Group samples for rarefaction curve

[marinab2]

Hello!

I am trying to create a rarefaction curve by four different groups instead of all of my samples. I read that I'll need to group my table.qza differently and then make a phyloseq object from the new table. How could I do this?

Here is my curve and code:
rarecurve(t(otu_table(DADA2phyloseq)), step=50, cex=0.5, se= TRUE, xlim= c(0,26000), col = "blue")

[pieterjanvc]

Hi,

Welcome to the RStudio community!

In order for us to help you with your question, please provide us a minimal reproducible example where you provide a minimal (dummy) dataset and code that can recreate the issue. Once we have that, we can go from there. For help on creating a Reprex, see this guide:

FAQ: How to do a minimal reproducible example ( reprex ) for beginners

A minimal reproducible example consists of the following items: A minimal dataset, necessary to reproduce the issue The minimal runnable code necessary to reproduce the issue, which can be run on the given dataset, and including the necessary information on the used packages. Let's quickly go over each one of these with examples: Minimal Dataset (Sample Data) You need to provide a data frame that is small enough to be (reasonably) pasted on a post, but big enough to reproduce your issue. Let's say, as an example, that you are working with the iris data frame head(iris) #> Sepal.Length Sepal.Width Petal.Length Petal.Width Species #> 1 5.1 3.5 1.4 0.…

I assume you have to group and summarise the data before you plot the curve, so please be sure to provide a sample of the original data, and how you'd like to group it.

Good luck!
PJ