Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-09-10 0.1.5
2018-01-26 0.1.4
2017-06-19 0.1.3
2016-06-24 0.1.2
2016-05-16 0.1.1
2016-05-03 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2014-02-11 1.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2019-11-17 2.0.0
2019-10-27 1.2.0
2019-09-07 1.1.0
2019-04-22 1.0.5
2019-03-23 1.0.4
2019-02-28 1.0.3
2019-02-24 1.0.2
2019-02-16 1.0.1
2019-02-02 1.0.0
2018-12-02 0.1.3
2018-11-30 0.1.2
2018-11-28 0.1.1
Title: R Scripts in the Google Cloud via Cloud Run, Cloud Build and
Cloud Scheduler
Description: Tools to easily enable R scripts in the Google Cloud Platform.
Utilise cloud services such as Cloud Run <https://cloud.google.com/run/> for R over HTTP,
Cloud Build <https://cloud.google.com/cloud-build/> for Continuous Delivery
and Integration services and
Cloud Scheduler <https://cloud.google.com/scheduler/> for scheduled scripts.
Author: Mark Edmondson [aut, cre] (<https://orcid.org/0000-0002-8434-3881>),
Sunholo Ltd [cph]
Maintainer: Mark Edmondson <r@sunholo.com>
Diff between googleCloudRunner versions 0.2.0 dated 2020-05-02 and 0.3.0 dated 2020-09-10
googleCloudRunner-0.2.0/googleCloudRunner/inst/cloudbuild/failure.svg |only googleCloudRunner-0.2.0/googleCloudRunner/inst/cloudbuild/success.svg |only googleCloudRunner-0.2.0/googleCloudRunner/inst/scheduled_rmarkdown/scheduled_rmarkdown.html |only googleCloudRunner-0.2.0/googleCloudRunner/man/cr_buildtrigger_make.Rd |only googleCloudRunner-0.2.0/googleCloudRunner/man/cr_deploy_git_html.Rd |only googleCloudRunner-0.2.0/googleCloudRunner/man/cr_deploy_github_docker.Rd |only googleCloudRunner-0.2.0/googleCloudRunner/tests |only googleCloudRunner-0.3.0/googleCloudRunner/DESCRIPTION | 16 googleCloudRunner-0.3.0/googleCloudRunner/MD5 | 168 +++-- googleCloudRunner-0.3.0/googleCloudRunner/NAMESPACE | 12 googleCloudRunner-0.3.0/googleCloudRunner/NEWS.md | 21 googleCloudRunner-0.3.0/googleCloudRunner/R/badger.R |only googleCloudRunner-0.3.0/googleCloudRunner/R/build_sources.R | 12 googleCloudRunner-0.3.0/googleCloudRunner/R/buildstep_templates_git.R |only googleCloudRunner-0.3.0/googleCloudRunner/R/buildsteps.R | 2 googleCloudRunner-0.3.0/googleCloudRunner/R/buildsteps_templates.R | 219 ++----- googleCloudRunner-0.3.0/googleCloudRunner/R/buildtriggers.R | 207 ++---- googleCloudRunner-0.3.0/googleCloudRunner/R/buildtriggers_github.R | 60 + googleCloudRunner-0.3.0/googleCloudRunner/R/cloudRunner.R | 2 googleCloudRunner-0.3.0/googleCloudRunner/R/cloudbuild.R | 48 + googleCloudRunner-0.3.0/googleCloudRunner/R/cloudbuild_schedule.R | 4 googleCloudRunner-0.3.0/googleCloudRunner/R/cloudrun.R | 26 googleCloudRunner-0.3.0/googleCloudRunner/R/cloudscheduler.R | 60 + googleCloudRunner-0.3.0/googleCloudRunner/R/deploy-buildtriggers.R | 110 +-- googleCloudRunner-0.3.0/googleCloudRunner/R/deploy-run.R | 23 googleCloudRunner-0.3.0/googleCloudRunner/R/deploy.R | 236 +++---- googleCloudRunner-0.3.0/googleCloudRunner/R/docker.R | 301 ++++++++++ googleCloudRunner-0.3.0/googleCloudRunner/R/googleCloudRunner.R |only googleCloudRunner-0.3.0/googleCloudRunner/R/print_methods.R | 22 googleCloudRunner-0.3.0/googleCloudRunner/R/rstudio_gadget.R | 20 googleCloudRunner-0.3.0/googleCloudRunner/R/setup.R | 258 ++------ googleCloudRunner-0.3.0/googleCloudRunner/R/setup_auth.R | 115 --- googleCloudRunner-0.3.0/googleCloudRunner/R/setup_buildemail.R | 8 googleCloudRunner-0.3.0/googleCloudRunner/R/setup_parts.R | 50 - googleCloudRunner-0.3.0/googleCloudRunner/R/setup_tests.R | 8 googleCloudRunner-0.3.0/googleCloudRunner/R/utilities.R | 4 googleCloudRunner-0.3.0/googleCloudRunner/R/yaml.R | 8 googleCloudRunner-0.3.0/googleCloudRunner/README.md | 8 googleCloudRunner-0.3.0/googleCloudRunner/inst/cloudbuild/cloudbuild_ga_bq.yml |only googleCloudRunner-0.3.0/googleCloudRunner/inst/cloudbuild/cloudbuild_packages.yml | 6 googleCloudRunner-0.3.0/googleCloudRunner/inst/cloudbuild/cloudbuild_pkgdown.yml | 2 googleCloudRunner-0.3.0/googleCloudRunner/inst/docker/github |only googleCloudRunner-0.3.0/googleCloudRunner/inst/docker/packages/cloud_build.R |only googleCloudRunner-0.3.0/googleCloudRunner/inst/docker/packages/cloudbuild.yml |only googleCloudRunner-0.3.0/googleCloudRunner/inst/example/api.R | 2 googleCloudRunner-0.3.0/googleCloudRunner/inst/polygot/polygot.Rmd | 2 googleCloudRunner-0.3.0/googleCloudRunner/inst/shiny |only googleCloudRunner-0.3.0/googleCloudRunner/man/BuildTrigger.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/GitHubEventsConfig.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_build_artifacts.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_build_schedule_http.Rd | 4 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_build_upload_gcs.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep.Rd | 3 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_bash.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_decrypt.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_df.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_docker.Rd | 29 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_edit.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_extract.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_gcloud.Rd |only googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_git.Rd | 10 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_mailgun.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_nginx_setup.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_packagetests.Rd | 8 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_pkgdown.Rd | 3 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_r.Rd | 3 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_run.Rd | 15 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_secret.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildstep_slack.Rd | 1 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger.Rd | 60 - googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_delete.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_edit.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_get.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_list.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_repo.Rd |only googleCloudRunner-0.3.0/googleCloudRunner/man/cr_buildtrigger_run.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_badger.Rd |only googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_docker.Rd | 27 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_docker_trigger.Rd |only googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_packagetests.Rd | 57 + googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_pkgdown.Rd | 30 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_r.Rd | 12 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_run.Rd | 25 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_deploy_run_website.Rd |only googleCloudRunner-0.3.0/googleCloudRunner/man/cr_run.Rd | 25 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_run_list.Rd | 2 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_schedule.Rd | 3 googleCloudRunner-0.3.0/googleCloudRunner/man/cr_setup_service.Rd | 3 googleCloudRunner-0.3.0/googleCloudRunner/man/googleCloudRunner.Rd | 6 89 files changed, 1326 insertions(+), 1066 deletions(-)
More information about googleCloudRunner at CRAN
Permanent link
Title: Cox Model for Case-Cohort Data with Stratified
Subcohort-Selection
Description: Contains a function, also called 'cchs', that calculates Estimator III of Borgan et al (2000), <DOI:10.1023/A:1009661900674>. This estimator is for fitting a Cox proportional hazards model to data from a case-cohort study where the subcohort was selected by stratified simple random sampling.
Author: E. Jones
Maintainer: E. Jones <edmundjones79@gmail.com>
Diff between cchs versions 0.4.1 dated 2019-02-18 and 0.4.2 dated 2020-09-10
DESCRIPTION | 8 ++++---- MD5 | 6 +++--- R/cchs.R | 2 +- man/cchs.Rd | 6 +++++- 4 files changed, 13 insertions(+), 9 deletions(-)
Title: Discontinuous Regression and Image Processing
Description: This is a collection of functions for discontinuous regression
analysis and image processing (DRIP). A recent addition is the
blind image deblurring via jump-preserving extrapolation. This
version removes the dependence on the GNU Scientific Library.
Author: Yicheng Kang <kangx276@umn.edu>
Maintainer: Yicheng Kang <kangx276@umn.edu>
Diff between DRIP versions 1.4 dated 2018-10-07 and 1.5 dated 2020-09-10
DRIP-1.4/DRIP/cleanup |only DRIP-1.4/DRIP/configure |only DRIP-1.4/DRIP/configure.ac |only DRIP-1.4/DRIP/src/Makevars.in |only DRIP-1.4/DRIP/src/Makevars.win |only DRIP-1.5/DRIP/DESCRIPTION | 14 - DRIP-1.5/DRIP/MD5 | 83 ++---- DRIP-1.5/DRIP/NAMESPACE | 2 DRIP-1.5/DRIP/R/cv.jpex.R | 60 ++-- DRIP-1.5/DRIP/R/jpex.R | 26 + DRIP-1.5/DRIP/data/brain.RData |binary DRIP-1.5/DRIP/data/circles.RData |binary DRIP-1.5/DRIP/data/kid.RData |binary DRIP-1.5/DRIP/data/lena.RData |binary DRIP-1.5/DRIP/data/peppers.RData |binary DRIP-1.5/DRIP/data/sar.RData |binary DRIP-1.5/DRIP/data/stopsign.RData |binary DRIP-1.5/DRIP/man/cv.jpex.Rd | 15 - DRIP-1.5/DRIP/man/diffLC2K.Rd | 2 DRIP-1.5/DRIP/man/diffLCK.Rd | 2 DRIP-1.5/DRIP/man/diffLL2K.Rd | 2 DRIP-1.5/DRIP/man/diffLLK.Rd | 2 DRIP-1.5/DRIP/man/jpex.Rd | 9 DRIP-1.5/DRIP/man/modify1.Rd | 2 DRIP-1.5/DRIP/man/modify2.Rd | 2 DRIP-1.5/DRIP/man/roofDiff.Rd | 2 DRIP-1.5/DRIP/man/roofEdge.Rd | 2 DRIP-1.5/DRIP/man/roofEdgeParSel.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeLC2K.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeLCK.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeLL2K.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeLLK.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeParSelLC2K.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeParSelLCK.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeParSelLL2K.Rd | 2 DRIP-1.5/DRIP/man/stepEdgeParSelLLK.Rd | 2 DRIP-1.5/DRIP/man/surfaceCluster.Rd | 2 DRIP-1.5/DRIP/man/surfaceCluster_bandwidth.Rd | 2 DRIP-1.5/DRIP/man/threeStage.Rd | 2 DRIP-1.5/DRIP/man/threeStageParSel.Rd | 2 DRIP-1.5/DRIP/src/JPEX0.c | 355 +++++++++++--------------- DRIP-1.5/DRIP/src/LOOCV.c | 208 +++++++-------- DRIP-1.5/DRIP/src/Makevars |only DRIP-1.5/DRIP/src/extend_c.c | 70 +++-- DRIP-1.5/DRIP/src/functions.h | 7 DRIP-1.5/DRIP/src/matalg.c |only 46 files changed, 448 insertions(+), 443 deletions(-)
Title: Managing and Visualizing Brain Surface Data
Description: Provides high-level access to 'FreeSurfer' <http://freesurfer.net/> neuroimaging data on the level of subjects and groups. Load morphometry data, surfaces and brain parcellations based on atlases. Mask data using labels, load data for specific atlas regions only, and visualize data and results directly in 'R'.
