Construct Color Theme using:

Select the means by which to construct a color theme.

•

When using the Input Data Set, you must specify a color theme and bin method below. Bins are created along the genome and the variables that you specified on the General tab are averaged within bins and across each other to create a single continuous color variable named Avg_ContVar (or Avg_NLP for the average of -log10 p-values if variables contain p-values) in the output text file.

•	When using a settings file, you must first create it using the Chromosome Color Theme process, save the setting, and then select it in the fields below.

To Select the Means by Which to Construct a Color Theme:

If the field is not already active, select Chromosome Color Plot for the Display output as a: option.

Click the radio button corresponding to the means by which to construct a color theme.