Charts are graphical representations of the measurement data on the FOV. User can choose from several types of charts to plot the measurement data. Aivia has eight chart types: histogram, dot plot, trace plot, directional plot, lineage plot, lineage flow, kymograph, and object intensity histogram.

General Usage


The Charts Panel is accessed in the "Charts" tab in the bottom right. The chart will appear blank if no data is available in the spreadsheet, or if the selected object is deleted, or if the selected measurement is unavailable.

Plotting Measurements

User can specify the measurements to plot in the Charts panel by changing the axis measurements. To select an axis measurement, hover over the measurement name until it turns red and then click to bring up a menu of the available measurements.
Click on the desired measurement in the menu to select. The axis title will change to the selected measurement and the chart data will be refreshed to show the new measurements.
If the chart axis supports multiple measurements, users can select them by holding down the Shift or Ctrl key while clicking on the measurements. The selected measurements will be plotted on the same axis.

Change Axis Scale

To change the scale on any axis, click on the minimum or maximum value displayed and that value will appear in an editable window. Type in the value you want for that end of the axis and hit <Enter>. Repeat this for any endpoint value you wish to change.

Additional Display Options

In general, options for a given chart can be accessed by right-clicking on the chart itself to display the context menu. The context menu is specific to each chart. For details regarding chart options, please refer to the documentation related to the chart of interest.

Chart Toolbar

Chart Toolbar.PNG
The chart toolbar allows the user to invoke various commands that are common to most charts. Some commands are disabled depending on which chart is selected.

Select chart
Select the chart you want to display by using this dropdown.

PointingTool.pngSelection cursor
Mode that makes it so that clicking or dragging on a chart selects features.

ZoomToRegionIcon.pngZoom
Mode that makes it so that selecting a region on the chart zooms into that region.

RevertIcon.pngReset chart axes
Resets the axes range of the chart to their default values.

LegendIcon.pngToggle legend
Shows or hides the chart legend.

SaveIcon.pngExport chart to diagram file
Saves the visual of the chart to a file.

CopyIcon.pngCopy chart to clipboard
Copies an image of the chart to a clipboard.

CopyDataIcon.pngCopy chart data to clipboard
Copies the chart data to the clipboard. The format of the data depends on the chart.


Types of Charts


Histogram

Histogram plot presents the data for one or more object sets as a binned distribution. Each bar in the Histogram represents the aggregate total number of objects whose measurement values fall within a given range.

Dot Plot

Dot Plot allows the user to graph one measurement against another measurement. Each object is represented as a single dot in the chart.

Trace Plot

Trace Plot is the default charting option for all data with a time component. It displays a single measurement of selected objects over time. The measurement value is plotted on the y-axis and time on the x-axis. Trace Plot can display data from a single object, whole FOV, or multiple objects simultaneously.

Directional Plot

Direction Plot is specific to track objects. The chart takes selected tracks from the data set and places the start point at the origin. This plot is useful for finding track migration patterns.

Lineage Plot

Lineage Plot displays a single track object at any given time to show when the track splits into two daughter tracks.

Flow Plot

Flow Plot is an enhanced lineage representation. The chart's width and color are plotted against time to show the evolution of selected track objects and their respective lineages.

Kymograph

Kymograph is a depiction of time-related data and creates a new image with defined physical coordinates on the x-axis and time on the y-axis.

Object Histogram

Object Histogram plot shows the distribution of pixel intensities for a given object.

For more information about the different chart types, please refer to their respective documentations.