Sinto is a toolkit for processing aligned single-cell data. Sinto includes functions to:

• Subset reads from a BAM file by cell barcode
• Create a scATAC-seq fragments file from a BAM file
• Add read tags to a BAM file according to cell barcode information
• Add read groups based on read tags
• Copy or move read tags to another read tag
• Copy cell barcodes to/from read names or read tags
• Add cell barcodes to FASTQ read names

Read the documentation at https://timoast.github.io/sinto