You cannot select more than 25 topics
Topics must start with a letter or number, can include dashes ('-') and can be up to 35 characters long.
71 lines
16 KiB
HTML
71 lines
16 KiB
HTML
<!doctype html><html class=no-js lang=en><head><meta charset=utf-8><meta http-equiv=x-ua-compatible content="ie=edge"><meta name=viewport content="width=device-width,initial-scale=1"><title>paper - MillironX</title><link href="/styles/mix-twbs.min.css" rel=stylesheet></head><body><div class=container-fluid><div class="row wrapper min-vh-100 flex-column flex-sm-row"><aside class="col-12 col-md-3 p-0 bg-dark flex-shrink-1"><nav class="navbar navbar-expand-md navbar-dark bg-dark align-items-start flex-md-column flex-row"><div class=container-fluid><a class="navbar-brand d-block d-md-none" href=#><object class="d-inline-block align-text-top" width=80 height=24 style=filter:invert(100%) data=/graphics/millironx.svg>
|
|
<img src=/graphics/millironx.svg alt="Milliron X"></object>
|
|
 
|
|
<span class="font-small-caps font-serif">Milliron X</span></a>
|
|
<a href class=navbar-toggler data-bs-toggle=collapse data-bs-target=.sidebar><span class=navbar-toggler-icon></span></a><div class="collapse navbar-collapse sidebar"><ul class="flex-column navbar-nav w-100 justify-content-between"><li class=nav-item><a class="nav-link pl-0" href=/><i class="fad fa-home fa-fw"></i>
|
|
Home</a></li><li class=nav-item><a class="nav-link pl-0" href=/contact/><i class="fad fa-file-signature fa-fw"></i>
|
|
Contact</a></li><li class=nav-item><a class="nav-link pl-0" href=/academia/><i class="fad fa-university fa-fw"></i>
|
|
Academia</a></li><li class=nav-item><a class="nav-link pl-0" href=/ai/><i class="fax fa-bull-sperm fa-fw"></i>
|
|
Artificial Insemination</a></li><li class=nav-item><a class="nav-link pl-0" href=/videos/><i class="fad fa-video fa-fw"></i>
|
|
Videos</a></li><li class=nav-item><a class="nav-link pl-0" href=/websites/><i class="fad fa-browser fa-fw"></i>
|
|
Websites</a></li></ul></div></div></nav></aside><main class="col bg-faded py-3 gx-0"><div class=container><header class="d-none d-sm-none d-md-block text-center"><h1 class="font-serif font-small-caps"><object data=/graphics/millironx.svg>
|
|
<img src=/graphics/millironx.svg alt="Milliron X"></object>
|
|
  Milliron X</h1></header></div><div class=blurred-container><div class=motto><h1 id=motto>paper</h1></div><div class=img-src style=background-image:url(/images/saddles.jpg)></div><div class="img-src blur" style=background-image:url(/images/saddles_hu1143faa57f5b1acd11a97eda612b56ee_388130_filter_6742909828560968691.jpg)></div></div><br><section class="container-fluid list-main"><div class="container px-5"></div><div class=row data-masonry='{"percentPosition": true}'><div class="col-xl-6 mb-4"><div class=card><div class=category-button><a href=/categories/paper/ class="btn btn-dark btn-sm" data-bs-toggle=tooltip title=Paper><i class="fad fa-book fa-fw"></i></a></div><div class=card-body><a href=https://doi.org/10.1101/2023.10.20.563221><h3 class=card-title>nf-core/taxprofiler: highly parallelised and flexible pipeline for metagenomic taxonomic classification and profiling</h3></a><div>23 Oct 2023</div><a href=/people/sofia-stamouli/ class="icon-link card-link"><i class="fad fa-user"></i> Sofia Stamouli</a>
|
|
<a href=/people/moritz-e.-beber/ class="icon-link card-link"><i class="fad fa-user"></i> Moritz E. Beber</a>
|
|
<a href=/people/tanja-normark/ class="icon-link card-link"><i class="fad fa-user"></i> Tanja Normark</a>
|
|
<a href=/people/thomas-a.-christensen-ii/ class="icon-link card-link
|
|
fw-bolder"><i class="fad fa-user"></i> Thomas A. Christensen II</a>
|
|
<a href=/people/lili-andersson-li/ class="icon-link card-link"><i class="fad fa-user"></i> Lili Andersson-Li</a>
|
|
<a href=/people/maxime-borry/ class="icon-link card-link"><i class="fad fa-user"></i> Maxime Borry</a>
|
|
<a href=/people/mahwash-jamy/ class="icon-link card-link"><i class="fad fa-user"></i> Mahwash Jamy</a>
|
|
<a href=/people/nf-core-community/ class="icon-link card-link"><i class="fad fa-user"></i> nf-core community</a>
|
|
<a href=/people/james-a.-fellows-yate/ class="icon-link card-link"><i class="fad fa-user"></i> James A. Fellows Yate</a><p class=card-text>Metagenomic classification tackles the problem of characterising the taxonomic source of all DNA sequencing reads in a sample. A common approach to address the differences and biases between the many different taxonomic classification tools is to run metagenomic data through multiple classification tools and databases. This, however, is a very time-consuming task when performed manually - particularly when combined with the appropriate preprocessing of sequencing reads before the classification. Here we present nf-core/taxprofiler, a highly parallelised read-processing and taxonomic classification pipeline.
|
|
<strong><small><a href=https://doi.org/10.1101/2023.10.20.563221>Read more »</a></small></strong></p></div><div class=card-footer><a href=/tags/genomics/ class="icon-link card-link"><i class="fad fa-tag"></i> genomics</a></div></div></div><div class="col-xl-6 mb-4"><div class=card><div class=category-button><a href=/categories/paper/ class="btn btn-dark btn-sm" data-bs-toggle=tooltip title=Paper><i class="fad fa-book fa-fw"></i></a></div><div class=card-body><a href=https://doi.org/10.1021/acsestengg.2c00107><h3 class=card-title>Investigation of Hydronium Diffusion in Poly(vinyl alcohol) Hydrogels: A Critical First Step to Describe Acid Transport for Encapsulated Bioremediation</h3></a><div>02 Sep 2022</div><a href=/people/carson-j.-silsby/ class="icon-link card-link"><i class="fad fa-user"></i> Carson J. Silsby</a>
|
|
<a href=/people/jonathan-r.-counts/ class="icon-link card-link"><i class="fad fa-user"></i> Jonathan R. Counts</a>
|
|
<a href=/people/thomas-a.-christensen-ii/ class="icon-link card-link
|
|
fw-bolder"><i class="fad fa-user"></i> Thomas A. Christensen II</a>
|
|
<a href=/people/mark-f.-roll/ class="icon-link card-link"><i class="fad fa-user"></i> Mark F. Roll</a>
|
|
<a href=/people/kristopher-v.-waynant/ class="icon-link card-link"><i class="fad fa-user"></i> Kristopher V. Waynant</a>
|
|
<a href=/people/james-g.-moberly/ class="icon-link card-link"><i class="fad fa-user"></i> James G. Moberly</a><p class=card-text>Bioremediation of chlorinated aliphatic hydrocarbon-contaminated aquifers can be hindered by high contaminant concentrations and acids generated during remediation. Encapsulating microbes in hydrogels may provide a protective, tunable environment from inhibiting compounds; however, current approaches to formulate successful encapsulated systems rely on trial and error rather than engineering approaches because fundamental information on mass-transfer coefficients is lacking. To address this knowledge gap, hydronium ion mass-transfer rates through two commonly used hydrogel materials, poly(vinyl alcohol) and alginic acid, under two solidification methods (chemical and cryogenic) were measured.
|
|
<strong><small><a href=https://doi.org/10.1021/acsestengg.2c00107>Read more »</a></small></strong></p></div><div class=card-footer><a href=/tags/diffusion/ class="icon-link card-link"><i class="fad fa-tag"></i> diffusion</a>
|
|
<a href=/tags/hydrogels/ class="icon-link card-link"><i class="fad fa-tag"></i> hydrogels</a>
|
|
<a href=/tags/ionic-strength/ class="icon-link card-link"><i class="fad fa-tag"></i> ionic strength</a>
|
|
<a href=/tags/polymers/ class="icon-link card-link"><i class="fad fa-tag"></i> polymers</a>
|
|
<a href=/tags/transport-properties/ class="icon-link card-link"><i class="fad fa-tag"></i> transport properties</a></div></div></div><div class="col-xl-6 mb-4"><div class=card><div class=category-button><a href=/categories/paper/ class="btn btn-dark btn-sm" data-bs-toggle=tooltip title=Paper><i class="fad fa-book fa-fw"></i></a></div><div class=card-body><a href=https://doi.org/10.1016/j.vetmic.2022.109447><h3 class=card-title>Assessment of Porcine Rotavirus-associated virome variations in pigs with enteric disease</h3></a><div>27 Apr 2022</div><a href=/people/tyler-doerksen/ class="icon-link card-link"><i class="fad fa-user"></i> Tyler Doerksen</a>
|
|
<a href=/people/thomas-a.-christensen-ii/ class="icon-link card-link
|
|
fw-bolder"><i class="fad fa-user"></i> Thomas A. Christensen II</a>
|
|
<a href=/people/andrea-lu/ class="icon-link card-link"><i class="fad fa-user"></i> Andrea Lu</a>
|
|
<a href=/people/lance-noll/ class="icon-link card-link"><i class="fad fa-user"></i> Lance Noll</a>
|
|
<a href=/people/jianfa-bai/ class="icon-link card-link"><i class="fad fa-user"></i> Jianfa Bai</a>
|
|
<a href=/people/jamie-henningson/ class="icon-link card-link"><i class="fad fa-user"></i> Jamie Henningson</a>
|
|
<a href=/people/rachel-palinski/ class="icon-link card-link"><i class="fad fa-user"></i> Rachel Palinski</a><p class=card-text>Enteric disease is the predominant cause of morbidity and mortality in young mammals including pigs. Viral species involved in porcine enteric disease complex (PEDC) include rotaviruses, coronaviruses, picornaviruses, astroviruses and pestiviruses among others. The virome of three groups of swine samples submitted to the Kansas State University Veterinary Diagnostic Laboratory for routine testing were assessed, namely, a Rotavirus A positive (RVA) group, a Rotavirus co-infection (RV) group and a Rotavirus Negative (RV Neg) group.
|
|
<strong><small><a href=https://doi.org/10.1016/j.vetmic.2022.109447>Read more »</a></small></strong></p></div><div class=card-footer><a href=/tags/porcine-rotavirus/ class="icon-link card-link"><i class="fad fa-tag"></i> porcine rotavirus</a>
|
|
<a href=/tags/porcine-enteric-disease/ class="icon-link card-link"><i class="fad fa-tag"></i> porcine enteric disease</a>
|
|
<a href=/tags/virome/ class="icon-link card-link"><i class="fad fa-tag"></i> virome</a>
|
|
<a href=/tags/rotavirus/ class="icon-link card-link"><i class="fad fa-tag"></i> rotavirus</a></div></div></div></div></section><footer class=fixed-bottom><div class="container-fluid footer-contents"><div class="row justify-content-between"><div class="col-3 align-self-center"><img src=/graphics/brandedbull.min.svg height=95rem></div><div class="col-3 align-self-center"><div class="btn-group float-end" role=group aria-label="Other Milliron X sites"><a class="btn btn-outline-primary btn-sm" href=https://video.millironx.com/ data-bs-toggle=tooltip title="Video (Peertube)"><i class="fax fa-peertube fa-fw"></i></a>
|
|
<a class="btn btn-outline-primary btn-sm" href=https://code.millironx.com/ data-bs-toggle=tooltip title="Code (Gitea)"><i class="fax fa-gitea fa-fw"></i></a>
|
|
<a class="btn btn-outline-primary btn-sm" href=https://nextcloud.millironx.com/ data-bs-toggle=tooltip title="Files (Nextcloud)"><i class="fax fa-nextcloud fa-fw"></i></a>
|
|
<button type=button class="btn btn-outline-primary btn-sm" data-bs-toggle=modal data-bs-target=#extras-modal title=Extras>
|
|
<i class="fad fa-cowbell fa-fw"></i></button></div></div></div></div></footer></main></div></div><script src=/js/fontawesome.min.js></script>
|
|
<script src=/js/jquery-bundle.js></script>
|
|
<script src=/js/bootstrap-bundle.js></script>
|
|
<script src=/scripts/masonry/masonry.pkgd.min.js></script>
|
|
<script data-goatcounter=https://millironx.goatcounter.com/count async src=//gc.zgo.at/count.js></script><div class="modal fade" id=extras-modal tabindex=-1 aria-labelledby=extras-modal-label aria-hidden=true><div class="modal-dialog modal-dialog-scrollable modal-dialog-centered"><div class=modal-content><div class=modal-header><h1 class="modal-title fs-5">Bonus content</h1><button type=button class=btn-close data-bs-dismiss=modal aria-label=Close></button></div><div class=modal-body><ul class="nav nav-tabs" role=tablist><li class=nav-item role=presentation><a class="nav-link active" data-bs-toggle=tab href=#oss aria-selected=true role=tab>Open Source</a></li><li class=nav-item role=presentation><a class=nav-link data-bs-toggle=tab href=#privacy role=tab>Privacy</a></li><li class=nav-item role=presentation><a class=nav-link data-bs-toggle=tab href=#debug role=tab>Debug</a></li></ul><div class=tab-content><div class="tab-pane fade show active p-3" id=oss role=tabpanel><a rel=license href=http://creativecommons.org/licenses/by/4.0/><img class="img img-responsive" alt="Creative Commons License" style="border-width:0;display:block;margin:0 auto" src=https://i.creativecommons.org/l/by/4.0/88x31.png></a><p>“paper” by
|
|
Thomas A. Christensen II is licensed under a
|
|
<a rel=license href=http://creativecommons.org/licenses/by/4.0/>Creative Commons Attribution 4.0 International License</a>.</p><p>All images, unless otherwise noted, are licensed under a
|
|
<a rel=license href=http://creativecommons.org/licenses/by-nd/4.0/>Creative Commons Attribution-NoDerivatives 4.0 International
|
|
License</a>, instead.</p><hr><p>This site is open source!<br><a class="btn btn-dark" href=https://code.millironx.com/millironx/millironx.github.io><i class="fax fa-gitea"></i> Get the code! »</a>
|
|
<a class="btn btn-dark" href=https://code.millironx.com/millironx/millironx.github.io/src/branch/master/LICENSE><i class="fad fa-scale-balanced"></i> MIT Licensed »</a></p><p>In addition, I used a number of excellent open-source libraries
|
|
and toolkits in building it. I dedicate this space to
|
|
acknowledging them all.</p><table class="table table-condensed table-responsive table-striped"><tr><th>Project name</th><th>URL</th><th>License</th></tr><tr><th>Hugo</th><td><a href=https://gohugo.io/>gohugo.io</a></td><td><a href=https://github.com/gohugoio/hugo/blob/master/LICENSE>Apache License v2</a></td></tr><tr><th>Node.js</th><td><a href=https://nodejs.org/>nodejs.org</a></td><td><a href=https://github.com/nodejs/node/blob/HEAD/LICENSE>MIT License</a></td></tr><tr><th>Bootstrap 5</th><td><a href=https://getbootstrap.com/>getbootstrap.com</a></td><td><a href=https://github.com/twbs/bootstrap/blob/main/LICENSE>MIT License</a></td></tr><tr><th>Bootswatch Lux 5</th><td><a href=https://bootswatch.com/lux/>bootswatch.com</a></td><td><a href=https://github.com/thomaspark/bootswatch/blob/v5/LICENSE>MIT License</a></td></tr><tr><th>JQuery 3</th><td><a href=https://jquery.com/>jquery.com</a></td><td><a href=https://jquery.org/license>MIT License</a></td></tr><tr><th>Font Awesome 6</th><td><a href=https://fontawesome.com/>fontawesome.com</a></td><td><a href=https://fontawesome.com/license/>Font Awesome Pro License</a></td></tr><tr><th>Get S*** Done Toolkit</th><td><a href=https://www.creative-tim.com/product/get-shit-done-kit>creative-tim.com</a></td><td><a href=https://github.com/timcreative/freebies/blob/master/LICENSE.md>MIT License</a></td></tr><tr><th>FitText</th><td><a href=http://fittextjs.com/>fittextjs.com</a></td><td><a href=http://www.wtfpl.net/>WTFPL License</a></td></tr><tr><th>jQuery Mask Plugin</th><td><a href=https://igorescobar.github.io/jQuery-Mask-Plugin/>igorescobar.github.io</a></td><td><a href=https://github.com/igorescobar/jQuery-Mask-Plugin/blob/master/LICENSE>MIT License</a></td></tr><tr><th>PostCSS</th><td><a href=https://postcss.org/>postcss.com</a></td><td><a href=https://github.com/postcss/postcss/blob/main/LICENSE>MIT License</a></td></tr><tr><th>PurgeCSS</th><td><a href=https://purgecss.com/>purgecss.com</a></td><td><a href=https://github.com/FullHuman/purgecss/blob/main/LICENSE>MIT License</a></td></tr></table></div><div class="tab-pane fade p-3" id=privacy role=tabpanel><p>I take privacy very seriously. That said, I do need
|
|
<i>some</i> info on how many people visit. As a compromise, this
|
|
site uses <a href=https://goatcounter.com>GoatCounter</a>, a
|
|
privacy-friendly (as much as possible) web analytics library.</p><p>You may view all analytics gathered at
|
|
<a href=https://millironx.goatcounter.com/>millironx.goatcounter.com</a>.</p><p>If you do not wish to participate in my site's analytics, you may
|
|
install a content-blocking extension into your browser and block
|
|
the domain
|
|
<code>gc.zgo.at</code>. I recommend either
|
|
<a href=https://github.com/gorhill/uBlock>uBlock Origin</a>
|
|
(instructions
|
|
<a href=https://github.com/gorhill/uBlock/wiki/Dashboard:-My-filters>here</a>) or <a href=https://noscript.net>NoScript</a> for this
|
|
purpose.</p></div><div class="tab-pane fade p-3" id=debug role=tabpanel><dl><dt>draft</dt><dd>false</dd><dt>iscjklanguage</dt><dd>false</dd><dt>title</dt><dd>paper</dd></dl></div></div></div></div></div></div></body></html> |