I am new to TCRseq and I have some data that I would like to start analyzing. I was hoping I can get people’s input on what the best package to analyze the 10x V(D)J output would be. I am currently debating between immunarch and scRepertoire, but I do not know enough about TCRseq analysis to know which one would be best to use. Any guidance would be appreciated.
Sorry for not seeing this before – I think if you are interested in in-depth repertoire analysis – immunarch is the way to go! If you’re TCR-seq is associated with single-cell RNA data, I would [humbly] suggest scRepertoire. If you decide to use the latter, feel free to reach out if you have questions or issues.