Question: Does Single Cell Gene Expression 3' LT (Low Throughput) v3.1 chemistry have a separate barcode inclusion list? Or it uses the same barcode inclusion list as 3’ v3.1 chemistry?
Answer: A barcode inclusion list is the list of all known barcode sequences that have been included in the assay kit and are available during library preparation.
Single Cell 3’ LT v3.1 chemistry has a separate barcode inclusion list. You can find the LT barcode inclusion list file (with "LT" in the file name) bundled inside your Cell Ranger installation:
cellranger-x.y.z/lib/python/cellranger/barcodes/
Note that the inclusion list for 3’v3 LT is only available starting from Cell Ranger version 6.0. Also, LT analysis has been disabled from Cell Ranger v8.0. Use Cell Ranger v7.2 to analyze your LT libraries.
Products: Single Cell Gene Expression
Last Updated: March 13, 2024