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Wytamma @wytamma.bsky.social · 4d

😮how does it compare?

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Wytamma @wytamma.bsky.social · Sep 4

Great work team!!

MicroSeq2025 @microseqasm.bsky.social · Sep 4

Until next year, @mozztacular.bsky.social, Asad, @royalfizzbin.bsky.social, Mozammel, @wytamma.bsky.social , Bec, and @rhyshparry.bsky.social out!
#MicroSeq2025

Wytamma @wytamma.bsky.social · Sep 3

I'm hiding ;)

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MicroSeq2025 @microseqasm.bsky.social · Sep 3

Your #MicroSeq2025 committee - @mozztacular.bsky.social , Asad Prodhan, @royalfizzbin.bsky.social , Mozammel Hoque, @wytamma.bsky.social , Rebecca Roach, and @rhyshparry.bsky.social - are all here and ready to go! 🫡

Please feel free to reach out to any of us w/ questions or concerns at any time ♥️

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George Bouras @gbouras13.bsky.social · Aug 8

Stoked to finally have a preprint out for Phold, our tool that uses protein structural information to enhance phage genome annotation #phagesky 1/n

www.biorxiv.org/content/10.1...

Protein Structure Informed Bacteriophage Genome Annotation with Phold

Bacteriophage (phage) genome annotation is essential for understanding their functional potential and suitability for use as therapeutic agents. Here we introduce Phold, an annotation framework utilis...

www.biorxiv.org

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Robert Petit @rpetit3.bsky.social · Aug 6

Howdy! I'm currently writing up version 4 of Bactopia!

Similar to previous major versions, I've started an issue on Github to track v4 progress. If you are a user of Bactopia and would like to help with feedback or with code, check out the following link:

github.com/bactopia/bac...

Bactopia v4 - Overview & Help Wanted · Issue #628 · bactopia/bactopia

Bactopia v4 Yo! Well, it is about that time! I am planning to release version 4 of Bactopia in the near future. With this version, Bactopia will introduce new and exciting things, but at the same t...

github.com

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MicroSeq2025 @microseqasm.bsky.social · Aug 7

We are delighted to announce our plenary speakers for #MicroSeq2025! Dr Rose Collis, Dr Jackie Mahar, Dr Peter Mee, and Dr Leah Roberts! We’ll be treated to four excellent talks across September 3-4. We can’t wait! Register below👇
trybooking.com/events/landing/1424679

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MicroSeq2025 @microseqasm.bsky.social · Aug 5

🏆 #MicroSeq2025 has plenty of awards on offer! 💰 Cash prizes for best talks are sponsored by @aussocmic.bsky.social, @ausvirologysoc.bsky.social, and #MGen.

Plus, loads of merch on offer for the best question of each session! 🖊️📔

Register to submit an abstract👇
trybooking.com/events/landing/1424679

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's cash prizes for best talk ($150) and best lightning talk ($50) are sponsored by The Australian Society for Microbiology. The best virology talk ($100) is sponsored by the Australasian Virology Society. The People's Choice awards for best talk ($100) and best lightning talk ($50) are sponsored by Microbial Genomics. In 2025, the new Innovation in Bioinformatics prize ($100) is being introduced. This prize is specifically for a talk of any length featuring a newly developed bioinformatic software, tool, or pipeline applicable to research utilising the sequencing data of microbes. Merch prizes will be given to the best question asked in each session.

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Miguel 💻🧬 @ahmig.es · Jul 30

VIPERA v1.2.2 is out!! 🐍

now you can swap in different stats (useful for non-linear allele freq trends). also: new Docker images on release, containerized CI, updated envs, and minor bug fixes for smoother, reproducible intra-patient SARS-CoV-2 analyses

🧪👉 github.com/PathoGenOmics-Lab/VIPERA

GitHub - PathoGenOmics-Lab/VIPERA: A Snakemake workflow for SARS-CoV-2 Viral Intra-Patient Evolution Reporting and Analysis

A Snakemake workflow for SARS-CoV-2 Viral Intra-Patient Evolution Reporting and Analysis - PathoGenOmics-Lab/VIPERA

github.com

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Wytamma @wytamma.bsky.social · Jul 26

Our study on SARS-CoV-2 dynamics and long COVID in Nepal has made it to preprint 🎉 Huge thanks everyone from BNMT, Center for Molecular Dynamics Nepal (CMDN), and the Centre for Pathogen Genomics at The Peter Doherty Institute for Infection and Immunity 👏👏👏

www.medrxiv.org/content/10.1...

