Cluster-Tracker

# Clusters in Hover over a state

Number of Clusters
58331–64812
48610–58330
32407–48609
16204–32406
6482–16203
3241–6481
649–3240
0–648
Leaflet © OpenStreetMap contributors

We apply a heuristic to the global public SARS-CoV-2 phylogenetic tree to identify groups of sequences from an area that may have recently migrated from outside the region. These may reflect cases of an infected traveler entering a region, followed by local spread. Many biases might affect these results including relative local sequencing effort, timeliness of data deposition into public sequence repositories, and accuracy of phylogenetic reconstruction. You can view each cluster in Theo Sanderson's taxonium and perform your own analysis with our toolkit and database.

Cluster ID
Region
Sample Count
Earliest Date
Latest Date
Clade
Lineage
Best Potential Origins
Best Origin Regional Indices
Growth Score
Samples
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Download full output file. Download the taxonium protobuf for viewing.

Please post an issue at the github or email me at jmcbroom@ucsc.edu if you have questions or feedback.