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| ComputeKinshipPropCeof | ratio of excess kinship among descendants over mean kinship among founders |
| ComputeKinshipPropCoef | ratio of excess kinship among descendants over mean kinship among founders |
| ComputeKinshipPropCoef-method | ratio of excess kinship among descendants over mean kinship among founders |
| convertMatrix | convert snpMatrix to a list of vectors of sharing |
| enrichmentPValue | enrichment p-value across multiple families and variants |
| enrichmentPValue_R_Backend | R backend for enrichmentPValue calculation |
| ex.ped.mat | matrix of pedigree information and genotype data from famVCF stored in the LINKAGE format |
| fam15157.vcf | VCF objects containing genotype data for two families: fam15157 and fam28003 (corresponding to the secondCousinTriple and firstAndSecondCousinsTriple families in samplePedigrees) |
| fam28003.vcf | VCF objects containing genotype data for two families: fam15157 and fam28003 (corresponding to the secondCousinTriple and firstAndSecondCousinsTriple families in samplePedigrees) |
| GeneDrop | deprecated function |
| GeneDropSim.allsubsets.fn | deprecated function |
| GeneDropSim.fn | deprecated function |
| GeneDropSimExcessSharing.fn | deprecated function |
| get.psubset | deprecated function |
| multipleFamilyPValue | probability of sharing of rare variants in a subset of families |
| multipleFamilyPValue_R_Backend | R backend for multipleFamilyPValue calculation |
| multipleVariantPValue | generalization of multipleFamilyPValue to multiple variants |
| multipleVariantPValue_R_Backend | R backend for multipleVariantPValue calculation |
| ped2trio | deprecated function |
| processPedigree | extract useful information from a pedigree |
| processPedigree-method | extract useful information from a pedigree |
| RVgene | Probability of sharing of rare variants in a family sample within a gene |
| RVS | RVS |
| RVsharing | probability of sharing a rare variant among relatives |
| RVsharing-method | probability of sharing a rare variant among relatives |
| samplePedigrees | list of 8 sample pedigree objects |
| snpMat | SnpMatrix with genotype information from famVCF for fam15157 |
| SnpMatrixToCount | convert a list of SnpMatrices to a single matrix in a similiar format as LINKAGE except with minor allele counts |