QuestionsCategory: Single-Cell RNA-SeqDo I need to have extensive bioinformatic knowledge to explore my Cell Ranger results?
dadkhahe@nih.gov asked 3 months ago
1 Answers
dadkhahe@nih.gov answered 3 months ago

10x provides Loupe Browser desktop application which is pretty simple, straight forward, and efficient app to explore Cell Ranger Data. There is a very good introduction on 10x website that explains how to use and what you can use it for and it doesn’t need any bioinformatics knowledge.
 
Loupe Browser supports the analysis of the following types of data:

  • 3’and 5’ single cell gene expression data.
  • Feature Barcode data including those interrogating cell surface proteins and CRISPR perturbations.
  • Overlaying V(D)J clonotype information on top of 5’ single cell gene expression data.
  • Single cell ATAC data
  • Spatial gene expression data

https://support.10xgenomics.com/single-cell-gene-expression/software/visualization/latest/what-is-loupe-cell-browser