Removing newlines in FASTA file increases ZSTD compression ratio by 10x

Re:Removing newlines in FASTA file increases ZSTD compressio... by diimdeep on Monday September 15, 2025 @10:48AM (#45250361)

What's current way to accessibly process my 23andme raw data ? It's been synthesized decade ago and SNPedia and Promethease seems abandoned, so what's alternative if there is, and if there is none how we arrived to this?

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Re:Removing newlines in FASTA file increases ZSTD compressio... by iijj on Monday September 15, 2025 @05:47PM (#45255349)

I was no longer on the scene when it happened, but I’ve been told it became very difficult to get ongoing funding from the National Science Foundation for bioinformatics software around 10 years ago. You could get an initial grant to develop something, but ongoing support was difficult. So websites and ‘databases’ (curated datasets) that made it easy to run the tools faded away.

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Re:Removing newlines in FASTA file increases ZSTD compressio... by vintermann on Tuesday September 16, 2025 @06:34AM (#45260436)

What format is the 23andMe data in, by the way?

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Re:Removing newlines in FASTA file increases ZSTD compressio... by diimdeep on Tuesday September 16, 2025 @11:11AM (#45263406)

tab delimited file (usually compressed for distribution), containing the fields rsid, chromosome, position, genotype (e.g. rs3094315 1 742429 AG).

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