# Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional data

## Documentation for package ‘FAMT’ version 2.2

- DESCRIPTION file.

## Help Pages

FAMT-package | Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional data
annotations | Gene annotations data frame
as.FAMTdata | Create a 'FAMTdata' object from an expression, covariates and annotations dataset
covariates | Covariates data frame
defacto | FAMT factors description
emfa | Factor Analysis model adjustment with the EM algorithm
expression | Gene expressions data frame
FAMT | Factor Analysis for Multiple Testing (FAMT) : simultaneous tests under dependence in high-dimensional data
modelFAMT | The FAMT complete multiple testing procedure
nbfactors | Estimation of the optimal number of factors of the FA model
pi0FAMT | Estimation of the Proportion of True Null Hypotheses
raw.pvalues | Calculation of classical multiple testing statistics and p-values
residualsFAMT | Calculation of residual under null hypothesis
summaryFAMT | Summary of a FAMTdata or a FAMTmodel