LEfSe on familiy level?

Commands in mothur
1

Hello,

is it possible to use the lefse implementation of mothur on family level instead of OTU level? Or is there an alternative to compare if famalies in two grpups have changed?

Thanks

2

Sure - you would use the phylotype command and then generate a shared file. You could use that shared file as input to lefse. This is kind of outlined towards the end of the MiSeq SOP page.

pat

3

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