@AlexKneubehl You should be able to kmer sketch them somehow, I feel like. Mash screen is what I used to use for this kind of stuff (small hash size) but idk what the cool kids do now. https://t.co/DMAnRmOpGb Failing that is it so intensive to just minima
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@DavidKoslicki Did you do a comparison with mash screen (https://t.co/tTTkOZb9e3) on synthetic data? It is not mentioned in the paper.
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@danielagaiagaio How about using Mash Screen as the first step to drop out irrelevant metagenomes (that do not contain your bug!) https://t.co/OjLiWSprd7. For samples that pass (what is a good score - i don't know), you may apply a method that can differen
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Mash Screen: high-throughput sequence containment estimation for genome discovery. https://t.co/HPcrslEPC3