man/nbOccInComp_simple.Rd
14753e6b
 \name{nbOccInComp_simple}
 \alias{nbOccInComp_simple}
 \title{nbOccInComp_simple}
 \usage{
   nbOccInComp_simple(icaSet, params,
     selectionByComp = NULL, level = c("features", "genes"))
 }
 \arguments{
   \item{icaSet}{An object of class \code{\link{IcaSet}}.}
 
   \item{params}{An object of class
   \code{\link{MineICAParams}} containing the parameters of
   the analysis. \code{cutoffSel(params)} is used as a
   threshold on the absolute projections to select the
   contributing features/genes.}
 
   \item{selectionByComp}{The list of components already
   restricted to the contributing features/genes (each
   element is a vector of projection values indexed by
   features or genes).}
 
   \item{level}{The attribute of \code{icaSet} to be used,
   the occurences of either the \code{"features"} (using
   \code{S(icaSet)}) or the \code{"genes"} (using
   \code{SByGene(icaSet)}) will be reported.}
 }
 \value{
   Returns a data.frame whose columns are: \code{gene} the
   feature or gene IDs, \code{nbOcc} the number of
   components the gene contributes to, \code{components} the
   indices of those components.
 }
 \description{
   For each feature/gene, this function returns the indices
   of the components they contribute to.
 }
 \examples{
 data(icaSetCarbayo)
 params <- buildMineICAParams(resPath="carbayo/")
 nbOcc <- MineICA:::nbOccInComp_simple(icaSet=icaSetCarbayo, params=params, level="genes")
 }
 \author{
   Anne Biton
 }
 \keyword{internal}