I downloaded a set of scATAC-seq BAM files from an article database, and the author said that a BAM file is information about a cell. However, after a few days' analysis of the script given by the author, I found that a CSV file of metadata annotations for peaks was missing, and I searched online but couldn't find the method to generate this file. Can someone tell me which tool or package can produce this file.
In addition, I tried to use the Seurat and ArchR analyses, but I found that they applied to the files processed by CellRanger. Can you tell me how BAM files can be analyzed using CellRanger.