Sinto: single-cell analysis tools

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

Report issues and view source code here.

Version 0.3


  • Better handling of BAM file opening/closing

  • Add max_distance parameter to fragments to remove fragments over a certain length


  • added fragments function to create scATAC fragment file from BAM file

  • removed use of versioneer for version tracking

Version 0.2

  • added addtags function to add read tags to BAM file for different groups of cells

Version 0.1

First release. Functionality:

  • filterbarcodes