GWAF-package |
Genome-wide association/interaction analyses with family data |
%*%-method |
Class "bdsmatrix" |
%*%-method |
Class "gchol.bdsmatrix" |
all-method |
Class "bdsmatrix" |
any-method |
Class "bdsmatrix" |
auto |
function to generate scripts for genome-wide association/interaction analysis |
bdsmatrix-class |
Class "bdsmatrix" |
coerce-method |
Class "bdsmatrix" |
coerce-method |
Class "gchol" |
coerce-method |
Class "gchol.bdsmatrix" |
diag-method |
Class "bdsmatrix" |
diag-method |
Class "gchol" |
diag-method |
Class "gchol.bdsmatrix" |
diag<--method |
Class "bdsmatrix" |
dim-method |
Class "bdsmatrix" |
dim-method |
Class "gchol.bdsmatrix" |
dimnames-method |
Class "bdsmatrix" |
dimnames<--method |
Class "bdsmatrix" |
gchol |
Generalized Cholesky decompostion |
gchol-class |
Class "gchol" |
gchol-method |
Methods for Function gchol in Package 'kinship' |
gchol-methods |
Methods for Function gchol in Package 'kinship' |
gchol.bdsmatrix |
Generalized Cholesky decompostion |
gchol.bdsmatrix-class |
Class "gchol.bdsmatrix" |
geepack.lgst |
function for testing association between a dichotomous trait and a genotyped SNP in family data using Generalized Estimation Equation model |
geepack.lgst.batch |
function to test genetic association between a dichotomous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.lgst.batch.imputed |
function to test genetic association between a dichotomous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.lgst.imputed |
function for testing association between a dichotomous trait and an imputed SNP in family data using Generalized Estimation Equation model |
geepack.lgst.int |
function for testing gene-environment or gene-gene interaction between a dichotomous trait and a genotyped SNP in family data using Generalized Estimation Equation model |
geepack.lgst.int.batch |
function to test gene-environment or gene-gene interaction between a dichotomous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.lgst.int.batch.imputed |
function to test gene-environment or gene-gene interaction between a dichotomous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.lgst.int.imputed |
function for testing gene-environment or gene-gene interaction between a dichotomous trait and an imputed SNP in family data using Generalized Estimation Equation model |
geepack.quant.batch |
function to test genetic associations between a continuous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.quant.batch.imputed |
function to test associations between a continuous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
geepack.quant.int.batch |
function to test gene-environment or gene-gene interaction for a continuous trait and a batch of genotyped SNPs in families using Generalized Estimation Equation model |
geepack.quant.int.batch.imputed |
function to test gene-environment or gene-gene interaction between a continuous trait and a batch of imputed SNPs in families using Generalized Estimation Equation model |
GWAF |
Genome-wide association/interaction analyses with family data |
GWplot |
function for making genome-wide p-value plot |
lmekin |
function for linear mixed effects modeling with a kinship coefficient matrix |
lmepack.batch |
function to test genetic associations between a continuous trait and a batch of genotyped SNPs in families using Linear Mixed Effects model |
lmepack.batch.imputed |
function to test associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model |
lmepack.int.batch |
function to test gene-environment or gene-gene interaction for a continuous trait and a batch of genotyped SNPs in families using Linear Mixed Effects model |
lmepack.int.batch.imputed |
function to test gene-environment or gene-gen interaction and associations between a continuous trait and a batch of imputed SNPs in families using Linear Mixed Effects model |
makekinship |
Create a kinship matrix |
Math-method |
Class "bdsmatrix" |
Math2-method |
Class "bdsmatrix" |
max-method |
Class "bdsmatrix" |
min-method |
Class "bdsmatrix" |
Ops-method |
Class "bdsmatrix" |
prod-method |
Class "bdsmatrix" |
qq |
function to make Qantile-Qantile (QQ) plot for p-values |
range-method |
Class "bdsmatrix" |
show-method |
Class "bdsmatrix" |
show-method |
Class "gchol" |
show-method |
Class "gchol.bdsmatrix" |
sum-method |
Class "bdsmatrix" |
unique-method |
Class "bdsmatrix" |
[-method |
Class "bdsmatrix" |
[-method |
Class "gchol.bdsmatrix" |