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> A deterministic genomics engine with a compact memory footprint. Uhh... are there stochastic genomics pipelines?
by _f78k 4mo ago
> A deterministic genomics engine with a compact memory footprint.
Uhh... are there stochastic genomics pipelines?
- flobosg 4mo agoA quick search gave me for example this one: https://genome.cshlp.org/content/26/1/36 https://genome.cshlp.org/content/26/1/36
- pazimzadeh 4mo agoi think these are more relevant examples https://www.cs.cmu.edu/~ckingsf/software/sailfish/ https://www.cs.cmu.edu/~ckingsf/software/sailfish/ https://www.nature.com/articles/nmeth.4197 https://www.nature.com/articles/nmeth.4197
- mfld 4mo agoI guess the author refers to the fact that many well-known tools have some randomness built-in. The most obvious one is differences due to the order of parallel processing. But these differences are often small and have no significant downstream effects. They are mostly inconvenient for regression testing.