transitive.closure.annotations: Transitive closure of annotations

In HEMDAG: Hierarchical Ensemble Methods for Directed Acyclic Graphs

Description

Perform the transitive closure of the annotations using ancestors and the most specific annotation matrix. The annotations are propagated from bottom to top, enriching the most specific annotations table. Rows correspond to genes and columns to functional terms.

Usage

transitive.closure.annotations(ann.spec, anc)

Arguments

ann.spec	the annotation matrix of the most specific annotations (0/1): rows are genes and columns are functional terms.
anc	the ancestor list.

Value

The annotation table T: rows correspond to genes and columns to OBO terms. T[i,j]=1 means that gene i is annotated for the term j, T[i,j]=0 means that gene i is not annotated for the term j.

Examples

data(graph);
data(labels);
anc <- build.ancestors(g);
tca <- transitive.closure.annotations(L, anc);

HEMDAG documentation built on Feb. 12, 2021, 5:13 p.m.