.R | 23 piar-0.8.1/piar/tests/testthat/test-contrib.R | 50 piar-0.8.1/piar/tests/testthat/test-elemental_index.R | 53 piar-0.8.1/piar/tests/testthat/test-expand_classification.R | 47 piar-0.8.1/piar/tests/testthat/test-extract-index.R | 25 piar-0.8.1/piar/tests/testthat/test-impute-prices.R | 41 piar-0.8.1/piar/tests/testthat/test-index-attributes.R | 10 piar-0.8.1/piar/tests/testthat/test-is.na.R | 2 piar-0.8.1/piar/tests/testthat/test-known-values.R | 10 piar-0.8.1/piar/tests/testthat/test-mean.R | 39 piar-0.8.1/piar/tests/testthat/test-merge.R | 31 piar-0.8.1/piar/tests/testthat/test-stack.R | 33 piar-0.8.1/piar/tests/testthat/test-update.R | 6 piar-0.8.1/piar/tests/testthat/test-window.R |only piar-0.8.1/piar/vignettes/piar.Rmd | 138 + 89 files changed, 2916 insertions(+), 1960 deletions(-)
Title: Deep Learning with 'mlr3'
Description: Deep Learning library that extends the mlr3 framework by building
upon the 'torch' package. It allows to conveniently build, train,
and evaluate deep learning models without having to worry about low level
details. Custom architectures can be created using the graph language
defined in 'mlr3pipelines'.
Author: Sebastian Fischer [cre, aut] ,
Bernd Bischl [ctb] ,
Lukas Burk [ctb] ,
Martin Binder [aut],
Florian Pfisterer [ctb]
Maintainer: Sebastian Fischer <sebf.fischer@gmail.com>
Diff between mlr3torch versions 0.1.0 dated 2024-07-08 and 0.1.1 dated 2024-09-12
mlr3torch-0.1.0/mlr3torch/man/figures/logo.png |only mlr3torch-0.1.0/mlr3torch/tests/testthat/TODO.md |only mlr3torch-0.1.1/mlr3torch/DESCRIPTION | 11 mlr3torch-0.1.1/mlr3torch/MD5 | 249 +++++----- mlr3torch-0.1.1/mlr3torch/NAMESPACE | 1 mlr3torch-0.1.1/mlr3torch/NEWS.md | 10 mlr3torch-0.1.1/mlr3torch/R/LearnerTorch.R | 14 mlr3torch-0.1.1/mlr3torch/R/LearnerTorchMLP.R | 12 mlr3torch-0.1.1/mlr3torch/R/LearnerTorchTabResNet.R | 2 mlr3torch-0.1.1/mlr3torch/R/PipeOpTaskPreprocTorch.R | 10 mlr3torch-0.1.1/mlr3torch/R/PipeOpTorchIngress.R | 5 mlr3torch-0.1.1/mlr3torch/R/PipeOpTorchReshape.R | 2 mlr3torch-0.1.1/mlr3torch/R/TorchDescriptor.R | 2 mlr3torch-0.1.1/mlr3torch/R/materialize.R | 2 mlr3torch-0.1.1/mlr3torch/R/nn.R |only mlr3torch-0.1.1/mlr3torch/R/paramset_torchlearner.R | 15 mlr3torch-0.1.1/mlr3torch/R/preprocess.R | 4 mlr3torch-0.1.1/mlr3torch/R/utils.R | 2 mlr3torch-0.1.1/mlr3torch/R/with_torch_settings.R | 11 mlr3torch-0.1.1/mlr3torch/R/zzz.R | 4 mlr3torch-0.1.1/mlr3torch/README.md | 17 mlr3torch-0.1.1/mlr3torch/build/partial.rdb |binary mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentCenterCrop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentColorJitter.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentCrop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentHflip.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomAffine.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomChoice.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomCrop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomHorizontalFlip.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomOrder.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomResizedCrop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRandomVerticalFlip.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentResizedCrop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentRotate.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchAugmentVflip.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoAdjustBrightness.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoAdjustGamma.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoAdjustHue.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoAdjustSaturation.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoGrayscale.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoNop.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoNormalize.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoPad.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoReshape.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoResize.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/PipeOpPreprocTorchTrafoRgbToGrayscale.Rd | 4 mlr3torch-0.1.1/mlr3torch/man/figures/logo.svg | 190 +++---- 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mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_conv3d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_conv_transpose1d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_conv_transpose2d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_conv_transpose3d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_dropout.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_elu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_flatten.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_gelu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_glu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_hardshrink.