We released scirpy v0.15 with a focus on performance improvements. "alignment" distance to find similar clonotypes is now 2-3x faster by default. Additionally there's an (approximate) "fastalignment" metric that is up to 20x faster.
https://scirpy.scverse.org/en/latest/changelog.html#v0-15-0
https://scirpy.scverse.org/en/latest/changelog.html#v0-15-0
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More performance upgrades are on the way. Thanks to Tobias Ganzenhuber and Felix Petschko for working on this!