Closed edawson closed 4 years ago
The evaluate_paf script in pygenomeworks/bin reports a number of correct query/target starts and ends. However, the numbers reported currently are not accurate, as each searched interval increments these variables: https://github.com/clara-parabricks/GenomeWorks/blob/88dcc74b17a659e1baf21139920a41d9e0cac7f6/pygenomeworks/bin/evaluate_paf#L195-L198
The proper behavior should instead be to only report the correctness of starts/ends only for the best match.
The evaluate_paf script in pygenomeworks/bin reports a number of correct query/target starts and ends. However, the numbers reported currently are not accurate, as each searched interval increments these variables: https://github.com/clara-parabricks/GenomeWorks/blob/88dcc74b17a659e1baf21139920a41d9e0cac7f6/pygenomeworks/bin/evaluate_paf#L195-L198
The proper behavior should instead be to only report the correctness of starts/ends only for the best match.