Code for the TAURUS study (Nature Immunology in press)
Contents: i) deriving the inflammatory score ii) differential abundance iii) cell-cell interaction iv) differential expression with pathway analysis v) cNMF - generating GEPs, GEP enrichment analysis and hubs vi) Progeny - deriving TNF pathway activity, and comparing pre-and post anti-TNF treatment
Please note this github is being continually updated over the coming days, we estimate the full github code and step-by-step instructions in the next 5 working days. Scripts will be organised into the relevant folders for ease of use.