This repository contains the R scripts necessary to perform the analysis in our paper Duan, Xiaohua et al. "An Airway Organoid-Based Screen Identifies a Role for the HIF1a-Glycolysis Axis in SARS-CoV-2 Infection." Cell Reports, in press, as described in the supplementary methods and main text.
The single cell RNA-seq data were generated with the 10X Chromium and pre-processed using 10X cellranger pipeline. The raw data are available in the GEO database with accession# GSE160231.
The following R packages are needed:
- Seurat
- scran
- scater
- future
- dplyr
- reshape2
- magrittr
- ggplot2
- pheatmap
- cowplot
- RColorBrewer