Question: The web_summary.html files does not show a difference between v3 or v3.1 Next GEM chemistry. Does Cell Ranger distinguish between these?
Answer: Cell Ranger does not make a distinction between v3 chemistry and v3.1 chemistry because the barcode sequences used for these assays are the same (approximately 3.6 million barcodes). Thus they are both reported as v3. There are no batch effects pertaining to these chemistries, and the software is agnostic to these chemistries.
Products: Single Cell 3' Gene Expression