Patrick Roelli

So depending on how your libraries habve been sequenced, you ocan run everythint together. You should have fastqs for ABs and fastqs for HTO. Does cellranger give you the output...

So, depending on which kit you used from 10x, you can run RNA AB and HTO together. Whatever deviates from the normal protocol will not be compatible with the software....

This is not going to affect the analysis. Back in the day I wanted to make sure people knew what they were running and catch potential wrong lengths. In hindsight...

Hello, I have not written code that would accommodate this atm. If you want to have a stab at it, I would recommend trying out the new branch using polars...