Author: Tim Schäfer [aut, cre] (<https://orcid.org/0000-0002-3683-8070>)
Maintainer: Tim Schäfer <ts+code@rcmd.org>
Diff between fsbrain versions 0.3.0 dated 2020-06-21 and 0.4.0 dated 2020-09-10
fsbrain-0.3.0/fsbrain/tests/testthat/test-fsdir-abstraction-group.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-fsdir-abstraction-subject.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-mesh-helpers.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-metadata-io.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-morph-agg.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-morph-atlas-agg.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-morph-concat.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-vis-multiview.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-vis-surface-background.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-vis-volume-3d.R |only fsbrain-0.3.0/fsbrain/tests/testthat/test-vis-volume.R |only fsbrain-0.4.0/fsbrain/DESCRIPTION | 14 fsbrain-0.4.0/fsbrain/MD5 | 270 +-- fsbrain-0.4.0/fsbrain/NAMESPACE | 29 fsbrain-0.4.0/fsbrain/R/brainview_magick.R | 281 +++ fsbrain-0.4.0/fsbrain/R/cbar.R | 61 fsbrain-0.4.0/fsbrain/R/cbar_magick.R | 15 fsbrain-0.4.0/fsbrain/R/coloredmesh.R | 91 - fsbrain-0.4.0/fsbrain/R/curvature.R |only fsbrain-0.4.0/fsbrain/R/export.R | 4 fsbrain-0.4.0/fsbrain/R/fsdir_abstraction_group.R | 119 + fsbrain-0.4.0/fsbrain/R/fsdir_abstraction_subject.R | 37 fsbrain-0.4.0/fsbrain/R/helpers.R | 268 +-- fsbrain-0.4.0/fsbrain/R/hemilist.R |only fsbrain-0.4.0/fsbrain/R/metadata_io.R | 208 ++ fsbrain-0.4.0/fsbrain/R/morph_atlas_agg.R | 20 fsbrain-0.4.0/fsbrain/R/optdata.R | 217 ++ fsbrain-0.4.0/fsbrain/R/rglactions.R |only fsbrain-0.4.0/fsbrain/R/seg_stats.R | 4 fsbrain-0.4.0/fsbrain/R/spherical.R |only fsbrain-0.4.0/fsbrain/R/vis.R | 239 ++ fsbrain-0.4.0/fsbrain/R/vis_group.R |only fsbrain-0.4.0/fsbrain/R/vis_meshes.R | 61 fsbrain-0.4.0/fsbrain/R/vis_multiview.R | 93 - fsbrain-0.4.0/fsbrain/R/vis_surface_background.R | 210 +- fsbrain-0.4.0/fsbrain/R/vis_volume.R | 6 fsbrain-0.4.0/fsbrain/R/vis_volume_3d.R | 18 fsbrain-0.4.0/fsbrain/R/volume.R | 1 fsbrain-0.4.0/fsbrain/inst/doc/fsbrain.R | 39 fsbrain-0.4.0/fsbrain/inst/doc/fsbrain.Rmd | 81 fsbrain-0.4.0/fsbrain/inst/doc/fsbrain.html | 817 ++++++---- fsbrain-0.4.0/fsbrain/inst/doc/fsbrain_faq.R | 28 fsbrain-0.4.0/fsbrain/inst/doc/fsbrain_faq.Rmd | 81 fsbrain-0.4.0/fsbrain/inst/doc/fsbrain_faq.html | 438 ++++- fsbrain-0.4.0/fsbrain/inst/doc/fsbrain_vol.html | 333 +++- fsbrain-0.4.0/fsbrain/inst/extdata/cube.ply |only fsbrain-0.4.0/fsbrain/inst/extdata/demographics_nohdr.tsv |only fsbrain-0.4.0/fsbrain/man/arrange.brainview.images.Rd | 6 fsbrain-0.4.0/fsbrain/man/arrange.brainview.images.grid.Rd |only fsbrain-0.4.0/fsbrain/man/brainview.sd.Rd | 2 fsbrain-0.4.0/fsbrain/man/brainview.si.Rd | 2 fsbrain-0.4.0/fsbrain/man/brainview.sr.Rd | 2 fsbrain-0.4.0/fsbrain/man/brainview.t4.Rd | 2 fsbrain-0.4.0/fsbrain/man/brainview.t9.Rd | 2 fsbrain-0.4.0/fsbrain/man/brainviews.Rd | 2 fsbrain-0.4.0/fsbrain/man/can.plot.colorbar.Rd | 7 fsbrain-0.4.0/fsbrain/man/can.plot.colorbar.from.coloredmeshes.Rd |only fsbrain-0.4.0/fsbrain/man/clip.data.Rd | 2 fsbrain-0.4.0/fsbrain/man/collayer.bg.Rd | 2 fsbrain-0.4.0/fsbrain/man/collayer.from.morphlike.data.Rd | 2 fsbrain-0.4.0/fsbrain/man/coloredmesh.from.morph.native.Rd | 2 fsbrain-0.4.0/fsbrain/man/coloredmesh.from.morph.standard.Rd | 2 fsbrain-0.4.0/fsbrain/man/coloredmesh.from.morphdata.Rd | 2 fsbrain-0.4.0/fsbrain/man/coloredmesh.from.preloaded.data.Rd | 2 fsbrain-0.4.0/fsbrain/man/coloredmesh.plot.colorbar.separate.Rd | 3 fsbrain-0.4.0/fsbrain/man/combine.colorbar.with.brainview.image.Rd | 3 fsbrain-0.4.0/fsbrain/man/common.makecmap.range.Rd |only fsbrain-0.4.0/fsbrain/man/demographics.to.fsgd.file.Rd |only fsbrain-0.4.0/fsbrain/man/download_fsaverage.Rd | 2 fsbrain-0.4.0/fsbrain/man/download_fsaverage3.Rd |only fsbrain-0.4.0/fsbrain/man/download_optional_paper_data.Rd |only fsbrain-0.4.0/fsbrain/man/eeg_coords.Rd |only fsbrain-0.4.0/fsbrain/man/export.coloredmesh.ply.Rd | 2 fsbrain-0.4.0/fsbrain/man/find.freesurferhome.Rd | 3 fsbrain-0.4.0/fsbrain/man/find.subjectsdir.of.Rd | 3 fsbrain-0.4.0/fsbrain/man/force.to.range.Rd |only fsbrain-0.4.0/fsbrain/man/fsbrain.set.default.figsize.Rd |only fsbrain-0.4.0/fsbrain/man/gen.test.volume.Rd |only fsbrain-0.4.0/fsbrain/man/get.rglstyle.Rd | 3 fsbrain-0.4.0/fsbrain/man/get.rglstyle.edges.Rd |only fsbrain-0.4.0/fsbrain/man/get.rglstyle.parameters.Rd | 2 fsbrain-0.4.0/fsbrain/man/get.subject.class.Rd |only fsbrain-0.4.0/fsbrain/man/group.data.to.array.Rd |only fsbrain-0.4.0/fsbrain/man/group.morph.standard.sf.Rd |only fsbrain-0.4.0/fsbrain/man/group.surface.Rd |only fsbrain-0.4.0/fsbrain/man/hemilist.derive.hemi.Rd | 2 fsbrain-0.4.0/fsbrain/man/hemilist.get.combined.data.Rd | 2 fsbrain-0.4.0/fsbrain/man/hemilist.unwrap.Rd | 2 fsbrain-0.4.0/fsbrain/man/hemilist.wrap.Rd | 2 fsbrain-0.4.0/fsbrain/man/images.annotate.Rd |only fsbrain-0.4.0/fsbrain/man/images.rescale.to.max.canvas.Rd |only fsbrain-0.4.0/fsbrain/man/is.fs.coloredvoxels.Rd | 2 fsbrain-0.4.0/fsbrain/man/is.hemilist.Rd | 2 fsbrain-0.4.0/fsbrain/man/limit_fun.Rd |only fsbrain-0.4.0/fsbrain/man/limit_fun_na.Rd |only fsbrain-0.4.0/fsbrain/man/makecmakeopts.merge.Rd | 4 fsbrain-0.4.0/fsbrain/man/perform.rglactions.Rd | 8 fsbrain-0.4.0/fsbrain/man/principal.curvatures.Rd |only fsbrain-0.4.0/fsbrain/man/qc.from.regionwise.df.Rd | 2 fsbrain-0.4.0/fsbrain/man/qc.vis.failcount.by.region.Rd | 2 fsbrain-0.4.0/fsbrain/man/read.md.demographics.Rd | 14 fsbrain-0.4.0/fsbrain/man/read.md.subjects.Rd | 14 fsbrain-0.4.0/fsbrain/man/read.md.subjects.from.fsgd.Rd |only fsbrain-0.4.0/fsbrain/man/recycle.Rd |only fsbrain-0.4.0/fsbrain/man/report.on.demographics.Rd | 7 fsbrain-0.4.0/fsbrain/man/rgl.coord.lines.Rd |only fsbrain-0.4.0/fsbrain/man/rglactions.Rd |only fsbrain-0.4.0/fsbrain/man/rglactions.has.key.Rd | 2 fsbrain-0.4.0/fsbrain/man/rglactions.transform.Rd | 2 fsbrain-0.4.0/fsbrain/man/rglo.Rd |only fsbrain-0.4.0/fsbrain/man/rglot.Rd | 9 fsbrain-0.4.0/fsbrain/man/rglvoxels.Rd | 4 fsbrain-0.4.0/fsbrain/man/shape.descriptor.names.Rd |only fsbrain-0.4.0/fsbrain/man/shape.descriptors.Rd |only fsbrain-0.4.0/fsbrain/man/shift.hemis.rglactions.Rd | 2 fsbrain-0.4.0/fsbrain/man/sph2fs.Rd |only fsbrain-0.4.0/fsbrain/man/spread.values.over.hemi.Rd | 5 fsbrain-0.4.0/fsbrain/man/spread.values.over.subject.Rd | 5 fsbrain-0.4.0/fsbrain/man/subject.atlas.agg.Rd | 4 fsbrain-0.4.0/fsbrain/man/subject.num.verts.Rd |only fsbrain-0.4.0/fsbrain/man/subject.surface.Rd | 10 fsbrain-0.4.0/fsbrain/man/surf.center.fsaverage.Rd |only fsbrain-0.4.0/fsbrain/man/surf.radius.fsaverage.Rd |only fsbrain-0.4.0/fsbrain/man/surfs.props.Rd |only