drop.peakfeat {eqtl} | R Documentation |
Erase chosen peak features informations from a peak
object.
drop.peakfeat(peak, feat)
peak |
An object of class peak . See define.peak function for details. |
feat |
A character string vector containing the names of the features to delete. Features could be: "additive.effect" ,"peak.bp" ,"inf.bp" ,"sup.bp" or "type" . See calc.adef , localize.qtl ,classify.qtl functions for details. |
In peak
object, QTL is defined by peak features. This function is useful to erase some peak features by avoiding to re-perform all the analyses (mainly the define.peak
function). Only the peak features generated by the functions calc.adef
, localize.qtl
and classify.qtl
should be removed. This function is used by the functions 'calc.adef', 'localize.qtl' and 'classify.qtl'.
An object of class peak
Hamid A. Khalili
define.peak
,localize.qtl
,calc.adef
,classify.qtl
data(seed10); seed10 <- calc.genoprob( cross=seed10, step=2, off.end=0, error.prob=0, map.function='kosambi', stepwidth='fixed'); seed10 <- sim.geno( cross=seed10, step=2, off.end=0, error.prob=0, map.function='kosambi', stepwidth='fixed'); out.em <- scanone( seed10, pheno.col=1:50, model='normal', method='em') out.peak <- define.peak(out.em,lodcolumn='CATrck'); out.peak <- calc.adef(seed10,out.em,out.peak) out.peak; data(BSpgmap); out.peak <- localize.qtl(seed10,out.peak,BSpgmap); out.peak; out.peak <- drop.peakfeat(out.peak,'additive.effect'); out.peak <- drop.peakfeat(out.peak,c('inf.bp','sup.bp')); out.peak;