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cfe-lab / CFEIntact

A bioinformatics tool for detecting defects in HIV-1 proviral sequences.
https://cfe-lab.github.io/CFEIntact
MIT License
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Adjust deletion tolerence scores #13

Closed Donaim closed 8 months ago

Donaim commented 8 months ago

Currently, almost all ORFs are considered intact if their size is within -30/+30 range of their subtype ORF's length.

But, as we know, some ORFs, such as env have a larger variance, and some, such as tat do not have any variance at all.

Therefore it is better to base the cut-offs on empirical data, rather than to stick to arbitrary measures.

Donaim commented 8 months ago

Done