{
	"intersect": {
		"command": "intersect",
		"lead": "Bedtools Intersect",
		"description": "Bedtools function: intersect -a [file] -b [file] \n This function finds the overlapping area between file a and file b. ",
		"warning": "Please select TWO files using checkboxes",
		"button": "Intersect BED files",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Intersection of ",
		"bedtoolscmd":"bedtools intersect -a %s -b %s"
	},
	"copy": {
		"command": "copy",
		"lead": "Copy the BEDfile",
		"description": "This function copies the content of a file and writes that content to a new file with a name of 'copy_of_[file]'",
		"warning": "Please select ONE file using checkboxes",
		"button": "Copy BED file",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Copy of ",
		"bedtoolscmd":""

	},
	"closest": {
		"command": "closest",
		"lead": "Bedtools Closest",
		"description": "Bedtools function: closest -a [file] -b [file] \n This function finds overlapping features between file a and file b, in the event there is no overlap, closest will return the nearest part of b (that is the least genomic distance from either the start or end of a)",
		"warning": "Please select TWO files using checkboxes",
		"button": "Find Closest",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Closest ",
		"bedtoolscmd":"bedtools closest -a %s -b %s"
	},
	"intersect-v": {
		"command": "intersect-v",
		"lead": "Bedtools Intersect No Overlap",
		"description": "Bedtools function: intersect -a [file] -b [file] -v \n This function reports only those sections in A that have no overlaps with sections in B",
		"warning": "Please select TWO files using checkboxes",
		"button": "Intersect BED files",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Intersect subtraction of ",
		"bedtoolscmd":"bedtools intersect -a %s -b %s -v"
	},
	"intersect-wao": {
		"command": "intersect-wao",
		"lead": "Bedtools Intersect No Overlap",
		"description": "Bedtools function: intersect -a [file] -b [file] -wao \n This function reports the original A and B entries plus the number of basepairs of overlap between the two features.",
		"warning": "Please select TWO files using checkboxes",
		"button": "Intersect BED files",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Intersect plus overlap of ",
		"bedtoolscmd":"bedtools intersect -a %s -b %s -wao"
	},
	"window-w": {
		"command": "window-w",
		"lead": "Bedtools Window 10,000",
		"description": "Bedtools function: window -a [file] -b [file] -w \n This function examines a 'window' around each feature in A and reports all features in B that overlap the window. For each overlap the entire entry in A and B are reported. 10000 basepairs added upstream and downstream of each entry in A when searching for overlaps in B.",
		"warning": "Please select TWO files using checkboxes",
		"button": "Find Window",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Window of ",
		"bedtoolscmd":"bedtools window -a %s -b %s -w 10000"
	},
	"jaccard": {
		"command": "jaccard",
		"lead": "Bedtools Jaccard",
		"description": "Bedtools function: jaccard -a [file] -b [file] \n This function calculate Jaccard statistic between two feature files. Jaccard is the length of the intersection over the union. Values range from 0 (no intersection) to 1 (self intersection).",
		"warning": "Please select TWO files using checkboxes",
		"button": "Find Jaccard Statistic of BED files",
		"buttonID": "execute_tool",
		"bedtoolscmd_label":"Jaccard Statistic of ",
		"bedtoolscmd":"bedtools jaccard -a %s -b %s"
	}
}