Sim_Relevance_2006

Source: R/sim.R

Sim_Relevance_2006

Sim_Relevance_2006(
  dag,
  terms,
  IC_method = "IC_annotation",
  verbose = simona_opt$verbose
)

Methods

Sim_Relevance_2006

The IC method is fixed to IC_annotation.

If thinking Lin_1998 is a measure of how close term a and b to their MICA term c, the relevance method corrects it by multiplying a factor which considers the specificity of how c brings the information. The factor is calculated as 1-p(c) where p(c) is the annotation-based probability p(c) = k/N where k is the number of items annotated to c and N is the total number of items annotated to the DAG. Then the Relevance semantic similarity is calculated as:

sim = (1 - p(c)) * IC_Lin 
    = (1 - p(c)) * 2*IC(c)/(IC(a) + IC(b))

Paper link: doi:10.1186/1471-2105-7-302 .