Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Including both strands in syncmer_hash using minimum hash #25

Open
Hosseinem opened this issue Feb 18, 2022 · 0 comments
Open

Including both strands in syncmer_hash using minimum hash #25

Hosseinem opened this issue Feb 18, 2022 · 0 comments

Comments

@Hosseinem
Copy link
Contributor

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.

@Hosseinem Hosseinem changed the title including both strands in syncmer_hash using minimum hash Including both strands in syncmer_hash using minimum hash Feb 18, 2022
Sign up for free to join this conversation on GitHub. Already have an account? Sign in to comment
Labels
None yet
Projects
None yet
Development

No branches or pull requests

1 participant