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As highlighted in issue #223, the default value of
dup_margin
in the function is_single_copy was incorrect and should be 0.05. However, this had no practical impact as the default value was never actually used.This PR removes the
is_single_copy
function and replaces it with theis_single_copy
method from theGene_Family
class, which is already utilized elsewhere in the code. This change reduces code duplication and ensures consistency across the codebase.This update addresses the concerns raised in issue #223.