processMicroarray: Preprocess MicroArray Data

In kouroshz/creNet: Fit a GLM with a combination of lasso and overlapping group lasso regularization

Usage

processMicroarray(ents.file, rels.file, celPath, phenoFile, annoFile, ii)

Arguments

ents.file
rels.file
celPath
phenoFile
annoFile
ii

Examples

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (ents.file, rels.file, celPath, phenoFile, annoFile, 
    ii) 
{
    L = genOneLevel(ents.file, rels.file)
    ents = L$ents
    rels = L$rels
    ents.mRNA = ents[which(ents$type == "mRNA"), ]
    L = normalizeCEL(ents, rels, celPath, phenoFile, annoFile, 
        ii)
    ents = L$ents
    rels = L$rels
    eset = L$eset
    x.train = L$x.train
    y.train = L$y.train
    x.test = L$x.test
    y.test = L$y.test
    L = list(ents = ents, rels = rels, x.train = x.train, y.train = y.train, 
        x.test = x.test, y.test = y.test)
    L
  }

kouroshz/creNet documentation built on May 20, 2019, 1:11 p.m.