Hajk-Georg Drost
@hajkdrost.bsky.social
Associate Professor of Digital Biology, @royalsociety.org Wolfson Fellow at School of Life Sciences @dundee.ac.uk, Fellow of @camphilsoc.bsky.social. Former Group Leader at @mpi-bio-fml.bsky.social and PostDoc at @cam.ac.uk and Trinity College Cambridge.
Reposted by Hajk-Georg Drost
The detectCores() apocalypse is creeping up on us 👻🐛
As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough #RStats connections available
Friends, do *not* default to detectCores(), bc www.jottr.org/2022/12/05/a...
As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough #RStats connections available
Friends, do *not* default to detectCores(), bc www.jottr.org/2022/12/05/a...
Please Avoid detectCores() in your R Packages
The detectCores() function of the parallel package is probably one of the most used functions when it comes to setting the number of parallel workers to use in R. In this blog post, I’ll try to explai...
www.jottr.org
November 5, 2025 at 11:55 PM
The detectCores() apocalypse is creeping up on us 👻🐛
As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough #RStats connections available
Friends, do *not* default to detectCores(), bc www.jottr.org/2022/12/05/a...
As more people are getting access to 128+ CPU cores, code spinning up parallel cluster with detectCores() workers fails - not enough #RStats connections available
Friends, do *not* default to detectCores(), bc www.jottr.org/2022/12/05/a...
🚀 philentropy v0.10.0 is on CRAN!
Now with long-awaited parallel distance computation & a full speed-optimized refactor thanks to Andrew Gene Brown.
Compute 50+ distances/divergences in R faster than ever.
📦 CRAN: cran.r-project.org/web/packages...
💻 Code: github.com/drostlab/phi...
Now with long-awaited parallel distance computation & a full speed-optimized refactor thanks to Andrew Gene Brown.
Compute 50+ distances/divergences in R faster than ever.
📦 CRAN: cran.r-project.org/web/packages...
💻 Code: github.com/drostlab/phi...
November 4, 2025 at 9:31 AM
🚀 philentropy v0.10.0 is on CRAN!
Now with long-awaited parallel distance computation & a full speed-optimized refactor thanks to Andrew Gene Brown.
Compute 50+ distances/divergences in R faster than ever.
📦 CRAN: cran.r-project.org/web/packages...
💻 Code: github.com/drostlab/phi...
Now with long-awaited parallel distance computation & a full speed-optimized refactor thanks to Andrew Gene Brown.
Compute 50+ distances/divergences in R faster than ever.
📦 CRAN: cran.r-project.org/web/packages...
💻 Code: github.com/drostlab/phi...
Reposted by Hajk-Georg Drost
DIAMOND v2.1.15 now supports all taxonomy features for BLAST databases, and support for using BLAST databases has also been added to the Bioconda version github.com/bbuchfink/di...
GitHub - bbuchfink/diamond: Accelerated BLAST compatible local sequence aligner.
Accelerated BLAST compatible local sequence aligner. - bbuchfink/diamond
github.com
October 28, 2025 at 4:45 PM
DIAMOND v2.1.15 now supports all taxonomy features for BLAST databases, and support for using BLAST databases has also been added to the Bioconda version github.com/bbuchfink/di...
Reposted by Hajk-Georg Drost
What are these?
You are looking at embryos of a sea squirt. Each of the 'soap bubbles' is a living cell, about a fourtieth of a millimetre in size. The outlines of the cells are visible thanks to fluorescent markers identified by Hitoyoshi Yasuo @hitoyas.bsky.social
see doi.org/10.1101/2024... 🧵
You are looking at embryos of a sea squirt. Each of the 'soap bubbles' is a living cell, about a fourtieth of a millimetre in size. The outlines of the cells are visible thanks to fluorescent markers identified by Hitoyoshi Yasuo @hitoyas.bsky.social
see doi.org/10.1101/2024... 🧵
October 26, 2025 at 8:55 AM
What are these?
