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"title": "GitHub - logannye/rosalind: A deterministic genomics engine with a compact memory footprint. Run whole-genome workloads in as little as 100 MB RAM. Built in Rust.",
"excerpt": "Deterministic genomics engine with a compact memory footprint. Run whole-genome workloads in as little as 100 MB RAM.\n\nRosalind is a Rust engine for genome alignment, streaming variant calling, and custom bioinformatics analytics that runs on commodity or edge hardware. It achieves O(√t) working memory, deterministic replay, and drop-in extensibility for new pipelines (Rust plugins or Python bindings). Traditional pipelines often assume 50-100+ gigabytes of RAM, well-provisioned data centers, and uninterrupted connectivity; Rosalind is designed for the opposite: hospital workstations, clinic laptops, field kits, and classrooms.\n\nSee At a Glance , How It Compares , and What O(√t) memory means for deeper context.\n\nOptional: run the smoke test example to confirm the full pipeline:\n\nSample data: examples/data/ contains small FASTA/FASTQ snippets and alignment inputs mirroring the “Quick Start” commands, so you can reproduce the workflows without hunting for external datasets.\n\nNeed something bigger? Generate a deterministic ~10× toy genome with:\n\nThe script emits reference.fa , paired reads_R1.fastq / reads_R2.fastq , and reproducible SHA256 checksums so larger demos can be cached or s",
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"by": "logannyeMD",
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"text": "Hey guys, this is my github repo. Glad it's received some interest - I figured HN might be the culprit when it suddenly jumped ~100 stars despite not working on the code base since last year. I prototyped this out of personal curiosity last year and moved on abruptly so there's a lot of gaps I still need to close and knobs that need to be optimized. But if people genuinely find "deterministic genomics workloads on edge devices" proposal useful, I'll begin refining the code tonight and try to make it as useful as possible. If you have any particular bioinformatics tasks or use cases that you want to be feasible on edge devices, lmk and I'll work on integrating new capabilities. Always happy to be helpful",
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"body": "Hey guys, this is my github repo. Glad it's received some interest - I figured HN might be the culprit when it suddenly jumped ~100 stars despite not working on the code base since last year. I prototyped this out of personal curiosity last year and moved on abruptly so there's a lot of gaps I still need to close and knobs that need to be optimized. But if people genuinely find \"deterministic genomics workloads on edge devices\" proposal useful, I'll begin refining the code tonight and try to make it as useful as possible. If you have any particular bioinformatics tasks or use cases that you want to be feasible on edge devices, lmk and I'll work on integrating new capabilities. Always happy to be helpful",
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"raw_body": "Hey guys, this is my github repo. Glad it's received some interest - I figured HN might be the culprit when it suddenly jumped ~100 stars despite not working on the code base since last year. I prototyped this out of personal curiosity last year and moved on abruptly so there's a lot of gaps I still need to close and knobs that need to be optimized. But if people genuinely find "deterministic genomics workloads on edge devices" proposal useful, I'll begin refining the code tonight and try to make it as useful as possible. If you have any particular bioinformatics tasks or use cases that you want to be feasible on edge devices, lmk and I'll work on integrating new capabilities. Always happy to be helpful",
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"text": "This is interesting; thanks for sharing! I have been curious about the adoption of Rust in computational biology. I know that the folks at Saint Jude's [1] are also using Rust for their 'omics research.<p>[1] <a href=\"https://github.com/stjude-rust-labs\" rel=\"nofollow\">https://github.com/stjude-rust-labs</a>",
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"body": "This is interesting; thanks for sharing! I have been curious about the adoption of Rust in computational biology. I know that the folks at Saint Jude's [1] are also using Rust for their 'omics research. [1] https://github.com/stjude-rust-labs",
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"raw_body": "This is interesting; thanks for sharing! I have been curious about the adoption of Rust in computational biology. I know that the folks at Saint Jude's [1] are also using Rust for their 'omics research.<p>[1] <a href=\"https://github.com/stjude-rust-labs\" rel=\"nofollow\">https://github.com/stjude-rust-labs</a>",
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"text": "Those are all the tests for alignment. They don't even check the alignment is correct. Just that there are no errors. This is a joke: <a href=\"https://github.com/logannye/rosalind/blob/main/tests/alignment_pipeline.rs\" rel=\"nofollow\">https://github.com/logannye/rosalind/blob/main/tests/alignme...</a><p>Looks like total slop to me. All code in one commit, then a bunch of commits polishing the Readme.<p>No release, no updates in half a year.",
"time": 1779830776,
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"body": "Those are all the tests for alignment. They don't even check the alignment is correct. Just that there are no errors. This is a joke: https://github.com/logannye/rosalind/blob/main/tests/alignme... Looks like total slop to me. All code in one commit, then a bunch of commits polishing the Readme. No release, no updates in half a year.",
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"raw_body": "Those are all the tests for alignment. They don't even check the alignment is correct. Just that there are no errors. This is a joke: <a href=\"https://github.com/logannye/rosalind/blob/main/tests/alignment_pipeline.rs\" rel=\"nofollow\">https://github.com/logannye/rosalind/blob/main/tests/alignme...</a><p>Looks like total slop to me. All code in one commit, then a bunch of commits polishing the Readme.<p>No release, no updates in half a year.",
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"text": "Lots of bad smells in this repo.",
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"body": "Lots of bad smells in this repo.",
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"raw_body": "Lots of bad smells in this repo.",
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"text": "Looking at the commenting pattern, it seems like AI unfortunately",
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"body": "Looking at the commenting pattern, it seems like AI unfortunately",
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"raw_body": "Looking at the commenting pattern, it seems like AI unfortunately",
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"text": "Hey guys, this is my github repo. Glad it's received some interest - I figured HN might be the culprit when it suddenly jumped ~100 stars despite not working on the code base since last year. I prototyped this out of personal curiosity last year and moved on abruptly so there's a lot of gaps I still need to close and knobs that need to be optimized. But if people genuinely find "deterministic genomics workloads on edge devices" proposal useful, I'll begin refining the code tonight and try to make it as useful as possible. If you have any particular bioinformatics tasks or use cases that you want to be feasible on edge devices, lmk and I'll work on integrating new capabilities. Always happy to be helpful",
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"text": "This is interesting; thanks for sharing! I have been curious about the adoption of Rust in computational biology. I know that the folks at Saint Jude's [1] are also using Rust for their 'omics research.<p>[1] <a href=\"https://github.com/stjude-rust-labs\" rel=\"nofollow\">https://github.com/stjude-rust-labs</a>",
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"text": "Those are all the tests for alignment. They don't even check the alignment is correct. Just that there are no errors. This is a joke: <a href=\"https://github.com/logannye/rosalind/blob/main/tests/alignment_pipeline.rs\" rel=\"nofollow\">https://github.com/logannye/rosalind/blob/main/tests/alignme...</a><p>Looks like total slop to me. All code in one commit, then a bunch of commits polishing the Readme.<p>No release, no updates in half a year.",
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"text": "Looking at the commenting pattern, it seems like AI unfortunately",
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