My question is about normalization of the feature table (OTU table).
I need to normalize my feature-table using a compositional approach such as centered-log transformation. While reading about this on web, I came across something called “Total Sum Scaling normalisation”. I have several questions about this
- Is “Total Sum Scaling normalisation” similar to what happens when performing qiime “feature-table relative-frequency”?
“Total Sum Scaling normalisation” is described as the variable read count divided by the total number of read counts in each individual sample.
- If “Total Sum Scaling normalisation=feature-table relative-frequency”, should centered log transformation be done after performing this?
My intention is to use this normalized table to produce a network by using igraph in R.
Thanks in advance.