Thanks for developing this exciting method! I am working with RNA-seq BAM files that store alignments from multiple SMART-Seq-like cells. These files use a different tag to mark the cell barcode (not CB or CR). My contributions are the following:
I edited bin/scTE and scTE/base.py to handle any tag for CB or UMI.
I updated many of the bstrings to fstrings to improve readability.
I did not make this change to the ATAC-seq scripts
Thanks for developing this exciting method! I am working with RNA-seq BAM files that store alignments from multiple SMART-Seq-like cells. These files use a different tag to mark the cell barcode (not CB or CR). My contributions are the following:
bin/scTEandscTE/base.pyto handle any tag for CB or UMI.I did not make this change to the ATAC-seq scripts