Why do cell barcodes in my Trekker data have low overlap with cell barcodes from the single-nucleus sequencing data?
Why do cell barcodes in my Trekker data have low overlap with cell barcodes from the single-nucleus sequencing data?
The most likely cause is that a legacy Trekker tile was used for the experiment while TrekkerU_C or TrekkerU_CX was input for the 'sc_platform' value in the samplesheet.csv for pipeline analysis. To see if you are using a legacy Trekker tile, check the tile ID. If the tile ID is in the format CXXX_XXXX, this means a legacy Trekker tile was used. If so, modify the value 'sc_platform' in your samplesheet.csv to TrekkerC (10x 3’ NextGEM) or TrekkerCX.( 10x 3’ GEMX). If the tile ID is in the format of UXXX_XXXX, then the legacy tile was not used. In this case, contact us at [email protected] for further assistance.