assocplot/assoc_plot.json at master · AnalysisCommons/assocplot · GitHub

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{
  "document_name": "Analysis Common App: assocplot",
  "app_name": "app_assocplot.json",
  "maintainer": "",
  "maintainer_email": "",
  "location": "Common_Tools/",
  "summary": "",
  "tags": [""],
  "version": "",
  "introSpec": {
	  "app_purpose": "",
	  "app_use_cases": "",
	  "app_requirements": "",
	  "app_output": "",
	  "app_how_does_it_work": ""
	},
  "inputSpec": [
    {
      "common": [
        {
          "name": "Data File",
          "class": "file",
          "label": "",
          "optional": "False",
          "details": ""
        }
        {
          "name": "LD File",
          "class": "file",
          "label": "",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Label",
          "class": "string",
          "label": "Enter a prefix for your output plot (no spaces).",
          "optional": "False",
          "details": ""
        },
        {
          "name": "Output Type",
          "class": "string",
          "label": "The filetype of the output plot. Must choose 'png', 'tiff', or 'pdf'",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Output Arguments",
          "class": "string",
          "label": "Optional arguments for graphics function: eg. width, height, res, ppi, units, etc.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Trait Name",
          "class": "string",
          "label": "Optional name of trait to appear in plot title. Ex: LDL, SBP, etc.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Group Name",
          "class": "string",
          "label": "Optional group/project name to appear in plot title. Ex: CHARGE, CHARGE-T2D, TOPMED, etc.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "LD Filetype",
          "class": "string",
          "label": "The format of the LD file. PLINK or Haploview supported at this time.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "SNP Column",
          "class": "string",
          "label": "Marker column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Gene Column",
          "class": "string",
          "label": "Gene (or other form of aggregation) column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Chromosome Column",
          "class": "string",
          "label": "Chromosome column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Position Column",
          "class": "string",
          "label": "Position column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "P-Value Column",
          "class": "string",
          "label": "P-value column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Frequency Column",
          "class": "string",
          "label": "Frequency column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "HetDF Column",
          "class": "string",
          "label": "HetDF column name",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Index SNP",
          "class": "string",
          "label": "Index SNP (chr:pos) in the specific region to display.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Index Gene",
          "class": "string",
          "label": "Index gene in the specific region to display.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Index Region",
          "class": "string",
          "label": "Index region to display. Ex: '16:100000,16:200000'",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Region Width",
          "class": "string",
          "label": "	Width of window around index SNP. Default 500kb.",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Ancestry",
          "class": "string",
          "label": "	Ancestry group (AFR or CEU)",
          "optional": "False",
          "details": ""
        }
        {
          "name": "Chr",
          "class": "string",
          "label": "",
          "optional": "False",
          "details": ""
        }
      ]
    },
    {
      "advanced": [
	    {
          "name": "",
		  "class": "",
		  "label": "",
		  "optional": "False",
		  "details": ""
	    }
	  ]
    }
  ],
  "outputSpec": [
    {
      "name": "Assoc Plot",
	  "class": "file",
	  "label": "",
	  "details": ""
	}
  ],
  "runSpec": {
    "details": ""
  },
  "cmdLineSpec": {
    "details": ""
  }
}