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. Author manuscript; available in PMC: 2009 Oct 27.
Published in final edited form as: Cytometry A. 2007 Jun;71(6):393–403. doi: 10.1002/cyto.a.20396

Table 1.

Properties and Limitations of the Proposed Graphical EDA Methods

Methods Properties Limitations
One-dimensional
 plots
ECDF Nonparametric estimate of the cumulative
 distribution. All estimates are on the
 same scale Reveals differences in
 distributions. Easy to find the location of
 the quantiles
Not good for visualizing the shape of the
 distributions. Not easy to adjust for other
 variables
Histogram Reveals most frequent values. Good for
 visualizing: the location of the
 distributions-multimodality and
 asymmetry
Depends on user defined bandwidth. Not
 good to directly assess center and spread
Boxplot Substantial reduction of distribution. Good
 for visualizing: the relative location of
 the distributions–asymmetry. Samples
 are compared on a vertically aligned
 scale
Relevant for unimodal distributions. Not
 good for visualizing the shape of the
 distributions. The x-axis is typically
 arbitrary
Two-dimensional
 plots
Scatterplot Statistical summary of multidimensional
 data. Detection of outliers and their
 relationship (e.g., plate effect)
Low throughput visualization. Comparison
 of many data sources is difficult (require
 multiple plots). Relevant for bivariate
 distributions (can be extended).
2D view
 (contour plot)
Deals with large number of data points.
 Detection of spatial variation and
 association
Two-dimensional. Difficult to compare
 many different views