pybedtools.bedtool.BedTool.colormap_normalize

BedTool.colormap_normalize(vmin=None, vmax=None, percentile=False, log=False)

Returns a normalization instance for use by featurefuncs.add_color().

Parameters:

vmin, vmaxfloat, int, or None

vmin and vmax set the colormap bounds; if None then these will be determined from the scores in the BED file.

logbool

If True, put the scores on a log scale; of course be careful if you have negative scores

percentilebool

If True, interpret vmin and vmax as a percentile in the range [0,100] rather than absolute values.