Thank you very much to the UShER team (Jakob McBroome, @AngieSHinrichs, @RussCorbett, @yatishturakhia, and many more) for providing the daily-updated trees, @theosanderson for developing Taxonium (and adding several features upon request!) and @CDC_AMD for funding. 4/4

The feature is only available on open.cov-spectrum.org/ which uses data from INSDC (GenBank/ENA/DDBJ), we unfortunately cannot provide it for data from GISAID. If you have any questions or suggestions, please let us know! 3/4

You can choose to only display the sequences of the variant or the whole MRCA clade and color the tips by different metadata fields. You can also click on an inner node and search for a subtree. 2/4

Finally, CoV-Spectrum is meeting trees 🌳 – this week, we released a new feature to browse the SARS-CoV-2 UShER tree on CoV-Spectrum. With the new feature, you can see a subtree of your variant of interest. 1/4

We have just received an updated dataset from GISAID. Many thanks to the GISAID team for fixing the data feed!

Information for CoV-Spectrum users: The GISAID data on CoV-Spectrum has not been updated since 23 December due to an interruption in the data feed. We have contacted GISAID regarding this issue and are hopeful for a resolution soon.

GenSpectrum just added a mpox dashboard using data from @Pathoplexus – see genspectrum.org

We would like to thank all the data generators for making their data openly available, @ETH_en, the US @CDCgov and the Office of Advanced Molecular Detection (@CDC_AMD) for funding and the whole team (github.com/GenSpectrum#contr…) for the amazing work! 5/5

Our tool is of course fully open source. Please let us know if you have any feedback or a suggestion for what should be added or improved. You can create an issue in our GitHub repository: github.com/GenSpectrum/dashb… 4/5

We also offer a Loculus instance with H5N1 and RSV data from INSDC for accessing the data. You can find both aligned and unaligned sequences and lineage annotations. For H5N1, the sequences from different segments have been linked together. loculus.genspectrum.org 3/5

In the "Analyze a single variant" view, you can query a variant by lineage and mutations and see its spatio-temporal distributions and mutations (over time). The "Sequencing efforts" view displays the number of sequences, their geographic origins and the contributors 2/5

Our new GenSpectrum.org dashboard has finally launched! Using Influenza H5N1, RSV and SARS-CoV-2 data from INSDC and West Nile virus data from @pathoplexus, it enables fast and interactive analyses of genome sequencing data similar to CoV-Spectrum. 1/5

Interested in developing dashboards and tools for public health and genomic epidemiology? We are looking for a software engineer to join our GenSpectrum team at @ETH_BSSE in Basel, 🇨🇭CH! jobs.ethz.ch/job/view/JOPG_e… Please reach out if you have any questions and please share! :)

CoV-Spectrum now uses the most recent Nextclade dataset and calls BA.2.86. cov-spectrum.org/explore/Wor…

Yes, exactly!

...without seeing the previous question. This is the text that comes after the result table. That means that if the text fits to the question, the results should be correct. However, this is the first prototype and more evaluation is needed to be really sure.