{
  "assemblies": [
    {
      "name": "melanogaster",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "melanogaster-ReferenceSequenceTrack",
        "adapter": {
          "type": "ChromSizesAdapter",
          "chromSizesLocation": {
            "uri": "melanogaster.chrom.sizes",
            "locationType": "UriLocation"
          }
        }
      }
    },
    {
      "name": "simulans",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "simulans-ReferenceSequenceTrack",
        "adapter": {
          "type": "ChromSizesAdapter",
          "chromSizesLocation": {
            "uri": "simulans.chrom.sizes",
            "locationType": "UriLocation"
          }
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "NcbiSequenceReportAliasAdapter",
          "location": {
            "uri": "simulans.sequence_report.tsv",
            "locationType": "UriLocation"
          }
        }
      }
    },
    {
      "name": "yakuba",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "yakuba-ReferenceSequenceTrack",
        "adapter": {
          "type": "ChromSizesAdapter",
          "chromSizesLocation": {
            "uri": "yakuba.chrom.sizes",
            "locationType": "UriLocation"
          }
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "NcbiSequenceReportAliasAdapter",
          "location": {
            "uri": "yakuba.sequence_report.tsv",
            "locationType": "UriLocation"
          }
        }
      }
    },
    {
      "name": "pseudoobscura",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "pseudoobscura-ReferenceSequenceTrack",
        "adapter": {
          "type": "ChromSizesAdapter",
          "chromSizesLocation": {
            "uri": "pseudoobscura.chrom.sizes",
            "locationType": "UriLocation"
          }
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "NcbiSequenceReportAliasAdapter",
          "location": {
            "uri": "pseudoobscura.sequence_report.tsv",
            "locationType": "UriLocation"
          }
        }
      }
    },
    {
      "name": "virilis",
      "sequence": {
        "type": "ReferenceSequenceTrack",
        "trackId": "virilis-ReferenceSequenceTrack",
        "adapter": {
          "type": "ChromSizesAdapter",
          "chromSizesLocation": {
            "uri": "virilis.chrom.sizes",
            "locationType": "UriLocation"
          }
        }
      },
      "refNameAliases": {
        "adapter": {
          "type": "NcbiSequenceReportAliasAdapter",
          "location": {
            "uri": "virilis.sequence_report.tsv",
            "locationType": "UriLocation"
          }
        }
      }
    }
  ],
  "configuration": {},
  "connections": [],
  "defaultSession": {
    "name": "Drosophila orthology synteny",
    "views": [
      {
        "type": "LinearSyntenyView",
        "displayName": "melanogaster - simulans - yakuba - pseudoobscura - virilis (OrthoFinder orthogroups)",
        "views": [
          {
            "assembly": "melanogaster"
          },
          {
            "assembly": "simulans"
          },
          {
            "assembly": "yakuba"
          },
          {
            "assembly": "pseudoobscura"
          },
          {
            "assembly": "virilis"
          }
        ],
        "tracks": [
          ["drosophila_orthogroups"],
          ["drosophila_orthogroups"],
          ["drosophila_orthogroups"],
          ["drosophila_orthogroups"]
        ],
        "color": { "field": "reference" },
        "autoDiagonalize": true,
        "sameScale": true,
        "collapseEmptyRows": true
      }
    ]
  },
  "tracks": [
    {
      "type": "FeatureTrack",
      "trackId": "melanogaster_genes",
      "name": "melanogaster genes",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "melanogaster.sorted.gff3.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "melanogaster.sorted.gff3.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "assemblyNames": ["melanogaster"]
    },
    {
      "type": "FeatureTrack",
      "trackId": "simulans_genes",
      "name": "simulans genes",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "simulans.sorted.gff3.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "simulans.sorted.gff3.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "assemblyNames": ["simulans"]
    },
    {
      "type": "FeatureTrack",
      "trackId": "yakuba_genes",
      "name": "yakuba genes",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "yakuba.sorted.gff3.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "yakuba.sorted.gff3.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "assemblyNames": ["yakuba"]
    },
    {
      "type": "FeatureTrack",
      "trackId": "pseudoobscura_genes",
      "name": "pseudoobscura genes",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "pseudoobscura.sorted.gff3.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "pseudoobscura.sorted.gff3.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "assemblyNames": ["pseudoobscura"]
    },
    {
      "type": "FeatureTrack",
      "trackId": "virilis_genes",
      "name": "virilis genes",
      "adapter": {
        "type": "Gff3TabixAdapter",
        "gffGzLocation": {
          "uri": "virilis.sorted.gff3.gz",
          "locationType": "UriLocation"
        },
        "index": {
          "location": {
            "uri": "virilis.sorted.gff3.gz.csi",
            "locationType": "UriLocation"
          },
          "indexType": "CSI"
        }
      },
      "assemblyNames": ["virilis"]
    },
    {
      "type": "SyntenyTrack",
      "trackId": "drosophila_orthogroups",
      "name": "Drosophila orthogroups (OrthoFinder)",
      "assemblyNames": [
        "melanogaster",
        "simulans",
        "yakuba",
        "pseudoobscura",
        "virilis"
      ],
      "adapter": {
        "type": "MCScanBlocksAdapter",
        "uri": "melanogaster.blocks.gz",
        "blockAssemblies": [
          "melanogaster",
          "pseudoobscura",
          "simulans",
          "virilis",
          "yakuba"
        ],
        "bedLocations": [
          {
            "uri": "melanogaster.bed.gz"
          },
          {
            "uri": "pseudoobscura.bed.gz"
          },
          {
            "uri": "simulans.bed.gz"
          },
          {
            "uri": "virilis.bed.gz"
          },
          {
            "uri": "yakuba.bed.gz"
          }
        ],
        "assemblyNames": [
          "melanogaster",
          "simulans",
          "yakuba",
          "pseudoobscura",
          "virilis"
        ]
      }
    },
    {
      "type": "SyntenyTrack",
      "trackId": "drosophila_blocks",
      "name": "Drosophila collinear blocks (MCScanX)",
      "assemblyNames": [
        "melanogaster",
        "simulans",
        "yakuba",
        "pseudoobscura",
        "virilis"
      ],
      "adapter": {
        "type": "MultiGenomePAFAdapter",
        "uri": "drosophila.blocks.paf.gz",
        "assemblyNames": [
          "melanogaster",
          "simulans",
          "yakuba",
          "pseudoobscura",
          "virilis"
        ]
      }
    }
  ]
}