Use this slider to filter the data based on the sample date. This may include inferred dates for ancestral nodes in the tree, and thus the date range here can be wider than the sample collection range.
1191-08-22
2022-11-05
Color By
Change the metadata field which the visualisation is coloured by. The phylogeny, map and frequencies panel (if available) will all be coloured in a consistent fashion.
Country
Filter Data
Use this box to filter the displayed data based upon filtering criteria.
For instance, start typing a country's name to filter the data accordingly. Data is filtered by forming a union of selected values within each category, and then taking the intersection between categories (if more than one category is selected). Scroll to the bottom of the main page (under the data visualisation) to see an expanded display of filters and available values. Filter options prefixed with "(M)" are filters specific to the Measurements panel. They will have no effect on the phylogeny tree or other panels.
Type filter query here...
Tree Options
Change various options relating to how the tree is displayed. The exact options available depend on the dataset and specific analysis performed. If Branch Length is available, you can choose to display the tree branches in terms of (nucleotide) divergence or (inferred) time. It is often helpful to toggle on confidence intervals to gauge the uncertainty in the reconstruction of internal node dates.
Layout
Branch Length
Branch Labels
none
Tip Labels
Sample Name
Second Tree
Select...
Explode Tree By
This functionality is experimental and should be treated with caution! Exploding a tree by trait X means that for each branch where the trait changes value, we will prune off the branch and create a separate (sub)tree. It works best when the trait doesn't change value too frequently.
Select...
Map Options
Change various options relating to how the map is displayed. The geographic resolution chooses the metadata values which define where samples are placed on the map. This can be the same as the selected color-by but is often not!
Geographic resolution
country
Animation Options
Change various options relating to how the animation proceeds.
Animation Speed
Panel Options
Control which panels are being displayed and whether to show the tree and the map side-by-side (grid) or expanded (full). Note that what options are available here are dataset specific!
This panel displays the observed diversity across the current genome or a selected CDS (currently you are viewing the genome). The lower axis shows the genome with +ve strand CDSs above and -ve strand CDSs below and the grey overlay allows zooming in to a region. The upper axis shows either the zoomed in region of the genome or a selected CDS; in the latter case the coordinates represent amino acids.Clicking on a CDS will select it and show it on the upper axis. Clicking "Reset Layout" will always return you to viewing the entire genome.
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