Title: Web Application Framework for R
Description: Makes it incredibly easy to build interactive web
applications with R. Automatic "reactive" binding between inputs and
outputs and extensive prebuilt widgets make it possible to build
beautiful, responsive, and powerful applications with minimal effort.
Author: Winston Chang [aut, cre] ,
Joe Cheng [aut],
JJ Allaire [aut],
Carson Sievert [aut] ,
Barret Schloerke [aut] ,
Yihui Xie [aut],
Jeff Allen [aut],
Jonathan McPherson [aut],
Alan Dipert [aut],
Barbara Borges [aut],
RStudio [cph],
jQuery Foundation [cph] [...truncated...]
Maintainer: Winston Chang <winston@rstudio.com>
Diff between shiny versions 1.7.1 dated 2021-10-02 and 1.7.2 dated 2022-07-18
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Title: Mathematical Modeling of Infectious Disease Dynamics
Description: Tools for simulating mathematical models of infectious disease dynamics.
Epidemic model classes include deterministic compartmental models, stochastic
individual-contact models, and stochastic network models. Network models use the
robust statistical methods of exponential-family random graph models (ERGMs)
from the Statnet suite of software packages in R. Standard templates for epidemic
modeling include SI, SIR, and SIS disease types. EpiModel features an API for
extending these templates to address novel scientific research aims. Full
methods for EpiModel are detailed in Jenness et al. (2018, <doi:10.18637/jss.v084.i08>).
Author: Samuel Jenness [cre, aut],
Steven M. Goodreau [aut],
Martina Morris [aut],
Adrien Le Guillou [aut],
Chad Klumb [aut],
Skye Bender-deMoll [ctb]
Maintainer: Samuel Jenness <samuel.m.jenness@emory.edu>
Diff between EpiModel versions 2.2.1 dated 2022-02-02 and 2.3.0 dated 2022-07-18
EpiModel-2.2.1/EpiModel/R/EpiModel-package.r |only EpiModel-2.2.1/EpiModel/R/print.r |only EpiModel-2.2.1/EpiModel/R/util.R |only EpiModel-2.2.1/EpiModel/inst/EpiModel2 |only EpiModel-2.2.1/EpiModel/inst/JSS |only EpiModel-2.2.1/EpiModel/inst/NMGDemo.R |only EpiModel-2.2.1/EpiModel/inst/shiny/epinet/rsconnect |only EpiModel-2.2.1/EpiModel/inst/tests |only EpiModel-2.2.1/EpiModel/man/edgelist_meanage.Rd |only EpiModel-2.2.1/EpiModel/man/netsim_loop.Rd |only EpiModel-2.2.1/EpiModel/man/updater.net.Rd |only EpiModel-2.2.1/EpiModel/src/registerDynamicSymbol.c |only EpiModel-2.3.0/EpiModel/DESCRIPTION | 32 EpiModel-2.3.0/EpiModel/MD5 | 458 +- EpiModel-2.3.0/EpiModel/NAMESPACE | 25 EpiModel-2.3.0/EpiModel/NEWS.md | 550 +- EpiModel-2.3.0/EpiModel/R/EpiModel-package.R |only EpiModel-2.3.0/EpiModel/R/ErgmTerms.R | 101 EpiModel-2.3.0/EpiModel/R/as.data.frame.R | 12 EpiModel-2.3.0/EpiModel/R/dcm.inputs.R | 110 EpiModel-2.3.0/EpiModel/R/dcm.mods.R | 3 EpiModel-2.3.0/EpiModel/R/dendo.R | 130 EpiModel-2.3.0/EpiModel/R/el_cuml.R | 76 EpiModel-2.3.0/EpiModel/R/get.R | 100 EpiModel-2.3.0/EpiModel/R/icm.inputs.R | 61 EpiModel-2.3.0/EpiModel/R/icm.mod.init.R | 12 EpiModel-2.3.0/EpiModel/R/icm.mod.status.R | 28 EpiModel-2.3.0/EpiModel/R/icm.mod.vital.R | 24 EpiModel-2.3.0/EpiModel/R/icm.utils.R | 9 EpiModel-2.3.0/EpiModel/R/initialize.R | 9 EpiModel-2.3.0/EpiModel/R/merge.R | 91 EpiModel-2.3.0/EpiModel/R/modules.net.R | 10 EpiModel-2.3.0/EpiModel/R/net.accessor.R | 142 EpiModel-2.3.0/EpiModel/R/net.helpers.R | 46 EpiModel-2.3.0/EpiModel/R/net.inputs.R | 425 +- EpiModel-2.3.0/EpiModel/R/net.mod.infection.R | 44 EpiModel-2.3.0/EpiModel/R/net.mod.init.R | 54 EpiModel-2.3.0/EpiModel/R/net.mod.nwupdate.R | 52 EpiModel-2.3.0/EpiModel/R/net.mod.prevalence.R | 6 EpiModel-2.3.0/EpiModel/R/net.mod.recovery.R | 14 EpiModel-2.3.0/EpiModel/R/net.mod.simnet.R | 210 EpiModel-2.3.0/EpiModel/R/net.mod.trackers.R | 14 EpiModel-2.3.0/EpiModel/R/net.mod.updater.R | 74 EpiModel-2.3.0/EpiModel/R/net.mod.vital.R | 24 EpiModel-2.3.0/EpiModel/R/net.record.R | 51 EpiModel-2.3.0/EpiModel/R/net.scenarios.R |only EpiModel-2.3.0/EpiModel/R/net.utils.R | 260 - EpiModel-2.3.0/EpiModel/R/netdx.R | 552 +- EpiModel-2.3.0/EpiModel/R/netest.R | 238 - EpiModel-2.3.0/EpiModel/R/netsim.R | 215 - EpiModel-2.3.0/EpiModel/R/netsim_checkpoint.R |only EpiModel-2.3.0/EpiModel/R/network.R | 37 EpiModel-2.3.0/EpiModel/R/networkLite.R |only EpiModel-2.3.0/EpiModel/R/plot.R | 2107 ++-------- EpiModel-2.3.0/EpiModel/R/print.R |only EpiModel-2.3.0/EpiModel/R/saveout.R | 145 EpiModel-2.3.0/EpiModel/R/summary.R | 56 EpiModel-2.3.0/EpiModel/R/test.R | 4 EpiModel-2.3.0/EpiModel/R/update.R | 14 EpiModel-2.3.0/EpiModel/R/utils.R | 157 EpiModel-2.3.0/EpiModel/R/verbose.R | 34 EpiModel-2.3.0/EpiModel/build/partial.rdb |binary EpiModel-2.3.0/EpiModel/build/vignette.rds |binary EpiModel-2.3.0/EpiModel/inst/doc/Intro.Rmd | 8 EpiModel-2.3.0/EpiModel/inst/doc/Intro.html | 288 + EpiModel-2.3.0/EpiModel/inst/doc/attributes-and-summary-statistics.Rmd | 13 EpiModel-2.3.0/EpiModel/inst/doc/attributes-and-summary-statistics.html | 1137 +++-- EpiModel-2.3.0/EpiModel/inst/doc/model-parameters.R | 193 EpiModel-2.3.0/EpiModel/inst/doc/model-parameters.Rmd | 373 + EpiModel-2.3.0/EpiModel/inst/doc/model-parameters.html | 1741 ++++++-- EpiModel-2.3.0/EpiModel/inst/doc/network-objects.Rmd | 11 EpiModel-2.3.0/EpiModel/inst/doc/network-objects.html | 596 ++ EpiModel-2.3.0/EpiModel/man/EpiModel-package.Rd | 9 EpiModel-2.3.0/EpiModel/man/InitErgmTerm.absdiffby.Rd | 18 EpiModel-2.3.0/EpiModel/man/InitErgmTerm.absdiffnodemix.Rd | 11 EpiModel-2.3.0/EpiModel/man/InitErgmTerm.fuzzynodematch.Rd |only EpiModel-2.3.0/EpiModel/man/add_vertices.Rd | 7 EpiModel-2.3.0/EpiModel/man/apportion_lr.Rd | 18 EpiModel-2.3.0/EpiModel/man/arrivals.2g.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/arrivals.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/arrivals.icm.bip.Rd | 7 EpiModel-2.3.0/EpiModel/man/arrivals.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/as.data.frame.dcm.Rd | 5 EpiModel-2.3.0/EpiModel/man/as.data.frame.icm.Rd | 3 EpiModel-2.3.0/EpiModel/man/as.data.frame.netdx.Rd | 5 EpiModel-2.3.0/EpiModel/man/as.network.transmat.Rd | 24 EpiModel-2.3.0/EpiModel/man/as.phylo.transmat.Rd | 58 EpiModel-2.3.0/EpiModel/man/auto_update_attr.Rd | 10 EpiModel-2.3.0/EpiModel/man/brewer_ramp.Rd | 10 EpiModel-2.3.0/EpiModel/man/check_attr_lengths.Rd | 13 EpiModel-2.3.0/EpiModel/man/color_tea.Rd | 9 EpiModel-2.3.0/EpiModel/man/common_updater.Rd | 10 EpiModel-2.3.0/EpiModel/man/comp_plot.Rd | 6 EpiModel-2.3.0/EpiModel/man/control.dcm.Rd | 8 EpiModel-2.3.0/EpiModel/man/control.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/control.net.Rd | 103 EpiModel-2.3.0/EpiModel/man/copy_datattr_to_nwattr.Rd | 12 EpiModel-2.3.0/EpiModel/man/copy_nwattr_to_datattr.Rd | 10 EpiModel-2.3.0/EpiModel/man/create_dat_object.Rd | 8 EpiModel-2.3.0/EpiModel/man/create_scenario_list.Rd |only EpiModel-2.3.0/EpiModel/man/crosscheck.dcm.Rd | 10 EpiModel-2.3.0/EpiModel/man/dcm.mods.Rd | 3 EpiModel-2.3.0/EpiModel/man/deleteAttr.Rd | 5 EpiModel-2.3.0/EpiModel/man/delete_attr.Rd | 8 EpiModel-2.3.0/EpiModel/man/delete_vertices.Rd | 7 EpiModel-2.3.0/EpiModel/man/departures.2g.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/departures.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/departures.icm.bip.Rd | 7 EpiModel-2.3.0/EpiModel/man/departures.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/discord_edgelist.Rd | 11 EpiModel-2.3.0/EpiModel/man/dissolution_coefs.Rd | 17 EpiModel-2.3.0/EpiModel/man/edgelist_censor.Rd | 6 EpiModel-2.3.0/EpiModel/man/edges_correct.Rd | 6 EpiModel-2.3.0/EpiModel/man/format_param.Rd | 12 EpiModel-2.3.0/EpiModel/man/generate_random_params.Rd | 34 EpiModel-2.3.0/EpiModel/man/geom_bands.Rd | 6 EpiModel-2.3.0/EpiModel/man/get_args.Rd | 4 EpiModel-2.3.0/EpiModel/man/get_attr_history.Rd | 2 EpiModel-2.3.0/EpiModel/man/get_attr_prop.Rd | 14 EpiModel-2.3.0/EpiModel/man/get_cumulative_edgelist.Rd | 10 EpiModel-2.3.0/EpiModel/man/get_cumulative_edgelists_df.Rd | 10 EpiModel-2.3.0/EpiModel/man/get_current_timestep.Rd | 9 EpiModel-2.3.0/EpiModel/man/get_degree.Rd | 19 EpiModel-2.3.0/EpiModel/man/get_edgelist.Rd | 10 EpiModel-2.3.0/EpiModel/man/get_formula_term_attr.Rd | 15 EpiModel-2.3.0/EpiModel/man/get_network.Rd | 16 EpiModel-2.3.0/EpiModel/man/get_network_term_attr.Rd | 12 EpiModel-2.3.0/EpiModel/man/get_nwparam.Rd | 2 EpiModel-2.3.0/EpiModel/man/get_nwstats.Rd | 5 EpiModel-2.3.0/EpiModel/man/get_param_set.Rd | 2 EpiModel-2.3.0/EpiModel/man/get_partners.Rd | 13 EpiModel-2.3.0/EpiModel/man/get_sims.Rd | 13 EpiModel-2.3.0/EpiModel/man/get_vertex_attribute.Rd | 10 EpiModel-2.3.0/EpiModel/man/idgroup.Rd | 7 EpiModel-2.3.0/EpiModel/man/increment_timestep.Rd | 13 EpiModel-2.3.0/EpiModel/man/infection.2g.net.Rd | 7 EpiModel-2.3.0/EpiModel/man/infection.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/infection.icm.bip.Rd | 5 EpiModel-2.3.0/EpiModel/man/infection.net.Rd | 9 EpiModel-2.3.0/EpiModel/man/init.dcm.Rd | 29 EpiModel-2.3.0/EpiModel/man/init.icm.Rd | 29 EpiModel-2.3.0/EpiModel/man/init.net.Rd | 21 EpiModel-2.3.0/EpiModel/man/init_status.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/init_status.net.Rd | 27 EpiModel-2.3.0/EpiModel/man/init_tergmLite.Rd | 12 EpiModel-2.3.0/EpiModel/man/initialize.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/initialize.