techhub.social is one of the many independent Mastodon servers you can use to participate in the fediverse.
A hub primarily for passionate technologists, but everyone is welcome

Administered by:

Server stats:

4.6K
active users

#radseq

0 posts0 participants0 posts today
Rafał Wóycicki<p>🚀 New bash pipeline for <a href="https://mastodon.social/tags/ddRADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ddRADseq</span></a> preprocessing &amp; deduplication!<br>✔️ Adapter trimming<br>✔️ Barcode demux<br>✔️ Cut site filtering<br>✔️ Pairwise dedup (w/ seqtk + awk)<br>✔️ Reproducible + lightweight</p><p>📂 GitHub: <a href="https://github.com/rafalwoycicki/ddRADseq_reads" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/rafalwoycicki/ddRAD</span><span class="invisible">seq_reads</span></a></p><p>🔁 RTs &amp; feedback welcome! <a href="https://mastodon.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a> <a href="https://mastodon.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a></p>
Rafał Wóycicki<p>🚀 New bash pipeline for <a href="https://mastodon.social/tags/ddRADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ddRADseq</span></a> preprocessing &amp; deduplication!<br>✔️ Adapter trimming<br>✔️ Barcode demux<br>✔️ Cut site filtering<br>✔️ Pairwise dedup (w/ seqtk + awk)<br>✔️ Reproducible + lightweight</p><p>📂 GitHub: <a href="https://github.com/rafalwoycicki/ddRADseq_reads" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">github.com/rafalwoycicki/ddRAD</span><span class="invisible">seq_reads</span></a></p><p>🔁 RTs &amp; feedback welcome! <a href="https://mastodon.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a> <a href="https://mastodon.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a></p>
Tyler Smith<p>At the end of a long day of <a href="https://ottawa.place/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a> I've confirmed that I can cut my sequencing depth by half in the next round of sampling. Which means costs drop by half as well!</p><p>By tomorrow we'll see if we can cut by another half again. </p><p>Motivated by wanting to do <a href="https://ottawa.place/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> / <a href="https://ottawa.place/tags/GBS" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBS</span></a> population <a href="https://ottawa.place/tags/genetics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>genetics</span></a> work on an octoploid plant. ugh!</p>
Physalia-courses<p>🚨Very happy to inform you that our <a href="https://ecoevo.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> course is back!</p><p>‼️🚀Save the date and join us in November to learn how to analyse your RADseq data with this stellar team of instructors <span class="h-card" translate="no"><a href="https://mas.to/@naiara_re" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>naiara_re</span></a></span> @TerezaManousaki and @NataliaDA10 🤩</p><p>✏️<a href="https://physalia-courses.org/courses-workshops/course16/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://</span><span class="ellipsis">physalia-courses.org/courses-w</span><span class="invisible">orkshops/course16/</span></a> <br>@RAD_seq</p>
Physalia-courses<p>🚨 Ready to master <a href="https://ecoevo.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> data analysis with <a href="https://ecoevo.social/tags/Stacks" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>Stacks</span></a>? Join our course led by the amazing @naiara_re, @TerezaManousaki, and @NataliaDA10!</p><p>👉 Grab your spot here – only a few seats left! ⏳<br><a href="https://www.physalia-courses.org/courses-workshops/course16/" rel="nofollow noopener" translate="no" target="_blank"><span class="invisible">https://www.</span><span class="ellipsis">physalia-courses.org/courses-w</span><span class="invisible">orkshops/course16/</span></a></p>
Julian Catchen<p>What is the key element in a successful <a href="https://ecoevo.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> experiment and analysis? How can you avoid the dreaded "missing data"?</p><p>tldr; it's the quality of input DNA, and controlling the resulting levels of PCR duplicates that matters.</p><p>Our latest work, led by Nicolas Rochette and Angel Rivera-Colón, (and in collaboration with Shane Campbell-Staton and Floragenex) shows this in great detail via modeling and experimental analysis. Now published in Molecular Ecology Resources: </p><p><a href="https://doi.org/10.1111/1755-0998.13800" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="ellipsis">doi.org/10.1111/1755-0998.1380</span><span class="invisible">0</span></a></p>
Physalia-courses<p>🥁Registration is now open for the next edition of the <a href="https://mas.to/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> <a href="https://mas.to/tags/dataanalysis" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>dataanalysis</span></a> course with <span class="h-card"><a href="https://mas.to/@naiara_re" class="u-url mention" rel="nofollow noopener" target="_blank">@<span>naiara_re</span></a></span> @TerezaManousaki &amp; @NataliaDA10<br> </p><p>Have a look at it: <a href="https://physalia-courses.org/courses-workshops/course16/" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="ellipsis">physalia-courses.org/courses-w</span><span class="invisible">orkshops/course16/</span></a></p><p><a href="https://mas.to/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>bioinformatics</span></a> <a href="https://mas.to/tags/genomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>genomics</span></a></p>
Felix Zareie-Vaux<p>Cool new study that quantifies sample cross-contamination, including laboratory mitigation methods: <a href="https://doi.org/10.1093/icesjms/fsad004" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="ellipsis">doi.org/10.1093/icesjms/fsad00</span><span class="invisible">4</span></a></p><p><a href="https://mastodon.social/tags/genomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>genomics</span></a> <a href="https://mastodon.social/tags/genetics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>genetics</span></a> <a href="https://mastodon.social/tags/GBS" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBS</span></a> <a href="https://mastodon.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a> <a href="https://mastodon.social/tags/fisheries" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>fisheries</span></a> <a href="https://mastodon.social/tags/tuna" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>tuna</span></a> <a href="https://mastodon.social/tags/fieldwork" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>fieldwork</span></a> <a href="https://mastodon.social/tags/marinesci" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>marinesci</span></a> <a href="https://mastodon.social/tags/marinebio" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>marinebio</span></a> <a href="https://mastodon.social/tags/ecology" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ecology</span></a> <a href="https://mastodon.social/tags/conservation" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>conservation</span></a></p>
Felix Zareie-Vaux<p>To get the ball rolling, I'd like to share a recent paper! Genotyping-by-sequencing for biogeography: <a href="https://doi.org/10.1111/jbi.14516" rel="nofollow noopener" target="_blank"><span class="invisible">https://</span><span class="">doi.org/10.1111/jbi.14516</span><span class="invisible"></span></a></p><p>We provide a practical guide for <a href="https://mastodon.social/tags/biogeography" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>biogeography</span></a> using <a href="https://mastodon.social/tags/GBS" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>GBS</span></a> or <a href="https://mastodon.social/tags/RADseq" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>RADseq</span></a>, which should particularly assist new users or students. There's a wealth of research exploring differences in reduced-representation sequencing (RRS) methods, sources of genotyping error, and much more. Our aim was to guide new users through this exciting literature. <a href="https://mastodon.social/tags/genomics" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>genomics</span></a> <a href="https://mastodon.social/tags/ecology" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>ecology</span></a> <a href="https://mastodon.social/tags/evolution" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>evolution</span></a> <a href="https://mastodon.social/tags/DNA" class="mention hashtag" rel="nofollow noopener" target="_blank">#<span>DNA</span></a></p>