Comments (1)
OndrejSladky
commented on July 18, 2024
1
It seems that currently the computation of the hash takes about 3% of the total computation. I doubt that the rolling hash could be that much faster than what we're currently using as the Wang hash is just a few bit operations.
Hence I'd stick to the current hash function, as the amount of work required to modify khash to allow for rolling functions seems to be disproportional to the unclear benefits it brings.
Feel free to reopen if you disagree.
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Related Issues (9)
- Step 1: Efficient computation from KmerCamel tailored to simplitigs
- Step 2: intersections & deletions; interface mimicked from ProphAsm 1
- Feature request: Support for k-mer frequencies
- Feature request: Parallelism HOT 2
- Feature request: k-mer length >32 with `-large` version included HOT 2
- Feature request: Reduce memory requirements for each simplitig by printing the right extensions directly to output.
- 2x slower with k=18 HOT 3
- Support for k-mer sizes > 64
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