Generating a rarefaction curve from collector's curves in R within the tidyverse (CC198)

[@alqu2222]

Can you please elaborate on the structure (columns) of the data file you are using for this video?

[@biologyq]

Do you have advice for what to do if the volume (or area) of each sample obtained is not the same?

[@camilobarbosa3464]

How would you compare two or more groups? Thank you, very helpful!

[@Riffomonas]

I generally use rarefaction to get the metric calculated to a common number of sequences and then use a wilcoxon or kruskal-wallis test to compare between groups

[@camilobarbosa3464]

@@Riffomonas I understand. So let's say I have four groups that vary vastly in number of individuals sequenced, I obtained the rarefaction curves for each group, and filtered them all to have the same number of individuals as the group with the lowest number of individuals. I can then calculate the metric at a number of sequences they all have and then do a comparison of the 4 values using wilcoxon? Since my number of groups is so low, I just wanted to check if I am thinking in the right direction. Thanks again!

[@Riffomonas]

@@camilobarbosa3464 Do you mean four groups with numerous samples in each or four samples total? If you have four groups with replications, then you'd use kruskall-wallis. If you have four samples, then you'll probably only want to compare them to each other qualitatively