Hi,
I was under the assumption that I did not have to rarefy the dataset when working w Deseq, but I am unsure if I have to do data cleanup, for example removing the samples with less than a certain amount of reads.
While looking at how to make a graph for changes in species over time, I ran into this tutorial with this information of pruning sample sums to a certain number. Can you please let me know if this is correct and if I actually need to do this, or when I would do this?
Tutorial-link Here's what is what says " Also remove samples with less than 500 reads (counts). Note that this kind of data cleanup is useful, necessary, and should be well-documented because it can also be dangerous to alter or omit data without clear documentation. In this case, I actually explored the data first, and am omitting some of the details (and explanatory plots) here for clarity."