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_hardsigmoid.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_hardtanh.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_head.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_layer_norm.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_leaky_relu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_linear.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_log_sigmoid.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_max_pool1d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_max_pool2d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_max_pool3d.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_merge.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_merge_cat.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_merge_prod.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_merge_sum.Rd | 2 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_prelu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_relu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_relu6.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_reshape.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_rrelu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_selu.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_sigmoid.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_softmax.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_softplus.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_softshrink.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_softsign.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_squeeze.Rd | 148 ----- mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_tanh.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_tanhshrink.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_threshold.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_nn_unsqueeze.Rd |only mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_preproc_torch.Rd | 2 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_ingress.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_ingress_categ.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_ingress_ltnsr.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_ingress_num.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_loss.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_model.Rd | 6 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_model_classif.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/mlr_pipeops_torch_model_regr.Rd | 1 mlr3torch-0.1.1/mlr3torch/man/nn.Rd |only mlr3torch-0.1.1/mlr3torch/tests/testthat.R | 7 mlr3torch-0.1.1/mlr3torch/tests/testthat/helper_autotest.R | 1 mlr3torch-0.1.1/mlr3torch/tests/testthat/helper_learner.R | 4 mlr3torch-0.1.1/mlr3torch/tests/testthat/helper_tasks.R | 2 mlr3torch-0.1.1/mlr3torch/tests/testthat/setup.R | 8 mlr3torch-0.1.1/mlr3torch/tests/testthat/teardown.R | 1 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_CallbackSetHistory.R | 2 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_CallbackSetProgress.R | 2 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_LearnerTorch.R | 49 + mlr3torch-0.1.1/mlr3torch/tests/testthat/test_PipeOpTaskPreprocTorch.R | 3 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_TorchDescriptor.R | 4 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_TorchLoss.R | 6 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_TorchOptimizer.R | 6 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_learner_torch_methods.R | 18 mlr3torch-0.1.1/mlr3torch/tests/testthat/test_nn.R |only mlr3torch-0.1.1/mlr3torch/tests/testthat/test_with_torch_settings.R | 9 130 files changed, 463 insertions(+), 555 deletions(-)
Title: Geometrically Designed Spline Regression
Description: Spline Regression, Generalized Additive Models, and Component-wise Gradient
Boosting, utilizing Geometrically Designed (GeD) Splines. GeDS regression is a
non-parametric method inspired by geometric principles, for fitting spline regression
models with variable knots in one or two independent variables. It efficiently estimates
the number of knots and their positions, as well as the spline order, assuming the
response variable follows a distribution from the exponential family. GeDS models
integrate the broader category of Generalized (Non-)Linear Models, offering a flexible
approach to modeling complex relationships. A description of the method can be found in
Kaishev et al. (2016) <doi:10.1007/s00180-015-0621-7> and Dimitrova et al. (2023)
<doi:10.1016/j.amc.2022.127493>. Further extending its capabilities, GeDS's implementation
includes Generalized Additive Models (GAM) and Functional Gradient Boosting (FGB),
enabling versatile multivariate predictor modeling, as discuss [...truncated...]
