Testing 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!
Heng Li: "If you want to check if a human gene has copy-number changes or lands in a complex region, try http://pangene.bioinweb.org. Recently updated with more and better assemblies."
GBCC2025 Poster Abstracts
There’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: https://gbcc2025.bioconductor.org/abstracts/submission_guidelines/
Quadram Early Career Fellowship
Quadram Institute Bioscience
We have an exciting opportunity for Early Career Researchers to join a fellowship scheme to help individuals become future leaders
See the full job description on jobRxiv: https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665
#bioinformatics #genetics #gut_microbiome #micr...
https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94665
Quadram Early Career Fellowship
Quadram Institute Bioscience
We have an exciting opportunity for Early Career Researchers to join a fellowship scheme to help individuals become future leaders
See the full job description on jobRxiv: https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658
#bioinformatics #genetics #gut_microbiome #micr...
https://jobrxiv.org/job/quadram-institute-bioscience-27778-quadram-early-career-fellowship/?feed_id=94658
Pipeline release! nf-core/demultiplex v1.6.1 - 1.6.1!
Please see the changelog: https://github.com/nf-core/demultiplex/releases/tag/1.6.1
New Publication!
Our first paper on Bioconductor training from the Bioconductor Training Committee is now published in PLOS Computational Biology. We're pleased to share our work with the community.
Read here: https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1012925
Thank you to everyone involved for your contributions!
Rainy day = perfect time for hands-on Python work 
Our students are tackling real bioinformatics problems—cleaning FASTA-like files, extracting sequences, and generating molecular markers. #Python #Bioinformatics @PuckerLab
Linux System Administrator (m/f/d) in Bioinformatics Industry
Dresden
"Scionics Computer Innovation GmbH excels in offering cutting-edge consulting, services, and support tailored to academic institutions and scientific research organizations. We specialize in seamlessly integrating information technology with biology and the life sciences, serving as a vital conduit between IT and research. As a prominent member of the vibrant and globally connected Biopolis Dresden research campus, we actively collaborate with diverse life science companies and esteemed academic research institutions.
Currently, we are looking to expand our service team in Dresden, Germany, and are seeking a highly skilled Linux System Administrator to join us on a full-time basis and onsite."
www.empfehlungsbund.de/jobs/276849/linux-system-administrator-m-strich-f-strich-d-in-bioinformatics-industry
#Scionics #Linux #SystemAdministration #SysAdmin #Bioinformatics #Job #Jobs #FedHire #SiliconSaxony #Dresden
Couldn’t wait to share - SQUARNA 2.0 is here, with greatly improved performance in single-sequence RNA secondary structure prediction!
https://github.com/febos/SQUARNA
Updated preprint is coming soon :)
New Bioconductor blog post on Outreachy internship experience by Kate Rasheed
and Aleru Divine, mentored by the #bugsigdb team. Check it out here: https://blog.bioconductor.org/posts/2025-04-23-outreachy-interns-experience/
Time’s running out! Submit your abstract for #EuroBioC2025 by 24 April.
Join us this Sept in Barcelona to share your research, meet the #Bioconductor community & explore all things #Bioinformatics + #RStats.
https://eurobioc2025.bioconductor.org/pages/submissions.html
I'm curious, is anyone else seeing (rare) occasional reads duplication when converting dorado basecalled BAMs to fastq via bedtools?
Menghadiri seminar hasil an. Hotma Hutapea di prodi S3 Epidemiologi FKM University of Indonesia dengan topik penelitian mengenai long COVID. Berfoto dengan Prof Mako, Dekan FKM UI, dengan jajarannya. Juga ada prof Sunarno , dari BRIN & Pak Adi Yulandi dari Universitas Atmajaya Jakarta
Sebagai ko-promotor, saya sangat puas dengan upaya Bu Hotma untuk mengintegrasikan Epidemiologi dengan Biologi molekuler dan Bioinformatika. 
#COVID19 #epidemiology #bioinformatics #biomedicine
upcoming online workshop, 2x 2 hours, by the ERDERA project, on Rare Disease Maps, May 6 and 7 from 3-5pm CEST: "Rare Disease Maps"
https://www.europesays.com/uk/35649/ Making cell therapy accessible: challenges and opportunities #Agriculture #Bioinformatics #BiomedicalEngineering/Biotechnology #Biomedicine #biotechnology #general #Health #Healthcare #LifeSciences #UK #UnitedKingdom
Postdoctoral Research Scientist
Earlham Institute
Applications are invited for a Postdoctoral Research Scientist to join the Research Faculty Department at the Earlham Institute, based in Norwich, UK.
See the full job description on jobRxiv: https://jobrxiv.org/job/earlham-institute-27778-postdoctoral-research-scientist-7/?feed_id=94487
#bioinformatics #computational_biology #computational_ge...
https://jobrxiv.org/job/earlham-institute-27778-postdoctoral-research-scientist-7/?feed_id=94487
Heng Li's bliog: Short RNA-seq read alignment with minimap2 https://lh3.github.io/2025/04/18/short-rna-seq-read-alignment-with-minimap2
"TL;DR: the new preset splice:sr in minimap2 can align short RNA-seq reads. It is similar to STAR in resource usage, approaches STAR in junction accuracy, and is overall better at SNP calling."
https://www.europesays.com/uk/29907/ Vascular Ehlers Danlos Syndrome and Chromosome 2q32 Microdeletion Syndrome #Bioinformatics #Biomedicine #ChromosomeAbnormality #Cytogenetics #GeneExpression #general #GeneticTesting #Genetics #HumanGenetics #Science #UK #UnitedKingdom
Ahhh all I want for my team is MacBooks for local bioinformatics dev and some local Linux server compute power. Seems to be a never ending back and forth with IT… The challenge is bioinformatics is very different to the often assumed traditional data science or software dev… 
#bioinformatics
