Question

Mothur software analysis

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4.5 years ago

dpc ▴ 250

Hi friends!!! I am analysing data with MOTHUR software. I've gone through the MiSeq SOP. But still I have one confusion. Should I analysis the "control" and the "test" data separately or mix together and analyse at once? I am asking this as i have analysed separately but stucked at the statistical step. Any idea?

mothur 16s metagenome gut • 1.0k views

ADD COMMENT • link updated 4.5 years ago by Asaf 10k • written 4.5 years ago by dpc ▴ 250

score 0 · Answer 1 · 2020-06-17

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4.5 years ago

Asaf 10k

You should analyze everything together so the OTUs will be the same. At the end of the process you will have a count table that will include all of the samples and then you could conduct a comparative analysis.

ADD COMMENT • link 4.5 years ago by Asaf 10k

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Thank you sir for your fast response. One more query. If I analyse separately, somehow can I merge them and do PCOA and heatmap study?

ADD REPLY • link 4.5 years ago by dpc ▴ 250

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No, you'll have to run it again. That's a known downside of mothur, methods like dada2 or deblur do allow this.