You are looking at embryos of a sea squirt. Each of the 'soap bubbles' is a living cell, about a fourtieth of a millimetre in size. The outlines of the cells are visible thanks to fluorescent markers identified by Hitoyoshi Yasuo @hitoyas.bsky.social
see doi.org/10.1101/2024... 🧵
You are looking at embryos of a sea squirt. Each of the 'soap bubbles' is a living cell, about a fourtieth of a millimetre in size. The outlines of the cells are visible thanks to fluorescent markers identified by Hitoyoshi Yasuo @hitoyas.bsky.social
see doi.org/10.1101/2024... 🧵
Reposted by Hajk-Georg Drost
Tomorrow wednesday 22nd at 11am, lesson #2 of Neil Shubin, Guest Prof @college-de-france.fr ‘Discovering how fish evolved to walk’. Wonderful first lesson @ www.youtube.com/watch?v=0B6y... Fish friends in Paris, please RT🤘 Swim the Seine till St Michel, then get out and walk left. Free access
October 21, 2025 at 6:46 AM
Tomorrow wednesday 22nd at 11am, lesson #2 of Neil Shubin, Guest Prof @college-de-france.fr ‘Discovering how fish evolved to walk’. Wonderful first lesson @ www.youtube.com/watch?v=0B6y... Fish friends in Paris, please RT🤘 Swim the Seine till St Michel, then get out and walk left. Free access
It has been a true honour and pleasure to be able to brainstorm about what it means to apply the comparative method to detect common patterns of multicellularity aggregation across the trees of life. This was a marvelous EMBO Workshop, excetionally well organised and held at a breathtaking venue! 😌
We had also in session 10
Hajk-Georg Drost talking about How ancient genes convergently organise multicellularity across the tree of life. #Multicellverse @hajkdrost.bsky.social
Hajk-Georg Drost talking about How ancient genes convergently organise multicellularity across the tree of life. #Multicellverse @hajkdrost.bsky.social
October 13, 2025 at 8:52 AM
It has been a true honour and pleasure to be able to brainstorm about what it means to apply the comparative method to detect common patterns of multicellularity aggregation across the trees of life. This was a marvelous EMBO Workshop, excetionally well organised and held at a breathtaking venue! 😌
Reposted by Hajk-Georg Drost
Latest from ours: www.cell.com/cell-reports...
This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵
This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵
October 5, 2025 at 10:35 AM
Latest from ours: www.cell.com/cell-reports...
This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵
This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵
Thrilled to share what we learned from re-annotating the mobilome of the brown algae model [Ectocarpus] 🌊🌿🏖️
genomebiology.biomedcentral.com/articles/10....
A wonderful collaboration with @ericadinatale.bsky.social, @cssmartinho.bsky.social, @rorycraig.bsky.social, and Susana Coelho! 🎉
genomebiology.biomedcentral.com/articles/10....
A wonderful collaboration with @ericadinatale.bsky.social, @cssmartinho.bsky.social, @rorycraig.bsky.social, and Susana Coelho! 🎉
October 2, 2025 at 9:06 AM
Thrilled to share what we learned from re-annotating the mobilome of the brown algae model [Ectocarpus] 🌊🌿🏖️
genomebiology.biomedcentral.com/articles/10....
A wonderful collaboration with @ericadinatale.bsky.social, @cssmartinho.bsky.social, @rorycraig.bsky.social, and Susana Coelho! 🎉
genomebiology.biomedcentral.com/articles/10....
A wonderful collaboration with @ericadinatale.bsky.social, @cssmartinho.bsky.social, @rorycraig.bsky.social, and Susana Coelho! 🎉
Reposted by Hajk-Georg Drost
In memory of Jane Goodall, English primatologist and anthropologist and the world's foremost expert on chimpanzees. Take a look at her 1985 article published in #PhilTransB 'Conditions of innovative behaviour in primates': royalsocietypublishing.org/doi/10.1098/...
October 2, 2025 at 7:34 AM
In memory of Jane Goodall, English primatologist and anthropologist and the world's foremost expert on chimpanzees. Take a look at her 1985 article published in #PhilTransB 'Conditions of innovative behaviour in primates': royalsocietypublishing.org/doi/10.1098/...
Reposted by Hajk-Georg Drost
So happy to see my first first-author paper published! 🎈
A short thread on how Ectocarpus and its TE secrets have kept me busy lately:
rdcu.be/eITQH
A short thread on how Ectocarpus and its TE secrets have kept me busy lately:
rdcu.be/eITQH
Characterization of the transposable element landscape shaping the Ectocarpus genome | Genome Biology
rdcu.be
October 1, 2025 at 8:12 AM
So happy to see my first first-author paper published! 🎈
A short thread on how Ectocarpus and its TE secrets have kept me busy lately:
rdcu.be/eITQH
A short thread on how Ectocarpus and its TE secrets have kept me busy lately:
rdcu.be/eITQH
Reposted by Hajk-Georg Drost
🚀 Jalview 2.11.5 is here!
