I'm trying to learn how to perform differential gene expression analysis in R using single cell RNA sequencing data to determine which genes are differentially expressed between clusters (cell type) of osteosarcoma tissue sample.
The public dataset can be found here: https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSM4952363. It has 3 data files: barcodes, features, and matrix.
Does anyone know how I might start the analyses. Also for the count matrix are the genes in rows, cells in columns?
I have seen this workflow: http://bioconductor.org/books/3.14/OSCA.multisample/multi-sample-comparisons.html#performing-the-de-analysis but am still confused.