Package: jointlyr 0.0.1

Sangeeta Bhatia

jointlyr: Joint estimation of initial incidence and reproduction number

Provides a Stan implementation of a method to jointly estimate incidence and reproduction number.

Authors:Sangeeta Bhatia [aut, cre], Pierre Nouvellet [aut], Anne Cori [aut], Jack Wardle [aut]

jointlyr_0.0.1.tar.gz
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manual.pdf |manual.html✨
card.svg |card.png
jointlyr/json (API)

# Install 'jointlyr' in R:
install.packages('jointlyr', repos = c('https://mrc-ide.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://github.com/mrc-ide/jointlyr/issues

Uses libs:
  • c++– GNU Standard C++ Library v3

On CRAN:

Conda:

cpp

2.00 score 1 scripts 1 exports 79 dependencies

Last updated from:614603f6c5 (on master). Checks:11 NOTE, 1 OK, 1 FAIL. Indexed: yes.

TargetResultTimeFilesSyslog
linux-devel-arm64NOTE249
linux-devel-x86_64NOTE267
source / vignettesOK317
linux-release-arm64NOTE240
linux-release-x86_64NOTE225
macos-release-arm64NOTE146
macos-release-x86_64NOTE430
macos-oldrel-arm64NOTE125
macos-oldrel-x86_64NOTE424
windows-develNOTE280
windows-releaseNOTE265
windows-oldrelNOTE274
wasm-releaseFAIL178

Exports:jointly_estimate

Dependencies:abindaweekbackportsBHcallrcheckmateclicoarseDataToolscodacpp11data.tabledescdistcretedistributionaldplyrEpiEstimepitrixfarverfastymdfitdistrplusgenericsggplot2gluegratesgridExtragtableincidenceincidence2inlineisobandlabelinglatticelifecycleloomagrittrMASSMatrixMatrixModelsmatrixStatsmcmcMCMCpacknumDerivpatchworkpillarpkgbuildpkgconfigplyrposteriorprocessxpspurrrquantregQuickJSRR6RColorBrewerRcppRcppEigenRcppParallelreshape2rlangrstanrstantoolsS7scalessodiumSparseMStanHeadersstringistringrsurvivaltensorAtibbletidyrtidyselectutf8vctrsviridisLitewithrympes

Using jointlyr

Rendered fromusing-jointlyr.Rmdusingknitr::rmarkdownon May 25 2026.

Last update: 2021-03-04
Started: 2021-03-04

Readme and manuals

Help Manual

Help pageTopics
The 'jointlyr' package.jointlyr-package jointlyr
Jointly estimate I0 and Rtjointly_estimate