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/is_active_posit_ids.Rd | 9 EpiModel-2.3.0/EpiModel/man/is_active_unique_ids.Rd | 9 EpiModel-2.3.0/EpiModel/man/make_dissolution_stats.Rd | 10 EpiModel-2.3.0/EpiModel/man/make_formation_table.Rd | 10 EpiModel-2.3.0/EpiModel/man/mcat.Rd | 4 EpiModel-2.3.0/EpiModel/man/merge.icm.Rd | 6 EpiModel-2.3.0/EpiModel/man/merge.netsim.Rd | 20 EpiModel-2.3.0/EpiModel/man/modules.net.Rd | 10 EpiModel-2.3.0/EpiModel/man/mutate_epi.Rd | 4 EpiModel-2.3.0/EpiModel/man/net-accessor.Rd | 60 EpiModel-2.3.0/EpiModel/man/netdx.Rd | 80 EpiModel-2.3.0/EpiModel/man/netest.Rd | 44 EpiModel-2.3.0/EpiModel/man/netsim.Rd | 10 EpiModel-2.3.0/EpiModel/man/netsim_cond_msg.Rd | 18 EpiModel-2.3.0/EpiModel/man/networkLite.Rd | 68 EpiModel-2.3.0/EpiModel/man/networkLitemethods.Rd | 148 EpiModel-2.3.0/EpiModel/man/network_initialize.Rd | 28 EpiModel-2.3.0/EpiModel/man/nwupdate.net.Rd | 10 EpiModel-2.3.0/EpiModel/man/param.dcm.Rd | 56 EpiModel-2.3.0/EpiModel/man/param.icm.Rd | 53 EpiModel-2.3.0/EpiModel/man/param.net.Rd | 85 EpiModel-2.3.0/EpiModel/man/param.net_from_table.Rd |only EpiModel-2.3.0/EpiModel/man/param_random.Rd | 11 EpiModel-2.3.0/EpiModel/man/plot.dcm.Rd | 9 EpiModel-2.3.0/EpiModel/man/plot.icm.Rd | 44 EpiModel-2.3.0/EpiModel/man/plot.netdx.Rd | 71 EpiModel-2.3.0/EpiModel/man/plot.netsim.Rd | 60 EpiModel-2.3.0/EpiModel/man/plot.transmat.Rd | 25 EpiModel-2.3.0/EpiModel/man/prevalence.icm.Rd | 5 EpiModel-2.3.0/EpiModel/man/prevalence.icm.bip.Rd | 5 EpiModel-2.3.0/EpiModel/man/prevalence.net.Rd | 5 EpiModel-2.3.0/EpiModel/man/print.netdx.Rd |only EpiModel-2.3.0/EpiModel/man/print_nwstats_table.Rd | 6 EpiModel-2.3.0/EpiModel/man/process_out.net.Rd | 10 EpiModel-2.3.0/EpiModel/man/record_attr_history.Rd | 36 EpiModel-2.3.0/EpiModel/man/record_raw_object.Rd | 16 EpiModel-2.3.0/EpiModel/man/recovery.2g.net.Rd | 7 EpiModel-2.3.0/EpiModel/man/recovery.icm.Rd | 7 EpiModel-2.3.0/EpiModel/man/recovery.icm.bip.Rd | 7 EpiModel-2.3.0/EpiModel/man/recovery.net.Rd | 7 EpiModel-2.3.0/EpiModel/man/resim_nets.Rd | 8 EpiModel-2.3.0/EpiModel/man/saveout.dcm.Rd | 21 EpiModel-2.3.0/EpiModel/man/saveout.icm.Rd | 21 EpiModel-2.3.0/EpiModel/man/saveout.net.Rd | 23 EpiModel-2.3.0/EpiModel/man/set_current_timestep.Rd | 21 EpiModel-2.3.0/EpiModel/man/set_transmat.Rd | 14 EpiModel-2.3.0/EpiModel/man/set_vertex_attribute.Rd | 5 EpiModel-2.3.0/EpiModel/man/sim_nets_t1.Rd | 6 EpiModel-2.3.0/EpiModel/man/ssample.Rd | 3 EpiModel-2.3.0/EpiModel/man/summary.dcm.Rd | 10 EpiModel-2.3.0/EpiModel/man/summary.icm.Rd | 8 EpiModel-2.3.0/EpiModel/man/summary.netest.Rd | 14 EpiModel-2.3.0/EpiModel/man/summary.netsim.Rd | 8 EpiModel-2.3.0/EpiModel/man/trackers.net.Rd | 12 EpiModel-2.3.0/EpiModel/man/trim_netest.Rd |only EpiModel-2.3.0/EpiModel/man/truncate_sim.Rd | 7 EpiModel-2.3.0/EpiModel/man/unique_id-tools.Rd | 22 EpiModel-2.3.0/EpiModel/man/update_cumulative_edgelist.Rd | 23 EpiModel-2.3.0/EpiModel/man/update_dissolution.Rd | 22 EpiModel-2.3.0/EpiModel/man/update_list.Rd | 10 EpiModel-2.3.0/EpiModel/man/update_params.Rd | 23 EpiModel-2.3.0/EpiModel/man/update_unique_ids.Rd | 16 EpiModel-2.3.0/EpiModel/man/use_scenario.Rd |only EpiModel-2.3.0/EpiModel/man/verbose.dcm.Rd | 10 EpiModel-2.3.0/EpiModel/man/verbose.icm.Rd | 6 EpiModel-2.3.0/EpiModel/man/verbose.net.Rd | 10 EpiModel-2.3.0/EpiModel/src/RcppExports.cpp | 2 EpiModel-2.3.0/EpiModel/src/changestats.users.c | 44 EpiModel-2.3.0/EpiModel/src/changestats.users.h | 3 EpiModel-2.3.0/EpiModel/src/registerDynamicSymbol.cpp |only EpiModel-2.3.0/EpiModel/tests/testthat/test-cumulative_edgelist.R | 11 EpiModel-2.3.0/EpiModel/tests/testthat/test-dissolution-diagnostics.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-get.R | 10 EpiModel-2.3.0/EpiModel/tests/testthat/test-merge.R | 56 EpiModel-2.3.0/EpiModel/tests/testthat/test-net-long.R | 2 EpiModel-2.3.0/EpiModel/tests/testthat/test-net-tergmLite.R | 36 EpiModel-2.3.0/EpiModel/tests/testthat/test-netdx.R | 611 +- EpiModel-2.3.0/EpiModel/tests/testthat/test-netest.R | 55 EpiModel-2.3.0/EpiModel/tests/testthat/test-netsim-checkpoint.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-netsim.R | 243 - EpiModel-2.3.0/EpiModel/tests/testthat/test-networkLite.R | 1133 ++++- EpiModel-2.3.0/EpiModel/tests/testthat/test-parameters_df.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-random-params.R | 10 EpiModel-2.3.0/EpiModel/tests/testthat/test-scenarios.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-stergm.R | 49 EpiModel-2.3.0/EpiModel/tests/testthat/test-term-fuzzynodematch.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-terms.R |only EpiModel-2.3.0/EpiModel/tests/testthat/test-updater.R | 17 EpiModel-2.3.0/EpiModel/tests/testthat/test-utils.R | 4 EpiModel-2.3.0/EpiModel/vignettes/Intro.Rmd | 8 EpiModel-2.3.0/EpiModel/vignettes/attributes-and-summary-statistics.Rmd | 13 EpiModel-2.3.0/EpiModel/vignettes/model-parameters.Rmd | 373 + EpiModel-2.3.0/EpiModel/vignettes/network-objects.Rmd | 11 240 files changed, 10080 insertions(+), 6059 deletions(-)
Title: Gene Analysis Toolkit in R
Description: An analysis toolkit focused on genes. It mainly includes five
features (search, convert, analysis, plot, and export).
The user just needs to input feature id ('entrez', 'symbol', 'ensembl' or
'uniprot') to retrieve feature information and PubMed records, to convert id
types, to easily do enrichment analysis and draw publication-level plots of GO,
KEGG and GSEA, to plot group interaction and export results as sheets in one excel
file to easily share and communicate with others.
Author: Yunze Liu [aut, cre]
Maintainer: Yunze Liu <jieandze1314@gmail.com>
Diff between genekitr versions 0.8.5 dated 2022-05-27 and 1.0.3 dated 2022-07-18
genekitr-0.8.5/genekitr/R/genGO.R |only genekitr-0.8.5/genekitr/R/genKEGG.R |only genekitr-0.8.5/genekitr/man/genGO.Rd |only genekitr-0.8.5/genekitr/man/genKEGG.Rd |only genekitr-1.0.3/genekitr/DESCRIPTION | 25 genekitr-1.0.3/genekitr/MD5 | 79 - genekitr-1.0.3/genekitr/NAMESPACE | 32 genekitr-1.0.3/genekitr/R/asEnrichdat.R | 2 genekitr-1.0.3/genekitr/R/data.R | 10 genekitr-1.0.3/genekitr/R/expoSheet.R | 35 genekitr-1.0.3/genekitr/R/genGSEA.R | 276 ++- genekitr-1.0.3/genekitr/R/genInfo.R | 172 +- genekitr-1.0.3/genekitr/R/genORA.R |only genekitr-1.0.3/genekitr/R/getPubmed.R | 52 genekitr-1.0.3/genekitr/R/importCP.R |only genekitr-1.0.3/genekitr/R/importPanther.R | 53 genekitr-1.0.3/genekitr/R/ploTheme.R | 34 genekitr-1.0.3/genekitr/R/plotEnrich.R | 1038 +++++++++------ genekitr-1.0.3/genekitr/R/plotEnrichAdv.R |only genekitr-1.0.3/genekitr/R/plotGSEA.R | 534 ++++--- genekitr-1.0.3/genekitr/R/plotVenn.R | 214 ++- genekitr-1.0.3/genekitr/R/plotVolcano.R | 102 - genekitr-1.0.3/genekitr/R/simGO.R |only genekitr-1.0.3/genekitr/R/transID.R | 50 genekitr-1.0.3/genekitr/R/transProbe.R |only genekitr-1.0.3/genekitr/R/utilities.R | 510 ++++--- genekitr-1.0.3/genekitr/R/zzz.R | 19 genekitr-1.0.3/genekitr/README.md | 84 - genekitr-1.0.3/genekitr/data/biocOrg_name.rda |binary genekitr-1.0.3/genekitr/data/deg.rda |binary genekitr-1.0.3/genekitr/data/ensOrg_name.rda |binary genekitr-1.0.3/genekitr/data/hsapiens_probe_platform.rda |only genekitr-1.0.3/genekitr/man/Datasets.Rd | 4 genekitr-1.0.3/genekitr/man/expoSheet.Rd | 6 genekitr-1.0.3/genekitr/man/genGSEA.Rd | 55 genekitr-1.0.3/genekitr/man/genInfo.Rd | 15 genekitr-1.0.3/genekitr/man/genORA.Rd |only genekitr-1.0.3/genekitr/man/getPubmed.Rd | 16 genekitr-1.0.3/genekitr/man/importCP.Rd |only genekitr-1.0.3/genekitr/man/plotEnrich.Rd | 70 - genekitr-1.0.3/genekitr/man/plotEnrichAdv.Rd |only genekitr-1.0.3/genekitr/man/plotGSEA.Rd | 45 genekitr-1.0.3/genekitr/man/plotVenn.Rd | 42 genekitr-1.0.3/genekitr/man/plotVolcano.Rd | 8 genekitr-1.0.3/genekitr/man/plot_theme.Rd | 5 genekitr-1.0.3/genekitr/man/simGO.Rd |only genekitr-1.0.3/genekitr/man/transId.Rd | 6 genekitr-1.0.3/genekitr/man/transProbe.Rd |only 48 files changed, 2191 insertions(+), 1402 deletions(-)
Title: Tools Inspired by 'Stata' to Manipulate Tabular Data
Description: A set of tools inspired by 'Stata' to explore data.frames ('summarize',
'tabulate', 'xtile', 'pctile', 'binscatter', elapsed quarters/month, lead/lag).
Author: Matthieu Gomez [aut, cre]
Maintainer: Matthieu Gomez <mg3901@columbia.edu>
Diff between statar versions 0.7.3 dated 2020-11-19 and 0.7.4 dated 2022-07-18
DESCRIPTION | 8 MD5 | 18 - R/elapsed_dates.R | 1 README.md | 2 build/vignette.rds |binary inst/doc/data-frames.html | 535 +++++++++++++++++++++++++++----------------- inst/doc/graph.html | 456 ++++++++++++++++++++++++++----------- inst/doc/panel-data.html | 557 ++++++++++++++++++++++++++++++---------------- inst/doc/vector.html | 490 +++++++++++++++++++++++++++------------- man/elapsed.Rd | 1 10 files changed, 1378 insertions(+), 690 deletions(-)
Title: Simplified Statistics for PA 606
Description: Simplifies functions assess normality for bivariate and multivariate statistical techniques. Includes functions designed to replicate plots and tables that would result from similar calls in 'SPSS', including hst(), box(), qq(), tab(), cormat(), and residplot(). Also includes simplified formulae, such as mode(), scatter(), p.corr(), ow.anova(), and rm.anova().
Author: Burrel Vann Jr [aut, cre]
Maintainer: Burrel Vann Jr <bvannjr@sdsu.edu>
Diff between vannstats versions 1.2.4.29 dated 2022-04-29 and 1.2.7.14 dated 2022-07-18
DESCRIPTION | 10 +++++----- MD5 | 6 ++++-- NAMESPACE | 4 ++++ R/stata.plm.margins.R |only man/stata.plm.margins.Rd |only 5 files changed, 13 insertions(+), 7 deletions(-)
Title: Hospital Data Analysis Workflow Tools
Description: Hospital data analysis workflow tools, modeling, and automations. This library
provides many useful tools to review common administrative hospital data. Some
of these include average length of stay, readmission rates, average net pay
amounts by service lines just to name a few. The aim is to provide a simple
and consistent verb framework that takes the guesswork out of everything.
