iiinova — where your digital self keeps evolving

Reposted by Carl M. Kobel

Javier Santoyo @jsantoyo.bsky.social · 18/09/2025

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes. #MicrobialGenomes #Bioinformatics 🧬 🖥️ academic.oup.com/bioinformati...

053

Reposted by Carl M. Kobel

Cameron Thrash @jcamthrash.bsky.social · 17/07/2024

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes www.biorxiv.org/content/10.1... #jcampubs

021

Reposted by Carl M. Kobel

Cameron Thrash @jcamthrash.bsky.social · 15/09/2025

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes academic.oup.com/bioinformati... #jcampubs

033

Reposted by Carl M. Kobel

Stephen Turner @stephenturner.us · 19/07/2024

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes www.biorxiv.org/content/10.1... 🧬🖥️ github.com/cmkobel/comp...

biorxiv.org

CompareM2 is a genomes-to-report pipeline for comparing microbial genomes

bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution

011

Reposted by Carl M. Kobel

Center for Evolutionary Hologenomics @hologenomics.bsky.social · 04/12/2024

👏Today our new Section Head Thomas Pontén officially takes over after Head of Section Morten Limborg! Thanks to Morten for all his work and welcome Thomas in your new important role!🤩 At today’s meeting Ostaizka introduces @hologen.bsky.social and Carl his #hologenomics tool CompareM2! 🦠💡 @dg.dk

021

Reposted by Carl M. Kobel

Maciek Wiatrak @macwiatrak.bsky.social · 21/07/2025

💥 Excited to introduce Bacformer 🦠 - the first foundation model for bacterial genomics. Bacformer represents genomes as sequences of ordered proteins, learning the “grammar” of how genes are arranged, interact and evolve. Preprint 📝: biorxiv.org/content/10.1... 🧵 1/n

39159

Reposted by Carl M. Kobel

Jennifer Goff, PhD @jlgoff.bsky.social · 02/02/2025

I want to expand on the extent to which IDEAA materials have been purged: I wrote an article last year for women’s history month on the history of women in antimicrobial development….DELETED.

4265119

Reposted by Carl M. Kobel

Phil B. Pope @microbesrule.bsky.social · 20/01/2025

Congratulations DR @cmkobel.bsky.social on the successful defense of your thesis 🙌🏼 Massive thanks to @hairyllama.bsky.social and @manuelkleiner.bsky.social for the time and your style which made the day all the more entertaining.

063

Carl M. Kobel @cmkobel.bsky.social · 08/12/2024

Coining the term "rumen community types" (RCT)

010

Reposted by Carl M. Kobel

Ove Øyås 🇺🇦 @oveoyas.bsky.social · 08/12/2024

New preprint out from @cmkobel.bsky.social, @velma-te-a.bsky.social, @microbesrule.bsky.social and many others! 📄 It's been very cool to follow and play a small part in this story: Carl and Velma found two distinct community types across omics layers in the cow rumen that are driven by protozoa 🐮👾

052

Reposted by Carl M. Kobel

Ove Øyås 🇺🇦 @oveoyas.bsky.social · 29/10/2024

Hi Bluesky! 🦋 I am transitioning to this platform and will start posting here about my own and others' cool science! 🤩 Sad to say goodbye to science Twitter, but I can't keep using a platform that is being used to destroy democracy... I'll be moving my old Twitter posts here in the coming days.

032

Carl M. Kobel @cmkobel.bsky.social · 02/10/2024

My supervisor, @velma-te-a.bsky.social, is so cool!!! Check out her talk on ciliate multi-omics, taking you through a history of science. jams.org.au/index.php/ja...

000

Reposted by Carl M. Kobel

Thea Os Andersen @theaosandersen.bsky.social · 17/07/2024

Dreaming of a one-stop-shop for analysing microbial genomes using all your favorite tools? Look no further, CompareM2 is out 🤩

042

Reposted by Carl M. Kobel

Alex Crits-Christoph @acritschristoph.bsky.social · 28/06/2024

Microflora Danica: the atlas of Danish environmental microbiomes 10,686 shotgun metagenomes from a variety of environments across Denmark www.biorxiv.org/content/10.1...

01911

Reposted by Carl M. Kobel

Mieke Roth 🟥 @miekeroth.com · 11/07/2024

So strange this doesn't get any attention. Anyhow, maybe adding an illustration works. This is the exact same model

A rendered model of a daphnia, seen diagonally from the side

A render of the model of the daphnia, seen head on

511329

Reposted by Carl M. Kobel

Chris Rinke @chrisrinke.bsky.social · 15/12/2023

Currently, we have the following open positions in the Rinke Group for Microbial MultiOmics and Biorecycling (MMOB) @ the University of Innsbruck, Austria: 1x postdoc 3x PhD 1x RA More info @ rinkelab.org/index.php/op...

02528

Carl M. Kobel @cmkobel.bsky.social · 06/12/2023

Which style is better? data %>% mutate(type = "significant") or data %>% mutate(type = "significant")

010

Carl M. Kobel @cmkobel.bsky.social · 05/12/2023

Wouldn't it be better if R had a non-vector data type, then there would be no doubt distinguishing vectorized and non-vectorized functions?

000

Carl M. Kobel @cmkobel.bsky.social · 05/12/2023

Data science: Is it bad if I have more comments than code?

000

Reposted by Carl M. Kobel

Ben Langmead @benlangmead.bsky.social · 04/12/2023

Updated the Kraken 2 index collection to include an updated nt index: benlangmead.github.io/aws-indexes/k2 . It's getting big, folks: tarball is 550 GB and hash.k2d file is 710 GB.

0123

Reposted by Carl M. Kobel

Carl T. Bergstrom @carlbergstrom.com · 02/12/2023

Australian brushturkeys may be common to the point of being a nuisance, but they're stunning to look at and amazing in how they brood their eggs. Rather than sitting on them, they make incubation mounds—compost piles, essentially—the size of VW bugs and regulate the temperature therein carefully.

A striking brushturkey with powerful beak, bare red head, and yellow neck collar.

720332

Carl M. Kobel @cmkobel.bsky.social · 30/11/2023

Found these sunglasses on the bottom of a lake. They will have a new life on BS.

060

Reposted by Carl M. Kobel

Rosana Zenil-Ferguson @roszenil.bsky.social · 28/11/2023

The clade of ridiculous stuffies- that’s what came to me in class. Super useful PVC pipe rotating nodes to teach tree thinking and how to read ancestry

36012

Reposted by Carl M. Kobel

Ove Øyås 🇺🇦 @oveoyas.bsky.social · 08/09/2023

New preprint! 📰 Using metabolic pathway analysis, we enumerated metabolite exchanges in microbial metabolic models and found a surprising hierarchy of formal pathway definitions. Amazing job by Ylva Wedmark getting to the bottom of all this 😀 www.biorxiv.org/content/10.1...

141

Reposted by Carl M. Kobel

Markus Kobel @komet.bsky.social · 30/10/2023

Ich finde eigentlich, dass ich einen einfachen Namen habe. Trotzdem werde ich immer wieder Variationen davon angesprochen, wie z.B.: - Kobler - Kobelt - Koblet - Hobel - Hodel - Vogel Wie geht es euch so mit euren Namen?

18151