Hello, @immunoengineer
Thank you for your development and maintenance for GLIPH, it is an amazing software and benefits to lots of TCR bioinformatics researchers.
Here are some minor questions about the software and TCR clustering.
- The TCR data input requires one column called count, does this mean the number of cells with the certain CDR3 sequence and V/J gene, or the number of CDR3b chains?
- I notice that "GLIPH clusters TCRs that are predicted to bind the same MHC-restricted peptide antigen" in the README file, does this mean that we can only put CDR3 data which are antigen-known? If there are several different datesets whose antigen-specificity is unknown, can I use GLIPH2 to cluster TCR sequences which are supposed to target the same antigen?
Looking forward to your reply.
Thanks and best regards,
Linqy