Title: Single-cell transcriptomics unveils the spatiotemporal dynamics of macrophage heterogeneity and a potential role of Trem2hi macrophages in infarcted hearts
Contents: The R scripts required for analysis of the single-cell RNA-sequencing and spatial transcriptome sequencing dataset.
Data Availability: The scRNA-seq and ST-seq data sets generated in this study were deposited in Gene Expression Omnibus under the accession numbers GSE163129 and GSE165857, respectively. Sequencing reads were mapped to the mm10 version 3.0.0 reference, downloaded from the 10x Genomics (https://support.10xgenomics.com/single-cell-gene-expression/software/downloads/latest).
Packages: The analysis scripts written in R programming language use the following packages: Seurat, SingleR, SeuratWrappers, monocle3, reticulate, Matrix, gplot2, cowplot, magrittr, patchwork, dplyr, RColorBrewer, SPOTlight