Single-cell epigenomic identification of inherited risk loci in Alzheimer’s and Parkinson’s disease https://www.biorxiv.org/content/10.1101/2020.01.06.896159v1 Bulk ATAC-seq data processing / peak calling scripts Differential accessibility analysis with DESeq2 and limma voom scripts Single-cell ATAC-seq data processing / peak calling scripts LD score regression: Cell type specific analyses scripts Colocalization analysis scripts SVM model training scripts SNP effect scoring with SVMs scripts SNP effect interpretation notebooks Neural network training scripts Neural network interpretation/ variant score visualization scripts