Question: How can I compare scATAC and scRNA-seq data from the same biological sample?
Answer: We currently don't have any official guidance. However, these two recent papers describe possible ways of integrating the two types of data:
Buenrostro et al., Integrated Single-Cell Analysis Maps the Continuous Regulatory Landscape of Human Hematopoietic Differentiation, Cell (2018), https://doi.org/10.1016/j.cell.2018.03.074
- Duren et al., Integrative analysis of single-cell genomics data by coupled nonnegative matrix factorizations, PNAS (2018), https://doi.org/10.1073/pnas.1805681115