Data Visualization

Visualizing the data

As for the HyperSpy data, the data objects Stem2D and Stem3D include a plot() method to display the data.

In addition to this basic function, the Stem3D class implements four other functions:

• plot_sum() which displays the sum of the 3D data along the last axis,

• plot_as2D() which displays the data as 2D data (the navigation direction is the “channel” axis while the data are spatial),

• plot_as1D() which displays the data as 1D data (the navigation directions are the spatial axes while the data is a spectrum, this is the behavior of the default plot() function),

• plot_roi() which considers the data as 1D and enable the user to mean the data over a spatial region-of-interest.

Visualizing the scan sampling mask

As explained in The first basic object is the scan, a Scan object can be represented with its sampling mask \(\mathbf{M}\) defined as

\[\mathbf{M}_i = \begin{cases} 1, & \text{if pixel \# $i$ is acquired}\\ 0, & \text{otherwise}\\ \end{cases} \]

This representation suffer from information deficiency, but is interesting to study the acquired pixels repartition. This sampling mask which shape is the same as the spatial shape can be obtained using the get_mask() method of Scan. This one can also be plotted using the method plot().