Andreas Sjödin

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Andreas Sjödin

Andreas Sjödin

@druvus

Metagenomics and Microbial Forensics

Sweden Katılım Nisan 2010
3.4K Takip Edilen3.6K Takipçiler
Andreas Sjödin
Andreas Sjödin@druvus·
Three decades of biodiversity data, published a decade after we started! Our new paper in @NatureComms shows how airborne eDNA from archived aerosol filters can track ecosystem changes across the tree of life—2700+ genera, weekly resolution, 34 years. nature.com/articles/s4146…
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Ryan Wick
Ryan Wick@rrwick·
New year, new assemblies! I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes! It's the successor to Trycycler, designed to be faster and less reliant on user intervention. Check it out: github.com/rrwick/Autocyc… (1/5)
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Andreas Sjödin
Andreas Sjödin@druvus·
Working on designing a new hybridisation capture panel for a virus family. Previously used CATCH to select optimal set of probes but now looking for alt tools setting tiling coverage to 2 or 3 intead of complete coverage. Any recommendation of tools or code that can do it?
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Andreas Sjödin
Andreas Sjödin@druvus·
Come and join our meeting in Sweden next autumn! Some parts of it will cover sequencing, AI and bioinformatics in the CBRNe field. Happy to discuss ideas for potential talks.
FOI@FOIresearch

Sign up for next year's CBRNe Protection Symposium! A perfect opportunity to learn more about the latest in CBRNe protection research, showcase your own research. We also welcome abstract submissions for oral or poster presentation. More information here: ow.ly/g2kv50Ui2Hx

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Dr Emma Hodcroft
Dr Emma Hodcroft@firefoxx66·
One of the reasons I've been quiet on Twitter for a few months is because I've been working on something big - something I'm really happy to share now! Pathoplexus.org A new, open-source database for pathogen sequence sharing. 👐🧬🌎 1/12
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George Bouras
George Bouras@GB13Faithless·
If you’ve just put together a bioinformatics software package and want to put it on Bioconda and get easy docker/singularity containers at the same time, here’s a nice tutorial by @jfy133 - this would’ve saved me a lot of time (before I met @viji112 at least!)
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Stefano Mangiola
Stefano Mangiola@steman_research·
🧹🤩 #tidyomics made it to @naturemethods! "The tidyomics ecosystem: Enhancing omic data analyses", 👏🏽, @hutchisonwj0, @timothykeyes, and Team! 32 researchers | 26 institutes | 10 countries | 4 continents A #crowd/#community-research success nature.com/articles/s4159… @cziscience
Stefano Mangiola@steman_research

🎉🧹 The #tidyomics ecosystem is official! Into #omic data analysis? Spanning #Seurat @Bioconductor #SCE, #SE, #GRanges, #Citometry? Now, just use #tidyverse ! Co-led with @mikelove and @TonyPapenfuss @WEHI_research #singlecell The preprint biorxiv.org/cgi/content/sh…

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Ryan Wick
Ryan Wick@rrwick·
New blog post: rrwick.github.io/2024/06/11/sho… ONT-only bacterial assemblies are much better than they were only a couple of years ago. Often <10 errors in the whole genome. Does that mean that less short-read sequencing is required for polishing? See my post for the answer! (1/4)
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Ryan Wick
Ryan Wick@rrwick·
I wrote a new blog post with @GB13Faithless: rrwick.github.io/2024/02/15/mis… In it, we describe a couple interesting mistakes we found in long-read bacterial genome assemblies. I think they demonstrate a few valuable lessons: (1/2)
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Andreas Sjödin
Andreas Sjödin@druvus·
Feels like yesterday we published our first nanopore scaffolding paper back in 2015. They quality was not good enough for assembly so we had to use that amazing machine that could generate long reads. nature.com/articles/srep1…
Oxford Nanopore@nanopore

Today marks #10yearsON from the MinION Access Programme launch. After a decade of innovation (yours and ours), we'd love to hear your ambitions for the next 10 years of distributed sequencing. Learn more about MinION: nanoporetech.com/products/seque…

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Andreas Sjödin
Andreas Sjödin@druvus·
Lets start the scientific evaluation of different Semla buns
Andreas Sjödin tweet media
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Rasmus Kirkegaard
Rasmus Kirkegaard@kirk3gaard·
With improvement in @nanopore basecalling we now get reads of Q20+ (soon Q30?). Are anyone actively working on establishing a standardized workflow for 16S rRNA gene #amplicon processing to generate OTUs/ASVs in the style of QIIME/Mothur/USEARCH? #bioinformatics
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Keşfet

@NatureComms @MIB_WUR @WUR @nanopore @jfy133 @viji112 @naturemethods @timothykeyes