Objects from the Class
Objects can be created by calls of the form new("GraphTrackLine",
...) or parsed from a character vector track line with
as(text, "GraphTrackLine") or converted from a
BasicTrackLine using as(basic, "GraphTrackLine").Slots
altColor:- Object of class
"integer" giving an
alternate color, as from col2rgb. autoScale:- Object of class
"logical" indicating
whether to automatically scale to min/max of the data. alwaysZero:- Object of class
"logical" indicating
whether to fix the lower limit of the Y axis at zero. gridDefault:- Object of class
"logical"
indicating whether a grid should be drawn. maxHeightPixels:- Object of class
"numeric" of
length three (max, default, min), giving the allowable range for
the vertical height of the graph. graphType:- Object of class
"character",
specifying the graph type, either "bar" or "points". viewLimits:- Object of class
"numeric" and of
length two specifying the data range (min, max) shown in the graph. yLineMark:- Object of class
"numeric" giving the
position of a horizontal line. yLineOnOff:- Object of class
"logical"
indicating whether the yLineMark should be visible. windowingFunction:- Object of class
"character",
one of "maximum", "mean", "minimum", for removing points when the
graph shrinks. smoothingWindow:- Object of class
"numeric"
giving the window size of a smoother to pass over the graph. type:- Scalar
"character" indicating the type of
the track, either "wig" or "bedGraph". name:- Object of class
"character" specifying
the name of the track. description:- Object of class
"character"
describing the track. visibility:- Object of class
"character"
indicating the default visible mode of the track, see
UCSCTrackModes. color:- Object of class
"integer" representing the
track color (as from col2rgb).
priority:- Object of class
"numeric" specifying
the rank of this track.
Extends
Class "TrackLine", directly.Methods
- as(object, "character")
- Export line to its string
representation.
- as(object,
"BasicTrackLine") - Convert this
line to a basic UCSC track line, using defaults for slots not held
in common.