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

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{
  "name": "qqplot",
  "title": "qqplot",
  "summary": "This applet generates a qq plot from the input p-value data.",
  "dxapi": "1.0.0",
  "inputSpec": [
    {
      "name": "datafile",
      "class": "array:file",
      "patterns": ["*.Rda", "*.txt", "*.csv", "*.txt.gz", "*.csv.gz"],
      "optional": false
    },
    {
      "name": "label",
      "label": "Label",
      "class": "string",
      "optional": true,
      "default": "test"
    },
    {
      "name": "output_type",
      "label": "The filetype of the output plot. Must choose 'png', 'tiff', or 'pdf'.",
      "class": "string",
      "optional": true,
      "default": "png",
      "choices": [
        "png",
        "tiff",
        "pdf"
      ]
    },
    {
      "name": "p_col",
      "label": "The name your p-value column in the dataset. Must be the same if plotting multiple datasets (e.g. merging chromosomes).",
      "class": "string",
      "optional": true,
      "default": "p"
    },
    {
      "name": "filter",
      "label": "String: The threshold to apply to the filtering column. Eg. 'maf>0.05' or 'MAC>7'",
      "class": "string",
      "optional": true,
      "default": "FALSE"
    },
    {
      "name": "use_gc_lambda",
      "label": "Print the GC Lambda value?",
      "class": "boolean",
      "optional": true,
      "default": true
    },
    {
      "name": "include_ci",
      "label": "Include the confidence interval in this plot?",
      "class": "boolean",
      "optional": true,
      "default": true
    },
    {
      "name": "qq_color",
      "label": "The color of points in the QQ plot.",
      "class": "array:string",
      "optional": true,
      "default": [
        "blue"
      ]
    },
    {
      "name": "qq_color_criteria",
      "label": "Color filtering criteria: Color all points identified by a given criterion (eg. 'maf<0.05') with a specified color. Multiple criteria may be used as long as you give an equal amount of color names in the parameter above.",
      "class": "array:string",
      "optional": true,
      "default": [
        "FALSE"
      ]
    }
  ],
  "outputSpec": [
    {
      "name": "qqplots",
      "label": "qqplots",
      "class": "array:file"
    }
  ],
  "runSpec": {
    "systemRequirements": {
      "process": {
        "instanceType": "mem3_ssd1_x2"
      },
      "main": {
        "instanceType": "mem3_ssd1_x2"
      },
      "*": {
        "instanceType": "mem3_ssd1_x2"
      }
    },
    "file": "src/code.sh",
    "interpreter": "bash"
  },
  "access": {
    "project": "CONTRIBUTE",
    "allProjects": "CONTRIBUTE",
    "network": [
      "*"
    ]
  }
}