Author: Steven Sanderson [aut, cre],
Steven Sanderson [cph]
Maintainer: Steven Sanderson <spsanderson@gmail.com>
Diff between healthyR versions 0.1.9 dated 2022-04-25 and 0.2.0 dated 2022-07-18
DESCRIPTION | 8 MD5 | 80 +- NAMESPACE | 3 NEWS.md | 14 R/00_global_variables.R | 18 R/augment-service-line.R | 216 +++---- R/data_tbl_functions.R | 774 ++++++++++++------------- R/diverging-bar-plt.R | 260 ++++---- R/diverging-lollipop-plt.R | 218 +++---- R/gartner_magic_chart.R | 214 ++++--- R/kmeans-funcs.R | 996 ++++++++++++++++----------------- R/los_ra_index_plt.R | 318 +++++----- R/pallette-color-blind.R |only R/service-line-vec.R | 516 ++++++++--------- R/sql_string_split.R | 136 ++-- R/time_series_plots.R | 726 ++++++++++++------------ R/ts-census-los-tbl.R | 350 +++++------ R/ts_median_excess_plt.R | 268 ++++---- R/ts_signature_tbl.R | 148 ++-- R/umap_list.R | 406 ++++++------- R/zzz.R | 38 - README.md | 4 build/vignette.rds |binary inst/doc/getting-started.Rmd | 200 +++--- inst/doc/getting-started.html | 8 inst/doc/kmeans-umap.Rmd | 356 +++++------ inst/doc/kmeans-umap.html | 114 +-- man/color_blind.Rd |only man/diverging_bar_plt.Rd | 164 ++--- man/diverging_lollipop_plt.Rd | 126 ++-- man/figures/README-gartner_chart-1.png |binary man/gartner_magic_chart_plt.Rd | 47 + man/hr_scale_color_colorblind.Rd |only man/hr_scale_fill_colorblind.Rd |only man/kmeans_scree_data_tbl.Rd | 102 +-- man/kmeans_scree_plt.Rd | 100 +-- man/service_line_augment.Rd | 128 ++-- man/service_line_vec.Rd | 128 ++-- man/ts_signature_tbl.Rd | 96 +-- man/umap_list.Rd | 122 ++-- man/umap_plt.Rd | 130 ++-- vignettes/getting-started.Rmd | 200 +++--- vignettes/kmeans-umap.Rmd | 356 +++++------ 43 files changed, 4090 insertions(+), 3998 deletions(-)
Title: Date-Time Types and Tools
Description: Provides a comprehensive library for date-time manipulations
using a new family of orthogonal date-time classes (durations, time
points, zoned-times, and calendars) that partition responsibilities so
that the complexities of time zones are only considered when they are
really needed. Capabilities include: date-time parsing, formatting,
arithmetic, extraction and updating of components, and rounding.
Author: Davis Vaughan [aut, cre],
RStudio [cph, fnd]
Maintainer: Davis Vaughan <davis@rstudio.com>
Diff between clock versions 0.6.0 dated 2021-12-02 and 0.6.1 dated 2022-07-18
DESCRIPTION | 17 MD5 | 120 ++-- NAMESPACE | 1 NEWS.md | 29 R/arithmetic.R | 2 R/calendar.R | 4 R/clock-package.R | 1 R/date.R | 22 R/duration.R | 19 R/gregorian-year-day.R | 2 R/gregorian-year-month-day.R | 4 R/gregorian-year-month-weekday.R | 2 R/invalid.R | 2 R/iso-year-week-day.R | 4 R/naive-time.R | 5 R/posixt.R | 28 R/quarterly-year-quarter-day.R | 6 R/setters.R | 2 R/sys-time.R | 4 R/time-point.R | 6 R/weekday.R | 2 R/zoned-time.R | 4 build/vignette.rds |binary inst/doc/clock.html | 492 ++++++++++++++-- inst/doc/faq.html | 412 ++++++++++++-- inst/doc/recipes.html | 524 +++++++++++++++--- man/clock-arith.Rd | 5 man/clock-package.Rd | 2 man/date-sequence.Rd | 8 man/date-time-parse.Rd | 6 man/date_seq.Rd | 10 man/posixt-sequence.Rd | 8 man/seq.clock_duration.Rd | 14 man/seq.clock_iso_year_week_day.Rd | 4 man/seq.clock_time_point.Rd | 4 man/seq.clock_year_day.Rd | 4 man/seq.clock_year_month_day.Rd | 4 man/seq.clock_year_month_weekday.Rd | 4 man/seq.clock_year_quarter_day.Rd | 4 man/sys-parsing.Rd | 6 man/sys_time_info.Rd | 6 src/duration.cpp | 19 src/utils.h | 20 tests/testthat/_snaps/calendar.md | 21 tests/testthat/_snaps/date.md | 174 +++-- tests/testthat/_snaps/duration.md | 35 - tests/testthat/_snaps/gregorian-year-day.md | 3 tests/testthat/_snaps/gregorian-year-month-day.md | 6 tests/testthat/_snaps/gregorian-year-month-weekday.md | 3 tests/testthat/_snaps/iso-year-week-day.md | 3 tests/testthat/_snaps/naive-time.md | 29 tests/testthat/_snaps/posixt.md | 201 +++--- tests/testthat/_snaps/quarterly-year-quarter-day.md | 3 tests/testthat/_snaps/sys-time.md | 54 - tests/testthat/_snaps/time-point.md | 30 - tests/testthat/_snaps/utils.md | 3 tests/testthat/_snaps/zoned-time.md | 12 tests/testthat/helper-format.R | 10 tests/testthat/test-date.R | 32 - tests/testthat/test-duration.R | 18 tests/testthat/test-posixt.R | 50 + 61 files changed, 1821 insertions(+), 708 deletions(-)
Title: In-Line Documentation for R
Description: Generate your Rd documentation, 'NAMESPACE' file, and
collation field using specially formatted comments. Writing
documentation in-line with code makes it easier to keep your
documentation up-to-date as your requirements change. 'roxygen2' is
inspired by the 'Doxygen' system for C++.
Author: Hadley Wickham [aut, cre, cph]
,
Peter Danenberg [aut, cph],
Gabor Csardi [aut],
Manuel Eugster [aut, cph],
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between roxygen2 versions 7.2.0 dated 2022-05-13 and 7.2.1 dated 2022-07-18
roxygen2-7.2.0/roxygen2/R/roxygen.R |only roxygen2-7.2.0/roxygen2/man/roxygen |only roxygen2-7.2.1/roxygen2/DESCRIPTION | 12 roxygen2-7.2.1/roxygen2/MD5 | 184 +- roxygen2-7.2.1/roxygen2/NAMESPACE | 11 roxygen2-7.2.1/roxygen2/NEWS.md | 76 roxygen2-7.2.1/roxygen2/R/markdown-escaping.R | 1 roxygen2-7.2.1/roxygen2/R/markdown-link.R | 8 roxygen2-7.2.1/roxygen2/R/markdown.R | 143 + roxygen2-7.2.1/roxygen2/R/namespace.R | 13 roxygen2-7.2.1/roxygen2/R/object-format.R | 1 roxygen2-7.2.1/roxygen2/R/object-s3.R | 1 roxygen2-7.2.1/roxygen2/R/options.R | 16 roxygen2-7.2.1/roxygen2/R/rd-describe-in.R | 217 ++ roxygen2-7.2.1/roxygen2/R/rd-eval.R |only roxygen2-7.2.1/roxygen2/R/rd-find-link-files.R | 2 roxygen2-7.2.1/roxygen2/R/rd-include-rmd.R | 33 roxygen2-7.2.1/roxygen2/R/rd-inherit.R | 6 roxygen2-7.2.1/roxygen2/R/rd-r6.R | 13 roxygen2-7.2.1/roxygen2/R/rd-raw.R | 2 roxygen2-7.2.1/roxygen2/R/rd-usage.R | 55 roxygen2-7.2.1/roxygen2/R/rd.R | 38 roxygen2-7.2.1/roxygen2/R/roclet.R | 1 roxygen2-7.2.1/roxygen2/R/roxygen2-package.R |only roxygen2-7.2.1/roxygen2/R/roxygenize.R | 3 roxygen2-7.2.1/roxygen2/R/tag-metadata.R |only roxygen2-7.2.1/roxygen2/R/tag-parser.R | 10 roxygen2-7.2.1/roxygen2/R/topic.R | 14 roxygen2-7.2.1/roxygen2/R/topics.R | 4 roxygen2-7.2.1/roxygen2/R/utils-rd.R | 8 roxygen2-7.2.1/roxygen2/R/utils.R | 18 roxygen2-7.2.1/roxygen2/R/vignette.R | 3 roxygen2-7.2.1/roxygen2/README.md | 14 roxygen2-7.2.1/roxygen2/build/vignette.rds |binary roxygen2-7.2.1/roxygen2/inst/doc/extending.Rmd | 72 roxygen2-7.2.1/roxygen2/inst/doc/index-crossref.R |only roxygen2-7.2.1/roxygen2/inst/doc/index-crossref.Rmd |only roxygen2-7.2.1/roxygen2/inst/doc/index-crossref.html |only roxygen2-7.2.1/roxygen2/inst/doc/namespace.R | 28 roxygen2-7.2.1/roxygen2/inst/doc/namespace.Rmd | 159 -- roxygen2-7.2.1/roxygen2/inst/doc/namespace.html | 198 +- roxygen2-7.2.1/roxygen2/inst/doc/rd-formatting.R | 126 - 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Title: Constrained Generalized Additive Model
Description: A constrained generalized additive model is fitted by the cgam routine. Given a set of predictors, each of which may have a shape or order restrictions, the maximum likelihood estimator for the constrained generalized additive model is found using an iteratively re-weighted cone projection algorithm. The ShapeSelect routine chooses a subset of predictor variables and describes the component relationships with the response. For each predictor, the user needs only specify a set of possible shape or order restrictions. A model selection method chooses the shapes and orderings of the relationships as well as the variables. The cone information criterion (CIC) is used to select the best combination of variables and shapes. A genetic algorithm may be used when the set of possible models is large. In addition, the cgam routine implements a two-dimensional isotonic regression using warped-plane splines without additivity assumptions. It can also fit a convex or concave regression surface with triangle splines without additivity assumptions. See Liao X, Meyer MC (2019)<doi:10.18637/jss.v089.i05> for more details.
Author: Mary Meyer [aut],
Xiyue Liao [aut, cre]
Maintainer: Xiyue Liao <xiyue.liao@csulb.edu>
Diff between cgam versions 1.17 dated 2021-12-13 and 1.18 dated 2022-07-18
ChangeLog | 29 DESCRIPTION | 20 MD5 | 14 NAMESPACE | 5 R/cgam.R | 3013 ++++++++++++++-------------- R/cgamm.R | 6294 +++++++++++++++++++++++++++++++++-------------------------- man/cgam.Rd | 2 man/cgamm.Rd | 47 8 files changed, 5262 insertions(+), 4162 deletions(-)
Title: Spherical Geometry Operators Using the S2 Geometry Library
Description: Provides R bindings for Google's s2 library for geometric calculations on
the sphere. High-performance constructors and exporters provide high compatibility
with existing spatial packages, transformers construct new geometries from existing
geometries, predicates provide a means to select geometries based on spatial
relationships, and accessors extract information about geometries.