fsbrain-0.4.0/fsbrain/man/vdata.split.by.hemi.Rd | 10 fsbrain-0.4.0/fsbrain/man/vis.color.on.subject.Rd | 17 fsbrain-0.4.0/fsbrain/man/vis.coloredmeshes.Rd | 2 fsbrain-0.4.0/fsbrain/man/vis.coloredmeshes.rotating.Rd | 3 fsbrain-0.4.0/fsbrain/man/vis.data.on.fsaverage.Rd | 15 fsbrain-0.4.0/fsbrain/man/vis.data.on.group.native.Rd |only fsbrain-0.4.0/fsbrain/man/vis.data.on.group.standard.Rd |only fsbrain-0.4.0/fsbrain/man/vis.data.on.subject.Rd | 15 fsbrain-0.4.0/fsbrain/man/vis.export.from.coloredmeshes.Rd |only fsbrain-0.4.0/fsbrain/man/vis.fs.surface.Rd | 14 fsbrain-0.4.0/fsbrain/man/vis.group.annot.Rd |only fsbrain-0.4.0/fsbrain/man/vis.group.coloredmeshes.Rd |only fsbrain-0.4.0/fsbrain/man/vis.group.morph.native.Rd |only fsbrain-0.4.0/fsbrain/man/vis.group.morph.standard.Rd |only fsbrain-0.4.0/fsbrain/man/vis.labeldata.on.subject.Rd | 4 fsbrain-0.4.0/fsbrain/man/vis.mask.on.subject.Rd | 4 fsbrain-0.4.0/fsbrain/man/vis.region.values.on.subject.Rd | 13 fsbrain-0.4.0/fsbrain/man/vis.renderable.Rd | 2 fsbrain-0.4.0/fsbrain/man/vis.subject.annot.Rd | 4 fsbrain-0.4.0/fsbrain/man/vis.subject.label.Rd | 6 fsbrain-0.4.0/fsbrain/man/vis.subject.morph.native.Rd | 6 fsbrain-0.4.0/fsbrain/man/vis.subject.morph.standard.Rd | 11 fsbrain-0.4.0/fsbrain/man/vis.symmetric.data.on.subject.Rd | 20 fsbrain-0.4.0/fsbrain/man/vislayout.from.coloredmeshes.Rd | 4 fsbrain-0.4.0/fsbrain/man/volvis.lightbox.Rd | 3 fsbrain-0.4.0/fsbrain/man/write.group.morph.standard.sf.Rd |only fsbrain-0.4.0/fsbrain/tests/testthat/helper-functions.R | 74 fsbrain-0.4.0/fsbrain/tests/testthat/test-brainview_magic.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-coloredmesh.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-curvature.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-export.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-fsdir_abstraction_group.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-fsdir_abstraction_subject.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-mesh_helpers.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-metadata_io.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-morph_agg.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-morph_atlas_agg.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-morph_concat.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-rglactions.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-seg_stats.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-spherical.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis.R | 134 + fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_group.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_meshes.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_multiview.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_surface_background.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_volume.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-vis_volume_3d.R |only fsbrain-0.4.0/fsbrain/tests/testthat/test-volume.R | 36 fsbrain-0.4.0/fsbrain/vignettes/fsbrain.Rmd | 81 fsbrain-0.4.0/fsbrain/vignettes/fsbrain_faq.Rmd | 81 175 files changed, 3576 insertions(+), 1232 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-27 1.0.0
Title: Time-Course Gene Set Analysis for RNA-Seq Data
Description: Analyze RNA-seq data with variance component score test accounting
for data heteroscedasticity through precision weights. Perform both gene-wise and gene set
analyses, and can deal with longitudinal data. Method is detailed in: Agniel & Hejblum
(2017) <doi: 10.1093/biostatistics/kxx005>, Variance component score test for
time-course gene set analysis of longitudinal RNA-seq data, Biostatistics, 18(4):589-604.
Author: Denis Agniel [aut],
Boris P. Hejblum [aut, cre],
Marine Gauthier [aut]
Maintainer: Boris P. Hejblum <boris.hejblum@u-bordeaux.fr>
Diff between tcgsaseq versions 1.8.1 dated 2018-12-06 and 2.0.5 dated 2020-09-10
tcgsaseq-1.8.1/tcgsaseq/R/varseq.R |only tcgsaseq-1.8.1/tcgsaseq/data/datalist |only tcgsaseq-1.8.1/tcgsaseq/man/varseq.Rd |only tcgsaseq-2.0.5/tcgsaseq/DESCRIPTION | 20 +- tcgsaseq-2.0.5/tcgsaseq/MD5 | 76 +++++----- tcgsaseq-2.0.5/tcgsaseq/NAMESPACE | 4 tcgsaseq-2.0.5/tcgsaseq/NEWS.md | 12 + tcgsaseq-2.0.5/tcgsaseq/R/PBT_gmt.R | 2 tcgsaseq-2.0.5/tcgsaseq/R/TcGSAseq-package.R | 6 tcgsaseq-2.0.5/tcgsaseq/R/baduel.R | 2 tcgsaseq-2.0.5/tcgsaseq/R/perm_pe.R | 7 tcgsaseq-2.0.5/tcgsaseq/R/sp_weights.R | 71 ++++++--- tcgsaseq-2.0.5/tcgsaseq/R/tcgsa_seq.R | 82 ++++++++--- tcgsaseq-2.0.5/tcgsaseq/R/varcompseq.R |only tcgsaseq-2.0.5/tcgsaseq/R/vc_score_h_perm.R | 41 ++++- tcgsaseq-2.0.5/tcgsaseq/R/vc_score_perm.R | 46 +++++- tcgsaseq-2.0.5/tcgsaseq/R/vc_test_asym.R | 25 ++- tcgsaseq-2.0.5/tcgsaseq/R/vc_test_perm.R | 32 +++- tcgsaseq-2.0.5/tcgsaseq/R/voom_weights.R | 10 + tcgsaseq-2.0.5/tcgsaseq/README.md | 61 ++++++-- tcgsaseq-2.0.5/tcgsaseq/man/PBT_gmt.Rd | 6 tcgsaseq-2.0.5/tcgsaseq/man/baduel_5gs.Rd | 8 - tcgsaseq-2.0.5/tcgsaseq/man/compute_sim_voomlike.Rd | 16 +- tcgsaseq-2.0.5/tcgsaseq/man/compute_sim_voomlike_genewise.Rd | 14 + tcgsaseq-2.0.5/tcgsaseq/man/data_sim_voomlike.Rd | 17 +- tcgsaseq-2.0.5/tcgsaseq/man/dsFDR.Rd | 7 tcgsaseq-2.0.5/tcgsaseq/man/figures |only tcgsaseq-2.0.5/tcgsaseq/man/nb_sim_fn.Rd | 11 + tcgsaseq-2.0.5/tcgsaseq/man/nonlin_sim_fn.Rd | 22 ++ tcgsaseq-2.0.5/tcgsaseq/man/qAbundanceDist.Rd | 4 tcgsaseq-2.0.5/tcgsaseq/man/sp_weights.Rd | 23 ++- tcgsaseq-2.0.5/tcgsaseq/man/tcgsa_seq.Rd | 60 ++++++-- tcgsaseq-2.0.5/tcgsaseq/man/tcgsaseq.Rd | 7 tcgsaseq-2.0.5/tcgsaseq/man/varcompseq.Rd |only tcgsaseq-2.0.5/tcgsaseq/man/vc_score.Rd | 3 tcgsaseq-2.0.5/tcgsaseq/man/vc_score_h.Rd | 3 tcgsaseq-2.0.5/tcgsaseq/man/vc_score_h_perm.Rd | 33 +++- tcgsaseq-2.0.5/tcgsaseq/man/vc_score_perm.Rd | 31 +++- tcgsaseq-2.0.5/tcgsaseq/man/vc_test_asym.Rd | 14 + tcgsaseq-2.0.5/tcgsaseq/man/vc_test_perm.Rd | 33 +++- tcgsaseq-2.0.5/tcgsaseq/man/voom_weights.Rd | 13 + tcgsaseq-2.0.5/tcgsaseq/tests/testthat/test_varseq.R | 4 42 files changed, 617 insertions(+), 209 deletions(-)
Title: Dose-Response MBNMA Models
Description: Fits Bayesian dose-response model-based network meta-analysis (MBNMA)
that incorporate multiple doses within an agent by modelling different dose-response functions, as
described by Mawdsley et al. (2016) <doi:10.1002/psp4.12091>.
By modelling dose-response relationships this can connect networks of evidence that might
otherwise be disconnected, and can improve precision on treatment estimates. Several common
dose-response functions are provided; others may be added by the user. Various characteristics
and assumptions can be flexibly added to the models, such as shared class effects. The consistency
of direct and indirect evidence in the network can be assessed using unrelated mean effects models
and/or by node-splitting at the treatment level.
