Single-cell (from 10X Genomics) analysis of 9 tumoral samples.<br>
Single-cell (from 10X Genomics) analysis of 9 tumoral samples:
- _1_fastMNN_analysis.R_: standard analysis with Seurat (v3.2.2) on merged samples and batch removal with FastMMN, and also on cell-type sepcific subsets.
- _2_fastMNN_DGE.R_: differential gene expression analysis among treaments on the Full dataset and on cell-type specific subsets.
- _3_macroGTvsCtrlPost.R_: differential gene expression analysis on macropahges merging the 2 treatment condisions (high and low) vs. control, with also post-analyses (GSEA and enrichment).
- _4_monocle.R_: pseudotime analysis with Monocle3.
- _5_prepareSCVelo.R_: script to prepare input file for velocity analysis with scVelo.
- _6_prepare_plots.R_: script to produce plots of the paper.
