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Reposted by Torsten Seemann

MicroSeq2025 @microseqasm.bsky.social · Jul 21

🚨Abstract submission & registration for #MicroSeq2025 is OPEN! 🚨Get in quick! The first 50 registrations are FREE for PhD students and ECRs who are current ASM members, thanks to @aussocmic.bsky.social.

Head to our website to register now 👇
www.microseqconference.com/registration...

Registration and abstract submission for MicroSeq2025 is open. Abstract submission closes August 8, 2025. Participants can register at microseqconference.com. MicroSeq2025 is an online meeting being held on September 3rd and 4th, focused on research being conducted on sequencing data generated from microbiological samples (bacteria, fungi, and viruses). MicroSeq2025 is supported by The Australian Society for Microbiology, the Australasian Virology Society, and Microbial Genomics.

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Torsten Seemann @torstenseemann.bsky.social · Jun 25

Google Slides has a new "Stock images" option when you "Insert Image" - you get these two options for the search term #bioinfortmics ...

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Reposted by Torsten Seemann

Austin Richardson @agdr.org · May 24

🚀 Pushed some updates to taxonomy.onecodex.com

- Example queries to help you get started
- Summary section for easier interpretation
- Perf. improvements

Taxonomy Time Machine

Explore and compare the history of the NCBI Taxonomy Database. Instantly browse, search, and reconstruct taxonomic lineages at any point in time. Open source, web-based, and API-accessible.

taxonomy.onecodex.com

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Reposted by Torsten Seemann

Kristian G. Andersen @kgandersen.bsky.social · May 28

You might be wondering why we haven't updated outbreak.info for months.

Well, the reason is that GISAID cut our access in January - as they did others. Without telling us.

After a ♾️ back and forth, that is now permanent.

More on that soon - and why GISAID should not be trusted with critical data.

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Reposted by Torsten Seemann

ak-bioinformatics.bsky.social @ak-bioinformatics.bsky.social · Apr 14

On more than one occasion I've thought of a cool idea for a bioinformatics program only to realize @torstenseemann.bsky.social already wrote it a decade ago.

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Torsten Seemann @torstenseemann.bsky.social · Mar 14

The 1973 edition of Google Maps. #nostalgia #Melbourne

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Torsten Seemann @torstenseemann.bsky.social · Mar 12

🚀🧬 MY former colleague @micamer.bsky.social who I worked with in the early years of my career has released a BLAST service (GUI + API options) which replicates the NCBI services but with faster response times.

micamer.bsky.social @micamer.bsky.social · Mar 11

We would love feedback on a new NCBI-BLAST service we are launching today: sky-blast.com

Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable

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Torsten Seemann @torstenseemann.bsky.social · Mar 10

I'd only need white tiles for that these days 🫤

Torsten Seemann @torstenseemann.bsky.social · Mar 10

The 10-millionth job run on Galaxy Australia turned out to be my Abricate tool, which itself has been run nearly 500K times. 🤯

If only I had a dollar for every run! 😜

Australian BioCommons @ausbiocommons.bsky.social · Mar 5

Which locally-developed bioinformatics tool was used to run Galaxy Australia’s 10 millionth job? It has been used to screen for antimicrobial resistance and virulence genes in 490,507 jobs run on #GalaxyAustralia so far! Clue: @torstenseemann.bsky.social www.biocommons.org.au/news/10m-jobs

Galaxy Australia’s 10 millionth job relied on popular locally-developed tool — Australian BioCommons

The ten millionth job completed on the Galaxy Australia service analysed pathogen samples for known antibiotic resistance genes using the ABRicate tool. You’d be surprised how many time this Australia...

www.biocommons.org.au

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Torsten Seemann @torstenseemann.bsky.social · Mar 10

While browsing for a new place to rent I came across this bathroom tile design. Makes me want a pixel-art shower one day. Or a valid QR code?

