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  • Can I run shallow shotgun sequencing on ~500 samples for under $20k?

    Hi all,

    I am trying to figure out the cost of running shallow shotgun sequencing on gut microbiome samples but am having some trouble. What I found is I could get away with a NovaSeq600 at 150bp for about $5k and this would likely cover 100 samples. My first question is: is NovaSeq6000 the go to for metagenomic sequencing still? And also, how many samples are people fitting per run these days to characterize microbiome metagenomes?

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