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scRNAseq-preparation

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

  • Use our Docker pipeline to compute DEGs with a Rds file from Seurat or a H5AD file from Scanpy (Recommended)
  • Load a H5AD file with DEGs computed by Scanpy
  • Calculate DEGs in the browser (Chrome and FireFox) with Scran.js

Please refer to the GitHub page for more information on the pipeline.

Try the sample data.

Or

Load your H5AD data.

The H5AD could contain pre-computed DEGs from our Docker pipeline or Scanpy.