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It seems that including the reverse strand by selecting a minimum value of hashes is not doable since the syncmers are being chosen based on the Smers. A syncmer is a Kmer that has its smallest smer at its start or end and in a sense, Smers should correspond to Kmers to make this work. Hence, it is not possible to select minimum hashes of Smers and Kmers independently. It is possible to select the minimum kmer_hash first and then check its corresponding Smers but this would be time-consuming and needs double the number of vectors, ranges, and iterators.
The text was updated successfully, but these errors were encountered:
Hosseinem
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including both strands in syncmer_hash using minimum hash
Including both strands in syncmer_hash using minimum hash
Feb 18, 2022
It seems that including the reverse strand by selecting a minimum value of hashes is not doable since the syncmers are being chosen based on the Smers. A syncmer is a Kmer that has its smallest smer at its start or end and in a sense, Smers should correspond to Kmers to make this work. Hence, it is not possible to select minimum hashes of Smers and Kmers independently. It is possible to select the minimum kmer_hash first and then check its corresponding Smers but this would be time-consuming and needs double the number of vectors, ranges, and iterators.
The text was updated successfully, but these errors were encountered: