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<section>
<div class="intro">
- <p>
- Make your sequence
- data <a href="https://en.wikipedia.org/wiki/FAIR_data">FAIR</a>. Upload
- your SARS-CoV-2 sequence (FASTA or FASTQ
- formats) with metadata (JSONLD) to
- the <a href="/about">public sequence
- resource</a>. The upload will trigger a
- recompute with all available sequences into a
- Pangenome available for
- <a href="/download">download</a>!
- </p>
- <p>
- Your uploaded sequence will automatically be
- processed and incorporated into the public
- pangenome with metadata using worklows from
- the High Performance Open Biology Lab
- defined <a href="https://github.com/hpobio-lab/viral-analysis/tree/master/cwl/pangenome-generate">here</a>. All
- data is published under
- a <a href="https://creativecommons.org/licenses/by/4.0/">Creative
- Commons license</a> You can take the published
- (GFA/RDF/FASTA) data and store it in a triple
- store for further processing. Clinical
- data can be stored
- securely
- at <a href="https://redcap-covid19.elixir-luxembourg.org/redcap/">REDCap</a>.
- </p>
- <p>
- Note that form fields contain
- web <a href="https://en.wikipedia.org/wiki/Web_Ontology_Language">ontology
- URI's</a>
- for <a href="https://en.wikipedia.org/wiki/Wikipedia:Disambiguation">disambiguation</a>
- and machine readable metadata. For examples of
- use, see the <a href="/blog">BLOG</a>.
- </p>
- </div>
- </section>
+ <p>
+ COVID-19 PubSeq is a free and open online
+ bioinformatics public sequence resource with
+ on-the-fly analysis of
+ sequenced <a href="https://pubmed.ncbi.nlm.nih.gov/?term=sars-cov-2&sort=date">SARS-CoV-2</a>
+ samples that allows for a quick turnaround in
+ identification of new virus strains. PubSeq allows
+ anyone to upload sequence material in the form of
+ FASTA or FASTQ files with accompanying metadata
+ through the <a href="/upload">web interface</a>
+ or <a href="/apidoc">REST API</a>. For more
+ information see the <a href="/about">FAQ!</a>.
+ </p>
<section id="map_view" class="map">
<div id="mapid"></div>
</section>
+ <a href="https://projectredcap.org/"><img class="img-right" src="static/image/REDCap.png" /></a>
+ <p>
+ Make your sequence
+ data <a href="https://en.wikipedia.org/wiki/FAIR_data">FAIR</a>. Upload
+ your SARS-CoV-2 sequence (FASTA or FASTQ formats)
+ with simple metadata (JSONLD) to
+ the <a href="/about">public sequence
+ resource</a>. The upload will trigger a recompute
+ with all available sequences into a Pangenome
+ available for
+ <a href="/download">download</a>!
+ </p>
+ <p>
+ Your uploaded sequence will automatically be
+ processed and incorporated into the public
+ pangenome with metadata using worklows from the
+ High Performance Open Biology Lab
+ defined <a href="https://github.com/hpobio-lab/viral-analysis/tree/master/cwl/pangenome-generate">here</a>. All
+ data is published under
+ a <a href="https://creativecommons.org/licenses/by/4.0/">Creative
+ Commons license</a> You can take the published
+ (GFA/RDF/FASTA) data and store it in a triple
+ store for further processing.
+ Clinical data can
+ be stored securely
+ at <a href="https://redcap-covid19.elixir-luxembourg.org/redcap/">REDCap</a>.
+ </p>
+ <a href="https://nanoporetech.com/"><img class="img-right" src="static/image/oxford-nanopore2.jpg" /></a>
+ <p>
+ We give special attention to workflows for the <a href="https://nanoporetech.com/">Oxford Nanopore</a> - see <a href="https://pubmed.ncbi.nlm.nih.gov/?term=sars-cov-2+nanopore&sort=date">pubmed</a> - because it offers an affordable platform that is great
+ for SARS-CoV-2 sequencing.
+ </p>
+ <p>
+ Note that form fields contain
+ web <a href="https://en.wikipedia.org/wiki/Web_Ontology_Language">ontology
+ URI's</a>
+ for <a href="https://en.wikipedia.org/wiki/Wikipedia:Disambiguation">disambiguation</a>
+ and machine readable metadata. For examples of
+ use, see the <a href="/blog">BLOG</a>.
+ </p>
+ </div>
+ </section>
+
{% include 'footer.html' %}