This repository contains code used for analysis of the single-cell RNA-seq data from Joshi, Watanabe et al., "A spatially restricted fibrotic niche in pulmonary fibrosis is sustained by M-CSF/M-CSFR signaling in monocyte-derived alveolar macrophages", bioRxiv, 2019 (https://www.biorxiv.org/content/10.1101/569855v1).

1. Joshi_Watanabe_ERJ_2019_asbestos.R - R code to analyse the asbestos dataset.
2. Joshi_Watanabe_ERJ_2019_bleomycin.R - R code to analyse the bleomycin dataset from Xie et al. 2019.
3. Interactome - code to analyse ligand-receptor interactions in the asbestos dataset.