HEMDAG (version 2.7.4)

full.annotation.matrix: Full annotation matrix

Description

Build a full annotations matrix using the ancestor list and the most specific annotations matrix w.r.t. a given weighted adjacency matrix (wadj). The rows of the full annotation matrix correspond to all the examples of the given weighted adjacency matrix and the columns to the class/terms. The transitive closure of the annotations is performed.

Usage

full.annotation.matrix(W, anc, ann.spec)

Arguments

W

a symmetric adjacency weighted matrix of the graph.

anc

the ancestor list.

ann.spec

the annotation matrix of the most specific annotations (0/1): rows are genes and columns are terms.

Value

A full annotation table T, that is a matrix where the transitive closure of annotations is performed. Rows correspond to genes of the weighted adjacency matrix and columns to 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 \(j\).

Details

The examples present in the annotation matrix (ann.spec) but not in the adjacency weighted matrix (W) are purged.

Examples

# NOT RUN {
data(wadj);
data(graph);
data(labels);
anc <- build.ancestors(g);
full.ann <- full.annotation.matrix(W, anc, L);
# }