DiVenn 2 takes an annotated input H5AD file, compares differentially expressed gene (DEG) results and visualizes gene expression and module score on the UMAP or t-SNE plots if available. There are three ways to prepare the input file:

• Calculate DEGs based on annotations in the H5AD file in the browser
• Use our Docker pipeline to compute DEGs with a RDS file from Seurat or a H5AD file from Scanpy
• Load a H5AD file with DEGs computed by Scanpy

Please refer to the GitHub page for more information on the pipeline. The scRNAseq analysis module only works in Firefox and Chromium based browsers (e.g. Google Chrome and Microsoft Edge).