config.json

{
  "plot_parameters": {
    "width": 200,
    "pixel_size": 18,
    "dark_start": 0.75,
    "dark_max": 0.4,
    "custom_gene_window": 10000
  },
  "basic_parameters": {
    "data_folder": null,
    "chunk_size": 450,
    "row_length": null,
    "missing_tolerance": null,
    "plot_folder": null
  },
  "color_schema": {
    "chromosome_colors": {
      "centromere": "#9393FF",
      "heterochromatin": "#F9D2C2",
      "intergenic": "#A3E0D1",
      "exon": "#FFD326",
      "gene": "#6CB8CC",
      "dummy": "#B3F29D"
    },
    "gwas_point": "#000000",
    "arrow_colors": {
      "line_color": "#6495ED",
      "utr_color": "#FFE4B5",
      "cds_color": "#ADD8E6"
    },
    "cytoband_colors": {
      "gneg": "#FFFFFF",
      "gpos25": "#E5E5E5",
      "gpos50": "#CCCCCC",
      "gpos75": "#B3B3B3",
      "gpos100": "#999999",
      "acen": "#CCCCCC",
      "gvar": "#999999",
      "stalk": "#E5E5E5",
      "border": "#000000"
    }
  },
  "source_data": {
    "cytoband_data": {
      "url": "http://rest.ensembl.org/info/assembly/homo_sapiens?content-type=application/json&bands=1",
      "processed_file": "processed_cytoBand.bed.gz",
      "genome_build": null
    },
    "ensembl_data": {
      "host": "ftp.ensembl.org",
      "path": "/pub/release-{}/fasta/homo_sapiens/dna",
      "source_file": "Homo_sapiens.GRCh38.dna.primary_assembly.fa.gz",
      "version_url": "http://rest.ensembl.org/info/data/?content-type=application/json",
      "release": null,
      "processed_file": "processed_chr{}.bed.gz"
    },
    "gencode_data": {
      "host": "ftp.ebi.ac.uk",
      "path": "/pub/databases/gencode/Gencode_human",
      "source_file": "gencode.v{}.annotation.gtf.gz",
      "processed_file": "processed_gencode.bed.gz",
      "arrow_file": "processed_gencode_arrow.bed.gz",
      "version": null,
      "release_date": null
    },
    "gwas_data": {
      "host": "ftp.ebi.ac.uk",
      "path": "/pub/databases/gwas/releases/latest",
      "source_file": "gwas-catalog-associations_ontology-annotated.tsv",
      "processed_file": "processed_GWAS.bed.gz",
      "release_date": null
    }
  }
}