Author: Dewey Dunnington [aut] ,
Edzer Pebesma [aut, cre] ,
Ege Rubak [aut],
Jeroen Ooms [ctb] ,
Google, Inc. [cph]
Maintainer: Edzer Pebesma <edzer.pebesma@uni-muenster.de>
Diff between s2 versions 1.0.7 dated 2021-09-28 and 1.1.0 dated 2022-07-18
s2-1.0.7/s2/R/s2-xptr.R |only s2-1.0.7/s2/man/s2_unprojection_filter.Rd |only s2-1.0.7/s2/src/geography-collection.h |only s2-1.0.7/s2/src/point-geography.h |only s2-1.0.7/s2/src/polygon-geography.h |only s2-1.0.7/s2/src/polyline-geography.h |only s2-1.0.7/s2/src/s2-c-api.cpp |only s2-1.0.7/s2/src/s2-point.cpp |only s2-1.0.7/s2/src/s2-xptr.cpp |only s2-1.0.7/s2/src/wk-c-utils.c |only s2-1.0.7/s2/src/wk-geography.h |only s2-1.0.7/s2/tests/testthat/test-s2-xptr.R |only s2-1.1.0/s2/DESCRIPTION | 11 s2-1.1.0/s2/MD5 | 185 + s2-1.1.0/s2/NAMESPACE | 99 - s2-1.1.0/s2/NEWS.md | 38 s2-1.1.0/s2/R/RcppExports.R | 120 - s2-1.1.0/s2/R/data.R | 13 s2-1.1.0/s2/R/plot.R |only s2-1.1.0/s2/R/s2-cell-union.R |only s2-1.1.0/s2/R/s2-cell.R | 34 s2-1.1.0/s2/R/s2-constructors-formatters.R | 139 + s2-1.1.0/s2/R/s2-geography.R | 132 - s2-1.1.0/s2/R/s2-lnglat.R | 89 s2-1.1.0/s2/R/s2-matrix.R | 22 s2-1.1.0/s2/R/s2-point.R | 73 s2-1.1.0/s2/R/s2-predicates.R | 7 s2-1.1.0/s2/R/s2-transformers.R | 71 s2-1.1.0/s2/R/utils.R | 14 s2-1.1.0/s2/R/vctrs.R | 34 s2-1.1.0/s2/R/wk-utils.R | 159 + s2-1.1.0/s2/R/zzz.R | 2 s2-1.1.0/s2/README.md | 66 s2-1.1.0/s2/build/partial.rdb |binary s2-1.1.0/s2/configure | 16 s2-1.1.0/s2/data/s2_data_example_wkt.rda |only s2-1.1.0/s2/data/s2_data_tbl_cities.rda |binary s2-1.1.0/s2/data/s2_data_tbl_countries.rda |binary s2-1.1.0/s2/data/s2_data_tbl_timezones.rda |binary s2-1.1.0/s2/man/as_s2_geography.Rd | 7 s2-1.1.0/s2/man/s2-package.Rd | 6 s2-1.1.0/s2/man/s2_boundary.Rd | 23 s2-1.1.0/s2/man/s2_cell.Rd | 7 s2-1.1.0/s2/man/s2_cell_is_valid.Rd | 8 s2-1.1.0/s2/man/s2_cell_union.Rd |only s2-1.1.0/s2/man/s2_cell_union_normalize.Rd |only s2-1.1.0/s2/man/s2_closest_feature.Rd | 12 s2-1.1.0/s2/man/s2_contains.Rd | 3 s2-1.1.0/s2/man/s2_data_example_wkt.Rd |only s2-1.1.0/s2/man/s2_geog_point.Rd | 57 s2-1.1.0/s2/man/s2_lnglat.Rd | 27 s2-1.1.0/s2/man/s2_plot.Rd |only s2-1.1.0/s2/man/s2_point.Rd | 32 s2-1.1.0/s2/man/wk_handle.s2_geography.Rd |only s2-1.1.0/s2/src/Makevars.in | 13 s2-1.1.0/s2/src/Makevars.win | 16 s2-1.1.0/s2/src/RcppExports.cpp | 426 ++-- s2-1.1.0/s2/src/absl/strings/internal/str_format/parser.cc | 3 s2-1.1.0/s2/src/absl/time/internal/cctz/src/time_zone_format.cc | 9 s2-1.1.0/s2/src/geography-operator.h | 14 s2-1.1.0/s2/src/geography.h | 159 - s2-1.1.0/s2/src/s2-accessors.cpp | 104 - s2-1.1.0/s2/src/s2-bounds.cpp | 12 s2-1.1.0/s2/src/s2-cell-union.cpp |only s2-1.1.0/s2/src/s2-cell.cpp | 110 - s2-1.1.0/s2/src/s2-constructors-formatters.cpp | 983 +++++++++- s2-1.1.0/s2/src/s2-geography.cpp | 122 - s2-1.1.0/s2/src/s2-lnglat.cpp | 107 - s2-1.1.0/s2/src/s2-matrix.cpp | 395 +--- s2-1.1.0/s2/src/s2-options.h | 28 s2-1.1.0/s2/src/s2-predicates.cpp | 152 - s2-1.1.0/s2/src/s2-transformers.cpp | 560 +---- s2-1.1.0/s2/src/s2/s2edge_distances.cc | 18 s2-1.1.0/s2/src/s2/s2edge_distances.h | 20 s2-1.1.0/s2/src/s2/util/math/exactfloat/exactfloat.cc | 20 s2-1.1.0/s2/src/s2geography |only s2-1.1.0/s2/src/s2geography.h |only s2-1.1.0/s2/src/tests/main.c |only s2-1.1.0/s2/tests/testthat.R | 8 s2-1.1.0/s2/tests/testthat/test-data.R | 16 s2-1.1.0/s2/tests/testthat/test-plot.R |only s2-1.1.0/s2/tests/testthat/test-s2-accessors.R | 29 s2-1.1.0/s2/tests/testthat/test-s2-bounds.R | 4 s2-1.1.0/s2/tests/testthat/test-s2-cell-union.R |only s2-1.1.0/s2/tests/testthat/test-s2-cell.R | 32 s2-1.1.0/s2/tests/testthat/test-s2-constructors-formatters.R | 29 s2-1.1.0/s2/tests/testthat/test-s2-earth.R | 2 s2-1.1.0/s2/tests/testthat/test-s2-geography.R | 125 - s2-1.1.0/s2/tests/testthat/test-s2-lnglat.R | 77 s2-1.1.0/s2/tests/testthat/test-s2-matrix.R | 25 s2-1.1.0/s2/tests/testthat/test-s2-options.R | 2 s2-1.1.0/s2/tests/testthat/test-s2-point.R | 47 s2-1.1.0/s2/tests/testthat/test-s2-predicates.R | 17 s2-1.1.0/s2/tests/testthat/test-s2-transformers.R | 112 + s2-1.1.0/s2/tests/testthat/test-vctrs.R | 26 s2-1.1.0/s2/tests/testthat/test-wk-utils.R | 345 ++- s2-1.1.0/s2/tools/winlibs.R | 8 97 files changed, 3502 insertions(+), 2179 deletions(-)
Title: Quaternions Splines
Description: Provides routines to create some quaternions splines:
Barry-Goldman algorithm, De Casteljau algorithm, and Kochanek-Bartels
algorithm. The implementations are based on the Python library
'splines'. Quaternions splines allow to construct spherical curves.
References: Barry and Goldman <doi:10.1145/54852.378511>,
Kochanek and Bartels <doi:10.1145/800031.808575>.
Author: Stephane Laurent [aut, cre],
Matthias Geier [aut]
Maintainer: Stephane Laurent <laurent_step@outlook.fr>
Diff between qsplines versions 0.1.0 dated 2022-06-28 and 1.0.0 dated 2022-07-18
DESCRIPTION | 11 - MD5 | 34 +++-- NAMESPACE | 4 NEWS.md | 5 R/BarryGoldman.R | 93 ++++---------- R/KochanekBartels.R | 267 ++++++++++------------------------------- R/RcppExports.R |only R/aaa.R | 2 R/quaternions_splines_shared.R | 9 + inst/shiny/threejs/server.R | 15 +- inst/shiny/threejs/ui.R | 6 man/BarryGoldman.Rd | 17 +- man/DeCasteljau.Rd | 86 +++++++------ man/KochanekBartels.Rd | 225 +++++++++++++++++----------------- src |only 15 files changed, 326 insertions(+), 448 deletions(-)
Title: Forest Analysis with Airborne Laser Scanning (LiDAR) Data
Description: Provides functions for forest analysis using airborne laser scanning (LiDAR remote sensing) data:
tree detection (method 1 in Eysn et al. (2015) <doi:10.3390/f6051721>) and segmentation;
forest parameters estimation and mapping with the area-based approach. It includes complementary steps for forest mapping:
co-registration of field plots with LiDAR data (Monnet and Mermin (2014) <doi:10.3390/f5092307>);
extraction of both physical (gaps, edges, trees) and statistical features from LiDAR data useful
for e.g. habitat suitability modeling (Glad et al. (2020) <doi:10.1002/rse2.117>) and forest maturity mapping (Fuhr et al. (2022) <doi:10.1002/rse2.274>);
model calibration with ground reference, and maps export.
Author: Jean-Matthieu Monnet [aut, cre]
,
Pascal Obstetar [ctb]
Maintainer: Jean-Matthieu Monnet <jean-matthieu.monnet@inrae.fr>
Diff between lidaRtRee versions 4.0.1 dated 2022-05-23 and 4.0.2 dated 2022-07-18
DESCRIPTION | 16 +- MD5 | 35 ++-- NAMESPACE | 1 R/aba.R | 2 R/common.R | 25 ++- R/gap_detection.R | 239 +++++++++++++++++++++----------- R/metrics.R | 6 R/tree_detection.R | 333 +++++++++++++++++++++++++++++++++++++++++---- R/tree_match.R | 10 + R/tree_metrics.R | 4 build/partial.rdb |binary man/aba_inference.Rd | 2 man/clouds_tree_metrics.Rd | 4 man/convert_raster.Rd | 13 + man/gap_detection.Rd | 22 ++ man/plot_tree_inventory.Rd | 4 man/tree_detection.Rd |only man/tree_extraction.Rd | 48 ++++-- man/tree_segmentation.Rd | 5 19 files changed, 596 insertions(+), 173 deletions(-)
Title: High-Dimensional Mediation Analysis
Description: Allows to estimate and test high-dimensional mediation effects based on advanced mediator screening and penalized regression techniques. Methods used in the package refer to Zhang H, Zheng Y, Zhang Z, Gao T, Joyce B, Yoon G, Zhang W, Schwartz J, Just A, Colicino E, Vokonas P, Zhao L, Lv J, Baccarelli A, Hou L, Liu L. Estimating and Testing High-dimensional Mediation Effects in Epigenetic Studies. Bioinformatics. (2016) <doi:10.1093/bioinformatics/btw351>. PMID: 27357171.
Author: Yinan Zheng [aut, cre],
Haixiang Zhang [aut],
Lifang Hou [aut],
Lei Liu [aut, cph]
Maintainer: Yinan Zheng <y-zheng@northwestern.edu>
Diff between HIMA versions 2.0.0 dated 2022-02-03 and 2.0.1 dated 2022-07-18
DESCRIPTION | 12 +-- MD5 | 26 +++--- R/HIMA-package.R | 21 +++-- R/hima.R | 91 ++++++++++++----------- R/microHIMA.R | 2 R/onAttach.R | 11 ++ R/survHIMA.R | 2 README.md | 8 +- inst/CITATION | 35 +++++++-- inst/NEWS | 5 + man/HIMA-package.Rd | 19 +++- man/hima.Rd | 24 ++---- man/microHIMA.Rd | 162 +++++++++++++++++++++--------------------- man/survHIMA.Rd | 198 ++++++++++++++++++++++++++-------------------------- 14 files changed, 330 insertions(+), 286 deletions(-)
Title: Discrete Beta Regression
Description: Bayesian Beta Regression, adapted for bounded discrete responses, commonly seen in survey responses.
Estimation is done via Markov Chain Monte Carlo sampling, using a Gibbs wrapper around univariate slice sampler
(Neal (2003) <DOI:10.1214/aos/1056562461>), as implemented in the R package MfUSampler
(Mahani and Sharabiani (2017) <DOI: 10.18637/jss.v078.c01>).
Author: Alireza Mahani [cre, aut],
Mansour Sharabiani [aut]
Maintainer: Alireza Mahani <alireza.s.mahani@gmail.com>
Diff between DBR versions 1.2.3 dated 2022-03-25 and 1.3.0 dated 2022-07-18
DBR-1.2.3/DBR/vignettes/est_1.rds |only DBR-1.2.3/DBR/vignettes/summary_1.pdf |only DBR-1.2.3/DBR/vignettes/summary_1.txt |only DBR-1.2.3/DBR/vignettes/summary_2.pdf |only DBR-1.2.3/DBR/vignettes/summary_2.txt |only DBR-1.3.0/DBR/ChangeLog | 5 DBR-1.3.0/DBR/DESCRIPTION | 10 DBR-1.3.0/DBR/MD5 | 48 ++- DBR-1.3.0/DBR/NAMESPACE | 4 DBR-1.3.0/DBR/R/dbr.R | 61 ++++ DBR-1.3.0/DBR/R/util.R | 99 ++++--- DBR-1.3.0/DBR/inst/doc/DBR.R | 163 ++++++++---- DBR-1.3.0/DBR/inst/doc/DBR.Rnw | 302 ++++++++++++++---------- DBR-1.3.0/DBR/inst/doc/DBR.pdf |binary DBR-1.3.0/DBR/man/coda_wrapper.Rd |only DBR-1.3.0/DBR/man/dbr.Rd | 4 DBR-1.3.0/DBR/man/pain.Rd | 2 DBR-1.3.0/DBR/man/predict_dbr.Rd | 4 DBR-1.3.0/DBR/man/summary_dbr.Rd | 15 - DBR-1.3.0/DBR/vignettes/DBR.Rnw | 302 ++++++++++++++---------- DBR-1.3.0/DBR/vignettes/DBR.bib | 30 ++ DBR-1.3.0/DBR/vignettes/coef_dbr_long.pdf |only DBR-1.3.0/DBR/vignettes/coef_dbr_long.rds |only DBR-1.3.0/DBR/vignettes/est_dbr_long.rds |only DBR-1.3.0/DBR/vignettes/est_dbr_short.rds |only DBR-1.3.0/DBR/vignettes/hist_interference.pdf |only DBR-1.3.0/DBR/vignettes/pred_dbr_point_hist.pdf |only DBR-1.3.0/DBR/vignettes/pred_point.rds |binary DBR-1.3.0/DBR/vignettes/pred_sample.rds |binary DBR-1.3.0/DBR/vignettes/summary_dbr_long.pdf |only DBR-1.3.0/DBR/vignettes/summary_dbr_long.txt |only DBR-1.3.0/DBR/vignettes/summary_dbr_short.pdf |only DBR-1.3.0/DBR/vignettes/summary_dbr_short.txt |only 33 files changed, 678 insertions(+), 371 deletions(-)
Title: Download Crypto Currency Data from 'CoinMarketCap' without 'API'
Description: Retrieves crypto currency information and historical prices as well as information on the exchanges they are listed on. Historical data contains daily open, high, low and close values for all crypto currencies. All data is scraped from <https://coinmarketcap.com> via their 'web-api'.
Author: Sebastian Stoeckl [aut, cre] ,
Jesse Vent [ctb]
Maintainer: Sebastian Stoeckl <sebastian.stoeckl@uni.li>
Diff between crypto2 versions 1.4.3 dated 2022-01-25 and 1.4.4 dated 2022-07-18
DESCRIPTION | 8 +- MD5 | 20 +++--- NAMESPACE | 2 R/crypto_history.R | 8 +- R/crypto_info.R | 10 ++- R/crypto_listings.R |only R/globals.R | 3 - README.md | 144 ++++++++++++++++++++++++++++++------------------- man/crypto_history.Rd | 7 +- man/crypto_info.Rd | 3 + man/crypto_listings.Rd |only man/exchange_info.Rd | 3 + 12 files changed, 131 insertions(+), 77 deletions(-)
Title: Continuous Cartogram
Description: Procedures for making continuous cartogram. Procedures available are:
flow based cartogram (Gastner & Newman (2004) <doi:10.1073/pnas.0400280101>),
fast flow based cartogram (Gastner, Seguy & More (2018) <doi:10.1073/pnas.1712674115>),
rubber band based cartogram (Dougenik et al. (1985)
<doi:10.1111/j.0033-0124.1985.00075.x>).
