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Creating 10.21105.joss.06617.pdf
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Creating 10.21105.joss.06617.crossref.xml
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LLVM-to-JavaScript compiler. Proceedings of the ACM International
Conference Companion on Object Oriented Programming Systems Languages
and Applications Companion, 301–312.
https://doi.org/10.1145/2048147.2048224</unstructured_citation>
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A., &amp; Ofria, C. (2021). SignalGP-lite: Event driven genetic
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https://doi.org/10.48550/ARXIV.2108.00382</unstructured_citation>
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(2022). Best-effort communication improves performance and scales
robustly on conventional hardware. arXiv.
https://doi.org/10.48550/ARXIV.2211.10897</unstructured_citation>
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phylogenetic tracking. arXiv.
https://doi.org/10.48550/ARXIV.2405.09389</unstructured_citation>
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