Author: Hugo Pedder [aut, cre],
Lujin Li [rev],
Adil Karim [ctb]
Maintainer: Hugo Pedder <hugopedder@gmail.com>
Diff between MBNMAdose versions 0.2.7 dated 2020-03-02 and 0.3.0 dated 2020-09-10
MBNMAdose-0.2.7/MBNMAdose/man/DR.comparisons.Rd |only MBNMAdose-0.3.0/MBNMAdose/DESCRIPTION | 40 MBNMAdose-0.3.0/MBNMAdose/MD5 | 149 - MBNMAdose-0.3.0/MBNMAdose/NAMESPACE | 8 MBNMAdose-0.3.0/MBNMAdose/NEWS.md | 26 MBNMAdose-0.3.0/MBNMAdose/R/datasets.R | 78 MBNMAdose-0.3.0/MBNMAdose/R/inconsistency.functions.R | 629 +++- MBNMAdose-0.3.0/MBNMAdose/R/mbnma-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/mbnma.network-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/mbnma.predict-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/mbnma.rank-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/nma-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/nma.nodesplit-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/nodesplit-class.R |only MBNMAdose-0.3.0/MBNMAdose/R/plot.functions.R | 978 ------ MBNMAdose-0.3.0/MBNMAdose/R/predict.functions.R | 422 --- MBNMAdose-0.3.0/MBNMAdose/R/prepare.functions.R | 299 +- MBNMAdose-0.3.0/MBNMAdose/R/print.functions.R | 393 -- MBNMAdose-0.3.0/MBNMAdose/R/rank.functions.R | 349 -- MBNMAdose-0.3.0/MBNMAdose/R/run.functions.R | 304 +- MBNMAdose-0.3.0/MBNMAdose/R/write.functions.R | 189 + MBNMAdose-0.3.0/MBNMAdose/README.md | 18 MBNMAdose-0.3.0/MBNMAdose/build/partial.rdb |binary MBNMAdose-0.3.0/MBNMAdose/build/vignette.rds |binary MBNMAdose-0.3.0/MBNMAdose/data/psoriasis.rda |only MBNMAdose-0.3.0/MBNMAdose/data/ssri.rda |only MBNMAdose-0.3.0/MBNMAdose/inst/REFERENCES.bib | 59 MBNMAdose-0.3.0/MBNMAdose/inst/doc/mbnmadose.R | 190 - MBNMAdose-0.3.0/MBNMAdose/inst/doc/mbnmadose.Rmd | 186 - MBNMAdose-0.3.0/MBNMAdose/inst/doc/mbnmadose.html | 1403 +++++----- MBNMAdose-0.3.0/MBNMAdose/man/GoutSUA_2wkCFB.Rd | 6 MBNMAdose-0.3.0/MBNMAdose/man/HF2PPITT.Rd | 6 MBNMAdose-0.3.0/MBNMAdose/man/MBNMAdose-package.Rd | 7 MBNMAdose-0.3.0/MBNMAdose/man/add_index.Rd | 15 MBNMAdose-0.3.0/MBNMAdose/man/alog_pcfb.Rd | 30 MBNMAdose-0.3.0/MBNMAdose/man/cumrank.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/devplot.Rd | 12 MBNMAdose-0.3.0/MBNMAdose/man/drop.comp.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/fitplot.Rd | 9 MBNMAdose-0.3.0/MBNMAdose/man/genspline.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/get.relative.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/getjagsdata.Rd | 24 MBNMAdose-0.3.0/MBNMAdose/man/inconsistency.loops.Rd | 20 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.emax.Rd | 30 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.emax.hill.Rd | 31 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.exponential.Rd | 29 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.linear.Rd | 29 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.network.Rd | 27 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.nodesplit.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/mbnma.run.Rd | 96 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.update.Rd | 8 MBNMAdose-0.3.0/MBNMAdose/man/mbnma.write.Rd | 36 MBNMAdose-0.3.0/MBNMAdose/man/nma.nodesplit.Rd | 16 MBNMAdose-0.3.0/MBNMAdose/man/nma.run.Rd | 35 MBNMAdose-0.3.0/MBNMAdose/man/osteopain_2wkabs.Rd | 6 MBNMAdose-0.3.0/MBNMAdose/man/pDcalc.Rd | 13 MBNMAdose-0.3.0/MBNMAdose/man/plot.mbnma.Rd | 5 MBNMAdose-0.3.0/MBNMAdose/man/plot.mbnma.predict.Rd | 16 MBNMAdose-0.3.0/MBNMAdose/man/plot.mbnma.rank.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/predict.mbnma.Rd | 23 MBNMAdose-0.3.0/MBNMAdose/man/print.mbnma.network.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/print.mbnma.predict.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/print.mbnma.rank.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/print.nma.nodesplit.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/print.nodesplit.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/psoriasis.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/rank.mbnma.Rd | 10 MBNMAdose-0.3.0/MBNMAdose/man/rank.mbnma.predict.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/ref.synth.Rd | 11 MBNMAdose-0.3.0/MBNMAdose/man/ssri.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/summary.mbnma.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/summary.mbnma.network.Rd |only MBNMAdose-0.3.0/MBNMAdose/man/summary.mbnma.predict.Rd | 4 MBNMAdose-0.3.0/MBNMAdose/man/summary.mbnma.rank.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/summary.nma.nodesplit.Rd | 2 MBNMAdose-0.3.0/MBNMAdose/man/summary.nodesplit.Rd |only MBNMAdose-0.3.0/MBNMAdose/tests/testthat.R | 24 MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_inconsistency.functions.R | 306 +- MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_plot.functions.R | 525 ++- MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_predict.functions.R | 407 +- MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_prepare.functions.R | 190 - MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_rank.functions.R | 315 +- MBNMAdose-0.3.0/MBNMAdose/tests/testthat/test_run.functions.R | 594 ++-- MBNMAdose-0.3.0/MBNMAdose/vignettes/REFERENCES.bib | 59 MBNMAdose-0.3.0/MBNMAdose/vignettes/mbnmadose.Rmd | 186 - 85 files changed, 4637 insertions(+), 4263 deletions(-)
Title: The Calibration Simplex
Description: Generates the calibration simplex (a generalization of the reliability diagram) for three-category probability forecasts, as proposed by Wilks (2013) <doi:10.1175/WAF-D-13-00027.1>.
Author: Johannes Resin
Maintainer: Johannes Resin <johannes.resin@h-its.org>
Diff between CalSim versions 0.3.2 dated 2019-05-20 and 0.5.1 dated 2020-09-10
DESCRIPTION | 13 - MD5 | 28 +-- NAMESPACE | 1 NEWS.md | 14 + R/calibration_simplex.R | 144 +++++++++-------- R/calibration_simplex.default.R | 255 ++++++++++++++++-------------- R/data.R | 46 ++--- R/error.calibration_simplex.R | 50 +++-- R/make_forecasts.calibration_simplex.R | 60 +++---- R/plot.calibration_simplex.R | 277 +++++++++++++++++++-------------- R/rel_freq.calibration_simplex.R | 18 +- data/ternary_forecast_example.RData |binary man/calibration_simplex.Rd | 74 +++++--- man/plot.calibration_simplex.Rd | 34 +++- man/ternary_forecast_example.Rd | 10 - 15 files changed, 589 insertions(+), 435 deletions(-)
Title: Interactive Studio for Explanatory Model Analysis
Description: Automate the explanatory analysis of machine learning predictive models.
Generate advanced interactive model explanations in the form of a serverless HTML
site with only one line of code. This tool is model agnostic, therefore compatible
with most of the black box predictive models and frameworks. The main function
computes various (instance and dataset level) model explanations and produces
a customisable dashboard, which consists of multiple panels for plots with their
short descriptions. Easily save the dashboard and share it with others. Tools
for Explanatory Model Analysis unite with tools for Exploratory Data Analysis
to give a broad overview of the model behavior.
Author: Hubert Baniecki [aut, cre] (<https://orcid.org/0000-0001-6661-5364>),
Przemyslaw Biecek [aut] (<https://orcid.org/0000-0001-8423-1823>),
Piotr Piatyszek [ctb]
Maintainer: Hubert Baniecki <hbaniecki@gmail.com>
Diff between modelStudio versions 1.2.0 dated 2020-07-15 and 2.0.0 dated 2020-09-10
DESCRIPTION | 38 - MD5 | 51 +- NAMESPACE | 2 NEWS.md | 18 R/modelStudio.R | 234 ++++++++-- R/ms_options.R | 22 - R/ms_update_observations.R | 42 + R/ms_update_options.R | 14 R/prepare.R | 101 ++-- build/vignette.rds |binary inst/d3js/generatePlots.js | 790 +++++++++++++++++++++++++++++-------- inst/d3js/modelStudio.js | 71 ++- inst/doc/ms-perks-features.R | 42 + inst/doc/ms-perks-features.Rmd | 76 +++ inst/doc/ms-perks-features.html | 113 ++++- inst/doc/ms-r-python-examples.R | 60 ++ inst/doc/ms-r-python-examples.Rmd | 94 +++- inst/doc/ms-r-python-examples.html | 461 ++++++++++++--------- man/modelStudio.Rd | 51 +- man/ms_options.Rd | 13 man/ms_update_observations.Rd | 23 - man/ms_update_options.Rd | 16 tests/testthat/test_2_0.R |only tests/testthat/test_modelStudio.R | 73 +-- tests/testthat/test_objects.R | 7 vignettes/ms-perks-features.Rmd | 76 +++ vignettes/ms-r-python-examples.Rmd | 94 +++- 27 files changed, 1865 insertions(+), 717 deletions(-)
Title: Multi Environment Trials Analysis
Description: Performs stability analysis of multi-environment
trial data using parametric and non-parametric methods. Parametric
methods includes Additive Main Effects and Multiplicative Interaction
(AMMI) analysis by Gauch (2013) <doi:10.2135/cropsci2013.04.0241>,
Genotype plus Genotype-Environment (GGE) biplot analysis by Yan & Kang
(2003) <doi:10.1201/9781420040371>, joint Regression Analysis by
Eberhart & Russel (1966)
(<doi:10.2135/cropsci1966.0011183X000600010011x>), ecovalence by
Wricke (1965), genotypic confidence index by Annicchiarico (1992),
Murakami & Cruz's (2004) method <doi:10.12702/1984-7033.v04n01a02>,
stability variance by Shukla (1972) <doi:10.1038/hdy.1972.87>,
weighted average of absolute scores by Olivoto et al. (2019a)
<doi:10.2134/agronj2019.03.0220>, and multi-trait stability index by
Olivoto et al. (2019b) <doi:10.2134/agronj2019.03.0221>.
Non-parametric methods includes superiority index by Lin & Binns
(1988) <doi:10.4141/cjps88-018>, nonparametric measures of phenotypic
stability by Huehn (1990)
<https://link.springer.com/article/10.1007/BF00024241>, TOP third
statistic by Fox et al. (1990) <doi:10.1007/BF00040364>, geometric
adaptability index described by Shahbazi (2019)
<doi:10.1016/j.scienta.2019.04.047>. Functions for computing
biometrical analysis such as path analysis, canonical correlation,
partial correlation, clustering analysis, and tools for inspecting,
manipulating, summarizing and plotting typical multi-environment
trial data are also provided.
