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MRG: add scaled FAQ, adjust ksize answer (#2921)
Adds the following FAQ entry to address #2918: > ## What scaled values should I use with sourmash? > > We recommend scaled=1000 or scaled=10000 when working with bacterial > and archaeal sketches and DNA. We have quite a bit of experience with > this, and even some > [published benchmarks](https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-022-05103-0) > showing that this works very well. You may need to use lower scaled > values with smaller query and target sequences, such as viral genomes > or genes, but we do not have systematic advice on this. > > That having been said, you can always use a lower scaled value - the only > consequence is that memory and compute requirements increase. > > Also, sourmash will automatically use the larger of two scaled values > when comparing two sketches with different scaled values. So if, for example, > you use [the precomputed databases](databases.md), you will always end up > using your query sketches at a minimum scaled of 1000, even if you created > them with a lower scaled value. > > Please also see [What resolution should my signatures be?](using-sourmash-a-guide.md#what-resolution-should-my-signatures-be-how-should-i-create-them). Fixes #2918 --------- Co-authored-by: Colton Baumler <63077899+ccbaumler@users.noreply.github.com>
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