What does "the highest overall confidence" mean?

[CaoWei-UM]

Hi,
I'm trying to get O2O,HE and M2M genesets by follow your pipeline, but there's a question bother me:

in bin/concat_by_homology_multiple_species_by_gene_id.R line 259, "dplyr::arrange(gene_group , sapply(avail_homo, FUN = function(x) get(x)) )## keep the member of group with highest overall confidence"

I'm confoused by "the highest overall confidence". The code seems arrange rows in gene_group by the first element of avail_homo, if there're same value, use the second element... I thought the overall value is the mean value, but seems not. Could you please explain what does "the highest overall confidence" mean?