Author: Dimitrina S. Dimitrova [aut],
Emilio S. Guillen [aut, cre],
Vladimir K. Kaishev [aut],
Andrea Lattuada [aut],
Richard J. Verrall [aut]
Maintainer: Emilio S. Guillen <Emilio.Saenz-Guillen@bayes.city.ac.uk>
Diff between GeDS versions 0.2.3 dated 2024-07-19 and 0.2.4 dated 2024-09-12
GeDS-0.2.3/GeDS/man/plot.GeDSboost.Rd |only GeDS-0.2.4/GeDS/DESCRIPTION | 40 - GeDS-0.2.4/GeDS/MD5 | 107 +- GeDS-0.2.4/GeDS/NAMESPACE | 5 GeDS-0.2.4/GeDS/R/BivariateFitter.R | 68 - GeDS-0.2.4/GeDS/R/GGeDS.R | 88 +- GeDS-0.2.4/GeDS/R/GeDS-package.R | 55 - GeDS-0.2.4/GeDS/R/GeDSClass.R | 201 ++--- GeDS-0.2.4/GeDS/R/IRLSfit.R | 23 GeDS-0.2.4/GeDS/R/IntegrateDerive.R | 4 GeDS-0.2.4/GeDS/R/NGeDS.R | 6 GeDS-0.2.4/GeDS/R/NGeDSboost.R | 118 +-- GeDS-0.2.4/GeDS/R/NGeDSgam.R | 121 +-- GeDS-0.2.4/GeDS/R/S3methods.R | 56 - GeDS-0.2.4/GeDS/R/S3methods_GeDSboost-GeDSgam.R | 857 ++++++++++++----------- GeDS-0.2.4/GeDS/R/SplineReg.R | 103 +- GeDS-0.2.4/GeDS/R/SplineReg_Multivar.R | 132 +-- GeDS-0.2.4/GeDS/R/SplineReg_biv.R | 42 - GeDS-0.2.4/GeDS/R/UnivariateFitter.R | 42 - GeDS-0.2.4/GeDS/R/cv_GeDSMethod.R | 18 GeDS-0.2.4/GeDS/R/dynlib.R | 13 GeDS-0.2.4/GeDS/R/helpers_NGeDSboost-NGeDSgam.R | 2 GeDS-0.2.4/GeDS/R/lines_GeDSMethod.R | 16 GeDS-0.2.4/GeDS/R/plot_GeDSMethod.R | 435 ++++++++++- GeDS-0.2.4/GeDS/R/read.formula.R | 49 - GeDS-0.2.4/GeDS/README.md | 2 GeDS-0.2.4/GeDS/build/partial.rdb |binary GeDS-0.2.4/GeDS/man/BaFe2As2.Rd | 7 GeDS-0.2.4/GeDS/man/BivariateFitters.Rd | 301 ++++---- GeDS-0.2.4/GeDS/man/Derive.Rd | 2 GeDS-0.2.4/GeDS/man/GGeDS.Rd | 86 +- GeDS-0.2.4/GeDS/man/GeDS-class.Rd | 87 +- GeDS-0.2.4/GeDS/man/GeDS-package.Rd | 55 - GeDS-0.2.4/GeDS/man/GeDSboost-class.Rd | 235 ++---- GeDS-0.2.4/GeDS/man/GeDSgam-class.Rd | 207 ++--- GeDS-0.2.4/GeDS/man/IRLSfit.Rd | 210 ++--- GeDS-0.2.4/GeDS/man/Integrate.Rd | 2 GeDS-0.2.4/GeDS/man/NGeDS.Rd | 4 GeDS-0.2.4/GeDS/man/NGeDSboost.Rd | 578 +++++++-------- GeDS-0.2.4/GeDS/man/NGeDSgam.Rd | 400 +++++----- GeDS-0.2.4/GeDS/man/SplineReg.Rd | 10 GeDS-0.2.4/GeDS/man/UnivariateFitters.Rd | 408 +++++----- GeDS-0.2.4/GeDS/man/bl_imp.Rd | 131 +-- GeDS-0.2.4/GeDS/man/coalMining.Rd | 6 GeDS-0.2.4/GeDS/man/coef.GeDSboost_GeDSgam.Rd | 112 +-- GeDS-0.2.4/GeDS/man/coef.Rd | 26 GeDS-0.2.4/GeDS/man/crossv_GeDS.Rd | 18 GeDS-0.2.4/GeDS/man/deviance.GeDS.Rd | 3 GeDS-0.2.4/GeDS/man/f.Rd | 2 GeDS-0.2.4/GeDS/man/formula.GeDS.Rd | 47 - GeDS-0.2.4/GeDS/man/plot-GeDS-method.Rd | 4 GeDS-0.2.4/GeDS/man/plot-GeDSboost-method.Rd |only GeDS-0.2.4/GeDS/man/plot-GeDSgam-method.Rd |only GeDS-0.2.4/GeDS/man/predict.GeDS.Rd | 2 GeDS-0.2.4/GeDS/man/predict.GeDSboost_GeDSgam.Rd | 124 ++- GeDS-0.2.4/GeDS/man/visualize_boosting.Rd | 124 +-- 56 files changed, 3203 insertions(+), 2591 deletions(-)
Title: Text Mining E-Mail Plug-in
Description: A plug-in for the tm text mining framework providing mail handling
functionality.
