scSLE

This repository contains the code used in our single cell sequencing paper: "Lupus susceptibility loci predispose mice to clonal lymphocytic responses and myeloid expansion"

https://pubmed.ncbi.nlm.nih.gov/35477687/

Instructions

1. Download data and code directories
2. Set data as the working directory
3. Download gex and vdj data from GSE192762 to data , available here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE192762
4. Run each script in numerical order in either Rstudio or Python. These scripts will generate the figures presented in our manuscript.
   
   NB: Expected total run time is 3 weeks