Introduction to single cell Analysis with R/seurat.

During this course we will learn how to:

Some very basic R knowledge is assumed. If you are not familiar with the R statistical programming language we strongly encourage you to work through an introductory R course, for example this r-crash-course, which should take around 1 hour.

· Single Cell Technology basics · Experimental Design · Cell Ranger QC

· Load data into R / · Seurat · QC, filter, plot, explore · Data normalization · Feature selection · Basic dimensionality reduction

· Cell clustering (Leiden and Louvain) · Identifying marker genes · Making sense of gene sets/ Functional Enrichment (decoupleR) · Annotating clusters

· Merging datasets and dealing with batch effects · Deciding whether or not to use integration · Differential expression analysis

Course Material Adapted from https://github.com/maxplanck-ie/Rseurat