Question about adapter removal and length filtering
ElDeveloper opened this issue · comments
As far as I can tell from the code, and from some tests. When the command atropos trim removes adapters and filters sequences by length (say using --minimum-length) the sequences are first filtered by length and then adapters are removed. As a consequence there's sequences that might artificially pass the length filtering, because the adapter bases allow them to meet the minimum-length. Is this by design or is this a bug?
Modifiers (which include adapter trimming) are applied first, then filters are applied.
atropos/atropos/commands/trim/__init__.py
Line 67 in 2b15c77
@jdidion, thanks so much for replying! I have now found where I was getting confused, it was a mistake on my end.