checks for 3rd dose analysis - Githubissues

mrc-ide / safir

squire and friends individual rewrite

https://mrc-ide.github.io/safir/

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checks for 3rd dose analysis #18

Closed slwu89 closed 3 years ago

slwu89 commented 3 years ago

Things that need to be completed:

[x] check interpolated contact rates working correctly with mixed time steps https://github.com/mrc-ide/safir/commit/9a3cd9600e5922c49e4858199bad4933fc897bfa
[x] add option to use different nimue strategy matrices for each phase of vaccine dosing (https://github.com/mrc-ide/safir/commit/0fa1fd1979cde7a7868b794820fca41d88dd59c2, https://github.com/mrc-ide/safir/commit/b6dafd6262c04299236042e3faf3db05e0032a71, https://github.com/mrc-ide/safir/commit/4947185029e2afd291cf3b34eeafce7a1fa3d4db)
[x] for 3 doses, get_vaccine_ab_titre_parameters should use 2nd dose params as 3rd dose params for now (https://github.com/mrc-ide/safir/commit/0fa1fd1979cde7a7868b794820fca41d88dd59c2, https://github.com/mrc-ide/safir/commit/b6dafd6262c04299236042e3faf3db05e0032a71, https://github.com/mrc-ide/safir/commit/4947185029e2afd291cf3b34eeafce7a1fa3d4db)
[x] rewrite vaccine model vignette with good explanation of how dose allocation algorithm functions https://github.com/mrc-ide/safir/commit/af28cdca0fd0dfc4a60a7449f00bbcbc2aaafd0b

slwu89 commented 3 years ago

addressed by #19