Our Single-Cell T-cell Receptor and Expression Grouped Ontologies (STEGO) tool, funded by the Chan-Zuckerberg Initiative, allows dual interrogation of the single cell RNA-seq with T cell receptor (TCR)-seq. STEGO.R is a shiny R application that includes several steps to unravel the complexity of single cell RNA+TCR data sets. Predictions made by TCRex can be directly fed into the tool under ‘Step 4. Analysis’ → ‘TCR → GEx’ → 'Epitope (TCRex)'.

More information on the installation of STEGO.R and its functionalities can be found at: https://stegor.readthedocs.io/en/latest/