This repository consists of two Jupyter Notebooks created to document a comparison of a mouse brain snATAC-seq (single nuclei assay for transposase accessible chromatin with sequencing) data set from CATlas with a scRNA-seq (single cell RNA sequencing) data set from the Linnarsson lab's Mouse brain atlas. Specifically, in this code, I identify differences in neuronal vs other cell types in the mouse brain based on chromatin accessibility (snATAC-seq signal of a specific region aggregated by cell type/cluster) and gene expression (scRNA-seq signal aggregated by cell type/cluster).
Data downloaded for use with this application come from multiple sources:
Data from CATlas: http://catlas.org/mousebrain/
Data from Linnarsson lab's Mouse Brain Atlas: http://mousebrain.org/