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                                Genome Browser graph-based tracks may be
				configured in
				a variety of ways to highlight different aspects
				of the displayed information. The following 
				information explains each of the available 
				configuration options. 
				
				Overlay method: 
				The default "transparent" setting
				displays the colored transparent graphs of
				multiple subtracks overlayed in the same
				vertical space. The "solid" setting
				displays the colored opaque graphs of multiple
				subtracks overlayed in the same vertical space.
				The "none" setting displays each
				graph in its own vertical space. Note that not
				all graph-based tracks include this option.
				Type of graph: The default 
				"Bar" setting depicts the graph
				data using color-filled bars. To view the data as 
				a series of points or lines, select the 
				"Points" setting.  
				
				Track height: To change the default display
				height of the graph in pixels, type in a value 
				from within the indicated range.
				
				Vertical viewing range: The min and max 
				values specify the vertical portion of the graph 
				that is displayed (default range is 30-70). These 
				numbers can be used to set data threshold 
				indicators.  For example, to display only those 
				GC values greater than 50 percent, set the min 
				value to "50".
				
				Data view scaling: The default "Use 
				vertical viewing range setting" option 
				displays the data using the parameters specified 
				in the Vertical viewing range setting. To 
				configure the graph to automatically scale to a
				range defined by the minimum and maximum data 
				points in the current view, select the 
				"Auto-scale to data view" option.
				To keep the y=0 value in view at all times when
				Auto-scale is selected, set "Always
				include zero" to "ON". 
				
				Transform function:
				Transforms the data points by the function selected
				in the drop-down menu. Usually the default
				setting is "None".
				Windowing function: When a  view is too 
				large to show individual data values, the values 
				must be combined to produce a plot point.  This 
				option specifies the combining function to be 
				used (default is "Mean"): 
				
				
				"Mean+whiskers" - displays the mean in a 
				dark shade, one standard deviation around the mean 
				in a medium shade, and the maximum/minimum in a light
				shade.  For bar graphs only the mean, the mean plus 
				a standard deviation, and the max are visible. 
				
				"Maximum" - displays the maximum value of all
				the points to be combined 
				
				"Mean" - displays the mean
				
				"Minimum" - displays the minimum of all the
				points to be combined
				
				Smoothing window: When set to a numerical 
				value, this option determines the size, in pixels,
				of a smoothing window to be passed over the plot 
				to smooth the edges of the bars or lines.  This 
				is equivalent to a trend line calculation on the 
				graph.  The default setting is "OFF".
				
				Draw indicator lines: 
				
				
				at y=0.0:
				Select the "ON" setting to display a
				line marking the 0.0 position on the graph
				(default is "OFF").
				at y= :
				Select the  "ON" setting to display a 
				line on the graph at the specified numerical value
				(defaults are "0" and "OFF"). 
				This line can be used to mark a significant 
				threshold on the graph. 
				When you have finished making your configuration
				changes, click the Submit button to 
				return to the annotation track display page. |  |