Protein-energy malnutrition
- Multiply prevalence of WHZ < -3SD by proportion of WHZ < -3SD with edema by geography-age-sex-year
- Zero out prevalence for population over five years old
- Subtract from the prevalence of WHZ < -3SD the proportion of WHZ < -3SD with edema by geography-age-sex-year
- Subtract proportion of edema among WHZ < -3SD from proportion of WHZ < -2SD with edema by geography-age-sex-year
- Multiply prevalence of WHZ < -2 SD to < -3 SD by proportion of WHZ < -2 SD to < -3SD with edema by geography-age-sex-year
- Calculate weight-for-height (WHZ) z-score using WHO Child Growth Standards (2006)
- ST-GPR linear mixed effects model
- Subtract prevalence of WHZ < -3SD from prevalence of WHZ < -2SD by geography-age-sex-year
- Subtract proportion of moderate wasting with edema from moderate wasting by geography-age-sex-year
- Proportion of children under five with WHZ < -2SD, WHZ < -3SD
- Calculate prevalence to incidence ratio for each geography-year-age-sex
- Scale prevalence to equal prevalence from full parameter model for > 5 years (< 5 years remains the same)
- Apply ratio to prevalence to calculate incidence
- Calculate wasting counterfactual after cure of heavy infestation of ascariasis, trichuriasis, and hookworm
- Subtract severe wasting due to helminths from severe wasting without edema
- Collapse into geography-year-age-sex proportion of WHZ < -2SD, WHZ < -3SD
- Comorbidity correction (COMO)
- DisMod-MR 2.1 Single parameter proportion model
- DisMod-MR 2.1 Single parameter proportion model (WHZ < -2SD, WHZ < -3SD); Full parameter model (including prevalence and incidence) (WHZ < -2SD)
- Proportion of children with edema & weight-for-height z-score < -2SD, < -3SD by geography-year
Pruritus
Psoriasis
- Apply age and sex restrictions, Aggregate and apply population denominator
- Comorbidity correction (COMO)
- Convert claims to prevalent cases
- Dismod-MR 2.1
- Format codes, Map to modeling causes
- Severity splits
Pyoderma
- Adjustment from primary code to all code based on Claims data
- Comorbidity correction (COMO)
- Dismod-MR 2.1
- Age-sex splitting
Rabies
Rheumatic Heart Disease
- Age-sex splitting
- Comorbidity correction (COMO)
- Disability weights for each sequela
- DisMod endemic model
- DisMod non-endemic model
- CSMR from CODEm (nonendemic)
- CSMR from CODEm (endemic)
- Combine estimates for endemic and non-endemic models
- Subtract RHD with heart failure
Rheumatoid arthritis
- Comorbidity correction (COMO)
- Computing excess mortality from available incidence & CSMR data
- Dismod-MR 2.1
- Meta-analysis of % mild, moderate, severe RA
- Age-sex splitting
- Severity splits
Scabies
- Adjustment from primary code to all code based on Claims data
- Comorbidity correction (COMO)
- Dismod-MR 2.1
- Age-sex splitting
Schistosomiasis
- Comorbidity correction (COMO)
- Data prep and diagnostic adjustment
- Age-spit prepped data
- Run BRT environmental suitability map, data input file
- Run BRT environmental suitability map, run GBM
- Run BRT environmental suitability map, run GBM avg
- Run BRT environmental suitability map, optimize BRT
- Run BRT environmental suitability map, summary script
- Process environmental suitability map to produce PAR estimates
- Convert total prev of infection to prev of species-specific infection
- Prepare MDA coverage data
- Set constants for calculations
- Split total prev into mutually exclusive species-specific prev
- Convert prevalence of species-specific infection to prevalence of sequelae
- Dismod-MR 2.1
Schizophrenia
- Comorbidity correction (COMO)
- Age-sex splitting
- Meta-analysis of % acute and residual schizophrenia
- Dismod-MR 2.1
- Severity splits
Seborrhoeic Dermatitis
- Apply age and sex restrictions, Aggregate and apply population denominator
- Comorbidity correction (COMO)
- Convert claims to prevalent cases
- Dismod-MR 2.1
- Format codes, Map to modeling causes
- Severity splits
Sexual Violence
- DisMod-MR 2.1
- Calculate proportion of events resulting in physical injury (N-codes) and acute anxiety
- N-Code: calculate prevalence
- N-Code: calculate YLDs
- Anxiety: calculate prevalence
- Anxiety: calculate YLDs
- Calculate location-year specific percent treated
- % treated * treated duration + untreated * untreated duration
- Collapse YLDs and prevalence over N-codes and anxiety
Sexually-transmitted infections excluding HIV
- Sexually-transmitted infections excluding HIV
- Comorbidity correction (COMO)
- DisMod-MR 2.1
- Adjustment from primary code to all code based on Claims data
- Severity splits
- Epididymo-orchitis sequela duration correction for chlamydial infection, gonococcal infection in males
- STI durations
- Initial genital herpes episode adjustment
Stroke
- CoDCorrect
- Comorbidity correction (COMO)
- 28 day survivorship
- Age sex splitting
- Ratios of acute ischemic, chronic ischemic, acute hemorrhagic, and chronic hemorrhagic CSMR
- Split non-subtype-specific survey data
- Scaled DisMod proportion models (chronic)
- Severity splits (chronic)
- Severity splits (acute)
- Scaled DisMod proportion models (acute)
- DisMod-MR 2.1
