first90 v1.6.8

• Don't interpolate number aware outputs in Spectrum output table when using calendar year interpolation.

first90 v1.6.7

first90 1.6.7

• Update PJNZ extraction for adult ART need Dec 31 for 2023 PJNZ files. Previously child ART was
  note recorded in the .DP file tag <NeedARTDec31 MV>, and so it was fine to extract the total
  value. Now child ART is recorded, and so need to sum the adult age groups only.

Jeff Eaton

Implement Spectrum Adult ART scalar adjustment. This is a user input that allows the input number on ART to be adjusted by a scalar to account for over/under-reporting of treatment numbers.

first90 v1.6.5

Exclude NA values to set max ylim in plot_prv_pos_yld(). This addresses issue with this plot not showing in interface and preventing plot downloads when data NA values are simulated.

first90 v1.6.4

first90 1.6.4

• Extend output plots and tables through 2022.

first90 v1.6.3

This release implements updates for 2023 UNAIDS estimates.

In addition to typical extension of arrays for additional year, this release changes the projection period to calendar year instead of mid-year for PJNZ files saved with Spectrum v6.2 or later.

Shiny90 has also been implemented as part of Spectrum in Spectrum v6.2.

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first90 1.6.3

• Correct initial theta0 value for 2023 extended parameters.

first90 1.6.2

• Use vroom::vroom() to read PJNZ files; much faster for reading .DP file.
• Handle Spectrum version numbers saved on Francophone locale devices: e.g. 6,13 instead of 6.13.
• In read_specdp_demog_param(), ensure no zero totals when normalising age-specific fertility
  distribution and net-migration age distribution.
• Fix calculation for target number on treatment during transition from number to percent input.

first90 1.6.1

Updates for 2023 UNAIDS estimates:

• Extend output arrays, plots, and tables to output 2022 results.
• Extend theta0 initial values for additional year random-walk parameters.

Other:

• Remove data.table dependency.

first90 1.6.0

Updates for Spectrum transition from mid-year projection period to calendar year
projection period. Implemented in Spectrum 6.2 in November 2022.

Previous mid-year interpolation is still available in code by using argument
create_fp(..., projection_period = "midyear"). The default argument
projection_period = NULL will choose the projection period based on the
Spectrum inputs version number. For versions 6.19 and earlier,
projection_period = "midyear". For versions 6.2 and later, projection_period = "calendar".

• Normalise asfd and netmigagedist to sum to exactly 1.0 before distributing
  to age groups.

• Disaggregate under-5 net migration proportional to paediatric survival probabilities
  in the base year.

• Net-migrations added at end of projection step, consistent with WPP 2022. No longer
  (1) adjust net migration for half-period survival, nor (2) adjust net migration to
  be half in current age group and half in next age group.

• End-year ART input interpolation adjusted to reflect calendar year projection period,
  such that ART input aligns to end of projection year.
  Note: since net migration is applied after ART initiations, the number on ART will
  be scaled by the net migration proportions. Therefore the model output for number on
  ART will not exactly match the ART inputs.

• In likelihood calculations for household survey proportion ever tested, interopolate
  model outputs to mid-year. This affects ll_evertest(). Likelihood for annual
  HIV tests and diagnoses (ll_prgdat()) is unaffected.

first90 1.5.5

• Patch to eppmod = "directinfections_hts" option (v1.5.0) to avoid referencing
  uninitialised memory.
• Fix error in ART deaths calculation in R version of simulation code. ART mortality time trend
  was omitted from deaths removed from total HIV population.

first90 1.5.4

• Update time to diagnosis functions to account for CD4 at seroconversion in categories below 350.

first90 v1.5.2

This release updates the initial values theta0 to the medians from 2021 final estimates.

first90 v1.5.1

This release updates output tables and plots show results through 2021 (missed in v1.5.0 update).

first90 v1.5.0

This release includes updates for the 2022 UNAIDS estimates cyle.

• Extended arrays to output 2020 results.
• Intercalate new HIV infections in each HIV time step (0.1 year).
• Read popadjust argument from Spectrum PJNZ file.

first90 v1.4.1

This release includes updates for the 2021 UNAIDS estimates cycle.

• Extended arrays to output 2020 results.

• Changed prior for baseline testing rate to normal(log(0.005), sd = 0.25) (Giguere et al. 2020).

• Revise HIV retesting rate to increase log-linearly betwee 2005 and 2010. The implication of this is to reduce the retesting rate during the 2000s compared to the 2010s, which reduces implausibly high predictions for number of HIV tests conducted during the 2000s in the abscence of HTS programme data (Giguere et al 2020).