2025 update -- non-AIDS excess mortality #42
Merged
Add this suggestion to a batch that can be applied as a single commit.
This suggestion is invalid because no changes were made to the code.
Suggestions cannot be applied while the pull request is closed.
Suggestions cannot be applied while viewing a subset of changes.
Only one suggestion per line can be applied in a batch.
Add this suggestion to a batch that can be applied as a single commit.
Applying suggestions on deleted lines is not supported.
You must change the existing code in this line in order to create a valid suggestion.
Outdated suggestions cannot be applied.
This suggestion has been applied or marked resolved.
Suggestions cannot be applied from pending reviews.
Suggestions cannot be applied on multi-line comments.
Suggestions cannot be applied while the pull request is queued to merge.
Suggestion cannot be applied right now. Please check back later.
Implement new excess non-AIDS mortality among PLHIV implemented in
Spectrum 6.38 for 2025 UNAIDS HIV estimates.
Spectrum 6.38 implements rates of non-AIDS excess mortality by sex,
age group, CD4 category and ART status. By default these mortality rates
are applied in concentrated epidemic countries and defaulted to zero in
African HIV epidemic settings.
Spectrum outputs for non-AIDS deaths among PLHIV in AIM include non-AIDS
excess deaths. EPP-ASM deaths outputs are updated accordingly.
To ensure backward compatibility, excess non-AIDS mortality are initialized
to 0.0 and replaced with values read from Spectrum if the relevant values
exist in the .DP file.
simmod()
updated to incorporate excess non-AIDS mortality among PLHIV.Internally new model parameters arrays
cd4_nonaids_excess_mort
andart_nonaids_excess_mort
follow the same dimensions and stratificationof
cd4_mort
andart_mort
arrays. These represent expansions of thearrays saved in Spectrum-AIM, to all age groups and ART duration categories,
consistent with handling of the
cd4_mort
andart_mort
arrays.Fix bug in R version for end-year net migration in first year of ART eligibility