Closed sformel-usgs closed 1 year ago
The description of sampleSizeValue
in Table2 has been changed...
from "Total number of reads in the sample. This is important since it allows calculating the relative abundance of the sequence variant within the sample."
to: "Total number of reads in the sample. This is important since it allows calculating the relative abundance of the sequence variant within the sample. This number should preferably be calculated after universal processing (quality control, ASV denoising, chimera removal, etc.), but before manual/selective removal of e.g. non-target OTUs/ASVs from the dataset."
In section 2.2.1,
sampleSizeValue
is defined as, "Total number of reads in the sample. This is important since it allows calculating the relative abundance of the sequence variant within the sample."This is vague in that it doesn't define how much filtering is appropriate before defining total reads. The last sentence in section 1.3.1 is the only other place total reads are mentioned, I think, and has the same ambiguity. My intuition is that you would get a variety of answers if you asked people to define this point in Figure 4. If there is a point of consensus that was reached while developing this document, Figure 4 would be a good place to annotate it.