Author: Tiago Olivoto [aut, cre, cph] (<https://orcid.org/0000-0002-0241-9636>)
Maintainer: Tiago Olivoto <tiagoolivoto@gmail.com>
Diff between metan versions 1.7.0 dated 2020-07-18 and 1.8.1 dated 2020-09-10
metan-1.7.0/metan/R/waasb.R |only metan-1.7.0/metan/man/utils_na.Rd |only metan-1.8.1/metan/DESCRIPTION | 6 metan-1.8.1/metan/MD5 | 212 metan-1.8.1/metan/NAMESPACE | 11 metan-1.8.1/metan/NEWS.md | 15 metan-1.8.1/metan/R/AMMI_indexes.R | 6 metan-1.8.1/metan/R/Fox.R | 2 metan-1.8.1/metan/R/Schmildt.R | 3 metan-1.8.1/metan/R/Shukla.R | 14 metan-1.8.1/metan/R/Smith_Hazel.R | 35 metan-1.8.1/metan/R/WAASB.R |only metan-1.8.1/metan/R/can_cor.R | 28 metan-1.8.1/metan/R/clustering.R | 2 metan-1.8.1/metan/R/coincidence_index.R | 2 metan-1.8.1/metan/R/colindiag.R | 21 metan-1.8.1/metan/R/corr_ci.R | 2 metan-1.8.1/metan/R/corr_plot.R | 106 metan-1.8.1/metan/R/corr_ss.R | 2 metan-1.8.1/metan/R/correlated_vars.R |only metan-1.8.1/metan/R/cv_ammi.R | 2 metan-1.8.1/metan/R/cv_blup.R | 4 metan-1.8.1/metan/R/env_dissimilarity.R | 2 metan-1.8.1/metan/R/fai_blup.R | 38 metan-1.8.1/metan/R/gafem.R | 24 metan-1.8.1/metan/R/gai.R | 18 metan-1.8.1/metan/R/gamem.R | 75 metan-1.8.1/metan/R/gamem_met.R | 4 metan-1.8.1/metan/R/ge_cluster.R | 4 metan-1.8.1/metan/R/ge_reg.R | 2 metan-1.8.1/metan/R/ge_stats.R | 24 metan-1.8.1/metan/R/get_model_data.R | 255 metan-1.8.1/metan/R/gge.R | 95 metan-1.8.1/metan/R/gtb.R | 2 metan-1.8.1/metan/R/gytb.R |only metan-1.8.1/metan/R/imput_miss_val.R | 6 metan-1.8.1/metan/R/inspect.R | 7 metan-1.8.1/metan/R/metan-package.r | 2 metan-1.8.1/metan/R/mgidi.R | 69 metan-1.8.1/metan/R/mtsi.R | 146 metan-1.8.1/metan/R/path_coeff.R | 10 metan-1.8.1/metan/R/plot_blup.R | 22 metan-1.8.1/metan/R/plot_scores.R | 10 metan-1.8.1/metan/R/resende_indexes.R | 14 metan-1.8.1/metan/R/superiority.R | 8 metan-1.8.1/metan/R/utilities.R | 30 metan-1.8.1/metan/R/utils-tidy-eval.R | 6 metan-1.8.1/metan/R/utils_na.R | 207 metan-1.8.1/metan/R/waas.R | 3 metan-1.8.1/metan/R/waas_means.R | 10 metan-1.8.1/metan/R/wsmp.R | 10 metan-1.8.1/metan/R/zzz.R | 18 metan-1.8.1/metan/build/metan.pdf |31310 ++++++++++++------------ metan-1.8.1/metan/build/partial.rdb |only metan-1.8.1/metan/inst/doc/metan_start.Rmd | 2 metan-1.8.1/metan/inst/doc/metan_start.html | 614 metan-1.8.1/metan/man/AMMI_indexes.Rd | 6 metan-1.8.1/metan/man/Fox.Rd | 2 metan-1.8.1/metan/man/Resende_indexes.Rd | 14 metan-1.8.1/metan/man/Schmildt.Rd | 3 metan-1.8.1/metan/man/Shukla.Rd | 8 metan-1.8.1/metan/man/Smith_Hazel.Rd | 20 metan-1.8.1/metan/man/can_corr.Rd | 9 metan-1.8.1/metan/man/clustering.Rd | 2 metan-1.8.1/metan/man/coincidence_index.Rd | 2 metan-1.8.1/metan/man/colindiag.Rd | 20 metan-1.8.1/metan/man/corr_ci.Rd | 2 metan-1.8.1/metan/man/corr_plot.Rd | 7 metan-1.8.1/metan/man/corr_ss.Rd | 2 metan-1.8.1/metan/man/correlated_vars.Rd |only metan-1.8.1/metan/man/cv_ammi.Rd | 2 metan-1.8.1/metan/man/cv_blup.Rd | 4 metan-1.8.1/metan/man/env_dissimilarity.Rd | 2 metan-1.8.1/metan/man/fai_blup.Rd | 24 metan-1.8.1/metan/man/figures/README-AMMI-1.png |binary metan-1.8.1/metan/man/figures/README-GGE-1.png |binary metan-1.8.1/metan/man/gafem.Rd | 24 metan-1.8.1/metan/man/gai.Rd | 17 metan-1.8.1/metan/man/gamem.Rd | 27 metan-1.8.1/metan/man/gamem_met.Rd | 4 metan-1.8.1/metan/man/ge_cluster.Rd | 4 metan-1.8.1/metan/man/ge_reg.Rd | 2 metan-1.8.1/metan/man/ge_stats.Rd | 24 metan-1.8.1/metan/man/get_model_data.Rd | 60 metan-1.8.1/metan/man/gge.Rd | 2 metan-1.8.1/metan/man/gytb.Rd |only metan-1.8.1/metan/man/impute_missing_val.Rd | 2 metan-1.8.1/metan/man/metan-package.Rd | 2 metan-1.8.1/metan/man/mgidi.Rd | 8 metan-1.8.1/metan/man/mtsi.Rd | 2 metan-1.8.1/metan/man/path_coeff.Rd | 9 metan-1.8.1/metan/man/plot.correlated_vars.Rd |only metan-1.8.1/metan/man/plot.fai_blup.Rd | 9 metan-1.8.1/metan/man/plot.gamem.Rd | 25 metan-1.8.1/metan/man/plot.gge.Rd | 33 metan-1.8.1/metan/man/plot.mgidi.Rd | 20 metan-1.8.1/metan/man/plot.mtsi.Rd | 49 metan-1.8.1/metan/man/plot.waasb.Rd | 28 metan-1.8.1/metan/man/plot_blup.Rd | 12 metan-1.8.1/metan/man/plot_scores.Rd | 9 metan-1.8.1/metan/man/predict.waasb.Rd | 2 metan-1.8.1/metan/man/print.waasb.Rd | 2 metan-1.8.1/metan/man/superiority.Rd | 7 metan-1.8.1/metan/man/tidyeval.Rd | 6 metan-1.8.1/metan/man/utils_na_zero.Rd |only metan-1.8.1/metan/man/utils_stats.Rd | 8 metan-1.8.1/metan/man/waas.Rd | 3 metan-1.8.1/metan/man/waas_means.Rd | 7 metan-1.8.1/metan/man/waasb.Rd | 6 metan-1.8.1/metan/man/wsmp.Rd | 9 metan-1.8.1/metan/vignettes/metan_start.Rmd | 2 metan-1.8.1/metan/vignettes/metanref.bib | 31 112 files changed, 17912 insertions(+), 16192 deletions(-)
Title: Functions to Facilitate the Simulation of Large Scale Assessment
Data
Description: Provides functions to simulate data from large-scale educational
assessments, including background questionnaire data and cognitive item
responses that adhere to a multiple-matrix sampled design.
Author: Tyler Matta [aut],
Leslie Rutkowski [aut],
David Rutkowski [aut],
Yuan-Ling Linda Liaw [aut],
Kondwani Kajera Mughogho [ctb],
Waldir Leoncio [aut, cre]
Maintainer: Waldir Leoncio <w.l.netto@medisin.uio.no>
Diff between lsasim versions 2.0.1 dated 2019-12-05 and 2.0.2 dated 2020-09-10
DESCRIPTION | 12 ++++---- MD5 | 36 ++++++++++++------------ R/item_gen.R | 54 ++++++++++++++++++------------------ R/lsasim.R | 3 +- man/beta_gen.Rd | 11 ++++++- man/block_design.Rd | 3 -- man/booklet_sample.Rd | 10 +++++- man/item_gen.Rd | 11 ++++++- man/lsasim.Rd | 3 -- man/pisa2012_math_block.Rd | 6 ++-- man/pisa2012_math_booklet.Rd | 6 ++-- man/pisa2012_math_item.Rd | 6 ++-- man/pisa2012_q_cormat.Rd | 4 ++ man/pisa2012_q_marginal.Rd | 4 ++ man/questionnaire_gen.Rd | 19 ++++++++++-- man/questionnaire_gen_family.Rd | 11 ++++++- man/questionnaire_gen_polychoric.Rd | 3 -- man/response_gen.Rd | 13 +++++++- man/run_condition_checks.Rd | 14 ++++++++- 19 files changed, 147 insertions(+), 82 deletions(-)
Title: Biochemically Intuitive Generalized Loewe Model
Description: Response surface methods for drug synergy analysis. Available
methods include generalized and classical Loewe formulations as well as Highest
Single Agent methodology. Response surfaces can be plotted in an interactive
3-D plot and formal statistical tests for presence of synergistic effects are
available. Implemented methods and tests are described in the article
"BIGL: Biochemically Intuitive Generalized Loewe null model for prediction
of the expected combined effect compatible with partial agonism and antagonism"
by Koen Van der Borght, Annelies Tourny, Rytis Bagdziunas, Olivier Thas,
Maxim Nazarov, Heather Turner, Bie Verbist & Hugo Ceulemans (2017)
<doi:10.1038/s41598-017-18068-5>.
Author: Heather Turner, Annelies Tourny, Olivier Thas, Maxim Nazarov, Rytis Bagdziunas
Maintainer: Maxim Nazarov <maxim.nazarov@openanalytics.eu>
Diff between BIGL versions 1.5.2 dated 2020-07-24 and 1.5.3 dated 2020-09-10
DESCRIPTION | 10 +++++----- MD5 | 12 ++++++------ R/generalizedLoewe.R | 4 ++-- R/hsa.R | 4 ++-- inst/NEWS | 2 ++ inst/doc/analysis.html | 8 ++++---- inst/doc/methodology.html | 4 ++-- 7 files changed, 23 insertions(+), 21 deletions(-)
Title: HTML Metadata Tags for 'R Markdown' and 'Shiny'
Description: Create meta tags for 'R Markdown' HTML documents
and 'Shiny' apps for customized social media cards, for accessibility, and
quality search engine indexing. 'metathis' currently supports HTML documents
created with 'rmarkdown', 'shiny', 'xaringan', 'pagedown', 'bookdown', and
'flexdashboard'.
Author: Garrick Aden-Buie [aut, cre] (<https://orcid.org/0000-0002-7111-0077>)
Maintainer: Garrick Aden-Buie <garrick@adenbuie.com>
Diff between metathis versions 1.0.1 dated 2020-03-01 and 1.0.3 dated 2020-09-10
DESCRIPTION | 8 ++++---- MD5 | 26 +++++++++++++------------- NAMESPACE | 1 + NEWS.md | 6 +++++- R/geo.R | 2 +- R/meta.R | 7 ++++++- R/social.R | 11 +++++++++-- R/utils-pipe.R | 2 +- README.md | 30 +++++++++++++++--------------- man/meta_geo.Rd | 2 +- man/meta_social.Rd | 2 +- man/pipe.Rd | 2 +- tests/testthat/test-rmd.R | 2 ++ tests/testthat/test-social.R | 17 +++++++++++++++++ 14 files changed, 77 insertions(+), 41 deletions(-)
Title: Learning Sparse Bayesian Networks from High-Dimensional Data
Description: Fast methods for learning sparse Bayesian networks from high-dimensional data using sparse regularization, as described in Aragam, Gu, and Zhou (2017) <arXiv:1703.04025>. Designed to handle mixed experimental and observational data with thousands of variables with either continuous or discrete observations.
