I’m interested in analyzing mouse snATAC-seq data posted on the NeMO data portal.
The compressed files contain read1 and read2 fastq files with what appears to be cell barcodes/UMIs in the fastq headers. However, I’m not sure which part of these headers are cell BCs/UMIs.
Is there a recommended way to align these files? I assume these data were generated via 10x sc-atac, but cellranger requires 4 files (1 genomic read pair and 1 index read pair).
Any guidance would be greatly appreciated.