New features include:
✅ Tree visualisation for enhanced protein secondary structure analysis
✅ Consensus colouring for alignments and subgroups
✅ Improved command line options for 3D structure visualisation
Plus, key bug fixes and performance improvements.
New features include:
✅ Tree visualisation for enhanced protein secondary structure analysis
✅ Consensus colouring for alignments and subgroups
✅ Improved command line options for 3D structure visualisation
Plus, key bug fixes and performance improvements.
September 5, 2025 at 11:02 AM
🚀 Jalview 2.11.5 is here!
New features include:
✅ Tree visualisation for enhanced protein secondary structure analysis
✅ Consensus colouring for alignments and subgroups
✅ Improved command line options for 3D structure visualisation
Plus, key bug fixes and performance improvements.
New features include:
✅ Tree visualisation for enhanced protein secondary structure analysis
✅ Consensus colouring for alignments and subgroups
✅ Improved command line options for 3D structure visualisation
Plus, key bug fixes and performance improvements.
Reposted by Hajk-Georg Drost
Hot damn
"The settlement is largest payout in the history of U.S. copyright cases. Anthropic will pay $3,000 per work to 500,000 authors."
"The settlement is largest payout in the history of U.S. copyright cases. Anthropic will pay $3,000 per work to 500,000 authors."
Anthropic Agrees to Pay $1.5 Billion to Settle Lawsuit With Book Authors
www.nytimes.com
September 5, 2025 at 7:21 PM
Hot damn
"The settlement is largest payout in the history of U.S. copyright cases. Anthropic will pay $3,000 per work to 500,000 authors."
"The settlement is largest payout in the history of U.S. copyright cases. Anthropic will pay $3,000 per work to 500,000 authors."
Reposted by Hajk-Georg Drost
Out after peer review, collaborative study from Nordborg & Weigel labs with help from many others. Not the largest collection of new Arabidopsis thaliana genomes, but we hopefully put forward some good ideas for how to think about pangenomes and their analysis!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
August 20, 2025 at 6:23 AM
Out after peer review, collaborative study from Nordborg & Weigel labs with help from many others. Not the largest collection of new Arabidopsis thaliana genomes, but we hopefully put forward some good ideas for how to think about pangenomes and their analysis!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Hajk-Georg Drost
Chaetognaths have lost gene body methylation and shifted #5mC back to Transposable Elements. This reversion to the ancestral state is coupled with a simplification of DNMT3 architecture. We posit that trans-splicing might compensate.
It is an honour to have contributed to this 20y struggle ⛰️.
It is an honour to have contributed to this 20y struggle ⛰️.
After nearly twenty years in the making, our attempt at understanding what makes the chaetognath phylum so unique has finally been published! www.nature.com/articles/s41...
with #LauraPiovani @dariagavr.bsky.social @alexdemendoza.bsky.social @chemamd.bsky.social and others /1
with #LauraPiovani @dariagavr.bsky.social @alexdemendoza.bsky.social @chemamd.bsky.social and others /1
The genomic origin of the unique chaetognath body plan - Nature
Genomic, single-cell transcriptomic and epigenetic analyses show that chaetognaths, following extensive gene loss in the gnathiferan lineage, relied on newly evolved genes and lineage-specific tandem ...
www.nature.com
August 14, 2025 at 7:53 AM
Chaetognaths have lost gene body methylation and shifted #5mC back to Transposable Elements. This reversion to the ancestral state is coupled with a simplification of DNMT3 architecture. We posit that trans-splicing might compensate.
It is an honour to have contributed to this 20y struggle ⛰️.
It is an honour to have contributed to this 20y struggle ⛰️.
Reposted by Hajk-Georg Drost
'Hoods are out!!! Big thank you to @plantevolution.bsky.social for the support throughout. Luisa, @kdm9.bsky.social , @aconga.bsky.social , @hajkdrost.bsky.social it was intellectually stimulating ride with you, so congratulations!!!! #diversity #NLR #immune #pan-genome #graphs #networktheory
Happy to be able to finally share our NLR pangenome paper, out now in CHM.
