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The ABC are in canonical order and can yield a valid palmprint. If the decoy sequence E is a false-positive match to motif B, palmscan will recognize a longer palmprint with BAC order (EAC). While the per-motif scores of EAC are larger than ABC, the overall palmprint is not considered valid due to out-of-order and longer length. This is a known issue in palmscan.
To overcome this, as an error-fallback for RdRP input sequences, a local DIAMOND search of the input sequence against palmDB can retrieve a potential ABC sub-sequence match which then has a detected palmprint.
The text was updated successfully, but these errors were encountered:
There appears to be an issue with detecting palmprints when there is a decoy motif present in the local vicinity of the palmprint.
For example let there be an RdRP containing motifs A, B, and C, with a proximal decoy sequence (E).
The ABC are in canonical order and can yield a valid palmprint. If the decoy sequence E is a false-positive match to motif B, palmscan will recognize a longer palmprint with BAC order (EAC). While the per-motif scores of EAC are larger than ABC, the overall palmprint is not considered valid due to out-of-order and longer length. This is a known issue in
palmscan
.To overcome this, as an error-fallback for RdRP input sequences, a local DIAMOND search of the input sequence against palmDB can retrieve a potential ABC sub-sequence match which then has a detected palmprint.
The text was updated successfully, but these errors were encountered: