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Created with Raphaël 2.2.017Apr161513128763131Mar3029272625244324Feb21201411430Jan2822212013Dec29Oct2320181611109126Sep241917929Aug2221201413817Jul161113Jun6546May218Apr171515Jan6Dec17Nov230Oct292237Sep6330Aug201627Jun20122May30Apr251918131227Mar31Jan30323Nov22212030Oct13125421fixed hosp plotsupdate hosp weekly to have ci barstypoAdd model diagramMerge branch 'master' of https://gitlab.svi.edu.au/biocellgen-private/sirpluschange I,Q,H->R to I,Q->Rfix check warningsmergeminor changebig spell checkupdate to check if ggplot objectfix plotting list instead of single simfix mini bug with pulling CIs from summarymerge my and puxues modsupdated to include plotting CIs known and by compartmentDistinguish default and user passed parametersadd print.summaryadd plot(method = weekly_local)remove set_paramS3 methods in progress: summary, plot (times, models)S3 in progress: control_seiqhrf, init_seiqhrf, param_seiqhrf, as.data.frame.seiqhrf, print(control, init, param, model), usage in vignette v2add quantile 95% CI in summaryclear function names: icm.seiqhrf -> seiqhrfclear function names: control.icm -> control_seiqhrfdebug summaryadd summary_seiqhrfmake default values consistent with previous versionadd from E to R: arec.rand, arec.rate, arec.dist.shape, arec.dist.scaleMerge branch 'master' of https://gitlab.svi.edu.au/biocellgen-private/sirplusclear structure of update status, allow .rand to be FALSE for all steps in recovery.FUNfix bug with plotting known counts in all experiment facetsfix bug with plotting known counts in all experiment facetsremove redundant codeMerge branch 'master' of https://gitlab.svi.edu.au/biocellgen-private/sirplustrivial changeexported new functions by cbaadd code for setting up time sensitive experiments where parameter values change over timeadd code for setting up time sensitive experiments where parameter values change over timeminor change in documentconfirm all changed functions return identical values as the originals