Author: Ingo Feinerer [aut] ,
Wolfgang Mauerer [aut],
Kurt Hornik [aut, cre]
Maintainer: Kurt Hornik <Kurt.Hornik@R-project.org>
Diff between tm.plugin.mail versions 0.3-0 dated 2024-08-16 and 0.3-1 dated 2024-09-12
DESCRIPTION | 6 ++-- MD5 | 8 ++--- NAMESPACE | 7 +++- R/reader.R | 85 ++++++++++++++++++++++++++++++++++++++++++++++++------------ R/zzz.R | 3 ++ 5 files changed, 84 insertions(+), 25 deletions(-)
More information about tm.plugin.mail at CRAN
Permanent link
Title: Inference for Panel Partially Observed Markov Processes
Description: Data analysis based on panel partially-observed Markov process (PanelPOMP) models. To implement such models, simulate them and fit them to panel data, 'panelPomp' extends some of the facilities provided for time series data by the 'pomp' package. Implemented methods include filtering (panel particle filtering) and maximum likelihood estimation (Panel Iterated Filtering) as proposed in Breto, Ionides and King (2020) "Panel Data Analysis via Mechanistic Models" <doi:10.1080/01621459.2019.1604367>.
Author: Carles Breto [aut] ,
Edward L. Ionides [aut] ,
Aaron A. King [aut] ,
Jesse Wheeler [aut, cre]
Maintainer: Jesse Wheeler <jeswheel@umich.edu>
Diff between panelPomp versions 1.1 dated 2023-03-29 and 1.4 dated 2024-09-12
panelPomp-1.1/panelPomp/R/package.R |only panelPomp-1.1/panelPomp/man/pparams.Rd |only panelPomp-1.1/panelPomp/man/unitlogLik.Rd |only panelPomp-1.1/panelPomp/man/unitobjects.Rd |only panelPomp-1.4/panelPomp/DESCRIPTION | 35 - panelPomp-1.4/panelPomp/MD5 | 145 ++-- panelPomp-1.4/panelPomp/NAMESPACE | 22 panelPomp-1.4/panelPomp/R/aaa.R | 2 panelPomp-1.4/panelPomp/R/generics.R | 153 +++- panelPomp-1.4/panelPomp/R/mif2.R | 33 - panelPomp-1.4/panelPomp/R/panelPomp-package.R |only panelPomp-1.4/panelPomp/R/panelPomp.R | 42 - panelPomp-1.4/panelPomp/R/panelPomp_methods.R | 327 ++++++++-- panelPomp-1.4/panelPomp/R/panel_designs.R |only panelPomp-1.4/panelPomp/R/panel_logmeanexp.R | 8 panelPomp-1.4/panelPomp/R/params.R | 94 -- panelPomp-1.4/panelPomp/R/pfilter.R | 34 - panelPomp-1.4/panelPomp/R/pfilter_methods.R | 102 ++- panelPomp-1.4/panelPomp/R/simulate.R | 4 panelPomp-1.4/panelPomp/README.md |only panelPomp-1.4/panelPomp/build/partial.rdb |binary panelPomp-1.4/panelPomp/build/vignette.rds |only panelPomp-1.4/panelPomp/inst/NEWS | 209 ++++++ panelPomp-1.4/panelPomp/inst/NEWS.Rd | 171 +++++ panelPomp-1.4/panelPomp/inst/doc |only panelPomp-1.4/panelPomp/man/as.Rd | 4 panelPomp-1.4/panelPomp/man/figures |only panelPomp-1.4/panelPomp/man/macros/newcommands.Rd | 4 panelPomp-1.4/panelPomp/man/mif2.Rd | 6 panelPomp-1.4/panelPomp/man/panel-designs.Rd |only panelPomp-1.4/panelPomp/man/panelPomp-package.Rd | 16 panelPomp-1.4/panelPomp/man/panelPomp.Rd | 4 panelPomp-1.4/panelPomp/man/panelPomp_methods.Rd | 80 +- panelPomp-1.4/panelPomp/man/panel_logmeanexp.Rd | 8 panelPomp-1.4/panelPomp/man/params.Rd | 25 panelPomp-1.4/panelPomp/man/pfilter.Rd | 16 panelPomp-1.4/panelPomp/man/pfilterd-setter.Rd |only panelPomp-1.4/panelPomp/man/shared-set.Rd |only panelPomp-1.4/panelPomp/man/shared.Rd |only panelPomp-1.4/panelPomp/man/specific-set.Rd |only panelPomp-1.4/panelPomp/man/specific.Rd |only panelPomp-1.4/panelPomp/man/unitLogLik.Rd |only panelPomp-1.4/panelPomp/man/unit_objects.Rd |only panelPomp-1.4/panelPomp/man/unitlogLik-deprecated.Rd |only panelPomp-1.4/panelPomp/man/unitlogLik-pfilterd.ppomp-method.Rd |only panelPomp-1.4/panelPomp/tests/_options.R | 2 panelPomp-1.4/panelPomp/tests/_options.Rout.save | 11 panelPomp-1.4/panelPomp/tests/aaa.Rout.save | 11 panelPomp-1.4/panelPomp/tests/contacts.Rout.save | 23 panelPomp-1.4/panelPomp/tests/get_col_row.Rout.save | 11 panelPomp-1.4/panelPomp/tests/mif2.R | 20 panelPomp-1.4/panelPomp/tests/mif2.Rout.save | 32 panelPomp-1.4/panelPomp/tests/mif2_intern.R | 8 panelPomp-1.4/panelPomp/tests/mif2_intern.Rout.save | 19 panelPomp-1.4/panelPomp/tests/mif2_methods.R | 15 panelPomp-1.4/panelPomp/tests/mif2_methods.Rout.save | 29 panelPomp-1.4/panelPomp/tests/panelGompertz.Rout.save | 23 panelPomp-1.4/panelPomp/tests/panelGompertzLikelihood.Rout.save | 11 panelPomp-1.4/panelPomp/tests/panelPomp.R | 8 panelPomp-1.4/panelPomp/tests/panelPomp.Rout.save | 39 - panelPomp-1.4/panelPomp/tests/panelPomp_methods.R | 37 - panelPomp-1.4/panelPomp/tests/panelPomp_methods.Rout.save | 58 + panelPomp-1.4/panelPomp/tests/panelRandomWalk.Rout.save | 23 panelPomp-1.4/panelPomp/tests/panel_designs.R |only panelPomp-1.4/panelPomp/tests/panel_designs.Rout.save |only panelPomp-1.4/panelPomp/tests/panel_loglik.Rout.save | 11 panelPomp-1.4/panelPomp/tests/params.R | 38 - panelPomp-1.4/panelPomp/tests/params.Rout.save | 52 + panelPomp-1.4/panelPomp/tests/pfilter.R | 39 - panelPomp-1.4/panelPomp/tests/pfilter.Rout.save | 53 + panelPomp-1.4/panelPomp/tests/pfilter_methods.R | 16 panelPomp-1.4/panelPomp/tests/pfilter_methods.Rout.save | 37 - panelPomp-1.4/panelPomp/tests/plot.Rout.save | 11 panelPomp-1.4/panelPomp/tests/print-results.Rout.save | 27 panelPomp-1.4/panelPomp/tests/seeded-results.R | 4 panelPomp-1.4/panelPomp/tests/seeded-results.Rout.save | 15 panelPomp-1.4/panelPomp/tests/simulate.R | 2 panelPomp-1.4/panelPomp/tests/simulate.Rout.save | 21 panelPomp-1.4/panelPomp/tests/specificShared.R |only panelPomp-1.4/panelPomp/tests/specificShared.Rout.save |only panelPomp-1.4/panelPomp/vignettes |only 81 files changed, 1645 insertions(+), 605 deletions(-)