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
Pangenomic context reveals the extent of intraspecific plant NLR evolution
Individual- and population-level diversity is required for pathogen defense by nucleotide-binding
site leucine-rich repeat (NLR) proteins. Teasdale et al. leverage annotated, divergent
A. thaliana gen...
www.cell.com
August 14, 2025 at 8:22 PM
'Hoods are out!!! Big thank you to @plantevolution.bsky.social for the support throughout. Luisa, @kdm9.bsky.social , @aconga.bsky.social , @hajkdrost.bsky.social it was intellectually stimulating ride with you, so congratulations!!!! #diversity #NLR #immune #pan-genome #graphs #networktheory
Reposted by Hajk-Georg Drost
Out after peer review now, follow up from our 2019 pna-NLRome paper (which was based on enrichment and long-read sequencing). It is remarkable how much more can be learned with complete genome sequences. Next. pan-NLRome from hundreds of A. thaliana long-read genomes! Big thanks to the entire team!
Happy to be able to finally share our NLR pangenome paper, out now in CHM.
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
Pangenomic context reveals the extent of intraspecific plant NLR evolution
Individual- and population-level diversity is required for pathogen defense by nucleotide-binding
site leucine-rich repeat (NLR) proteins. Teasdale et al. leverage annotated, divergent
A. thaliana gen...
www.cell.com
August 14, 2025 at 1:42 PM
Out after peer review now, follow up from our 2019 pna-NLRome paper (which was based on enrichment and long-read sequencing). It is remarkable how much more can be learned with complete genome sequences. Next. pan-NLRome from hundreds of A. thaliana long-read genomes! Big thanks to the entire team!
Reposted by Hajk-Georg Drost
Happy to be able to finally share our NLR pangenome paper, out now in CHM.
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
Pangenomic context reveals the extent of intraspecific plant NLR evolution
Individual- and population-level diversity is required for pathogen defense by nucleotide-binding
site leucine-rich repeat (NLR) proteins. Teasdale et al. leverage annotated, divergent
A. thaliana gen...
www.cell.com
August 14, 2025 at 5:55 AM
Happy to be able to finally share our NLR pangenome paper, out now in CHM.
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
"Pangenomic context reveals the extent of intraspecific plant NLR evolution"
www.cell.com/cell-host-mi...
#plantscience #plantimmunity #pangenomes #science #nlr
Deadline was just extended to 30th March! :)
Please spread the word🙏:
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
How do ancient genes regulate animal embryo development at single cell resolution | University of Dundee, UK
A PhD project at the University of Dundee
www.dundee.ac.uk
March 23, 2025 at 5:23 PM
Deadline was just extended to 30th March! :)
Kind reminder that if you would like to learn more about the fundamental principles of embryo formation, please apply for this PhD post by 21st March :)
Please spread the word🙏:
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
How do ancient genes regulate animal embryo development at single cell resolution | University of Dundee, UK
A PhD project at the University of Dundee
www.dundee.ac.uk
March 17, 2025 at 11:43 AM
Kind reminder that if you would like to learn more about the fundamental principles of embryo formation, please apply for this PhD post by 21st March :)
Please spread the word🙏:
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
How do ancient genes regulate animal embryo development at single cell resolution | University of Dundee, UK
A PhD project at the University of Dundee
www.dundee.ac.uk
March 3, 2025 at 11:44 AM
Please spread the word🙏:
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
[PhD Position in Computational Evolutionary Transcriptomics]
If you are interested in doing a PhD in gorgeous Scotland on 'Why embryo development goes wrong sometimes?', please consider applying and join our wonderful team in Dundee!
www.dundee.ac.uk/phds/opportu...
I sometimes wonder what a world would look like in which each incremental post was 1% better or more considered than the previous.
Starting to populate yet another social network seams like a good way to test this for me personally. Happy to be here now :)
Starting to populate yet another social network seams like a good way to test this for me personally. Happy to be here now :)
December 3, 2024 at 7:53 AM
I sometimes wonder what a world would look like in which each incremental post was 1% better or more considered than the previous.
Starting to populate yet another social network seams like a good way to test this for me personally. Happy to be here now :)
Starting to populate yet another social network seams like a good way to test this for me personally. Happy to be here now :)