Author: Pierre-Andre Cornillon [aut, cre],
Florent Demoraes [aut],
Flow-Based-Cartograms [cph]
Maintainer: Pierre-Andre Cornillon <pierre-andre.cornillon@univ-rennes2.fr>
Diff between cartogramR versions 1.0-7 dated 2022-04-13 and 1.0-8 dated 2022-07-18
DESCRIPTION | 10 +++++----- MD5 | 14 +++++++------- R/print.cartogramR.R | 2 +- R/print.summary.cartogramR.R | 2 +- R/residuals.cartogramR.R | 6 +++--- R/summary.cartogramR.R | 2 +- man/residuals.cartogramR.Rd | 8 +++++--- src/checkring.c | 2 +- 8 files changed, 24 insertions(+), 22 deletions(-)
Title: Generate, Visualise, and Evaluate Fast-and-Frugal Decision Trees
Description: Create, visualize, and test fast-and-frugal decision trees (FFTs) using methods described in Phillips, Neth, Woike & Gaissmaier. (2017). FFTs are very simple decision trees for
binary classification problems. FFTs can be preferable to more complex algorithms because they are easy to communicate,
require very little information, and are robust against overfitting.
Author: Nathaniel Phillips [aut, cre],
Hansjoerg Neth [aut],
Jan Woike [aut],
Wolfgang Gaissmaer [aut]
Maintainer: Nathaniel Phillips <Nathaniel.D.Phillips.is@gmail.com>
Diff between FFTrees versions 1.6.5 dated 2022-07-18 and 1.6.6 dated 2022-07-18
DESCRIPTION | 8 ++++---- MD5 | 24 ++++++++++++------------ R/plotFFTrees_function.R | 9 ++++----- README.md | 8 ++++---- inst/doc/AccuracyStatistics.html | 6 +++--- inst/doc/FFTrees_examples.html | 12 ++++++------ inst/doc/FFTrees_function.html | 8 ++++---- inst/doc/FFTrees_heart.html | 10 +++++----- inst/doc/FFTrees_mytree.html | 8 ++++---- inst/doc/FFTrees_plot.html | 12 ++++++------ inst/doc/guide.html | 6 +++--- man/figures/README-example-1.png |binary man/figures/README-unnamed-chunk-5-1.png |binary 13 files changed, 55 insertions(+), 56 deletions(-)
Title: Data Science for Wind Energy
Description: Data science methods used in wind energy applications.
Current functionalities include creating a multi-dimensional power curve model,
performing power curve function comparison, covariate matching, and energy decomposition.
Relevant works for the developed functions are:
funGP() - Prakash et al. (2022) <doi:10.1080/00401706.2021.1905073>,
AMK() - Lee et al. (2015) <doi:10.1080/01621459.2014.977385>,
tempGP() - Prakash et al. (2022) <doi:10.1080/00401706.2022.2069158>,
ComparePCurve() - Ding et al. (2021) <doi:10.1016/j.renene.2021.02.136>,
deltaEnergy() - Latiffianti et al. (2022) <doi:10.1002/we.2722>,
syncSize() - Latiffianti et al. (2022) <doi:10.1002/we.2722>,
imptPower() - Latiffianti et al. (2022) <doi:10.1002/we.2722>,
All other functions - Ding (2019, ISBN:9780429956508).
Author: Nitesh Kumar [aut],
Abhinav Prakash [aut],
Yu Ding [aut, cre],
Rui Tuo [ctb, cph],
Effi Latiffianti [ctb, cph]
Maintainer: Yu Ding <yuding@tamu.edu>
Diff between DSWE versions 1.6.0 dated 2022-07-07 and 1.6.1 dated 2022-07-18
DESCRIPTION | 6 +- MD5 | 10 ++-- R/deltaEnergy.R | 22 ++++----- R/imptPower.R | 126 +++++++++++++++++++++++++++++++++-------------------- build/partial.rdb |binary man/deltaEnergy.Rd | 2 6 files changed, 99 insertions(+), 67 deletions(-)
Title: Species Distribution Modeling
Description: Methods for species distribution modeling, that is, predicting the environmental similarity of any site to that of the locations of known occurrences of a species.
Author: Robert J. Hijmans, Steven Phillips, John Leathwick and Jane Elith
Maintainer: Robert J. Hijmans <r.hijmans@gmail.com>
Diff between dismo versions 1.3-5 dated 2021-10-11 and 1.3-8 dated 2022-07-18
DESCRIPTION | 16 ++++++++-------- MD5 | 26 +++++++++++++------------- R/circleHull.R | 26 ++++++++++++++++++-------- R/circles.R | 7 +++++-- R/convHull.R | 2 +- R/gbif.R | 2 +- R/gmap.R | 6 +----- R/maxent.R | 6 +++--- build/partial.rdb |binary build/vignette.rds |binary inst/doc/sdm.pdf |binary man/gbif.Rd | 6 +++++- man/maxent.Rd | 2 +- src/percRank.cpp | 2 +- 14 files changed, 57 insertions(+), 44 deletions(-)
Title: Standardize Dates in Different Formats or with Missing Data
Description: There are many different formats dates are commonly represented
with: the order of day, month, or year can differ, different separators ("-",
"/", or whitespace) can be used, months can be numerical, names, or
abbreviations and year given as two digits or four. 'datefixR' takes dates in
all these different formats and converts them to R's built-in date class. If
'datefixR' cannot standardize a date, such as because it is too malformed,
then the user is told which date cannot be standardized and the corresponding
ID for the row. 'datefixR' also allows the imputation of missing days and
months with user-controlled behavior.
Author: Nathan Constantine-Cooke [aut, cre]
,
Kaique dos S. Alves [rev] ,
Al-Ahmadgaid B. Asaad [rev]
Maintainer: Nathan Constantine-Cooke <nathan.constantine-cooke@ed.ac.uk>
Diff between datefixR versions 0.1.6 dated 2022-05-03 and 1.0.0 dated 2022-07-18
DESCRIPTION | 60 ++++-- MD5 | 54 ++++-- NAMESPACE | 3 NEWS.md | 38 ++++ R/data.R |only R/datefixR-package.R |only R/fix_date.R | 118 ++----------- R/fix_date_char.R |only R/fix_date_df.R |only R/fix_dates.R | 289 +-------------------------------- R/internal.R |only README.md | 113 ++++++++---- data |only inst/CITATION | 2 inst/WORDLIST |only inst/doc/datefixR.R | 69 +++---- inst/doc/datefixR.Rmd | 108 +++++------- inst/doc/datefixR.html | 186 ++++++++------------- man/datefixR.Rd |only man/exampledates.Rd |only man/figures/lifecycle-archived.svg |only man/figures/lifecycle-defunct.svg |only man/figures/lifecycle-deprecated.svg |only man/figures/lifecycle-experimental.svg |only man/figures/lifecycle-maturing.svg |only man/figures/lifecycle-questioning.svg |only man/figures/lifecycle-stable.svg |only man/figures/lifecycle-superseded.svg |only man/fix_date.Rd | 20 +- man/fix_date_char.Rd |only man/fix_date_df.Rd |only man/fix_dates.Rd | 9 - tests/spelling.R |only tests/testthat/_snaps |only tests/testthat/test_fix_date.R | 23 ++ tests/testthat/test_fix_date_char.R |only tests/testthat/test_fix_date_df.R |only tests/testthat/test_fix_dates.R | 52 +++++ vignettes/datefixR.Rmd | 108 +++++------- 39 files changed, 525 insertions(+), 727 deletions(-)
More information about datadictionary at CRAN
Permanent link
More information about binaryTimeSeries at CRAN
Permanent link
Title: R Interface to 'IGN' Web Services
Description: Interface to easily access the National Institute of
Geographic and Forestry Information open-source data from Geoservice
website for any area of interest in France via WFS (shapefile) and WMS
(raster) web services
<https://geoservices.ign.fr/services-web-experts>.
Author: Paul Carteron [aut, cre]
Maintainer: Paul Carteron <carteronpaul@gmail.com>
Diff between happign versions 0.1.4 dated 2022-04-25 and 0.1.5 dated 2022-07-18
happign-0.1.4/happign/R/get_apicarto_gpu.R |only happign-0.1.4/happign/R/get_iso.R |only happign-0.1.4/happign/man/get_iso.Rd |only happign-0.1.4/happign/tests/fixtures |only happign-0.1.4/happign/tests/testthat/setup-happign.R |only happign-0.1.4/happign/tests/testthat/test-get_iso.R |only happign-0.1.4/happign/vignettes/web_only/Non_functional_APIs.Rmd |only happign-0.1.5/happign/DESCRIPTION | 23 happign-0.1.5/happign/MD5 | 108 +- happign-0.1.5/happign/NAMESPACE | 160 ++-- happign-0.1.5/happign/NEWS.md | 12 happign-0.1.5/happign/R/get_apicarto_cadastre.R | 127 +-- happign-0.1.5/happign/R/get_apicarto_plu.R |only happign-0.1.5/happign/R/get_apikeys.R | 1 happign-0.1.5/happign/R/get_layers_metadata.R | 55 - happign-0.1.5/happign/R/get_wfs.R | 163 ++-- happign-0.1.5/happign/R/get_wms_info.R |only happign-0.1.5/happign/R/get_wms_raster.R | 248 ++++-- happign-0.1.5/happign/R/init.R | 64 + happign-0.1.5/happign/R/utils.R | 31 happign-0.1.5/happign/README.md | 47 - happign-0.1.5/happign/build/vignette.rds |binary happign-0.1.5/happign/inst/doc/Getting_started.R | 47 - happign-0.1.5/happign/inst/doc/Getting_started.Rmd | 71 + happign-0.1.5/happign/inst/doc/Getting_started.html | 374 +++++++--- happign-0.1.5/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.R | 3 happign-0.1.5/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.Rmd | 5 happign-0.1.5/happign/inst/doc/SCAN_25_SCAN_100_SCAN_OACI.html | 233 +++++- happign-0.1.5/happign/man/are_queryable.Rd |only happign-0.1.5/happign/man/get_apicarto_cadastre.Rd | 198 ++--- happign-0.1.5/happign/man/get_apicarto_plu.Rd | 44 - happign-0.1.5/happign/man/get_layers_metadata.Rd | 21 happign-0.1.5/happign/man/get_wfs.Rd | 10 happign-0.1.5/happign/man/get_wms_info.Rd |only happign-0.1.5/happign/man/get_wms_raster.Rd | 27 happign-0.1.5/happign/man/shp_to_geojson.Rd | 3 happign-0.1.5/happign/tests/testthat/are_queryable works |only happign-0.1.5/happign/tests/testthat/get_api_cadastre char |only happign-0.1.5/happign/tests/testthat/get_apicarto_cadastre sf |only happign-0.1.5/happign/tests/testthat/get_apicarto_cadastre sfc |only happign-0.1.5/happign/tests/testthat/get_apicarto_gpu geom |only happign-0.1.5/happign/tests/testthat/get_apicarto_gpu partition |only happign-0.1.5/happign/tests/testthat/get_apicarto_plu geom |only happign-0.1.5/happign/tests/testthat/get_apicarto_plu partition |only happign-0.1.5/happign/tests/testthat/get_layers_metada_wfs |only happign-0.1.5/happign/tests/testthat/get_layers_metada_wms |only happign-0.1.5/happign/tests/testthat/get_wfs simple request |only happign-0.1.5/happign/tests/testthat/get_wms_info return error |only happign-0.1.5/happign/tests/testthat/get_wms_info works |only happign-0.1.5/happign/tests/testthat/on_attach |only happign-0.1.5/happign/tests/testthat/on_attach_error |only happign-0.1.5/happign/tests/testthat/req_function perform request |only happign-0.1.5/happign/tests/testthat/setup.R |only happign-0.1.5/happign/tests/testthat/test-get_apicarto_cadastre.R |only happign-0.1.5/happign/tests/testthat/test-get_apicarto_gpu.R |only happign-0.1.5/happign/tests/testthat/test-get_apikeys.R | 6 happign-0.1.5/happign/tests/testthat/test-get_layers_metadata.R | 36 happign-0.1.5/happign/tests/testthat/test-get_wfs.R | 157 ++-- happign-0.1.5/happign/tests/testthat/test-get_wms_info.R |only happign-0.1.5/happign/tests/testthat/test-get_wms_raster.R | 98 ++ happign-0.1.5/happign/tests/testthat/test-init.R | 25 happign-0.1.5/happign/tests/testthat/test-utils.R | 32 happign-0.1.5/happign/vignettes/Getting_started.Rmd | 71 + happign-0.1.5/happign/vignettes/SCAN_25_SCAN_100_SCAN_OACI.Rmd | 5 happign-0.1.5/happign/vignettes/web_only/happign_for_foresters.Rmd | 66 + happign-0.1.5/happign/vignettes/web_only/resolution_for_raster.Rmd | 2 66 files changed, 1688 insertions(+), 885 deletions(-)
Title: Rmetrics - Modeling of Multivariate Financial Return
Distributions
Description: A collection of functions to manage, investigate and analyze
bivariate and multivariate data sets of financial returns.
