search

sdparekh / zUMIs

zUMIs: A fast and flexible pipeline to process RNA sequencing data with UMIs
GNU General Public License v3.0
271 stars 67 forks source link

How to deal with tolerating one mismatched base in each X-base barcode for reads? #251

Closed yiyelinfeng closed 3 years ago

yiyelinfeng commented 3 years ago

Hi zUMIs team,

Thanks a lot for this amazing tool to deal with single cell data! I'm wondering to know there is a function or how to set the parameters in yaml files with  tolerating one mismatched base in each X-base barcode for reads? such as the BC(1-8, 20-28, 40-48), and I want to keep one mismatched base in 1-8, 20-28, 40-48 respectively.

Thanks so much in advance for your help.

Best, Lin

cziegenhain commented 3 years ago

Hi Lin,

There is no setting for allowing exactly one mismatch in each of the individual barcode pieces. You can control the overall number of mismatches with the BarcodeBinning setting.

Best, Christoph

yiyelinfeng commented 3 years ago

Hi Lin,

There is no setting for allowing exactly one mismatch in each of the individual barcode pieces. You can control the overall number of mismatches with the BarcodeBinning setting.

Best, Christoph