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ksahlin / strobemers

A repository for generating strobemers and evalaution
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Identical fasta headers between query and reference yield no matches #6

Closed moorembioinfo closed 2 years ago

moorembioinfo commented 2 years ago

Hi,

I've noticed with StrobeMap (python) that if contig fasta headers are identical between the query and the reference it will return no matches. This might be a problem as contig fasta headers are often unspecific (>contig1, >contig2 etc.)

Thanks and best regards,

Matt

ksahlin commented 2 years ago

Hi Matt,

you can specify --selfalign to StrobeMap (python implementation) to force alignment between identical query and reference names.

Best, K