Author: Diethelm Wuertz [aut],
Tobias Setz [aut],
Stefan Theussl [aut, cre],
Yohan Chalabi [aut],
Martin Maechler [ctb],
CRAN team [ctb]
Maintainer: Stefan Theussl <Stefan.Theussl@R-Project.org>
Diff between fMultivar versions 3042.80.2 dated 2022-06-17 and 4021.83 dated 2022-07-18
DESCRIPTION | 40 ++++++++++++++++---------- MD5 | 16 +++++----- NAMESPACE | 21 +++++++++---- R/bvdist-t2d.R | 5 +-- R/utils-adapt.R | 7 +--- R/utils-density2d.R | 10 +----- R/utils-integrate2d.R | 4 +- inst/unitTests/runit.BivariateDistributions.R | 4 +- man/zzz-mvstnorm.Rd | 15 --------- 9 files changed, 59 insertions(+), 63 deletions(-)
Title: Fast Covariance Estimation for Sparse Functional Data
Description: We implement the Fast Covariance Estimation for
Sparse Functional Data paper published in Statistics and Computing <doi: 10.1007/s11222-017-9744-8>.
Author: Luo Xiao [aut], Cai Li [aut,cre], William Checkley [aut], Ciprian Crainiceanu [aut]
Maintainer: Cai Li <cai.li.stats@gmail.com>
Diff between face versions 0.1-6 dated 2021-05-06 and 0.1-7 dated 2022-07-18
DESCRIPTION | 8 ++++---- MD5 | 16 ++++++++-------- R/cor.face.r | 2 +- R/face.sparse.inner.r | 5 ++++- R/predict.face.sparse.r | 4 ++-- build/partial.rdb |binary man/face-package.Rd | 6 +++--- man/face.sparse.Rd | 11 +++++++---- man/predict.face.sparse.Rd | 4 ++-- 9 files changed, 31 insertions(+), 25 deletions(-)
Title: Analysis of Large Affymetrix Microarray Data Sets
Description: A cross-platform R framework that facilitates processing of any number of Affymetrix microarray samples regardless of computer system. The only parameter that limits the number of chips that can be processed is the amount of available disk space. The Aroma Framework has successfully been used in studies to process tens of thousands of arrays. This package has actively been used since 2006.
Author: Henrik Bengtsson [aut, cre, cph],
James Bullard [ctb],
Kasper Hansen [ctb],
Pierre Neuvial [ctb],
Elizabeth Purdom [ctb],
Mark Robinson [ctb],
Ken Simpson [ctb]
Maintainer: Henrik Bengtsson <henrikb@braju.com>
Diff between aroma.affymetrix versions 3.2.0 dated 2019-06-23 and 3.2.1 dated 2022-07-18
DESCRIPTION | 12 MD5 | 295 +++++----- NAMESPACE | 4 NEWS | 11 R/999.package.R | 2 R/AffineCnPlm.R | 2 R/AffinePlm.R | 4 R/AffymetrixCdfFile.computeAffinities.R | 6 R/AffymetrixCdfFile.getAlleleProbePairs.R | 4 R/AffymetrixCdfFile.getAlleleProbePairs3.R | 4 R/AffymetrixCelFile.extractMatrix.R | 2 R/AffymetrixCelSet.R | 6 R/AffymetrixCelSet.extractMatrix.R | 4 R/AffymetrixCelSet.getAverageFile.R | 2 R/AffymetrixCnChpFile.R | 2 R/AffymetrixCnChpSet.R | 2 R/AffymetrixCsvGenomeInformation.R | 2 R/AffymetrixNetAffxCsvFile.R | 4 R/AffymetrixProbeTabFile.R | 4 R/AllelicCrosstalkCalibration.R | 4 R/AromaUnitGcContentFile.AFFX.R | 2 R/AvgCnPlm.R | 2 R/AvgPlm.R | 8 R/BaseCountNormalization.R | 2 R/ChipEffectFile.R | 2 R/ChipEffectFile.fromDataFile.R | 2 R/ChipEffectFile.getUnitGroupCellMatrixMap.R | 4 R/ChipEffectSet.extractTheta.R | 2 R/ChipEffectTransform.R | 2 R/ChromosomalModel.getXTheta.R | 2 R/CnChipEffectSet.importFromDChip.R | 5 R/CnPlm.R | 4 R/CnProbeAffinityFile.R | 2 R/CnagCfhFile.R | 4 R/CnagCfhSet.R | 6 R/CrlmmModel.R | 10 R/DChipDcpSet.R | 2 R/DChipGenomeInformation.R | 2 R/DChipQuantileNormalization.R | 4 R/DChipSnpInformation.R | 2 R/ExonRmaPlm.R | 18 R/FirmaFile.R | 2 R/FragmentEquivalentClassNormalization.R | 2 R/FragmentLengthNormalization.R | 2 R/GenomeInformation.R | 2 R/HetLogAddCnPlm.R | 2 R/LimmaBackgroundCorrection.R | 2 R/LinearModelProbeSequenceNormalization.R | 2 R/MbeiCnPlm.R | 2 R/MbeiPlm.R | 2 R/ParameterCelFile.extractNnn.R | 4 R/ParameterCelSet.R | 4 R/ResidualFile.R | 2 R/RmaCnPlm.R | 2 R/RmaPlm.R | 46 - R/SnpChipEffectFile.extractTotalAndFracB.R | 6 R/SnpCnvQSet.extractTheta.R | 2 R/SnpQSet.extractTheta.R | 2 R/SpatialReporter.R | 2 R/UnitModel.R | 2 R/WeightsFile.R | 2 R/doCRMAv1.R | 2 R/doCRMAv2.R | 4 R/fitPlasqUnit.R | 14 R/pdInfo2Cdf.R | 6 inst/WORDLIST |only inst/testScripts/R/downloadUtils.R | 18 inst/testScripts/R/installUtils.R | 11 inst/testScripts/complete/dataSets/GSE12702/11.doASCRMAv2,Nsp.R | 2 inst/testScripts/complete/dataSets/GSE12702/11.doASCRMAv2,Sty.R | 2 inst/testScripts/complete/dataSets/GSE12702/22.doASCRMAv2,CalMaTe,Nsp.R | 2 inst/testScripts/complete/dataSets/GSE12702/22.doASCRMAv2,CalMaTe,Sty.R | 2 inst/testScripts/complete/dataSets/GSE12702/31.doASCRMAv2,PairedPSCBS,Nsp.R | 2 inst/testScripts/complete/dataSets/GSE12702/31.doASCRMAv2,PairedPSCBS,Sty.R | 2 inst/testScripts/complete/dataSets/GSE12702/32.doASCRMAv2,CalMaTe,PairedPSCBS,Nsp.R | 2 inst/testScripts/complete/dataSets/GSE12702/32.doASCRMAv2,CalMaTe,PairedPSCBS,Sty.R | 2 inst/testScripts/complete/dataSets/GSE13372/21.doASCRMAv2.R | 2 inst/testScripts/complete/dataSets/GSE13372/22.doASCRMAv2,CalMaTe.R | 2 inst/testScripts/complete/dataSets/GSE13372/31.doASCRMAv2,PairedPSCBS.R | 2 inst/testScripts/complete/dataSets/GSE13372/32.doASCRMAv2,CalMaTe,PairedPSCBS.R | 2 inst/testScripts/complete/dataSets/GSE19539/21.doASCRMAv2.R | 2 inst/testScripts/complete/dataSets/GSE19539/22.doASCRMAv2,CalMaTe.R | 2 inst/testScripts/complete/dataSets/GSE20584/21.doASCRMAv2.R | 2 inst/testScripts/complete/dataSets/GSE20584/31.doASCRMAv2,PairedPSCBS.R | 2 inst/testScripts/complete/dataSets/GSE27691/21.doASCRMAv2.R | 2 inst/testScripts/complete/dataSets/GSE34754/21.doASCRMAv2.R | 2 inst/testScripts/complete/dataSets/GSE34754/22.doASCRMAv2,CalMaTe.R | 2 inst/testScripts/complete/dataSets/GSE34754/31.doASCRMAv2,PairedPSCBS.R | 2 inst/testScripts/complete/dataSets/GSE34754/32.doASCRMAv2,CalMaTe,PairedPSCBS.R | 2 inst/testScripts/futures/GenomeWideSNP_6/11.AllelicCrosstalkCalibration.R | 6 inst/testScripts/futures/GenomeWideSNP_6/11.BasePositionNormalization.R | 6 inst/testScripts/futures/HG-U133_Plus_2/11.OpticalBackgroundCorrection.R | 6 inst/testScripts/futures/HG-U133_Plus_2/12.GcRmaBackgroundCorrection.R | 6 inst/testScripts/futures/HG-U133_Plus_2/13.RmaBackgroundCorrection.R | 6 inst/testScripts/futures/HG-U133_Plus_2/14.NormExpBackgroundCorrection.R | 6 inst/testScripts/futures/Hs_PromPR_v02/11.MatNormalization.R | 6 inst/testScripts/futures/Mapping10K_Xba142/11.AllelicCrosstalkCalibration.R | 6 inst/testScripts/futures/Mapping10K_Xba142/11.BasePositionNormalization.R | 6 inst/testScripts/futures/Mapping10K_Xba142/11.UniqueCDF.R | 6 inst/testScripts/replication/chipTypes/HG-U133_Plus_2/01c.installPackages.R | 2 inst/testScripts/replication/chipTypes/HG-U133_Plus_2/11.doRMA_vs_affyPLM.R | 2 inst/testScripts/setup/01b.downloadAllRawDataSet.R | 2 inst/testScripts/system/chipTypes/HG-U133_Plus_2/01c.installPackages.R | 2 inst/testScripts/system/chipTypes/HG-U133_Plus_2/21.BackgroundCorrections.R | 1 inst/testScripts/system/chipTypes/Mapping10K_Xba142/01a.downloadAnnotationData.R | 3 inst/testScripts/system/chipTypes/Mapping10K_Xba142/21.doCRMAv2,extractAndWrite.R | 6 inst/testScripts/system/chipTypes/Mapping10K_Xba142/22.doASCRMAv2,CBS,CE.R | 2 man/AffineCnPlm.Rd | 2 man/AffinePlm.Rd | 4 man/AffymetrixCelSet.Rd | 2 man/AffymetrixCnChpSet.Rd | 2 man/AffymetrixFileSet.Rd | 2 man/AllelicCrosstalkCalibration.Rd | 4 man/AvgCnPlm.Rd | 2 man/AvgPlm.Rd | 2 man/ChipEffectSet.Rd | 2 man/ChipEffectTransform.Rd | 2 man/CnChipEffectSet.Rd | 2 man/CnPlm.Rd | 4 man/CnProbeAffinityFile.Rd | 2 man/CnagCfhSet.Rd | 2 man/CrlmmParametersSet.Rd | 2 man/DChipDcpSet.Rd | 2 man/DChipGenomeInformation.Rd | 2 man/DChipSnpInformation.Rd | 2 man/ExonChipEffectSet.Rd | 2 man/FirmaSet.Rd | 2 man/HetLogAddCnPlm.Rd | 2 man/LimmaBackgroundCorrection.Rd | 2 man/LinearModelProbeSequenceNormalization.Rd | 2 man/MbeiCnPlm.Rd | 2 man/MbeiPlm.Rd | 2 man/ParameterCelSet.Rd | 2 man/QualityAssessmentSet.Rd | 2 man/ResidualSet.Rd | 2 man/RmaCnPlm.Rd | 2 man/SnpChipEffectSet.Rd | 2 man/UnitModel.Rd | 2 man/WeightsSet.Rd | 2 man/aroma.affymetrix-package.Rd | 6 man/doCRMAv1.Rd | 2 man/doCRMAv2.Rd | 4 man/fromDataFile.ChipEffectFile.Rd | 4 man/getAlleleProbePairs.AffymetrixCdfFile.Rd | 4 man/getAlleleProbePairs3.AffymetrixCdfFile.Rd | 4 man/pdInfo2Cdf.Rd | 6 man/plotMvsA.AffymetrixCelFile.Rd | 2 man/plotMvsX.AffymetrixCelFile.Rd | 2 man/smoothScatterMvsA.AffymetrixCelFile.Rd | 2 149 files changed, 405 insertions(+), 433 deletions(-)
More information about aroma.affymetrix at CRAN
Permanent link
Title: Tabular Data Backed by Partitioned 'fst' Files
Description: Intended for larger-than-memory tabular data, 'prt' objects provide an interface to read row and/or column subsets into memory as data.table objects. Data queries, constructed as 'R' expressions, are evaluated using the non-standard evaluation framework provided by 'rlang' and file-backing is powered by the fast and efficient 'fst' package.
Author: Nicolas Bennett [aut, cre],
Drago Plecko [ctb]
Maintainer: Nicolas Bennett <r@nbenn.ch>
Diff between prt versions 0.1.4 dated 2021-05-16 and 0.1.5 dated 2022-07-18
prt-0.1.4/prt/tests/testthat/output/format/all--30.txt |only prt-0.1.4/prt/tests/testthat/output/format/all--300.txt |only prt-0.1.4/prt/tests/testthat/output/format/all-1-30-0.txt |only prt-0.1.4/prt/tests/testthat/output/format/all-1-30-2.txt |only prt-0.1.4/prt/tests/testthat/output/format/iris--70.txt |only prt-0.1.4/prt/tests/testthat/output/format/iris-3-5.txt |only prt-0.1.4/prt/tests/testthat/output/format/iris-5-30.txt |only prt-0.1.4/prt/tests/testthat/output/format/iris-inf-30.txt |only prt-0.1.4/prt/tests/testthat/output/format/iris-neg-30.txt |only prt-0.1.4/prt/tests/testthat/output/format/long-5-30.txt |only prt-0.1.4/prt/tests/testthat/output/format/mtcars-8-30.txt |only prt-0.1.4/prt/tests/testthat/output/format/non-syntactic.txt |only prt-0.1.5/prt/DESCRIPTION | 12 prt-0.1.5/prt/MD5 | 37 prt-0.1.5/prt/NEWS.md | 4 prt-0.1.5/prt/R/format.R | 24 prt-0.1.5/prt/README.md | 4 prt-0.1.5/prt/build/vignette.rds |binary prt-0.1.5/prt/inst/doc/prt.R | 14 prt-0.1.5/prt/inst/doc/prt.Rmd | 16 prt-0.1.5/prt/inst/doc/prt.html | 698 ++++++----- prt-0.1.5/prt/man/formatting.Rd | 86 - prt-0.1.5/prt/man/glimpse.Rd | 5 prt-0.1.5/prt/tests/testthat/_snaps |only prt-0.1.5/prt/tests/testthat/test-format.R | 73 - prt-0.1.5/prt/vignettes/prt.Rmd | 16 26 files changed, 563 insertions(+), 426 deletions(-)
Title: Hierarchical Partitioning of Marginal R2 for Generalized
Mixed-Effect Models
Description: Conducts hierarchical partitioning to calculate individual contributions of each fixed effects towards marginal R2 for generalized mixed-effect model based on output of r.squaredGLMM() in 'MuMIn', applying the algorithm of Lai J.,Zou Y., Zhang J.,Peres-Neto P.(2022) Generalizing hierarchical and variation partitioning in multiple regression and canonical analyses using the rdacca.hp R package.Methods in Ecology and Evolution,13:782-788<DOI:10.1111/2041-210X.13800>.
Author: Jiangshan Lai [aut, cre] ,
Kim Nimon [aut]
Maintainer: Jiangshan Lai <lai@ibcas.ac.cn>
Diff between glmm.hp versions 0.0-4 dated 2022-05-01 and 0.0-5 dated 2022-07-18
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/glmm.hp.r | 27 ++++++++++++++------------- R/plot.glmmhp.r | 2 +- 4 files changed, 22 insertions(+), 21 deletions(-)
Title: A Basic Set of Functions for Compositional Data Analysis
Description: A minimum set of functions to perform compositional data analysis
using the log-ratio approach introduced by John Aitchison (1982) <http://www.jstor.org/stable/2345821>. Main functions
have been implemented in c++ for better performance.
Author: Marc Comas-Cufi [aut, cre]
Maintainer: Marc Comas-Cufi <mcomas@imae.udg.edu>
Diff between coda.base versions 0.4.1 dated 2022-03-16 and 0.5.2 dated 2022-07-18
DESCRIPTION | 16 MD5 | 73 ++-- NAMESPACE | 4 NEWS | 10 R/RcppExports.R | 8 R/basis.R | 51 +-- R/coda.base.R | 2 R/constrained_pb.R | 46 ++ R/coordinates.R | 187 ++++------- R/data.R | 30 + R/dendrogram.R | 11 R/other.R | 47 ++ R/utils.R |only build/vignette.rds |binary data/arctic_lake.RData |only data/household_budget.RData |only data/pottery.RData |only inst/doc/coordinates.R | 7 inst/doc/coordinates.Rmd | 17 - inst/doc/coordinates.html | 660 ++++++++++++++++++++++++--------------- inst/doc/features.R |only inst/doc/features.Rmd |only inst/doc/features.html |only inst/doc/principal_balances.R | 6 inst/doc/principal_balances.Rmd | 22 - inst/doc/principal_balances.html | 287 +++++++++++++++- man/arctic_lake.Rd |only man/cdp_partition.Rd | 2 man/center.Rd |only man/composition.Rd | 9 man/coordinates.Rd | 4 man/dist.Rd | 2 man/gmean.Rd |only man/household_budget.Rd |only man/ilr_basis.Rd | 5 man/plot_balance.Rd |only man/pottery.Rd |only man/read_cdp.Rd |only man/variation_array.Rd | 2 src/RcppExports.cpp | 25 + src/coda.cpp | 5 src/principal_balances.cpp | 17 - vignettes/coordinates.Rmd | 17 - vignettes/features.Rmd |only vignettes/principal_balances.Rmd | 22 - 45 files changed, 1084 insertions(+), 510 deletions(-)
Title: ADaM in R Asset Library
Description: A toolbox for programming Clinical Data Standards Interchange Consortium
(CDISC) compliant Analysis Data Model (ADaM) datasets in R. ADaM datasets are a
mandatory part of any New Drug or Biologics License Application submitted to the
United States Food and Drug Administration (FDA). Analysis derivations are
implemented in accordance with the "Analysis Data Model Implementation Guide"
(CDISC Analysis Data Model Team, 2021, <https://www.cdisc.org/standards/foundational/adam/adamig-v1-3-release-package>).
Author: Thomas Neitmann [aut, cre],
Stefan Bundfuss [aut],
Ben Straub [aut],
Samia Kabi [aut],
Gordon Miller [aut],
Teckla Akinyi [aut],
Andrew Smith [aut],
Konstantina Koukourikou [aut],
Ross Farrugia [aut],
Eric Simms [aut],
Annie Yang [aut],
Robin Koeger [...truncated...]
Maintainer: Thomas Neitmann <thomas.neitmann@roche.com>
Diff between admiral versions 0.7.0 dated 2022-05-31 and 0.7.1 dated 2022-07-18
admiral-0.7.0/admiral/tests/testthat/test-derive_duration.R |only admiral-0.7.1/admiral/DESCRIPTION | 6 - admiral-0.7.1/admiral/MD5 | 32 +++--- admiral-0.7.1/admiral/NEWS.md | 15 +++ admiral-0.7.1/admiral/R/derive_param_first_event.R | 32 ++++-- admiral-0.7.1/admiral/R/derive_var_ontrtfl.R | 19 ++-- admiral-0.7.1/admiral/R/derive_vars_duration.R | 13 ++ admiral-0.7.1/admiral/R/derive_vars_last_dose.R | 45 +++++++-- admiral-0.7.1/admiral/R/slice_derivation.R | 13 +- admiral-0.7.1/admiral/inst/doc/occds.html | 14 +- admiral-0.7.1/admiral/man/derive_param_first_event.Rd | 3 admiral-0.7.1/admiral/man/derive_var_ontrtfl.Rd | 19 ++-- admiral-0.7.1/admiral/man/derive_vars_duration.Rd | 10 +- admiral-0.7.1/admiral/man/derive_vars_last_dose.Rd | 6 - admiral-0.7.1/admiral/tests/testthat/test-derive_param_first_event.R | 10 +- admiral-0.7.1/admiral/tests/testthat/test-derive_vars_duration.R |only admiral-0.7.1/admiral/tests/testthat/test-derive_vars_last_dose.R | 45 +++++++-- admiral-0.7.1/admiral/tests/testthat/test-slice_derivation.R | 47 +++++++++- 18 files changed, 232 insertions(+), 97 deletions(-)
Title: API Client for US Treasury Fiscal Data
Description: Make requests from the US Treasury Fiscal Data API endpoints.
Author: Guillermo Roditi Dominguez [aut, cre]
Maintainer: Guillermo Roditi Dominguez <guillermo@newriverinvestments.com>
Diff between ustfd versions 0.1.0 dated 2022-04-18 and 0.1.1 dated 2022-07-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- NEWS.md | 4 ++++ R/ustfd_endpoints.R | 4 ++-- man/ustfd_field_dictionary.Rd | 4 ++-- 5 files changed, 15 insertions(+), 11 deletions(-)
More information about tsintermittent at CRAN
Permanent link
Title: Easily Install and Load the 'Tidyverse'
Description: The 'tidyverse' is a set of packages that work in harmony
because they share common data representations and 'API' design. This
package is designed to make it easy to install and load multiple
'tidyverse' packages in a single step. Learn more about the
'tidyverse' at <https://www.tidyverse.org>.
Author: Hadley Wickham [aut, cre],
RStudio [cph, fnd]
Maintainer: Hadley Wickham <hadley@rstudio.com>
Diff between tidyverse versions 1.3.1 dated 2021-04-15 and 1.3.2 dated 2022-07-18
DESCRIPTION | 41 +--- MD5 | 36 +-- NAMESPACE | 2 NEWS.md | 8 R/conflicts.R | 1 R/tidyverse.R | 2 R/update.R | 6 R/utils.R | 22 -- R/zzz.R | 1 README.md | 22 +- build/vignette.rds |binary inst/CITATION | 1 inst/doc/manifesto.html | 314 ++++++++++++++++++++++++++++-- inst/doc/paper.Rmd | 2 inst/doc/paper.html | 481 ++++++++++++++++++++++++++++++++++++++++------- man/tidyverse-package.Rd | 8 man/tidyverse_deps.Rd | 2 man/tidyverse_update.Rd | 2 vignettes/paper.Rmd | 2 19 files changed, 781 insertions(+), 172 deletions(-)
Title: Coloured Formatting for Columns
Description: Provides 'pillar' and 'colonnade' generics designed
for formatting columns of data using the full range of colours
provided by modern terminals.
Author: Kirill Mueller [aut, cre],
Hadley Wickham [aut],
RStudio [cph]
Maintainer: Kirill Mueller <krlmlr+r@mailbox.org>
Diff between pillar versions 1.7.0 dated 2022-02-01 and 1.8.0 dated 2022-07-18
pillar-1.7.0/pillar/R/ctl_compound.R |only pillar-1.8.0/pillar/DESCRIPTION | 13 pillar-1.8.0/pillar/MD5 | 181 pillar-1.8.0/pillar/NAMESPACE | 5 pillar-1.8.0/pillar/NEWS.md | 56 pillar-1.8.0/pillar/R/compat-lifecycle.R |only pillar-1.8.0/pillar/R/continuation-data.R | 4 pillar-1.8.0/pillar/R/ctl_colonnade.R | 88 pillar-1.8.0/pillar/R/ctl_new_pillar.R | 160 pillar-1.8.0/pillar/R/ctl_new_pillar_list.R |only pillar-1.8.0/pillar/R/ctl_pillar.R | 20 pillar-1.8.0/pillar/R/ctl_pillar_component.R | 63 pillar-1.8.0/pillar/R/dim.R | 2 pillar-1.8.0/pillar/R/glimpse.R | 2 pillar-1.8.0/pillar/R/multi.R | 12 pillar-1.8.0/pillar/R/options.R | 12 pillar-1.8.0/pillar/R/rowid-data.R | 4 pillar-1.8.0/pillar/R/shaft-.R | 14 pillar-1.8.0/pillar/R/sigfig.R | 4 pillar-1.8.0/pillar/R/styles.R | 28 pillar-1.8.0/pillar/R/tbl-format-body.R | 2 pillar-1.8.0/pillar/R/tbl-format-footer.R | 112 pillar-1.8.0/pillar/R/tbl-format-header.R | 4 pillar-1.8.0/pillar/R/tbl-format.R | 3 pillar-1.8.0/pillar/R/tbl-sum.R | 11 pillar-1.8.0/pillar/R/tbl.R | 3 pillar-1.8.0/pillar/R/tick.R | 24 pillar-1.8.0/pillar/R/title.R | 14 pillar-1.8.0/pillar/R/type-sum.R | 2 pillar-1.8.0/pillar/R/type.R | 12 pillar-1.8.0/pillar/R/utils.R | 54 pillar-1.8.0/pillar/R/zzz.R | 3 pillar-1.8.0/pillar/build/vignette.rds |binary pillar-1.8.0/pillar/inst/doc/debugme.html | 211 pillar-1.8.0/pillar/inst/doc/digits.html | 199 pillar-1.8.0/pillar/inst/doc/extending.R | 22 pillar-1.8.0/pillar/inst/doc/extending.Rmd | 27 pillar-1.8.0/pillar/inst/doc/extending.html | 516 + pillar-1.8.0/pillar/inst/doc/numbers.html | 199 pillar-1.8.0/pillar/inst/doc/printing.R | 16 pillar-1.8.0/pillar/inst/doc/printing.html | 2973 +++++++++- pillar-1.8.0/pillar/man/colonnade.Rd | 2 pillar-1.8.0/pillar/man/ctl_new_pillar.Rd | 106 pillar-1.8.0/pillar/man/ctl_new_pillar_list.Rd |only pillar-1.8.0/pillar/man/extra_cols.Rd | 2 pillar-1.8.0/pillar/man/new_pillar_component.Rd | 23 pillar-1.8.0/pillar/man/pillar_options.Rd | 7 pillar-1.8.0/pillar/man/squeeze.Rd | 2 pillar-1.8.0/pillar/man/tbl_sum.Rd | 11 pillar-1.8.0/pillar/tests/testthat/_snaps/ansi/ctl_colonnade.md | 33 pillar-1.8.0/pillar/tests/testthat/_snaps/ansi/format_multi.md | 10 pillar-1.8.0/pillar/tests/testthat/_snaps/ctl_colonnade.md | 95 pillar-1.8.0/pillar/tests/testthat/_snaps/ctl_colonnade_1.md | 45 pillar-1.8.0/pillar/tests/testthat/_snaps/ctl_colonnade_2.md | 45 pillar-1.8.0/pillar/tests/testthat/_snaps/ctl_new_pillar.md | 63 pillar-1.8.0/pillar/tests/testthat/_snaps/format_character.md | 13 pillar-1.8.0/pillar/tests/testthat/_snaps/format_integer64.md | 10 pillar-1.8.0/pillar/tests/testthat/_snaps/format_multi.md | 451 - pillar-1.8.0/pillar/tests/testthat/_snaps/format_multi_fuzz.md | 45 pillar-1.8.0/pillar/tests/testthat/_snaps/format_multi_fuzz_2.md | 45 pillar-1.8.0/pillar/tests/testthat/_snaps/format_survival.md | 24 pillar-1.8.0/pillar/tests/testthat/_snaps/rowid.md |only pillar-1.8.0/pillar/tests/testthat/_snaps/tbl-format-body.md | 6 pillar-1.8.0/pillar/tests/testthat/_snaps/tbl-format-footer.md | 130 pillar-1.8.0/pillar/tests/testthat/_snaps/tbl-format-header.md | 8 pillar-1.8.0/pillar/tests/testthat/_snaps/tbl-format-setup.md | 1350 ++-- pillar-1.8.0/pillar/tests/testthat/_snaps/tbl-format.md | 103 pillar-1.8.0/pillar/tests/testthat/_snaps/testthat_3.1.2 |only pillar-1.8.0/pillar/tests/testthat/_snaps/testthat_3.1.2-ansi |only pillar-1.8.0/pillar/tests/testthat/_snaps/testthat_3.1.2-unicode |only pillar-1.8.0/pillar/tests/testthat/_snaps/testthat_3.1.3 |only pillar-1.8.0/pillar/tests/testthat/_snaps/testthat_3.1.3-unicode |only pillar-1.8.0/pillar/tests/testthat/_snaps/ticks.md |only pillar-1.8.0/pillar/tests/testthat/_snaps/title.md | 2 pillar-1.8.0/pillar/tests/testthat/_snaps/unicode/ctl_colonnade.md | 33 pillar-1.8.0/pillar/tests/testthat/_snaps/unicode/format_multi.md | 10 pillar-1.8.0/pillar/tests/testthat/_snaps/zzx-format_character.md | 3 pillar-1.8.0/pillar/tests/testthat/helper-output.R | 2 pillar-1.8.0/pillar/tests/testthat/helper-snapshot.R |only pillar-1.8.0/pillar/tests/testthat/test-ctl_colonnade.R | 3 pillar-1.8.0/pillar/tests/testthat/test-ctl_new_pillar.R | 3 pillar-1.8.0/pillar/tests/testthat/test-format_integer64.R | 10 pillar-1.8.0/pillar/tests/testthat/test-format_lubridate.R | 1 pillar-1.8.0/pillar/tests/testthat/test-format_multi.R | 16 pillar-1.8.0/pillar/tests/testthat/test-format_survival.R | 2 pillar-1.8.0/pillar/tests/testthat/test-obj-sum.R | 4 pillar-1.8.0/pillar/tests/testthat/test-rowid.R |only pillar-1.8.0/pillar/tests/testthat/test-tbl-format-header.R | 3 pillar-1.8.0/pillar/tests/testthat/test-tbl-format-setup.R | 70 pillar-1.8.0/pillar/tests/testthat/test-tbl-format.R | 8 pillar-1.8.0/pillar/tests/testthat/test-ticks.R | 31 pillar-1.8.0/pillar/tests/testthat/test-title.R | 4 pillar-1.8.0/pillar/tests/testthat/test-zzx-format_character.R | 1 pillar-1.8.0/pillar/vignettes/extending.Rmd | 27 94 files changed, 6438 insertions(+), 1499 deletions(-)
More information about long2lstmarray at CRAN
Permanent link
Title: Tools for HTML
Description: Tools for HTML generation and output.
