{
    "analysis": {
        "clustering": {
            "atac": {
                "graphclust": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/graphclust/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/graphclust/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/graphclust/differential_expression.csv"
                },
                "kmeans_2_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_2_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_2_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_2_clusters/differential_expression.csv"
                },
                "kmeans_3_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_3_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_3_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_3_clusters/differential_expression.csv"
                },
                "kmeans_4_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_4_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_4_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_4_clusters/differential_expression.csv"
                },
                "kmeans_5_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_5_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_5_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/atac/kmeans_5_clusters/differential_expression.csv"
                }
            },
            "gex": {
                "graphclust": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/graphclust/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/graphclust/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/graphclust/differential_expression.csv"
                },
                "kmeans_2_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_2_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_2_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_2_clusters/differential_expression.csv"
                },
                "kmeans_3_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_3_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_3_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_3_clusters/differential_expression.csv"
                },
                "kmeans_4_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_4_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_4_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_4_clusters/differential_expression.csv"
                },
                "kmeans_5_clusters": {
                    "clusters": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_5_clusters/clusters.csv",
                    "differential_accessibility": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_5_clusters/differential_accessibility.csv",
                    "differential_expression": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/clustering/gex/kmeans_5_clusters/differential_expression.csv"
                }
            }
        },
        "dimensionality_reduction": {
            "atac": {
                "lsa_components": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/lsa_components.csv",
                "lsa_dispersion": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/lsa_dispersion.csv",
                "lsa_features_selected": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/lsa_features_selected.csv",
                "lsa_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/lsa_projection.csv",
                "lsa_variance": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/lsa_variance.csv",
                "tsne_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/tsne_projection.csv",
                "umap_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/atac/umap_projection.csv"
            },
            "gex": {
                "pca_components": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/pca_components.csv",
                "pca_dispersion": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/pca_dispersion.csv",
                "pca_features_selected": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/pca_features_selected.csv",
                "pca_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/pca_projection.csv",
                "pca_variance": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/pca_variance.csv",
                "tsne_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/tsne_projection.csv",
                "umap_projection": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/dimensionality_reduction/gex/umap_projection.csv"
            }
        },
        "feature_linkage": {
            "feature_linkage": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/feature_linkage/feature_linkage.bedpe",
            "feature_linkage_matrix": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/feature_linkage/feature_linkage_matrix.h5"
        },
        "tf_analysis": {
            "filtered_tf_bc_matrix": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/tf_analysis/filtered_tf_bc_matrix",
            "filtered_tf_bc_matrix_h5": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/tf_analysis/filtered_tf_bc_matrix.h5",
            "peak_motif_mapping": "/home/benjames/data4/10X/human_brain_3k/outs/analysis/tf_analysis/peak_motif_mapping.bed"
        }
    },
    "atac_cut_sites": "/home/benjames/data4/10X/human_brain_3k/outs/atac_cut_sites.bigwig",
    "atac_fragments": "/home/benjames/data4/10X/human_brain_3k/outs/atac_fragments.tsv.gz",
    "atac_fragments_index": "/home/benjames/data4/10X/human_brain_3k/outs/atac_fragments.tsv.gz.tbi",
    "atac_peak_annotation": "/home/benjames/data4/10X/human_brain_3k/outs/atac_peak_annotation.tsv",
    "atac_peaks": "/home/benjames/data4/10X/human_brain_3k/outs/atac_peaks.bed",
    "atac_possorted_bam": "/home/benjames/data4/10X/human_brain_3k/outs/atac_possorted_bam.bam",
    "atac_possorted_bam_index": "/home/benjames/data4/10X/human_brain_3k/outs/atac_possorted_bam.bam.bai",
    "cloupe": "/home/benjames/data4/10X/human_brain_3k/outs/cloupe.cloupe",
    "filtered_feature_bc_matrix_h5": "/home/benjames/data4/10X/human_brain_3k/outs/filtered_feature_bc_matrix.h5",
    "filtered_feature_bc_matrix_mex": "/home/benjames/data4/10X/human_brain_3k/outs/filtered_feature_bc_matrix",
    "gex_molecule_info": "/home/benjames/data4/10X/human_brain_3k/outs/gex_molecule_info.h5",
    "gex_possorted_bam": "/home/benjames/data4/10X/human_brain_3k/outs/gex_possorted_bam.bam",
    "gex_possorted_bam_index": "/home/benjames/data4/10X/human_brain_3k/outs/gex_possorted_bam.bam.bai",
    "per_barcode_metrics": "/home/benjames/data4/10X/human_brain_3k/outs/per_barcode_metrics.csv",
    "raw_feature_bc_matrix_h5": "/home/benjames/data4/10X/human_brain_3k/outs/raw_feature_bc_matrix.h5",
    "raw_feature_bc_matrix_mex": "/home/benjames/data4/10X/human_brain_3k/outs/raw_feature_bc_matrix",
    "summary": "/home/benjames/data4/10X/human_brain_3k/outs/summary.csv",
    "web_summary": "/home/benjames/data4/10X/human_brain_3k/outs/web_summary.html"
}