Could the step for alignment of k-mers to positive reference set be skipped if the positions of the k-mers are stored during the k-mer extraction process?
A large fraction of the compute time is used during k-mer extraction, and not a lot is used for the alignment. So it might not speed up the process overall, but it could be interesting to try out if there are any advantages to this.
Could the step for alignment of k-mers to positive reference set be skipped if the positions of the k-mers are stored during the k-mer extraction process?
A large fraction of the compute time is used during k-mer extraction, and not a lot is used for the alignment. So it might not speed up the process overall, but it could be interesting to try out if there are any advantages to this.