Help! I upgraded from CeleScope v.1.x to v.2.x and now the report layout looks different!

There was a major overhaul of the CeleScope code base with v.2 to make it faster and more efficient. The downside to that is the report you get in the end looks different from the previous versions. Rest assured the gene count matrices are still in the same format and compatible with popular software packages such as Seurat. We recommend upgrading to the latest version of CeleScope but if you have started a project with the previous versions, you can continue using it for consistency.