├── % ├── LICENSE ├── README.md ├── cicero_parallel.R ├── cicero_parallel.sh ├── compute_ld_scores_jointModel.sh ├── compute_ldsc_enrichment.sh ├── images └── Figure1.png ├── integrated_pseudotime.Rmd ├── peak_gene_correlation.R ├── peak_gene_correlation.sh ├── peak_gene_correlation_diagnosis.R ├── peak_gene_correlation_diagnosis.sh ├── scWGCNA.R ├── snATAC_DARs.Rmd ├── snATAC_GWAS_plotting.Rmd ├── snATAC_RVAE_modeling.Rmd ├── snATAC_RVAE_modeling.py ├── snATAC_TF-networks.Rmd ├── snATAC_cCRE_gene_links.Rmd ├── snATAC_cluster_characterization.Rmd ├── snATAC_footprinting.Rmd ├── snATAC_plotting.Rmd ├── snATAC_processing.R ├── snRNA_5xFAD_integration.Rmd ├── snRNA_DEGs.R ├── snRNA_Mathys2019_integration.R ├── snRNA_cluster_characterization.Rmd ├── snRNA_plotting.Rmd ├── snRNA_processing.R ├── snRNA_scWGCNA_plotting.Rmd └── snRNA_snATAC_comparison.Rmd /%: -------------------------------------------------------------------------------- 1 | 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