Author: Joe Cheng [aut],
Carson Sievert [aut, cre] ,
Barret Schloerke [aut] ,
Winston Chang [aut] ,
Yihui Xie [aut],
Jeff Allen [aut],
RStudio [cph]
Maintainer: Carson Sievert <carson@rstudio.com>
Diff between htmltools versions 0.5.2 dated 2021-08-25 and 0.5.3 dated 2022-07-18
htmltools-0.5.2/htmltools/R/shim.R |only htmltools-0.5.3/htmltools/DESCRIPTION | 15 - htmltools-0.5.3/htmltools/MD5 | 28 +-- htmltools-0.5.3/htmltools/NEWS.md | 16 + htmltools-0.5.3/htmltools/R/html_dependency.R | 27 ++- htmltools-0.5.3/htmltools/R/images.R | 4 htmltools-0.5.3/htmltools/R/staticimports.R |only htmltools-0.5.3/htmltools/R/tag_query.R | 20 +- htmltools-0.5.3/htmltools/R/tags.R | 120 ++++++++++---- htmltools-0.5.3/htmltools/R/utils.R | 24 ++ htmltools-0.5.3/htmltools/man/htmlDependency.Rd | 2 htmltools-0.5.3/htmltools/man/knitr_methods.Rd | 8 htmltools-0.5.3/htmltools/man/tagQuery.Rd | 24 ++ htmltools-0.5.3/htmltools/tests/testthat/test-deps.r | 112 +++++++++++++ htmltools-0.5.3/htmltools/tests/testthat/test-tag-query.R | 77 +++++++- htmltools-0.5.3/htmltools/tests/testthat/test-template.R | 16 - 16 files changed, 403 insertions(+), 90 deletions(-)
Title: R Implementation of Congruent Matching Profile Segments Method
Description: This is an open-source implementation of the Congruent Matching Profile
Segments (CMPS) method (Chen et al. 2019)<doi:10.1016/j.forsciint.2019.109964>.
In general, it can be used for objective comparison of striated tool marks, and in our
examples, we specifically use it for bullet signatures comparisons. The CMPS score is
expected to be large if two signatures are similar. So it can also be considered as a
feature that measures the similarity of two bullet signatures.
Author: Wangqian Ju [aut, cre] ,
Heike Hofmann [ctb]
Maintainer: Wangqian Ju <wju@iastate.edu>
Diff between cmpsR versions 0.1.0 dated 2021-10-29 and 0.1.2 dated 2022-07-18
cmpsR-0.1.0/cmpsR/man/get_ccf5.Rd |only cmpsR-0.1.2/cmpsR/DESCRIPTION | 8 cmpsR-0.1.2/cmpsR/MD5 | 53 cmpsR-0.1.2/cmpsR/NAMESPACE | 2 cmpsR-0.1.2/cmpsR/R/cmps.R | 169 - cmpsR-0.1.2/cmpsR/R/cmps_plot.R | 237 +- cmpsR-0.1.2/cmpsR/R/get_ccf4.R | 97 - cmpsR-0.1.2/cmpsR/R/helpers.R | 50 cmpsR-0.1.2/cmpsR/R/peak.R | 34 cmpsR-0.1.2/cmpsR/R/segment.R | 3 cmpsR-0.1.2/cmpsR/README.md |only cmpsR-0.1.2/cmpsR/build/vignette.rds |binary cmpsR-0.1.2/cmpsR/inst/CITATION |only cmpsR-0.1.2/cmpsR/inst/doc/cmpsR-vignette.R | 44 cmpsR-0.1.2/cmpsR/inst/doc/cmpsR-vignette.Rmd | 48 cmpsR-0.1.2/cmpsR/inst/doc/cmpsR-vignette.html | 998 ++++++----- cmpsR-0.1.2/cmpsR/man/cmps_segment_plot.Rd | 19 cmpsR-0.1.2/cmpsR/man/cmps_signature_plot.Rd | 12 cmpsR-0.1.2/cmpsR/man/compute_diff_phase.Rd | 6 cmpsR-0.1.2/cmpsR/man/compute_score_metrics.Rd | 2 cmpsR-0.1.2/cmpsR/man/extract_feature_cmps.Rd | 28 cmpsR-0.1.2/cmpsR/man/figures/README-plot_all_pairwise-1.png |binary cmpsR-0.1.2/cmpsR/man/get_CMPS.Rd | 27 cmpsR-0.1.2/cmpsR/man/get_all_phases.Rd | 2 cmpsR-0.1.2/cmpsR/man/get_ccp.Rd | 12 cmpsR-0.1.2/cmpsR/man/get_ccr_peaks.Rd | 6 cmpsR-0.1.2/cmpsR/man/metric_plot_helper.Rd | 14 cmpsR-0.1.2/cmpsR/src/local_max.c | 1 cmpsR-0.1.2/cmpsR/vignettes/cmpsR-vignette.Rmd | 48 29 files changed, 1023 insertions(+), 897 deletions(-)
Title: Bootstrapping the ARDL Tests for Cointegration
Description: The bootstrap ARDL tests for cointegration is the main functionality of this package. It also acts as a wrapper of the most commond ARDL testing procedures for cointegration: the bound tests of Pesaran, Shin and Smith (PSS; 2001 - <doi:10.1002/jae.616>) and the asymptotic test on the independent variables of Sam, McNown and Goh (SMG: 2019 - <doi:10.1016/j.econmod.2018.11.001>). Bootstrap and bound tests are performed under both the conditional and unconditional ARDL models.
Author: Gianmarco Vacca
Maintainer: Gianmarco Vacca <gianmarco.vacca@unicatt.it>
Diff between bootCT versions 1.0 dated 2022-03-21 and 1.1 dated 2022-07-18
DESCRIPTION | 17 +++----- MD5 | 44 ++++++++++----------- R/RcppExports.R | 2 R/ardl_to_lm.R | 6 +- R/boot_ardl.R | 61 +++++++++++++++--------------- R/gen_boot_ardl.R | 5 -- R/lag_mts.R | 5 +- R/sim_vecm_ardl.R | 14 ++---- R/smk_crit.R | 4 - R/strip_formula_H0.R | 1 R/strip_formula_UC.R | 9 +--- R/summary_bootCT.R | 48 ++++++++++++----------- R/sysdata.rda |binary man/ardl_to_lm.Rd | 7 --- man/boot_ardl.Rd | 6 +- man/gen_boot_ardl.Rd | 3 - man/lag_mts.Rd | 4 - man/sim_vecm_ardl.Rd | 2 man/smk_crit.Rd | 2 man/strip_formula_H0.Rd | 3 - man/strip_formula_UC.Rd | 3 - man/summary.bootCT.Rd | 4 - src/boot_ardl_c.cpp | 97 +++++++++++++++++++++++------------------------- 23 files changed, 167 insertions(+), 180 deletions(-)
Title: The R WINS Package
Description: Calculate the win statistics (win ratio, net benefit and win odds) for prioritized multiple endpoints, plot the win statistics and win proportions over study time if at least one time-to-event endpoint is analyzed, and simulate datasets with dependent endpoints. The package can handle any type of outcomes (continuous, ordinal, binary, time-to-event) and allow users to perform stratified analysis and inverse probability of censoring weighting (IPCW) analysis.
Author: Ying Cui [aut, cre],
Bo Huang [aut]
Maintainer: Ying Cui <cuiyingbeicheng@gmail.com>
Diff between WINS versions 1.1 dated 2022-02-03 and 1.2 dated 2022-07-18
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/get.win.stat_t.R | 2 +- R/win.stat.R | 4 ++-- inst/doc/vignette.pdf |binary 5 files changed, 10 insertions(+), 10 deletions(-)
Title: 'Rcpp' Bindings for 'hnswlib', a Library for Approximate Nearest
Neighbors
Description: 'Hnswlib' is a C++ library for Approximate Nearest Neighbors. This
package provides a minimal R interface by relying on the 'Rcpp' package. See
<https://github.com/nmslib/hnswlib> for more on 'hnswlib'. 'hnswlib' is
released under Version 2.0 of the Apache License.
Author: James Melville [aut, cre],
Aaron Lun [ctb],
Samuel Granjeaud [ctb],
Dmitriy Selivanov [ctb],
Yuxing Liao [ctb]
Maintainer: James Melville <jlmelville@gmail.com>
Diff between RcppHNSW versions 0.4.0 dated 2022-07-16 and 0.4.1 dated 2022-07-18
DESCRIPTION | 6 MD5 | 16 NEWS.md | 142 +-- inst/include/bruteforce.h | 266 +++--- inst/include/hnswalg.h | 1573 ++++++++++++++++----------------------- inst/include/hnswlib.h | 184 ---- inst/include/space_ip.h | 168 ---- inst/include/space_l2.h | 160 --- inst/include/visited_list_pool.h | 1 9 files changed, 1002 insertions(+), 1514 deletions(-)
Title: Data Menu for Radiant: Business Analytics using R and Shiny
Description: The Radiant Data menu includes interfaces for loading, saving,
viewing, visualizing, summarizing, transforming, and combining data. It also
contains functionality to generate reproducible reports of the analyses
conducted in the application.
Author: Vincent Nijs [aut, cre]
Maintainer: Vincent Nijs <radiant@rady.ucsd.edu>
Diff between radiant.data versions 1.4.2 dated 2022-05-25 and 1.4.3 dated 2022-07-18
DESCRIPTION | 8 MD5 | 42 NEWS.md | 10 R/radiant.R | 12 README.md | 2 inst/app/global.R | 107 +- inst/app/radiant.R | 305 ++++-- inst/app/tools/app/about.md | 2 inst/app/tools/app/report_funs.R | 1709 ++++++++++++++++++------------------- inst/app/tools/app/tutorials.md | 2 inst/app/tools/data/combine_ui.R | 28 inst/app/tools/data/explore_ui.R | 75 + inst/app/tools/data/manage_ui.R | 108 +- inst/app/tools/data/pivotr_ui.R | 189 ++-- inst/app/tools/data/transform_ui.R | 259 ++--- inst/app/tools/data/view_ui.R | 31 inst/app/tools/data/visualize_ui.R | 197 ++-- inst/app/ui.R | 2 inst/app/www/js/run_return.js | 49 - inst/app/www/style.css | 74 + man/sshh.Rd | 2 man/sshhr.Rd | 2 22 files changed, 1809 insertions(+), 1406 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2022-06-01 0.6.7.1
2022-05-02 0.6.7
2021-01-30 0.6.5.3
2021-01-24 0.6.5.2
2018-10-17 0.6.5
2018-03-22 0.6.4.4
2016-12-13 0.6.4.3.3
2016-08-02 0.6.4.2
2016-07-11 0.6.4.1
2016-05-23 0.6.4
2016-03-28 0.6.3.1
2016-02-25 0.6.3
2015-12-30 0.6.2.1
2015-12-28 0.6.2
2015-10-08 0.6.1
2015-09-23 0.6.0
2015-09-01 0.5
2015-08-27 0.4
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-05 2.5.0