Mathstodon

Boas Pucker🎓 Our <a href="https://mastodon.social/tags/Python" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Python</a> course concludes with student project presentations covering topics like genomic feature extraction, sequence analysis, and large-scale data wrangling. 👉 See the course materials on GitHub: <a href="https://github.com/bpucker/PyBo" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://github.com/bpucker/PyBo</a> <a href="https://mastodon.social/tags/OpenScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#OpenScience</a> <a href="https://mastodon.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bioinformatics</a> <a href="https://mastodon.social/tags/PythonProgramming" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#PythonProgramming</a> <a href="https://genomic.social/@PuckerLab" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@PuckerLab</a>

Melbourne BioinformaticsMelbourne Bioinformatics is hosting a FREE workshop on Hybrid de novo genome assembly using Galaxy. Save the date: Thursday, 5 June 2025, 1:00 PM - 4:00 PM AEST at 21 Bedford Street North Melbourne, VIC 3051. <a href="https://genomic.social/tags/GenomeAssembly" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#GenomeAssembly</a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bioinformatics</a> <a href="https://www.eventbrite.com.au/e/hybrid-de-novo-genome-assembly-nanopore-and-illumina-using-galaxy-tickets-1232439251979?aff=oddtdtcreator" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.eventbrite.com.au/e/hybrid-de-novo-genome-assembly-nanopore-and-illumina-using-galaxy-tickets-1232439251979?aff=oddtdtcreator</a>

jobRxivQuadram Early Career Fellowship Quadram Institute BioscienceWe have an exciting opportunity for Early Career Researchers to join a fellowship scheme to help individuals become future leadersSee the full job description on jobRxiv: <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94859" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94859</a><a href="https://mas.to/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://mas.to/tags/genetics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genetics</a> <a href="https://mas.to/tags/gut_microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#gut_microbiome</a> <a href="https://mas.to/tags/micr" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#micr</a>... <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94859" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94859</a>

Bioconductor📣 GBCC2025 Poster Abstracts Deadline ExtendedGood news! The deadline for submitting your abstract for a poster presentation at GBCC2025 has been extended to May 9th. Join us at Cold Spring Harbor, June 23–26.We’re looking forward to seeing your work!🔗 Submit here: <a href="https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/</a> <a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#GBCC2025</a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bioinformatics</a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#DataScience</a>

naturepokerQuestion for dorado correct/herro users out there. What's the final corrected fasta yield like on your end? I'm feeding in r10 fastq with 13 billion bases and getting back 2.4 m bases in return, not sure if this is expected. 😅 <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

naturepokerSo what are people using to visualize gfa files these days? I've been using ctlab fork of BandageNG (<a href="https://github.com/ctlab/BandageNG" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://github.com/ctlab/BandageNG</a>) but it looks like older BandageNG is finally getting updated too (<a href="https://github.com/asl/BandageNG" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://github.com/asl/BandageNG</a>) Or are there better gfa graph visualization solutions out there now? <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Dave Tabb<a href="https://mastodon.world/@bitflipped" class="u-url mention" rel="nofollow noopener noreferrer" target="_blank">@bitflipped</a> Hi, Cameron! I also enjoy C# programming, though I'm using it professionally rather than for fun. I use .NET for <a href="https://mastodon.africa/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> research. My code is frequently appalling; the first versions of the software I'm writing now were crafted in Emacs but built with the .NET 4.0 command line compiler. One of my junior colleagues created some features that required that I update to the Visual Studio build system instead...

nf-corePipeline release! nf-core/airrflow v4.3.0 - v4.3.0 - Revelio!Please see the changelog: <a href="https://github.com/nf-core/airrflow/releases/tag/4.3.0" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://github.com/nf-core/airrflow/releases/tag/4.3.0</a><a href="https://mstdn.science/tags/airr" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#airr</a> <a href="https://mstdn.science/tags/bcell" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bcell</a> <a href="https://mstdn.science/tags/immcantation" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#immcantation</a> <a href="https://mstdn.science/tags/immunorepertoire" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#immunorepertoire</a> <a href="https://mstdn.science/tags/repseq" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#repseq</a> <a href="https://mstdn.science/tags/nfcore" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#nfcore</a> <a href="https://mstdn.science/tags/openscience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#openscience</a> <a href="https://mstdn.science/tags/nextflow" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#nextflow</a> <a href="https://mstdn.science/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Albert Cardona2-year Postdoc Position: Evolution and Organization of Ant Olfactory Systems– in Carlotta Martelli's lab at Johannes Gutenberg University Mainz, Germany.<a href="https://mrtlllab.uni-mainz.de/wp-content/uploads/2025/01/PostDoc-Position-Neuro-Ants-150125.pdf" target="_blank" rel="nofollow noopener noreferrer" translate="no">https://mrtlllab.uni-mainz.de/wp-content/uploads/2025/01/PostDoc-Position-Neuro-Ants-150125.pdf</a>"The ideal candidate should have a strong background in bioinformatics, ideally with practical or theoretical experience in single-cell transcriptomics or comparative genomics. A keen interest in neurobiology is essential. Additional skills in evolutionary biology, insect handling, and programming (preferably in Python) would be advantageous, but are not mandatory."Position still open!<a href="https://mathstodon.xyz/tags/ants" class="mention hashtag" rel="tag">#ants</a> <a href="https://mathstodon.xyz/tags/PhDJobs" class="mention hashtag" rel="tag">#PhDJobs</a> <a href="https://mathstodon.xyz/tags/postdocJob" class="mention hashtag" rel="tag">#postdocJob</a> <a href="https://mathstodon.xyz/tags/neuroscience" class="mention hashtag" rel="tag">#neuroscience</a> <a href="https://mathstodon.xyz/tags/entomology" class="mention hashtag" rel="tag">#entomology</a> <a href="https://mathstodon.xyz/tags/olfaction" class="mention hashtag" rel="tag">#olfaction</a> <a href="https://mathstodon.xyz/tags/bioinformatics" class="mention hashtag" rel="tag">#bioinformatics</a>