Author: Bryon Aragam [aut, cre],
Jiaying Gu [aut],
Dacheng Zhang [aut],
Qing Zhou [aut]
Maintainer: Bryon Aragam <sparsebn@gmail.com>
Diff between sparsebn versions 0.1.0 dated 2019-11-04 and 0.1.1 dated 2020-09-10
DESCRIPTION | 10 +++--- MD5 | 30 +++++++++---------- NEWS.md | 6 +++ R/data.R | 10 +++--- README.md | 63 ++++++++++++++++++++++++++++++---------- build/vignette.rds |binary inst/doc/sparsebn-vignette.R | 42 +++++++++++++------------- inst/doc/sparsebn-vignette.Rmd | 2 - inst/doc/sparsebn-vignette.html | 56 ++++++++++++++++------------------- man/cytometryContinuous.Rd | 10 +++--- man/cytometryDiscrete.Rd | 10 +++--- man/estimate.dag.Rd | 21 ++++++++++--- man/pathfinder.Rd | 10 ++++-- man/sparsebn.Rd | 1 tests/testthat/Rplots.pdf |binary vignettes/sparsebn-vignette.Rmd | 2 - 16 files changed, 163 insertions(+), 110 deletions(-)
Title: "Eating the Liver of Data Science"
Description: Provides a collection of helper functions that make various techniques from data science more user-friendly for non-experts. In this way, our aim is to allow non-experts to become familiar with the techniques with only a minimal level of coding knowledge. Indeed, following an ancient Persian idiom, we refer to this as "eating the liver of data science" which could be interpreted as "getting intimately close with data science". Examples of procedures we include are: data partitioning for out-of-sample testing, computing Mean Squared Error (MSE) for quantifying prediction accuracy, and data transformation (z-score and min-max). Besides such helper functions, the package also includes several interesting datasets that are useful for multivariate analysis.
Author: Reza Mohammadi [aut, cre] (<https://orcid.org/0000-0001-9538-0648>),
Kevin Burke [aut]
Maintainer: Reza Mohammadi <a.mohammadi@uva.nl>
Diff between liver versions 1.0 dated 2020-08-18 and 1.1 dated 2020-09-10
DESCRIPTION | 6 +- MD5 | 6 +- data/adult.RData |binary man/adult.Rd | 114 +++++++++++++++++++++++++++---------------------------- 4 files changed, 63 insertions(+), 63 deletions(-)
More information about personalized2part at CRAN
Permanent link
Title: Feature Selection for 'mlr3'
Description: Implements methods for feature selection with
'mlr3', e.g. random search and sequential selection. Various
termination criteria can be set and combined. The class 'AutoFSelect'
provides a convenient way to perform nested resampling in combination
with 'mlr3'.
Author: Marc Becker [aut, cre] (<https://orcid.org/0000-0002-8115-0400>),
Patrick Schratz [aut] (<https://orcid.org/0000-0003-0748-6624>),
Michel Lang [aut] (<https://orcid.org/0000-0001-9754-0393>),
Bernd Bischl [aut] (<https://orcid.org/0000-0001-6002-6980>)
Maintainer: Marc Becker <marcbecker@posteo.de>
Diff between mlr3fselect versions 0.2.0 dated 2020-08-23 and 0.2.1 dated 2020-09-10
DESCRIPTION | 6 +++--- MD5 | 14 +++++++------- NEWS.md | 6 +++++- R/AutoFSelect.R | 4 ++-- R/FSelector.R | 2 ++ build/partial.rdb |binary man/AutoFSelect.Rd | 4 ++-- tests/testthat/test_AutoFSelect.R | 31 ++++++++++++++++--------------- 8 files changed, 37 insertions(+), 30 deletions(-)
Title: The Moving Epidemic Method Web Application
Description: The Moving Epidemic Method, created by T Vega and JE Lozano (2012, 2015) <doi:10.1111/j.1750-2659.2012.00422.x>, <doi:10.1111/irv.12330>, allows the weekly assessment of the epidemic and intensity status to help in routine respiratory infections surveillance in health systems. Allows the comparison of different epidemic indicators, timing and shape with past epidemics and across different regions or countries with different surveillance systems. Also, it gives a measure of the performance of the method in terms of sensitivity and specificity of the alert week. 'memapp' is a web application created in the Shiny framework for the 'mem' R package.
Author: Jose E. Lozano [aut, cre]
Maintainer: Jose E. Lozano <lozalojo@gmail.com>
Diff between memapp versions 2.13 dated 2019-06-04 and 2.14 dated 2020-09-10
DESCRIPTION | 10 +++++----- MD5 | 19 +++++++++++-------- R/flucyl.R | 6 +++--- R/flucylraw.R |only R/runmemapp.R | 2 +- README.md | 2 +- data/flucylraw.rda |only inst/shinyapp/helpers.R | 4 ++-- inst/shinyapp/lang/translation.bin |binary man/flucyl.Rd | 12 +++++++----- man/flucylraw.Rd |only man/runmemapp.Rd | 2 +- 12 files changed, 31 insertions(+), 26 deletions(-)
More information about multiclassPairs at CRAN
Permanent link
Title: Body Mass Estimation Equations for Vertebrates
Description: Estimation equations are from a variety of sources and associated error estimation.
Author: Nicolas E. Campione
Maintainer: Nicolas E. Campione <ncampion@une.edu.au>
Diff between MASSTIMATE versions 2.0 dated 2020-09-03 and 2.0-1 dated 2020-09-10
DESCRIPTION | 6 +++--- MD5 | 8 ++++---- R/QE.R | 6 ++---- R/cQE.R | 6 ++---- README.md | 2 +- 5 files changed, 12 insertions(+), 16 deletions(-)
Title: An Interface to the 'fastText' Library
Description: An interface to the 'fastText' library
<https://github.com/facebookresearch/fastText>. The package
can be used for text classification and to learn word vectors.
An example how to use 'fastTextR' can be found in the 'README' file.
Author: Florian Schwendinger [aut],
Emil Hvitfeldt [aut, cre] (<https://orcid.org/0000-0002-0679-1945>)
Maintainer: Emil Hvitfeldt <emilhhvitfeldt@gmail.com>
Diff between fastTextR versions 1.0 dated 2017-05-12 and 2.0.0 dated 2020-09-10
fastTextR-1.0/fastTextR/README.md |only fastTextR-1.0/fastTextR/inst/PATENTS |only fastTextR-1.0/fastTextR/man/ft.control.Rd |only fastTextR-1.0/fastTextR/man/get_word_vectors.Rd |only fastTextR-1.0/fastTextR/man/get_words.Rd |only fastTextR-1.0/fastTextR/man/normalize.Rd |only fastTextR-1.0/fastTextR/man/read.fasttext.Rd |only fastTextR-1.0/fastTextR/man/save.fasttext.Rd |only fastTextR-1.0/fastTextR/src/Makevars |only fastTextR-1.0/fastTextR/src/fastText_init.c |only fastTextR-1.0/fastTextR/src/r_ft_interface.cpp |only fastTextR-1.0/fastTextR/src/r_ft_interface.h |only fastTextR-2.0.0/fastTextR/DESCRIPTION | 26 fastTextR-2.0.0/fastTextR/MD5 | 94 - fastTextR-2.0.0/fastTextR/NAMESPACE | 26 fastTextR-2.0.0/fastTextR/R/RcppExports.R | 138 -- fastTextR-2.0.0/fastTextR/R/fasttext.R | 480 ++++--- fastTextR-2.0.0/fastTextR/build |only fastTextR-2.0.0/fastTextR/cleanup |only fastTextR-2.0.0/fastTextR/inst/doc |only fastTextR-2.0.0/fastTextR/man/fasttext.Rd | 25 fastTextR-2.0.0/fastTextR/man/ft_analogies.Rd |only fastTextR-2.0.0/fastTextR/man/ft_control.Rd |only fastTextR-2.0.0/fastTextR/man/ft_load.Rd |only fastTextR-2.0.0/fastTextR/man/ft_nearest_neighbors.Rd |only fastTextR-2.0.0/fastTextR/man/ft_normalize.Rd |only fastTextR-2.0.0/fastTextR/man/ft_save.Rd |only fastTextR-2.0.0/fastTextR/man/ft_test.Rd |only fastTextR-2.0.0/fastTextR/man/ft_train.Rd |only fastTextR-2.0.0/fastTextR/man/ft_word_vectors.Rd |only fastTextR-2.0.0/fastTextR/man/ft_words.Rd |only fastTextR-2.0.0/fastTextR/man/predict.supervised_model.Rd | 34 fastTextR-2.0.0/fastTextR/src/RcppExports.cpp | 397 +----- fastTextR-2.0.0/fastTextR/src/args.cc | 549 ++++++-- fastTextR-2.0.0/fastTextR/src/args.h | 131 +- fastTextR-2.0.0/fastTextR/src/autotune.cc |only fastTextR-2.0.0/fastTextR/src/autotune.h |only fastTextR-2.0.0/fastTextR/src/clean.cc |only fastTextR-2.0.0/fastTextR/src/densematrix.cc |only fastTextR-2.0.0/fastTextR/src/densematrix.h |only fastTextR-2.0.0/fastTextR/src/dictionary.cc | 419 +++++- fastTextR-2.0.0/fastTextR/src/dictionary.h | 140 +- fastTextR-2.0.0/fastTextR/src/fasttext.cc | 874 ++++++++++---- fastTextR-2.0.0/fastTextR/src/fasttext.h | 226 ++- fastTextR-2.0.0/fastTextR/src/interface.cc |only fastTextR-2.0.0/fastTextR/src/interface.h |only fastTextR-2.0.0/fastTextR/src/loss.cc |only fastTextR-2.0.0/fastTextR/src/loss.h |only fastTextR-2.0.0/fastTextR/src/matrix.cc | 97 - fastTextR-2.0.0/fastTextR/src/matrix.h | 51 fastTextR-2.0.0/fastTextR/src/meter.cc |only fastTextR-2.0.0/fastTextR/src/meter.h |only fastTextR-2.0.0/fastTextR/src/model.cc | 349 +---- fastTextR-2.0.0/fastTextR/src/model.h | 141 -- fastTextR-2.0.0/fastTextR/src/productquantizer.cc |only fastTextR-2.0.0/fastTextR/src/productquantizer.h |only fastTextR-2.0.0/fastTextR/src/quantmatrix.cc |only fastTextR-2.0.0/fastTextR/src/quantmatrix.h |only fastTextR-2.0.0/fastTextR/src/real.h | 13 fastTextR-2.0.0/fastTextR/src/utils.cc | 49 fastTextR-2.0.0/fastTextR/src/utils.h | 63 - fastTextR-2.0.0/fastTextR/src/vector.cc | 92 - fastTextR-2.0.0/fastTextR/src/vector.h | 64 - fastTextR-2.0.0/fastTextR/vignettes |only 64 files changed, 2615 insertions(+), 1863 deletions(-)
Title: Modelling Tri-Phasic Concentration-Response Relationships
Description: The stress addition approach is an alternative to the traditional
concentration addition or effect addition models. It allows the modelling
of tri-phasic concentration-response relationships either as single toxicant
experiments, in combination with an environmental stressor or as mixtures of
two toxicants. See Liess et al. (2019) <doi:10.1038/s41598-019-51645-4>.
