The Genotypic Data Map

The Genotypic Data map provides a contrasting image of the genotypic data before and after filtering. Along with sorting capabilities, this feature provides a quick perspective of the dataset. It can be accessed by selecting the Genotypic Data Map button from the DArTView Main window.

In the image below, the Genotypic Data map is sorted by marker call rate and a species sample metadata which had been imported via the Import Additional Metadata wizard.


Genotypic Data Map
Genotypic Data Map (select to zoom)


Note

The Genotyic Data Map was formerly called the Marker and Metadata View. Future versions of DArTView will include this name change.


Genotype Data Point Colour Configuration

Each genotype data point has a call value with a representative colour. Colouring is configured by the Choose Colours window as seen in the image and instructions below:


Setting Genotype Data Point Colours
Setting Genotype Data Point Colours (select to zoom)


Setting Genotype Data Point Colours

Step

Action

1.

Open the Choose Colours window by selecting the Change Colours button.

2.

Select the colour of each genotype data point to display a colour picker and use this picker to set the colour of each genotype data point.

3.

Select the Ok button to confirm the genotype data point colour changes.


Graphing Data in the Genotypic Data Map

Metadata distributions of either markers or samples can be added alongside the Genotypic Data map. See the image and table below for information on how to graph data in the Genotypic Data map:


Graphing Data in the Genotypic Data Map
Graphing Data in the Genotypic Data Map (select to zoom)


Graphing Data in the Genotypic Data Map

Step

Action

1.

Open the Genotypic Data Map window to view genotypic data.

2.

Select the Add Graph button addStats_btn for markers (on the left like in the example) or samples (on the top) which will display graphing options seen at circle2.

3.

Select a graph option and then the OK button. The new graph will be created and applied to the appropriate location. The below image shows that the example graph looks like.


Graph Added to Genotypic Data Map
Graph Added to Genotypic Data Map(select to zoom)


Graph and Viewing Options

There are display options available once a graph has been added. The following options are available:

Graph Options of the Genotypic Data Map

UI Element

Description

square_arrow_left_btn/square_arrow_up_btn Increase Priority

As multiple graphs can be applied to the data, this option increases the priority of the selected graph.

square_arrow_right_btn/square_arrow_down_btn Decrease Priority

Descreases the priority of the selected graph.

delete_btn Delete Graph

Deletes the selected graph.

Sort

Cycles through the following sorting options for the selected graph:

  • sort_unsorted_btn Unsorted;

  • sort_asc_btn Ascending; and

  • sort_desc_btn Descending.

colour_wheel_btn Change Colours

Displays a window with options for changing the colour for each genotype data point.

zoomx1_btn Reset Zoom

Sets the zoom level to 1x (normal). There are more zoom options in the following section.


Genotype Data Points

Samples, markers, and genotype data points can be easily viewed in the Genotypic Data map. Hold the mouse over a genotype data point (this may be easier if zoomed in) to display the sample, marker, and genotype data point as seen in the image below:


Genotype Data Point Information
Genotype Data Point Information View(select to zoom)


Right+clicking on a genotype data point will also provide options which are shown in the image below and listed in the the table below that:


Genotype Data Point Options
Genotype Data Point Options(select to zoom)


Genotype Data Point Options

Option

Description

Zoom In

Zoom in closer to the selected genotype data point.

Zoom Out

Zoom out from the selected genotype data point.

Zoom Max

Maximised the zoom depth (which will display values as text) onto the focused location.

Zoom Entire

Fits the entire genotypic matrix into view.

Zoom Fit Width

Fits the width of the genotypic matrix into the window Metadata and Sample Data: Shows marker and sample metadata. Need to make it clear which is marker and which is sample

Save as PNG…

Saves the current genotypic data map with adjacent metadata distributions as a PNG.

Show metadata for genotypic data point

All information for the selected marker which includes anything that was imported to DArTView.