R: Computes estimates of the probability of related individuals sharing a rare variant

# Computes estimates of the probability of related individuals sharing a rare variant

## Documentation for package ‘RVS’ version 1.35.0

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package NEWS
- Package README

## Help Pages

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