Abstract:The Basic Local Alignment Search Tool (BLAST) [2] is currently the most popular method for searching databases of biological sequences. BLAST compares sequences via similarity defined by a weighted edit distance, which results in it being computationally expensive. As opposed to working with edit distance, a vector similarity approach can be accelerated substantially using modern hardware or hashing techniques [9]. Such an approach would require fixed-length embeddings for biological sequences. There has been … Show more
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