Selection of R scripts for the analysis of 10X single cell RNAseq data
Cell_align_NMR_vs_human.r : perform an alignment of pseudotime trajectories using Cellalign
Cell_align_NMR_vs_human_analyse_mapping_alignment_chunks.r : identify alignment regions of pseudotime expansion/contraction between query and reference (for example, a small pseudotime region in the query aligned to a larger region in the reference)
Integrate_3species_single_samples_rPCA.r: perform integration of 3 Seurat objects
Monocle3_pseudotime.r: calculate Monocle3 pseudotime trajectories
EMT_analysis.r : calculate a score for sets of genes associated with epithelial and mesenchymal cell types.
run_velocyto_NMR_EpithelialCells_perBiopsy.r : calculate and visualise RNA velocity