Genotype tab¶
Genotype data is visualised in the Genotype tab in the right hand panel
The genotype matrix requires two inputs, the features and accessions which can be inputted a number of ways.
Inputting features and accessions¶
Note
The accessions can only be added once a VCF file has been added to the view. Searching for a dataset
Features can be selected via the view by selecting a region of the axis.
Acessions can be added via a pop out menu from the genotype tab.
If the exact feature names are known, it can be inputted using the VCF Genotype Search function
Interpreting the genotype matrix¶
| Display | Meaning | Colour |
|---|---|---|
| 0 | Reference | Blue |
| 1 | Heterozygous | Light-blue |
| 2 | Alternate | Orange |
Ordering the genotype matrix¶
The genotype matrix can be ordered by clicking on the specific allele located in the ref and alt columns. This will order the accessions based on the specific selected alleles.
Resizing the genotype matrix¶
The genotype matrix can be resized by dragging the right hand side of the genotype tab.
And its headings can be resized using the slider in the table headings
Filter by defined haplotype¶
When the filter by defined haplotype is selected, the selections made on the genotype table that also order the genotype table will be used to filter the accessions. This then changes the selectable accessions to match the selection.