Correlation between OTUs across samples

To study whether the abundance of any specific OTU is correlated to another OTU. Also, if the samples are a time-series, this can simulate the process of succession. Banjo ( is a good freeware that does this, it would be great to have Banjo embedded in MOTHUR.

Thanks for the recommendation! I’ve played a bit with Banjo and thing it’s use is a bit complicated for mothur. There are a number of preprocessing steps like binning sequence counts into discrete categories that are too squishy for me and then the interpretation of the networks are pretty difficult as well. I think it’s a good tool, but you really have to know what you’re doing to use it appropriately.