Author: Sebastian Henz [aut, cre] (<https://orcid.org/0000-0001-8299-8852>),
Matthias Liess [aut] (<https://orcid.org/0000-0002-3321-8909>),
Naeem Shahid [ctb] (<https://orcid.org/0000-0001-6581-1654>),
Helmholtz-Zentrum fuer Umweltforschung GmbH - UFZ [cph, fnd]
Maintainer: Sebastian Henz <bastihz.dev@posteo.de>
Diff between stressaddition versions 3.0.1 dated 2020-08-03 and 3.0.2 dated 2020-09-10
DESCRIPTION | 12 +-- MD5 | 16 ++--- NEWS.md | 37 ++++++++--- R/plot_stress.R | 2 R/plot_survival.R | 2 man/stressaddition-package.Rd | 2 tests/testthat/test-ecxsys.R | 125 ++++++++++++++++++---------------------- tests/testthat/test-lc.R | 54 ++++++++--------- tests/testthat/test-multi_tox.R | 45 +++++++------- 9 files changed, 152 insertions(+), 143 deletions(-)
More information about stressaddition at CRAN
Permanent link
Title: Busy Indicator for 'Shiny' Applications
Description: Add indicators (spinner, progress bar, gif) in your 'shiny' applications to show the user that the server is busy.
Author: Fanny Meyer [aut],
Victor Perrier [aut, cre],
Silex Technologies [fnd] (https://www.silex-ip.com)
Maintainer: Victor Perrier <victor.perrier@dreamrs.fr>
Diff between shinybusy versions 0.2.0 dated 2019-10-29 and 0.2.1 dated 2020-09-10
shinybusy-0.2.0/shinybusy/LICENSE |only shinybusy-0.2.0/shinybusy/R/autospin.R |only shinybusy-0.2.0/shinybusy/inst/assets/js/autospin.js |only shinybusy-0.2.1/shinybusy/DESCRIPTION | 28 - shinybusy-0.2.1/shinybusy/MD5 | 80 +-- shinybusy-0.2.1/shinybusy/NAMESPACE | 12 shinybusy-0.2.1/shinybusy/NEWS.md | 7 shinybusy-0.2.1/shinybusy/R/busy-bar.R | 6 shinybusy-0.2.1/shinybusy/R/busy-gif.R | 4 shinybusy-0.2.1/shinybusy/R/busy-modal.R | 3 shinybusy-0.2.1/shinybusy/R/busy-spinner.R | 12 shinybusy-0.2.1/shinybusy/R/dependencies.R | 61 +- shinybusy-0.2.1/shinybusy/R/loading-state.R |only shinybusy-0.2.1/shinybusy/R/progress_js.R | 1 shinybusy-0.2.1/shinybusy/R/spinners-epic.R | 2 shinybusy-0.2.1/shinybusy/R/spinners-spinkit.R | 11 shinybusy-0.2.1/shinybusy/R/start-up.R |only shinybusy-0.2.1/shinybusy/README.md | 11 shinybusy-0.2.1/shinybusy/build/vignette.rds |binary shinybusy-0.2.1/shinybusy/inst/assets/css/shinybusy.css | 23 shinybusy-0.2.1/shinybusy/inst/assets/epic-spinners/LICENSE |only shinybusy-0.2.1/shinybusy/inst/assets/freezeframe/LICENSE |only shinybusy-0.2.1/shinybusy/inst/assets/js/shinybusy.js | 77 +++ shinybusy-0.2.1/shinybusy/inst/assets/nanobar/LICENSE |only shinybusy-0.2.1/shinybusy/inst/assets/notiflix |only shinybusy-0.2.1/shinybusy/inst/assets/spinkit/LICENSE |only shinybusy-0.2.1/shinybusy/inst/doc/shinybusy-usage.R | 30 - shinybusy-0.2.1/shinybusy/inst/doc/shinybusy-usage.html | 123 ++--- shinybusy-0.2.1/shinybusy/inst/doc/spinners.R | 62 +- shinybusy-0.2.1/shinybusy/inst/doc/spinners.html | 175 +++---- shinybusy-0.2.1/shinybusy/inst/htmlwidgets/lib/LICENSE |only shinybusy-0.2.1/shinybusy/man/add_busy_bar.Rd | 110 ++-- shinybusy-0.2.1/shinybusy/man/add_busy_gif.Rd | 124 ++--- shinybusy-0.2.1/shinybusy/man/add_busy_spinner.Rd | 190 ++++--- shinybusy-0.2.1/shinybusy/man/add_loading_state.Rd |only shinybusy-0.2.1/shinybusy/man/busy-start-up.Rd |only shinybusy-0.2.1/shinybusy/man/html-dependencies.Rd |only shinybusy-0.2.1/shinybusy/man/manual-gif.Rd | 155 +++--- shinybusy-0.2.1/shinybusy/man/manual-progressbar.Rd | 120 ++-- shinybusy-0.2.1/shinybusy/man/manual-spinner.Rd | 211 ++++---- shinybusy-0.2.1/shinybusy/man/modal-gif.Rd | 142 +++-- shinybusy-0.2.1/shinybusy/man/modal-progress.Rd | 289 ++++++------ shinybusy-0.2.1/shinybusy/man/modal-spinner.Rd | 130 ++--- shinybusy-0.2.1/shinybusy/man/progress.Rd | 253 +++++++--- shinybusy-0.2.1/shinybusy/man/spin_epic.Rd | 143 ++--- shinybusy-0.2.1/shinybusy/man/spin_kit.Rd | 113 ++-- 46 files changed, 1528 insertions(+), 1180 deletions(-)
Title: Installing and Loading R Packages for Reproducible Workflows
Description: A single key function, 'Require' that wraps 'install.packages',
'remotes::install_github', 'versions::install.versions', and 'base::require'
that allows for reproducible workflows. As with other functions in a
reproducible workflow, this package emphasizes functions that return the
same result whether it is the first or subsequent times running the function.
Maturing.
Author: Eliot J B McIntire [aut, cre] (<https://orcid.org/0000-0002-6914-8316>),
Her Majesty the Queen in Right of Canada, as represented by the
Minister of Natural Resources Canada [cph]
Maintainer: Eliot J B McIntire <eliot.mcintire@canada.ca>
Diff between Require versions 0.0.7 dated 2020-08-18 and 0.0.8 dated 2020-09-10
Require-0.0.7/Require/tests/testit/test-packages.R |only Require-0.0.8/Require/DESCRIPTION | 11 Require-0.0.8/Require/MD5 | 50 Require-0.0.8/Require/NAMESPACE | 7 Require-0.0.8/Require/NEWS.md | 20 Require-0.0.8/Require/R/Require-helpers.R | 1091 ++++++++++++++--- Require-0.0.8/Require/R/Require.R | 339 +++-- Require-0.0.8/Require/R/RequireOptions.R |only Require-0.0.8/Require/R/extract.R | 38 Require-0.0.8/Require/R/pkgDep.R | 491 +++++-- Require-0.0.8/Require/R/pkgDepAlt.R |only Require-0.0.8/Require/R/pkgSnapshot.R | 50 Require-0.0.8/Require/R/setLibPaths.R | 3 Require-0.0.8/Require/R/zzz.R | 38 Require-0.0.8/Require/README.md | 15 Require-0.0.8/Require/man/DESCRIPTION-helpers.Rd | 63 Require-0.0.8/Require/man/GitHubTools.Rd | 4 Require-0.0.8/Require/man/Require-internals.Rd | 17 Require-0.0.8/Require/man/Require.Rd | 85 - Require-0.0.8/Require/man/RequireOptions.Rd |only Require-0.0.8/Require/man/detachAll.Rd |only Require-0.0.8/Require/man/pkgDep.Rd | 74 - Require-0.0.8/Require/man/pkgSnapshot.Rd | 38 Require-0.0.8/Require/tests/testit/packageVersions.txt | 647 +++++----- Require-0.0.8/Require/tests/testit/test-1packages.R |only Require-0.0.8/Require/tests/testit/test-extract.R | 2 Require-0.0.8/Require/tests/testit/test-other.R |only Require-0.0.8/Require/tests/testit/test-packagesLong.R | 134 +- Require-0.0.8/Require/tests/testit/test-pkgDep.R | 52 Require-0.0.8/Require/tests/testit/test-pkgSnapshot.R |only 30 files changed, 2386 insertions(+), 883 deletions(-)
Title: Design and Monitoring of Clinical Trials with Negative Binomial
Endpoint
Description: Calculate various functions needed for design and monitoring clinical trials with negative binomial endpoint
with variable follow-up. This version has a few changes compared to the previous version 1.0.0, including
(1) correct a typo in Type 1 censoring, mtbnull=bnull and (2) restructure the code to account for shape parameter equal to zero, i.e. Poisson scenario.
Author: Xiaodong Luo [aut, cre],
Sanofi [cph]
Maintainer: Xiaodong Luo <Xiaodong.Luo@sanofi.com>
Diff between NBDesign versions 1.0.0 dated 2018-11-19 and 2.0.0 dated 2020-09-10
DESCRIPTION | 13 +++++++------ MD5 | 12 ++++++------ NAMESPACE | 2 +- R/ynegbinompower.R | 37 ++++++++++++++++++++++++------------- R/ynegbinompowersim.R | 14 +++++++------- R/ynegbinomsize.R | 37 ++++++++++++++++++++++++------------- build/partial.rdb |binary 7 files changed, 69 insertions(+), 46 deletions(-)
Title: Koul's Minimum Distance Estimation in Regression and Image
Segmentation Problems
Description: Many methods are developed to deal with two major statistical problems: image segmentation
and nonparametric estimation in various regression models. Image segmentation is nowadays
gaining a lot of attention from various scientific subfields. Especially, image segmentation
has been popular in medical research such as magnetic resonance imaging (MRI) analysis. When
a patient suffers from some brain diseases such as dementia and Parkinson's disease,
those diseases can be easily diagnosed in brain MRI: the area affected by those diseases is
brightly expressed in MRI, which is called a white lesion. For the purpose of medical research,
locating and segment those white lesions in MRI is a critical issue; it can be done
manually. However, manual segmentation is very expensive in that it is error-prone and demands a huge
amount of time. Therefore, supervised machine learning has emerged as an alternative solution.
