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I am trying to follow the tutorial to build a cDNA intron index for single nucleus data processing on 10x.
I am following the steps to generate the BED file, but I am not sure where to input the information for the flank size.
Here is what I see on UCSC browser when following the instructions:
Where should I put the L-1 flank?
Also, regarding the input FASTQ files, these are the files that come out after I've run mkfastq in CellRanger, yes?
Thanks!
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