predict_gmean_byelt_jack_xpr: Geometric mean (amean) by motif (bymot) by jackknife (jack)...

In BenitoJaillard/combinAna: Element clustering that best accounts for an assembly property or function

Description

Take a numeric vector and return the predicted vector computed as the geometric mean of all elements belonging to a same motif.

Usage

predict_gmean_byelt_jack_xpr(fct, assMotifs, mOccur, jack, xpr)

Arguments

fct	a vector of numeric values (assembly properties).
assMotifs	a vector of labels of length(fct) (assembly motifs).
mOccur	a matrix of occurrence (occurrence of elements). Its first dimension equals to length(fct). Its second dimension equals to the number of elements.
jack	a vector of two elements. The first one jack[1] specifies the size of subset, the second one jack[2] specifies the number of subsets.
xpr	a vector of labels of length(fct) (assembly experiments).

Details

Prediction is computed using geometric mean gmean by motif bymot in a whole (WITHOUT taking into account species contribution). The elements belonging to a same motif are divided into jack[2] subsets of jack[1] elements. Prediction is computed by excluding jack[1] elements, of which the element to predict. If the total number of elements belonging to the motif is lower than jack[1]*jack[2], prediction is computed by Leave-One-Out (LOO).

Value

Return a vector of length(fct), of which values are computed as the geometric mean of all vector elements, over several experiments.

BenitoJaillard/combinAna documentation built on May 9, 2019, 2:17 a.m.