Operating fully in packed space: 10k-window shuffle drops from 7.86s/8.7GB to 0.85s/0.7GB

jmschreiber91 · x · 2026-10-20

Operating entirely in packed space, dinucleotide shuffling of 10k windows drops from 7.86s to 0.85s, with memory falling from 8.7GB to 0.7GB.

The author notes this magnitude is unlikely to be a memory problem on anyone's machine, and it also resolves an unrelated slowdown issue.

Related event: tangermeme's PackedSequence: 2-bit packing cuts genomics sequence memory 16x(6 posts)→

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