Title: 'Rcpp' Integration for the 'Armadillo' Templated Linear Algebra
Library
Description: 'Armadillo' is a templated C++ linear algebra library (by Conrad
Sanderson) that aims towards a good balance between speed and ease of
use. Integer, floating point and complex numbers are supported, as
well as a subset of trigonometric and statistics functions. Various
matrix decompositions are provided through optional integration with
LAPACK and ATLAS libraries. The 'RcppArmadillo' package includes the
header files from the templated 'Armadillo' library. Thus users do
not need to install 'Armadillo' itself in order to use
'RcppArmadillo'. From release 7.800.0 on, 'Armadillo' is licensed
under Apache License 2; previous releases were under licensed as MPL
2.0 from version 3.800.0 onwards and LGPL-3 prior to that;
'RcppArmadillo' (the 'Rcpp' bindings/bridge to Armadillo) is licensed
under the GNU GPL version 2 or later, as is the rest of 'Rcpp'.
Author: Dirk Eddelbuettel [aut, cre] ,
Romain Francois [aut] ,
Doug Bates [aut] ,
Binxiang Ni [aut],
Conrad Sanderson [aut]
Maintainer: Dirk Eddelbuettel <edd@debian.org>
Diff between RcppArmadillo versions 14.0.0-1 dated 2024-07-08 and 14.0.2-1 dated 2024-09-12
ChangeLog | 25 +++++++++ DESCRIPTION | 25 +++++++-- MD5 | 54 ++++++++++----------- configure | 18 +++---- configure.ac | 2 inst/CITATION | 6 +- inst/NEWS.Rd | 13 +++++ inst/doc/RcppArmadillo-intro.pdf |binary inst/doc/RcppArmadillo-sparseMatrix.pdf |binary inst/include/armadillo | 3 - inst/include/armadillo_bits/Cube_meat.hpp | 4 - inst/include/armadillo_bits/Mat_meat.hpp | 4 - inst/include/armadillo_bits/Proxy.hpp | 4 - inst/include/armadillo_bits/SpMat_meat.hpp | 4 - inst/include/armadillo_bits/arma_version.hpp | 2 inst/include/armadillo_bits/compiler_setup.hpp | 2 inst/include/armadillo_bits/config.hpp | 12 ---- inst/include/armadillo_bits/diskio_meat.hpp | 16 +++--- inst/include/armadillo_bits/field_meat.hpp | 4 - inst/include/armadillo_bits/fn_accu.hpp | 53 -------------------- inst/include/armadillo_bits/memory.hpp | 32 +++--------- inst/include/armadillo_bits/mul_gemm.hpp | 4 - inst/include/armadillo_bits/mul_gemv.hpp | 2 inst/include/armadillo_bits/mul_herk.hpp | 2 inst/include/armadillo_bits/mul_syrk.hpp | 2 inst/include/armadillo_bits/subview_field_meat.hpp | 3 - inst/include/armadillo_bits/subview_meat.hpp | 29 +++++++---- inst/include/armadillo_bits/unwrap.hpp | 2 28 files changed, 154 insertions(+), 173 deletions(-)