CAST                    Cohort Allelic Sum Test
GRR.matrix              GRR matrix for genetic data simulation
GnomADgenes             GnomADgenes dataset
Jaccard                 Jaccard index
Kryukov                 Kryukov data set
LCT.EUR.b37             LCT genotypes matrix
LCT.haplotypes          LCT haplotypes data set
NullObject.parameters   Null Model for SKAT and burden tests
RAVA.FIRST              RAVA-FIRST: RAre Variant Association using
                        Functionally-InfoRmed STeps
SKAT                    SKAT test
SKAT.bootstrap          Multi group SKAT test using bootstrap sampling
SKAT.continuous         Multi group SKAT test using Liu et al.
                        approximation
SKAT.permutations       Multi group SKAT test using bootstrap sampling
SKAT.theoretical        Multi group SKAT test using Liu et al.
                        approximation
WSS                     WSS genetic score
adjustedCADD.annotation
                        SNVs and Indels annotation with adjusted CADD
                        scores
adjustedCADD.annotation.SNVs
                        SNVs annotation with adjusted CADD scores
adjustedCADD.annotation.indels
                        Indels annotation with adjusted CADD scores
bed.matrix.split.genomic.region
                        Bed matrix for variants associated to multiple
                        genomic regions
burden                  Linear, logistic or multinomial regression on a
                        genetic score
burden.continuous       Linear regression on a genetic score
burden.continuous.subscores
                        Linear regression on a multiple genetic scores
                        within a genomic region
burden.mlogit           Logistic or multinomial regression on a genetic
                        score
burden.mlogit.subscores
                        Logistic or multinomial regression on a
                        multiple genetic scores within a genomic region
burden.subscores        Linear, logistic or multinomial regression on a
                        multiple genetic scores within a genomic region
burden.weighted.matrix
                        Score matrix for burden tests
filter.adjustedCADD     Variant filtering based on frequency and median
                        adjusted CADD by CADD regions
filter.rare.variants    Rare variants filtering
genes.positions         Genes positions
genotypic.freq          Genotypic frequencies calculation for data
                        simulations
multinomial.asso.freq   Single variant association test with
                        categorical phenotype
rbm.GRR                 Simulation of genetic data using GRR values
rbm.GRR.power           Power of RVAT based on simulations and
                        theoretical calculations (CAST) with GRR
rbm.haplos.freqs        Simulation of genetic data based on haplotypic
                        frequencies
rbm.haplos.power        Power of RVAT based on simulations with
                        haplotypes
rbm.haplos.thresholds   Simulation of genetic data based on haplotypes
                        and a libaility model
set.CADDregions         Variants annotation based on 'CADD regions' and
                        genomic categories
set.genomic.region      Variants annotation based on gene positions
set.genomic.region.subregion
                        Variants annotation based on regions and
                        subregions positions
subregions.LCT          Exemple of functional categories
