kidney_sc_immune

Repository for scRNAseq study of human kidneys. This is not a supported package.

Anaylsis pipeline

This repository contains the following files which illustrate the methodology in our paper. The functions and approaches described are assembled into a pipeline.

The following files pertain to this:

• Functions.R (functions used - mostly wrappers for convenience)
• SC_analysis_pipeline.R (single cell analysis pipeline)
• CellphoneDB_plotting.R (plotting pipeline for CellphoneDB)
• Pseudodepth_scores.R (approach to generate pseudodepth scores)

Genesets

This folder contains genesets used from external sources or analysis of external data for use in the analysis. Details in the README.md