Hello All!
I am looking to some microbiome work of fecal samples (16S V4 MiSeq). We are interested in detection a number of specific groups of bacteria in the samples. Specifically E. Coli and different Klebsiella species.
I would like to know in silico whether we will be able to differentiate between species after we run the sequencing.
What is the best method for testing whether our V4 sequencing will be able to differentiate to species level? Should I just be doing a bunch of blasting or would making a mock in silico community work best?
Thanks for any help
Mark
I am looking to some microbiome work of fecal samples (16S V4 MiSeq). We are interested in detection a number of specific groups of bacteria in the samples. Specifically E. Coli and different Klebsiella species.
I would like to know in silico whether we will be able to differentiate between species after we run the sequencing.
What is the best method for testing whether our V4 sequencing will be able to differentiate to species level? Should I just be doing a bunch of blasting or would making a mock in silico community work best?
Thanks for any help
Mark
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