I have two microbiome datasets which are sequenced from different sites within the environment. I would to like to identify amplicon sequence variants inferred using DADA2 which are shared between the two datasets and also those which are unique. The problem is i'm not 100% sure of the best way to do this. So far I have tried megablast and just looking at exact matches between the two datasets but perhaps there is a better way of doing this, for example another alignment tool or alignment free method but unfortunately I don't have the experience to be able to decide on the best method. Does anyone with more experience of working with microbiome data know of a better way?
Question: Identifying shared exact sequence variants between two datasets
3 months ago by
adam.sorbie • 0
adam.sorbie • 0 wrote:
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