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Torsten Seemann @torstenseemann.bsky.social · Mar 4

🦘✂️ Thanks to @cziscience.bsky.social , @wytamma.bsky.social and I are writing the next version of the Snippy bacterial variant calling pipeline. We want your input on what features s it will have. Please fill out this (longish) survey to help make Snippy great again!
forms.gle/YJP6WQjsk8KK...

Snippy: Microbial Variant Calling Community Survey

Help us drive the next wave of innovation in Single-Nucleotide Polymorphism (SNP) discovery and genome analysis by sharing your valuable experiences and insights. This in-depth survey aims at understa...

forms.gle

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Reposted by Torsten Seemann

Kelsey Florek @k-florek.net · Feb 28

Big thanks to @torstenseemann.bsky.social for hosting me at the Centre for Pathogen Genomics. It was lovely to meet everyone and see the awesome binfo work happening in Asia-Pacific!

#Austrakka #Bioinformatics #PublicHealth

Dr. Torsten Seemann and Dr. Kelsey Florek standing in front of a seated audience next to a presentation slide displaying the title "Building Resilient Public Health Genomic Systems with Data Lakes and Automation".

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Torsten Seemann @torstenseemann.bsky.social · Feb 5

Want to help build capacity public health pathogen bioinformatics in the Asia Pacific region?
🦘 Based in Melbourne Australia with me
✈️ Travel to and work internationally
🧠 Lead strategy, training & infrastructure
Applications close soon!
jobs.unimelb.edu.au/caw/en/job/9...

Details : Bioinformatician, International Training & Research : The University of Melbourne

Careers at The University of Melbourne

jobs.unimelb.edu.au

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Torsten Seemann @torstenseemann.bsky.social · Jan 13

Don't know who to follow for the best in microbial bioinformatics?

This is the Starter Pack you need!

bsky.app/starter-pack...

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Torsten Seemann @torstenseemann.bsky.social · Dec 29

Really hoping there isn't a Y2.25K bug we missed.

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Torsten Seemann @torstenseemann.bsky.social · Dec 8

When blue screens were what made kids dream.

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Reposted by Torsten Seemann

Jason Moore @moorejh.bsky.social · Dec 7

Love this poster on the Mandelbrot Set

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Reposted by Torsten Seemann

Michael Hall @mbhall88.bsky.social · Dec 3

🌟 Excited to share my latest preprint with @lachlanjmc.bsky.social on @biorxivpreprint.bsky.social: "Genome size estimation from long read overlaps”! 🚀

Check it out here: doi.org/10.1101/2024...
And find the code here: github.com/mbhall88/lrge

🧵👇

doi.org

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Reposted by Torsten Seemann

Martin Hunt @martibartfast.bsky.social · Nov 29

I just made a first release of TNA - new tool to compare 2 bacterial genomes. Is shamelessly inspired by ACT, but should be simpler to use. Drag-n-drop two genomes: it runs BLAST for you and then you can visualize. For Mac, Windows 11, Linux tna.readthedocs.io

TNA documentation — TNA 0.0.1 documentation

tna.readthedocs.io

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Torsten Seemann @torstenseemann.bsky.social · Nov 27

I wasn't at AGTA and was unaware of the name clash. Bummer. Great minds I guess? @benjwoodcroft.bsky.social

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Torsten Seemann @torstenseemann.bsky.social · Nov 26

I nominate this for #bioinformatiocs tool name of the year. I love it when Aussie home grown software have some "Australiana" in them! 🇦🇺
github.com/AroneyS/binc...

GitHub - AroneyS/binchicken: Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly

Bin Chicken - recovery of low abundance and taxonomically targeted metagenome assembled genomes (MAGs) through strategic coassembly - AroneyS/binchicken

github.com

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Torsten Seemann @torstenseemann.bsky.social · Oct 8

Today I discovered that there is a street near my house named "Nullarbor Pl". I could take my laptop down there and run "nullabor.pl" at Nullarbor Pl. #coincidence

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