ancestorDistance | distance between a descendant and an ancestor |
areMating | determine if two subjects have a child together |
checkArgs | check arguments provided to RVsharing for validty |
ComputeKinshipPropCoef-methods | ratio of excess kinship among descendants over mean kinship... |
computePFU | computation of P[FjU] using equation 21 of Bureau et al. |
computePhiVec | expected kinship coefficient for different number of alleles |
convertMatrix | convert snpMatrix to a list of vectors of sharing |
createNetwork | create bayesian network from processed pedigree |
denomProb | denominator of sharing probability |
enrichmentPValue | enrichment p-value across multiple families and variants |
enrichmentPValue_R_Backend | R backend for enrichmentPValue calculation |
exactSharingProb | exact sharing probability calculation |
ex.ped.mat | matrix of pedigree information and genotype data from famVCF... |
extract_carriers | extract carriers of minor allele |
fam15157.vcf | VCF objects containing genotype data for two families:... |
fam28003.vcf | VCF objects containing genotype data for two families:... |
founderOccurence | determine if subjects are descended from founders |
GeneDrop | deprecated function |
get.psubset | deprecated function |
inferNumAlleles | most likely number of distinct alleles among founders |
inferTheta | solve the parameter theta for polynomial approximation of the... |
isDescendant | determine if one subject is a descendant of another |
marginalProb | calculates the marginal probability of a set of nodes |
monteCarloSharingProb | calculates sharing probability by simulating pedigree... |
multipleFamilyPValue | probability of sharing of rare variants in a subset of... |
multipleFamilyPValue_R_Backend | R backend for multipleFamilyPValue calculation |
multipleVariantPValue | generalization of multipleFamilyPValue to multiple variants |
multipleVariantPValue_R_Backend | R backend for multipleVariantPValue calculation |
numerProb | numerator of sharing probability |
oldArgs | check for arguments in v1.7 format |
oneFounderSharingProb | calculate sharing probability in basic case |
oneFounderSharingProbSplitting | calculate sharing probability in basic case |
ped2trio | deprecated function |
processPedigree-methods | extract useful information from a pedigree |
relatedFoundersCorrection | make the neccesary correction for when founders have a... |
runMonteCarlo | run the monte carlo simulation |
RVgene | Probability of sharing of rare variants in a family sample... |
RVS | RVS |
RVsharing-methods | probability of sharing a rare variant among relatives |
samplePedigrees | list of 8 sample pedigree objects |
simulatePedigree | simulates pedigree given founder states |
snpMat | SnpMatrix with genotype information from famVCF for fam15157 |
SnpMatrixToCount | convert a list of SnpMatrices to a single matrix in a... |
twoFounderSharingProb | sharing probability when founder pair introduces variant |
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