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neherlab / covid19_scenarios

Models of COVID-19 outbreak trajectories and hospital demand
https://covid19-scenarios.org
MIT License
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Step-by-step guide for parameter adjustment #723

Open rneher opened 4 years ago

rneher commented 4 years ago

🙋 Feature Request

Some guidance on how to develop a new scenario and adjust parameters to fit existing data would help many users. Especially once we have case count upload.

This could be a markdown page similar to updates and FAQ

ivan-aksamentov commented 4 years ago

Dear contributors, This issue is about preparing a scientifically sound writeup and requires domain expertise. If you are a JS developer it may not be the right job for you. Please take a look on numerous other issues: https://github.com/neherlab/covid19_scenarios/issues

tiagoandresvaz commented 3 years ago

Hello @rneher and @ivan-aksamentov

as you know we are using covid19-scenarios to build projections for the State of Rio Grande do Sul, in Brazil. I believe that until now our results using the tool are very consistent. Since the pandemic outbreak started in our region all citizens found healthcare beds and ventilators when necessary. The number of resources was increased accordingly to projected scenarios. Now our numbers are among the bests results in mortality excess in Brazil, and others to come.

Our group is writing a tutorial on how we have manually adjusted our projections using covid19-scenarios.org and we are looking for some help and partnership to polish and validate the tutorial.

Do you have any suggestions of some student or apprentice that may love to replicate a few times a 5 pages tutorial on covid19-scenarios? Following the steps one by one and try to replicate the results within different countries.

I am using Johannes Textor tutorial on daggity as a conceptual reference to build this tutorial. Maybe, if we can sustain a high-level scientific standard, we can think about a publication. Many models were produced recently but there is a gap of information about how to make them useful, custom, and adjusted for local use.

ivan-aksamentov commented 3 years ago

@tiagoandresvaz Thanks Tiago! Really nice to hear that Scenarios work for your region.

I don't have a student in mind, but I could do this myself, why not. Will it be in English? Are you going to add the tutorial as a page in your fork?

P.S. Sorry for the late reply, I was away for a few days.

tiagoandresvaz commented 3 years ago

Hi Ivan,

it is originally written in English by myself, but I use to send writings before any publication/review to www.aje.com, as English is not my first language. If you don't mind, I can share the draft with you thru google docs before any revision so you can assess the tutorial and send us feedback before any other movement.

Obrigado, Tiago Vaz

Em seg., 26 de out. de 2020 às 06:41, Ivan Aksamentov < notifications@github.com> escreveu:

@tiagoandresvaz https://github.com/tiagoandresvaz Thanks Tiago! Really nice to hear that Scenarios work for your region.

I don't have a student in mind, but I could do this myself, why not. Will it be in English? Are you going to add the tutorial as a page in your fork?

P.S. Sorry for the late reply, I was away for a few days.

— You are receiving this because you were mentioned. Reply to this email directly, view it on GitHub https://github.com/neherlab/covid19_scenarios/issues/723#issuecomment-716431600, or unsubscribe https://github.com/notifications/unsubscribe-auth/AAFXWDLJU7RIO7KLJHXBRVTSMU74DANCNFSM4NSLUJDQ .

ivan-aksamentov commented 3 years ago

@tiagoandresvaz Sure, my g-account is <name>.<surname>, like in the username here, but with the dot instead of the dash :)