Package: doublIn 0.1.0

doublIn: Estimate Incubation or Latency Time using Doubly Interval Censored Observations

Visualize contact tracing data using a 'shiny' app and estimate the incubation or latency time of an infectious disease respecting the following characteristics in the analysis; (i) doubly interval censoring with (partly) overlapping or distinct windows; (ii) an infection risk corresponding to exponential growth; (iii) right truncation allowing for individual truncation times; (iv) different choices concerning the family of the distribution. For our earlier work, we refer to Arntzen et al. (2023) <doi:10.1002/sim.9726>. A paper describing our approach in detail will follow.

Authors:Vera Arntzen [aut, cre]

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

Peer review:

Bug tracker:https://github.com/vharntzen/doublin/issues

Uses libs:
  • jags– Just Another Gibbs Sampler for Bayesian MCMC
  • c++– GNU Standard C++ Library v3

On CRAN:

2.30 score 3 scripts 486 downloads 3 exports 145 dependencies

Last updated 6 months agofrom:b79dcd41f2. Checks:OK: 7. Indexed: yes.

TargetResultDate
Doc / VignettesOKNov 03 2024
R-4.5-winOKNov 03 2024
R-4.5-linuxOKNov 03 2024
R-4.4-winOKNov 03 2024
R-4.4-macOKNov 03 2024
R-4.3-winOKNov 03 2024
R-4.3-macOKNov 03 2024

Exports:Estimate_doublInPlot_doublInVisualize_contact_tracing_data

Dependencies:askpassassertthatbackportsbase64encbbmlebdsmatrixBHbitbit64blobbroombslibcachemcallrcellrangerclicliprcodacolorspacecommonmarkconflictedcpp11crayoncrosstalkcurldata.tableDBIdbplyrdeSolvedigestdplyrDTdtplyrepicontactsevaluatefansifarverfastGHQuadfastmapflexsurvfontawesomeforcatsfsgarglegenericsggplot2gluegoogledrivegooglesheets4gtablehavenhighrhmshtmltoolshtmlwidgetshttpuvhttridsigraphisobandjquerylibjsonliteknitrlabelinglaterlatticelazyevallifecyclelubridatemagrittrMASSMatrixmemoisemgcvmimemodelrmstatemStatsmuhazmunsellmvtnormnlmenumDerivopensslpillarpkgconfigplotlyprettyunitsprocessxprogresspromisespspurrrquadprogR6raggrappdirsRColorBrewerRcppRcppArmadilloreadrreadxlrematchrematch2reprexrjagsrlangrmarkdownrstpm2rstudioapirvestsassscalesselectrshinyshinydashboardshinythemesshinyWidgetssourcetoolsstatmodstringistringrsurvivalsyssystemfontstextshapingthreejstibbletidyrtidyselecttidyversetimechangetinytextzdbutf8uuidvctrsviridisLitevisNetworkvroomwithrxfunxml2xtableyaml