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An open-source pathogen sequence database dedicated to equitable sharing, transparent governance, & empowering global public health.
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ALT AI-generated image showing raw reads (short reads) lining up above a consensus sequence, with both the raw reads and consensus sequence labelled. Vague images below show a virus, coverage, and DNA.
ALT Screenshot of the submission page showing the section to upload raw-reads - with a description and link to the documentation on the left, and a place to upload folders and files on the right.
ALT AI generated watercolor-style image of a white birthday cake with blue and gold small decorate balls around the base and top, with a blue Pathoplexus logo on the side. On top, is a gold and white '2' candle that's lit. From the cake come strands of blue and gold, representing stylized DNA, network nodes, and ribbons representing credit and attribution.
ALT Grid of photographs of all 32 members of Pathoplexus
ALT Screenshot of the Pathoplexus website homepage, where the new Zika virus button is circled in red
ALT Screenshot of the 'Create a SeqSet' page on Pathoplexus, showing where one can fill in the SeqSet name, description, and the sequences used, divided into Focal and Background
ALT Screenshot of the SeqSet Details page on Pathoplexus, showing the name, description, and other metrics - now also showing a DOI in place of the previous link to generate a DOI. Highlighted is the location of the button showing 'Export/Cite' which allows generation of citation/reference text.
ALT Screenshot of the SeqSet 'Export/Cite SeqSet' popup on Pathoplexus, which appears after pressing the previous button. The popup allows download of the data as JSON or TSV, and below that, a text box that allows the user to easily copy citation/reference text for the SeqSet in BibTeX, MLA, or APA style. This includes the name of the SeqSet, year, and DOI.
ALT Screenshot of a different SeqSet Details page on Pathoplexus - this SeqSet has been used and cited. It shows the name, description, and other metrics, but importantly, below the DOI, shows a list of citations. This SeqSet shows it's been cited in a paper called 'Improving the Scalability of Bayesian Phylodynamic Inference through Efficient MCMC Proposals'
ALT Screenshot a Pathoplexus Sequence Details page, of a sequence that is within the SeqSet shown previously. This shows the sequence name, sample date, and other sequence metrics, but since it is included in a SeqSet that has been cited, it also shows a 'Cited by' section, which lists all citations. It shows it has been cited by the same paper in the SeqSet, 'Improving the Scalability of Bayesian Phylodynamic Inference through Efficient MCMC Proposals'
ALT Screenshot of the Pathoplexus website homepage
ALT A photo of Placide Mbala