The geospatial phylodynamics of SARS-CoV-2 in Nepal and clinical phenotype of long COVID during the Delta-Omicron waves

The COVID-19 pandemic exposed gaps in global emerging infectious disease preparedness, particularly for countries with high levels of economic migration, such as Nepal. The Epidemic Intelligence proje...

www.medrxiv.org

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Wytamma @wytamma.bsky.social · Jul 24

Had a great time at #SMBE2025 presenting our work of bacterial genome classification with AI github.com/bloodhound-d...

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MicroSeq2025 @microseqasm.bsky.social · Jul 3

🦋Hello BlueSky!🦋 Let's get right into it. MicroSeq is back September 3-4, 2025! Stay tuned for more details on registration and abstract submission coming soon here and at www.microseqconference.com. 🌟Save the date!🌟
#MicroSeq2025

A call to save the date for MicroSeq2025, returning September 3-4. MicroSeq is an online meeting where microbiology meets sequencing, including bacteria, viruses, and fungi.

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Andrew Rambaut @arambaut.bsky.social · Jul 2

BEAST X v10.5.0 finally released – you can't just do beta releases forever. github.com/beast-dev/be...

Details and instructions for installing on the BEAST website: beast.community

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Eddie Holmes @eddieholmes.bsky.social · Jul 2

Only the fourth case of ABLV in humans. Although ABLV is classified as a different species to rabies virus, the disease is more of less rabies: www.health.nsw.gov.au/news/Pages/2...

News - Community urged not to touch bats after rare case of Australian bat lyssavirus

NSW Health confirms first bat lyssavirus case in 2025. Avoid handling bats and seek urgent care if bitten or scratched. Only trained experts should manage injured bats.

www.health.nsw.gov.au

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Wytamma @wytamma.bsky.social · Jul 1

🎉

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Robert Aboukhalil @robert.bio · Jun 10

Excited to announce our first interactive article on sandbox.bio, about genomic ranges: sandbox.bio/concepts/gen...

Move & resize the ranges to see how that affects bedtools operations like merge and intersect in real time!

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Pathoplexus @pathoplexus.org · May 22

📢Today Pathoplexus announces the inclusion of 2 new viral pathogens: RSV (A & B) and HMPV.

These respiratory viruses cause a serious health burden, particularly in infants & the vulnerable, & Pathoplexus aims to support sequence sharing to improve understanding & response.

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Screenshot of the homepage of Pathoplexus, showing tiles to navigate to the supported pathogens CCHF, Ebola Sudan, Ebola Zaire, HMPV, Mpox, RSV-A, RSV-B, and West Nile virus.

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Wytamma @wytamma.bsky.social · May 29

Please move genomes to an open pathogen platform like pathoplexus.org!

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Wytamma @wytamma.bsky.social · May 6

It’s starting to look like you might need some long reads to resolve your assembly graph 😂

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Andrea Telatin @telatin.bsky.social · Apr 10

Hello binfies 👋!

There is an open position for a senior bioinformatician to join our fab **core bioinformatics** team at @quadraminstitute.bsky.social.

jobs.quadram.ac.uk/Details.asp?...

Core Bioinformatics team at QIB -- job offer to join the team as bioinformatics programmer as per link

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Wytamma @wytamma.bsky.social · Apr 1

Prompt injection is a feature not a bug

Reposted by Wytamma

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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Wytamma @wytamma.bsky.social · Feb 18

How much did this bad boy cost to make? Like low 10s of millions?

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Wytamma @wytamma.bsky.social · Feb 9

a man with a mustache is wearing a dark shirt

ALT: a man with a mustache is wearing a dark shirt

media.tenor.com

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Ryan Wick @rrwick.bsky.social · Feb 7

Dorado v0.9.1 now includes a bacterial model for genome polishing, so I put it to the test! How does it compare to Medaka? And does move-table data improve polishing accuracy? Read my analysis here:
rrwick.github.io/2025/02/07/d...

Medaka vs Dorado polish

a blog for miscellaneous bioinformatics stuff

rrwick.github.io

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