Despite its powerful performance in a classification problem such as hand-written digits, supervised
machine learning has not shown the same satisfactory result in MRI analysis. Setting aside all issues
of the supervised machine learning, it exposed a critical problem when employed for MRI analysis: it
requires time-consuming data labeling. Thus, there is a strong demand for an unsupervised approach,
and this package - based on Hira L. Koul (1986) <DOI:10.1214/aos/1176350059> - proposes an efficient
method for simple image segmentation - here, "simple" means that an image is black-and-white - which
can easily be applied to MRI analysis. This package includes a function GetSegImage(): when a black-and-white
image is given as an input, GetSegImage() separates an area of white pixels - which corresponds to
a white lesion in MRI - from the given image. For the second problem, consider linear regression model and autoregressive model of
order q where errors in the linear regression model and innovations in the
autoregression model are independent and symmetrically distributed. Hira L. Koul
(1986) <DOI:10.1214/aos/1176350059> proposed a nonparametric minimum distance
estimation method by minimizing L2-type distance between certain weighted
residual empirical processes. He also proposed a simpler version of the loss
function by using symmetry of the integrating measure in the distance. Kim
(2018) <DOI:10.1080/00949655.2017.1392527> proposed a fast computational method
which enables practitioners to compute the minimum distance estimator of the vector
of general multiple regression parameters for several integrating measures. This
package contains three functions: KoulLrMde(), KoulArMde(), and Koul2StageMde().
The former two provide minimum distance estimators for linear regression model
and autoregression model, respectively, where both are based on Koul's method.
These two functions take much less time for the computation than those based
on parametric minimum distance estimation methods. Koul2StageMde() provides
estimators for regression and autoregressive coefficients of linear regression
model with autoregressive errors through minimum distant method of two stages.
The new version is written in Rcpp and dramatically reduces computational time.
Author: Jiwoong Kim <jwboys26 at gmail.com>
Maintainer: Jiwoong Kim <jwboys26@gmail.com>
Diff between KoulMde versions 3.2.0 dated 2020-09-09 and 3.2.1 dated 2020-09-10
DESCRIPTION | 6 +++--- MD5 | 4 ++-- src/FuncLib2.cpp | 39 +++++++++++++-------------------------- 3 files changed, 18 insertions(+), 31 deletions(-)
Title: Analysis Framework for Monte Carlo Simulation Data in Physics
Description: Toolkit to perform statistical analyses of correlation
functions generated from Lattice Monte Carlo simulations. In
particular, a class 'cf' for correlation functions and
methods to analyse those are defined. This includes (blocked)
bootstrap (based on the 'boot' package) and jackknife, but also an
automatic determination of integrated autocorrelation
times. 'hadron' also provides a very general function
bootstrap.nlsfit() to bootstrap a non-linear least squares fit.
More specific functions are provided to extract hadronic quantities
from Lattice Quantum Chromodynamics simulations, a particular Monte
Carlo simulation,(see e.g. European Twisted Mass Collaboration, P. Boucaud et
al. (2008) <doi:10.1016/j.cpc.2008.06.013>). Here, to determine
energy eigenvalues of hadronic states, specific fitting routines
and in particular the generalised eigenvalue method (see
e.g. B. Blossier et al. (2009) <doi:10.1088/1126-6708/2009/04/094>
and M. Fischer et al. (2020)
<https://inspirehep.net/literature/1792113>) are implemented.
In addition, input/output and plotting routines are available.
Author: Bartosz Kostrzewa [aut],
Johann Ostmeyer [aut],
Martin Ueding [aut],
Carsten Urbach [aut, cre],
Nikolas Schlage [ctb],
Markus Werner [ctb],
Ferenc Pittler [ctb],
Matthias Fischer [ctb],
Vittorio Lubicz [ctb]
Maintainer: Carsten Urbach <urbach@hiskp.uni-bonn.de>
Diff between hadron versions 3.1.0 dated 2020-07-05 and 3.1.2 dated 2020-09-10
hadron-3.1.0/hadron/configure |only hadron-3.1.0/hadron/inst/doc/Two_Amplitudes_Model.pdf |only hadron-3.1.2/hadron/DESCRIPTION | 14 hadron-3.1.2/hadron/MD5 | 52 hadron-3.1.2/hadron/NAMESPACE | 3 hadron-3.1.2/hadron/R/analysis_online.R | 2 hadron-3.1.2/hadron/R/bootstrap.nlsfit.R | 208 +-- hadron-3.1.2/hadron/R/cf.R | 12 hadron-3.1.2/hadron/R/effectivemass.R | 7 hadron-3.1.2/hadron/R/new_matrixfit.R | 2 hadron-3.1.2/hadron/README.md | 2 hadron-3.1.2/hadron/build/partial.rdb |binary hadron-3.1.2/hadron/build/vignette.rds |binary hadron-3.1.2/hadron/configure.ac | 1 hadron-3.1.2/hadron/inst/doc/Two_Amplitudes_Model.html |only hadron-3.1.2/hadron/inst/doc/gevp.html | 616 +++++--- hadron-3.1.2/hadron/inst/doc/hankel.html | 691 ++++++---- hadron-3.1.2/hadron/inst/doc/jackknife_cov_and_missing_values.html | 636 +++++---- hadron-3.1.2/hadron/inst/doc/jackknife_error_normalization.html | 456 ++++-- hadron-3.1.2/hadron/man/bootstrap.nlsfit.Rd | 5 hadron-3.1.2/hadron/man/parametric.bootstrap.Rd | 1 hadron-3.1.2/hadron/man/parametric.bootstrap.cov.Rd | 1 hadron-3.1.2/hadron/man/parametric.nlsfit.Rd | 1 hadron-3.1.2/hadron/man/parametric.nlsfit.cov.Rd | 1 hadron-3.1.2/hadron/man/plot.bootstrapfit.Rd | 16 hadron-3.1.2/hadron/man/predict.bootstrapfit.Rd |only hadron-3.1.2/hadron/man/print.bootstrapfit.Rd | 1 hadron-3.1.2/hadron/man/simple.nlsfit.Rd | 1 hadron-3.1.2/hadron/man/summary.bootstrapfit.Rd | 1 29 files changed, 1720 insertions(+), 1010 deletions(-)
Title: Antarctic Spatial Data Manipulation
Description: Loads and creates spatial data, including layers and tools that are relevant
to the activities of the Commission for the Conservation of Antarctic Marine Living
Resources. Provides two categories of functions: load functions and create functions.
Load functions are used to import existing spatial layers from the online CCAMLR GIS
such as the ASD boundaries. Create functions are used to create layers from user data
such as polygons and grids.
Author: Stephane Thanassekos [aut, cre],
Keith Reid [aut],
Lucy Robinson [aut],
Michael D. Sumner [ctb],
Roger Bivand [ctb]
Maintainer: Stephane Thanassekos <stephane.thanassekos@ccamlr.org>
Diff between CCAMLRGIS versions 3.0.5 dated 2020-07-30 and 3.0.6 dated 2020-09-10
CCAMLRGIS-3.0.5/CCAMLRGIS/man/load_RefAreas.Rd |only CCAMLRGIS-3.0.6/CCAMLRGIS/DESCRIPTION | 10 CCAMLRGIS-3.0.6/CCAMLRGIS/MD5 | 77 +-- CCAMLRGIS-3.0.6/CCAMLRGIS/NAMESPACE | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/NEWS.md | 12 CCAMLRGIS-3.0.6/CCAMLRGIS/R/CCAMLRGIS.R | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/R/CCAMLRGIS_DataDescription.R | 16 CCAMLRGIS-3.0.6/CCAMLRGIS/R/Clip2Coast.R | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/R/add_RefGrid.R | 40 - CCAMLRGIS-3.0.6/CCAMLRGIS/R/add_labels.R | 26 - CCAMLRGIS-3.0.6/CCAMLRGIS/R/assign_areas.r | 18 CCAMLRGIS-3.0.6/CCAMLRGIS/R/cGrid.r | 71 ++ CCAMLRGIS-3.0.6/CCAMLRGIS/R/cLines.R | 4 CCAMLRGIS-3.0.6/CCAMLRGIS/R/cPoints.R | 4 CCAMLRGIS-3.0.6/CCAMLRGIS/R/cPolys.R | 4 CCAMLRGIS-3.0.6/CCAMLRGIS/R/create.R | 20 CCAMLRGIS-3.0.6/CCAMLRGIS/R/get_depths.R | 11 CCAMLRGIS-3.0.6/CCAMLRGIS/R/load.R | 142 ++--- CCAMLRGIS-3.0.6/CCAMLRGIS/R/project_data.r |only CCAMLRGIS-3.0.6/CCAMLRGIS/R/seabed_area.R | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/README.md | 71 ++ CCAMLRGIS-3.0.6/CCAMLRGIS/data/SmallBathy.RData |binary CCAMLRGIS-3.0.6/CCAMLRGIS/inst/doc/CCAMLRGIS.R | 18 CCAMLRGIS-3.0.6/CCAMLRGIS/inst/doc/CCAMLRGIS.Rmd | 27 - CCAMLRGIS-3.0.6/CCAMLRGIS/inst/doc/CCAMLRGIS.html | 384 ++++++++-------- CCAMLRGIS-3.0.6/CCAMLRGIS/man/CCAMLRGIS.Rd | 4 CCAMLRGIS-3.0.6/CCAMLRGIS/man/CCAMLRp.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/Labels.Rd | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/man/SmallBathy.Rd | 7 CCAMLRGIS-3.0.6/CCAMLRGIS/man/add_labels.Rd | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/man/assign_areas.Rd | 2 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_ASDs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_Coastline.Rd | 7 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_EEZs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_MAs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_MPAs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_RBs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_SSMUs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/load_SSRUs.Rd | 6 CCAMLRGIS-3.0.6/CCAMLRGIS/man/project_data.Rd |only CCAMLRGIS-3.0.6/CCAMLRGIS/vignettes/CCAMLRGIS.Rmd | 27 - 41 files changed, 589 insertions(+), 473 deletions(-)
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-09-09 1.3.2
2020-08-26 1.3.1
2020-05-27 1.3.0
2019-12-11 1.2.0
2019-03-29 1.1.0
2018-04-05 1.0.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-04-03 1.0
2019-12-04 0.2.7
2019-09-19 0.2.5
2019-09-17 0.2.4
2019-08-28 0.2.3
2019-04-21 0.2
2019-04-06 0.1
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-14 1.2.0
2019-11-22 1.1.1
2019-06-21 0.9.0
Previous versions (as known to CRANberries) which should be available via the Archive link are:
2020-08-26 1.0.0