Florian Trigodet
@floriantrigodet.bsky.social
Computational microbiologist. Senior scientist at the Helmholtz Institute for Functional Marine Biodiversity, Oldenburg.
Working in Meren lab.
Working in Meren lab.
Pinned
Assemblies of long-read metagenomes suffer from diverse errors
Genomes from metagenomes have revolutionised our understanding of microbial diversity, ecology, and evolution, propelling advances in basic science, biomedicine, and biotechnology. Assembly algorithms...
www.biorxiv.org
I am very happy (and anxious) to share with you our most recent work in which we evaluated four of the most popular long-read assemblers,
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
Reposted by Florian Trigodet
I'm happy to announce the latest release of the GlobDB, available at globdb.org.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
home | GlobDB
globdb.org
June 10, 2025 at 11:20 AM
I'm happy to announce the latest release of the GlobDB, available at globdb.org.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
The GlobDB is a database of "species dereplicated" microbial genomes, and as of release 226 contains twice the number of species-representative genomes (306,260) than the latest GTDB release.
Reposted by Florian Trigodet
We have a new 3-year postdoc position in our group at the @hifmb.de to study plasmids and plasmids systems of the marine environment to survey their utility in microbial responses to environmental change.
Please see the official job ad here, and spread the word:
jobs.awi.de/Vacancies/20...
Please see the official job ad here, and spread the word:
jobs.awi.de/Vacancies/20...
PostDoc in ecology and evolution of plasmids in polar waters at HIFMB (f/d/m)
Layout AWI HIPP extern, englisch
jobs.awi.de
June 5, 2025 at 8:09 AM
We have a new 3-year postdoc position in our group at the @hifmb.de to study plasmids and plasmids systems of the marine environment to survey their utility in microbial responses to environmental change.
Please see the official job ad here, and spread the word:
jobs.awi.de/Vacancies/20...
Please see the official job ad here, and spread the word:
jobs.awi.de/Vacancies/20...
Reposted by Florian Trigodet
New #MicrobiomeDigest: microbiomedigest.com/2025/04/30/a...
•Herrgårds cheese @jrotwitguez.bsky.social
•Asian Skin Microbiome Program @cherrychengchenli.bsky.social
•long-read assemblers @floriantrigodet.bsky.social
•argNorm @vedanthramji.bsky.social
CU next week at @microbiomevif.bsky.social!
•Herrgårds cheese @jrotwitguez.bsky.social
•Asian Skin Microbiome Program @cherrychengchenli.bsky.social
•long-read assemblers @floriantrigodet.bsky.social
•argNorm @vedanthramji.bsky.social
CU next week at @microbiomevif.bsky.social!
April 30, 2025
See you next week at MVIF! Skin microbiome Large-scale skin metagenomics reveals extensive prevalence, coordination, and functional adaptation of skin microbiome dermotypes across body sites – Che…
microbiomedigest.com
April 30, 2025 at 8:11 AM
New #MicrobiomeDigest: microbiomedigest.com/2025/04/30/a...
•Herrgårds cheese @jrotwitguez.bsky.social
•Asian Skin Microbiome Program @cherrychengchenli.bsky.social
•long-read assemblers @floriantrigodet.bsky.social
•argNorm @vedanthramji.bsky.social
CU next week at @microbiomevif.bsky.social!
•Herrgårds cheese @jrotwitguez.bsky.social
•Asian Skin Microbiome Program @cherrychengchenli.bsky.social
•long-read assemblers @floriantrigodet.bsky.social
•argNorm @vedanthramji.bsky.social
CU next week at @microbiomevif.bsky.social!
Reposted by Florian Trigodet
Genomes from long-read metagenomic assemblies contain rampant errors, highlighting the pressing need for stricter evaluation methods in long-read assembly algorithms. Read more in our paper with the Eren group. @floriantrigodet.bsky.social @merenbey.bsky.social
April 28, 2025 at 9:29 PM
Genomes from long-read metagenomic assemblies contain rampant errors, highlighting the pressing need for stricter evaluation methods in long-read assembly algorithms. Read more in our paper with the Eren group. @floriantrigodet.bsky.social @merenbey.bsky.social
I am very happy (and anxious) to share with you our most recent work in which we evaluated four of the most popular long-read assemblers,
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
Assemblies of long-read metagenomes suffer from diverse errors
Genomes from metagenomes have revolutionised our understanding of microbial diversity, ecology, and evolution, propelling advances in basic science, biomedicine, and biotechnology. Assembly algorithms...
www.biorxiv.org
April 28, 2025 at 8:08 AM
I am very happy (and anxious) to share with you our most recent work in which we evaluated four of the most popular long-read assemblers,
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
www.biorxiv.org/content/10.1...
and tell you just a little bit about it in the following 🧵
Reposted by Florian Trigodet
Unique investigation of some errors in long read assemblers.
In particular these remarkably chimeric contigs are 😱, if rare....
Improving long read assemblers is definitely the space to be in when it comes to the future of metagenomics, as short reads won't be part of it 😉
In particular these remarkably chimeric contigs are 😱, if rare....
Improving long read assemblers is definitely the space to be in when it comes to the future of metagenomics, as short reads won't be part of it 😉
April 25, 2025 at 2:46 PM
Unique investigation of some errors in long read assemblers.
In particular these remarkably chimeric contigs are 😱, if rare....
Improving long read assemblers is definitely the space to be in when it comes to the future of metagenomics, as short reads won't be part of it 😉
In particular these remarkably chimeric contigs are 😱, if rare....
Improving long read assemblers is definitely the space to be in when it comes to the future of metagenomics, as short reads won't be part of it 😉
Reposted by Florian Trigodet
A blog post on the #anvio workshop that took place last week at the @hifmb.de in Oldenburg with photographs and participant survey results 😇
anvio.org/blog/oldenbu...
anvio.org/blog/oldenbu...
Photos and survey results form the anvi'o workshop and ECR symposium at Oldenburg
Hither shalt thou find likenesses trapped in time, and the opinions of those who did attend this noble workshop
anvio.org
March 10, 2025 at 2:56 PM
A blog post on the #anvio workshop that took place last week at the @hifmb.de in Oldenburg with photographs and participant survey results 😇
anvio.org/blog/oldenbu...
anvio.org/blog/oldenbu...
Reposted by Florian Trigodet
A reminder for ECRs who are looking for an opportunity to form their own group to study contemporary questions in marine sciences in Germany with 5-years of support:
hifmb.de/focus-group-...
hifmb.de/focus-group-...
December 17, 2023 at 5:07 PM
A reminder for ECRs who are looking for an opportunity to form their own group to study contemporary questions in marine sciences in Germany with 5-years of support:
hifmb.de/focus-group-...
hifmb.de/focus-group-...