gild/dxapp.json at master · AnalysisCommons/gild · GitHub

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{
  "name": "gild_v1",
  "title": "GDS Into LD",
  "summary": "This app finds the LD between a snp and its regional neighbors from a GDS file using PLINK.",
  "tags": [
    "Statistics "
  ],
  "dxapi": "1.0.0",
  "inputSpec": [
    {
      "name": "gds_file",
      "label": "GDS genotype file",
      "class": "file",
      "optional": false
    },
    {
      "name": "lead_snp",
      "label": "Variant ID (CHR:POS) of lead SNP",
      "class": "string",
      "optional": false
    },
    {
      "name": "start_pos",
      "label": "Starting BP position",
      "class": "int",
      "optional": false
    },
    {
      "name": "stop_pos",
      "label": "Ending BP position",
      "class": "int",
      "optional": false
    },
    {
      "name": "results_files",
      "label": "Label for resulting files",
      "class": "string",
      "optional": true,
      "default": "ld_results"
    },
    {
      "name": "ld_window_kb",
      "label": "Value for PLINK option 'ld-window-kb'",
      "class": "int",
      "optional": true,
      "default": 1000
    },
    {
      "name": "ld_window",
      "label": "Value for PLINK option 'ld-window'",
      "class": "int",
      "optional": true,
      "default": 99999
    },
    {
      "name": "ld_window_r2",
      "label": "Value for PLINK option 'ld-window-r2'",
      "class": "float",
      "optional": true,
      "default": 0
    }
  ],
  "outputSpec": [
    {
      "name": "ld_results",
      "class": "array:file"
    }
  ],
  "runSpec": {
    "execDepends": [
      {
        "name": "libxml2-dev"
      }
    ],
    "file": "src/code.sh",
    "release": "14.04",
    "interpreter": "bash",
    "distribution": "Ubuntu"
  },
  "access": {
    "project": "CONTRIBUTE",
    "allProjects": "CONTRIBUTE",
    "network": [
      "*"
    ]
  }
}