C.1.1. papfqa2
Genotype Assignments: Autosomal Number of Loci: 2 Number of Alleles: 2 at first locus, unrestricted at second locus Assumptions: Hardy- Weinberg equilibrium Parameters: Conditional allele frequencies first locus Allele frequencies at second locus
C.1.2. papfqa2s
Genotype Assignments: Category-specific autosomal Number of Loci: 2 Number of Alleles: 2 at first locus, unrestricted at second locus Assumptions: Hardy- Weinberg equilibrium Parameters: Conditional allele frequencies first locus Allele frequencies at second locus
C.1.3. papfqg
Genotype Assignments: No restrictions Number of Loci: No restrictions Number of Alleles: No restrictions Assumptions: None Parameters: Genotype frequencies
C.1.4. papfqh
Genotype Assignments: Autosomal Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Hardy- Weinberg equilibrium Parameters: Haplotype frequencies
C.1.5. papfqh2
Genotype Assignments: Autosomal Number of Loci: 2 Number of Alleles: 2 at each locus Assumptions: Hardy- Weinberg equilibrium Parameters: Allele frequencies D (disequilibrium)
C.1.6. papfqhw
Genotype Assignments: Not Autosomal/X-linked mixed Number of Loci: No restrictions Number of Alleles: No restrictions Assumptions: Hardy- Weinberg equilibrium Linkage equilibrium Parameters: Allele frequencies
C.1.7. papfqx2
Genotype Assignments: X-linked Number of Loci: 2 Number of Alleles: 2 at each Assumptions: Hardy- Weinberg equilibrium Parameters: Allele frequencies D (disequilibrium)
C.1.8. papfqxa [Hasstedt & Skolnick 1984]
Genotype Assignments: Autosomal/X-linked mixed Number of Loci: 1 Number of Alleles: 2 Assumptions: Hardy- Weinberg equilibrium in female Generational equilibrium in males Parameters: Allele frequencies
C.2.1. paptcal
Genotype Assignments: Autosomal Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Sex-specific recombination probabilities
C.2.2. paptcapl
Genotype Assignments: Parent-specific autosomal Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Sex-specific recombination probabilities
C.2.3. paptcasl
Genotype Assignments: Category-specific autosomal Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Sex-specific recombination probabilities
C.2.4. paptcaxl
Genotype Assignments: Autosomal/X-linked admixture Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Sex-specific recombination probabilities
C.2.5. paptce
Genotype Assignments: No restrictions Number of Loci: No restrictions Number of Alleles: No restrictions Assumptions: Transmission probabilities equal genotype frequencies Parameters: None
C.2.6. paptcet
Genotype Assignments: Not autosomal/X-linked mixed model Number of Loci: 1 Number of Alleles: 2 Assumptions: Generational equilibrium Parameters: Allele transmission probabilities
C.2.7. paptcms
Genotype Assignments: No restrictions Number of Loci: No restrictions Number of Alleles: No restrictions Assumptions: Mendelian segregation Unlinked loci Parameters: None
C.2.8. paptctp
Genotype Assignments: Not autosomal/X-linked mixed Number of Loci: 1 Number of Alleles: 2 Assumptions: None Parameters: Allele transmission probabilities
C.2.9. paptcxl
Genotype Assignments: X-linked Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Female recombination probabilities
C.2.10 paptcxpl
Genotype Assignments: Parent-specific X-linked Number of Loci: 2+ Number of Alleles: No restrictions Assumptions: Mendelian segregation Parameters: Sex-specific recombination probabilities
C.3.1. dmlprin
Number of Loci: 1 Number of Alleles: 2 Mode of Inheritance: Autosomal Population Data: Incidence rates Phenotype: Disease dichotomy Assumptions: Earlier onset corresponds to higher liability Parameters: Dominance Displacement in within-genotype standard deviations
C.3.2. dmlprpn
Number of Loci: Unrestricted Number of Alleles: Unrestricted Mode of Inheritance: Unrestricted Population Data: None Phenotype: Disease dichotomy Assumptions: None Parameters: Penetrance for each genotype
C.3.3. dmlprpr
Number of Loci: 1 Number of Alleles: 2 Mode of Inheritance: Autosomal Population Data: Prevalence rates Phenotype: Disease dichotomy Assumptions: Earlier onset corresponds to higher liability Parameters: Dominance Displacement in within-genotype standard deviations
C.3.4. dmlprsv
Number of Loci: 1 Number of Alleles: 2 Mode of Inheritance: Autosomal Population Data: Prevalence by disease severity Phenotype: Severity code Assumptions: Penetrance increases across the genotypes Parameters: Dominance Displacement in within-genotype standard deviations
C.4.1. qmlprdd
Number of Loci: 1 Number of Alleles: 2 Mode of Inheritance: Autosomal Population Data: None Assumptions: Equal variance within genotypes Parameters: Total mean Total standard deviation Dominance Displacement in within-genotype standard deviations Power for transformation Coefficients of linear effects (0-5)
C.4.2. qmlprmv
Number of Loci: Unrestricted Number of Alleles: Unrestricted Mode of Inheritance: Unrestricted Population Data: None Assumptions: None Parameters: Mean for each genotype Standard deviation for each genotype Power for transformation Coefficients of linear effects (0-5)
C.4.3. qmlprmvt
Number of Loci: Unrestricted Number of Alleles: Unrestricted Mode of Inheritance: Unrestricted Population Data: None Assumptions: Affection corresponds to a value above a specified threshold Parameters: Mean for each genotype Standard deviation for each genotype Threshold Power for transformation Coefficients of linear effects (0-5)
C.5.1. papwgam [Hasstedt 1995]
Assumptions: Within-genotype correlations modeled as variance components Assortative mating Parameters: Assortative mating correlation Polygenic heritability Variance components for shared environments Genetic correlation between traits Environmental correlation between traitsC.5.2. papwgfc
Assumptions: Within-genotype correlation modeled as familial correlations Familial correlations zero outside nuclear family Parameters: Spouse correlation Parent-offspring correlation Sibling correlation Correlation between traits
C.5.3. papwgml
Assumptions: No within-genotype correlations Parameters: Correlation between traits
C.5.4. papwgvc [Hasstedt 1993]
Assumptions: Within-genotype correlations modeled as variance components Parameters: Polygenic heritability Variance components for shared environments Genetic correlation between traits Environmental correlation between traits