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epiverse-trace / epichains

Methods for simulating and analysing the sizes and lengths of infectious disease transmission chains from branching process models
https://epiverse-trace.github.io/epichains/
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Visualisation and post-onset outcome functionality #7

Open adamkucharski opened 2 years ago

adamkucharski commented 2 years ago

It could be helpful for users to be able to visualise the simulated transmission chains against onset timeseries, much like Fig 1 here: https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4696719/

Another addition that could be useful is to have the ability to output simulated outcomes (e.g. hospitalisations/deaths) based on the simulated onset times, perhaps using delay distributions in epiparameter along with specification of IFR/IHR etc. Although this may be beyond scope of this package and functions better placed in a specific 'burden generation' package?

jamesmbaazam commented 1 year ago

First part of this issue is related to epiverse-trace/epichains#11 and will be addressed as a new feature before CRAN submission.

joshwlambert commented 1 year ago

As @jamesmbaazam pointed out in the {simulist} discussion board part of this issue is be achieved by the {simulist} package. @adamkucharski and @jamesmbaazam could you take a look at the current version of {simulist} and let me know if it covers the required functionality to close this issue?