Dave TabbI have been attempting to install the "Lite" version of the "Zeiss <a href="https://mastodon.africa/tags/Microscopy" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Microscopy</a> Installer" all afternoon. At this point, I largely want the installation process to finish so I can fully uninstall it (or perhaps just format the hard drive-- it's the only way to be sure). <a href="https://mastodon.africa/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

rspI'm trying to extract the mitogenome from a whole genome Illumina shotgun sequence dataset (150 bp reads). The organism has the entire mitogenome inserted in the nuclear genome (a NUMT). How can I be sure my mitogenome assembly is the real mitogenome?<a href="https://ecoevo.social/tags/genome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genome</a> <a href="https://ecoevo.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://ecoevo.social/tags/Genomics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Genomics</a>

Aidan :rna:Excited to announce our article, "EvoWeaver: large-scale prediction of gene functional associations from coevolutionary signals" was just published in Nature Communications!We demonstrate that it's possible to infer how genes work together using only sequencing data by leveraging correlated signals of evolution. Check it out at the link below!<a href="https://genomic.social/tags/genomics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genomics</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://genomic.social/tags/rstats" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#rstats</a> <a href="https://genomic.social/tags/genetics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genetics</a> <a href="https://genomic.social/tags/evolution" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#evolution</a> <a href="https://genomic.social/tags/biology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#biology</a> <a href="https://www.nature.com/articles/s41467-025-59175-6" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.nature.com/articles/s41467-025-59175-6</a>

naturepokerQuestion for <a href="https://genomic.social/tags/archaea" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#archaea</a> <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> folks: I'm looking at a specific contig in an Archaeal genome with repeat elements that remain difficult to resolve even with 100~1000x coverage and minimum 10k read length. Anyone else dealt with something similar? What could I even be looking at?

multimericLooking for some examples of people using Pydantic in bioinformatics. First relevant result is... oh my own conference talk. How unhelpful.<a href="https://genomic.social/tags/pydantic" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#pydantic</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

naturepokerTesting out Autocycler for some tough genomes - which also means I get to test out new crop of assemblers as well. For certain types of repeat-rich Archaeal genomes, hifiasm seems to be a great choice. Certainly more than good enough complement to the standard Flye output! <a href="https://genomic.social/tags/microbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#microbiology</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Pierre LindenbaumHeng Li: "If you want to check if a human gene has copy-number changes or lands in a complex region, try <a href="http://pangene.bioinweb.org" rel="nofollow noopener noreferrer" translate="no" target="_blank">http://pangene.bioinweb.org</a>. Recently updated with more and better assemblies."<a href="https://xcancel.com/lh3lh3/status/1915934587601014926#m" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://xcancel.com/lh3lh3/status/1915934587601014926#m</a><a href="https://genomic.social/tags/pangenome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#pangenome</a> <a href="https://genomic.social/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a>

Bioconductor📣 GBCC2025 Poster AbstractsThere’s still time to submit your abstract for a poster presentation at GBCC2025! Submit by May 1st to join us at Cold Spring Harbor, June 23–26.We’re looking forward to seeing your work!🔗 Submit here: <a href="https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/</a> <a href="https://genomic.social/tags/GBCC2025" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#GBCC2025</a> <a href="https://genomic.social/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bioinformatics</a> <a href="https://genomic.social/tags/DataScience" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#DataScience</a>

Academic EuropeJob - Alert 💊✨ Postdoctoral Researcher (f/m/d)Deadline: Position is open until filled Location: Germany, Düsseldorf, Nordrhein Westfalen <a href="https://www.academiceurope.com/job/?id=7467" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://www.academiceurope.com/job/?id=7467</a><a href="https://mstdn.business/tags/hiring" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#hiring</a> <a href="https://mstdn.business/tags/DiabetesResearch" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#DiabetesResearch</a> <a href="https://mstdn.business/tags/Bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Bioinformatics</a> <a href="https://mstdn.business/tags/Postdoc" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#Postdoc</a> <a href="https://mstdn.business/tags/ObesityResearch" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#ObesityResearch</a> <a href="https://mstdn.business/tags/computationalbiology" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#computationalbiology</a> <a href="https://mstdn.business/tags/DDZ" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#DDZ</a>

jobRxivQuadram Early Career Fellowship Quadram Institute BioscienceWe have an exciting opportunity for Early Career Researchers to join a fellowship scheme to help individuals become future leadersSee the full job description on jobRxiv: <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665</a><a href="https://mas.to/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://mas.to/tags/genetics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genetics</a> <a href="https://mas.to/tags/gut_microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#gut_microbiome</a> <a href="https://mas.to/tags/micr" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#micr</a>... <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665</a>

jobRxivQuadram Early Career Fellowship Quadram Institute BioscienceWe have an exciting opportunity for Early Career Researchers to join a fellowship scheme to help individuals become future leadersSee the full job description on jobRxiv: <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658</a><a href="https://mas.to/tags/bioinformatics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#bioinformatics</a> <a href="https://mas.to/tags/genetics" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#genetics</a> <a href="https://mas.to/tags/gut_microbiome" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#gut_microbiome</a> <a href="https://mas.to/tags/micr" class="mention hashtag" rel="nofollow noopener noreferrer" target="_blank">#micr</a>... <a href="https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658" rel="nofollow noopener noreferrer" translate="no" target="_blank">https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658</a>

Recent searches

Search options

Administered by:

Server stats:

#bioinformatics