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WHORiskCalculator 1.1.0

Breaking changes

• Corrected recalibration. Results change considerably from 1.0.0, and 1.1.0 results should be used instead. Version 1.0.0 replaced the derivation baseline survival with a 10-year risk built from regional age-band incidence rates. Risks are now calculated as in the published method (Kaptoge 2019) and the authors’ Stata program whocvdrisk:
  1. uncalibrated risk from the derivation model, 1 - S0^exp(LP);
  2. recalibration on the complementary log-log scale, 1 - exp(-exp(cons + slope * log(-log(1 - risk)))), using the authors’ parameters for each region, sex, endpoint, model and year;
  3. combination of CHD/MI and stroke risks assuming independence.

New features

• New recalibration argument in calculate_who_risk() and calculate_who_risk_nonlab():
  • "region" (default): WHO/GBD region-level recalibration, reproducing the published WHO risk charts and the default output of whocvdrisk.
  • "country": country-level recalibration (requires country). Countries without country-specific estimates fall back to region level with a warning.
• New year argument (1990-2017, default 2017) to choose the calendar year of the recalibration target population.
• Guam (GUM) and the Northern Mariana Islands (MNP) added to Oceania.
• New “Recalibration” section in the help pages and README.

Internal

• Recalibration parameters are stored in R/sysdata.rda, built from the authors’ Stata data file by data-raw/calibration_parameters.R. The incidence-rate tables used by 1.0.0 have been removed.
• Risk calculations are fully vectorized (no per-row mapply()).
• Added a testthat suite checking results against an independent re-implementation of the authors’ Stata code (both models, region- and country-level recalibration, all years).
• Package now depends on R (>= 2.10) because of the internal data.

WHORiskCalculator 1.0.0

• Initial CRAN submission.

These binaries (installable software) and packages are in development.
They may not be fully stable and should be used with caution. We make no claims about them.
Health stats visible at Monitor.