I have 7 samples that are multiplexed into one pool that I have also run CITE-seq on. I am trying to figure out how to create the HTO count matrix and I have tried to run the CITE-seq-Count python script that is provided as a way to create the HTO count matrix, but since they have updated the latest version, there are some bugs and I can't get the HTO count matrix. Does anyone have experience with how to quantify the HTOs? I am familiar with how to quantify the ADTs, but I have no idea about how to quantify the HTO and thus even begin with my analysis since I have to begin with demultiplexing. Any help would be appreciated, thank you!

Any help regarding this would be appreciated!