Gabriel Renaud

Bioinformatician - Uppsala University Bioinformatician, Department of Organismal Biology, Uppsala University

The @scilifelab.se ancient DNA unit is looking for an bioinformatician placed at Uppsala University. This is a great way to be part of diverse #aDNA research projects as a staff scientist with permanent (!!) employment:

www.uu.se/en/about-uu/...

I am starting a computational lab at LIOS, Riga, Latvia, and going to recruit a few people. Please DM if you are interested in a postdoc or PhD position in my Metabolic Research Group within the TARGETWISE project. I can highly recommend Riga, it is a beautiful city with very good living conditions.

AdDeam: A Fast and Scalable Tool for Estimating and Clustering Reference-Level Damage Profiles AbstractMotivation. DNA damage patterns, such as increased frequencies of C→T and G→A substitutions at fragment ends, are widely used in ancient DNA studie

Thrilled to see this out in Bioinformatics! AdDeam is a powerful tool to rapidly estimate aDNA damage from BAM files and cluster them to flag outliers—great for large/small aDNA projects and ancient metagenomics to find contigs likely to be modern. Great work by Louis Kraft!
doi.org/10.1093/bioi...

thanks for sharing! Just Figure 1 is amazing!

🚨 New preprint from our group! Thrilled to present CHARON, a new method to estimate the number of individuals and identify the closest population of origin in environmental & forensic human DNA—even at 2–4X coverage. #eDNA #forensics #AncientDNA
www.biorxiv.org/content/10.1...

Come get your PhD with me, and at @stockholm-uni.bsky.social and @scilifelab.se ! :)

A reminder to SAMtools / HTSlib users, from the next release (probably April 2025) CRAM 3.1 will be the default version used. Use "samtools view -O cram,version=3.0" to switch back to the current 3.0.

(But note 3.1 should be smaller and faster, especially on Illumina.)

AdDeam: A Fast and Scalable Tool for Estimating and Clustering Reference-Level Damage Profiles Motivation DNA damage patterns, such as increased frequencies of C>T and G>A substitutions at fragment ends, are widely used in ancient DNA studies to assess authenticity and detect contamination. In ...

aDNA/aeDNA folks: tired of eyeballing hundreds of damage plots? I am excited to introduce AdDeam—a tool to rapidly generate damage profiles, cluster them, and spot outliers. Great for large sample sets or flagging modern contigs in ancient metagenomics assemblies. www.biorxiv.org/content/10.1...

Thrilled to share that @nicolaavogel.bsky.social just became the very first PhD graduate in our group! 🎉🎓 huge congrats to her! Onwards to an even brighter future! ✨ #eDNA #sedaDNA #aDNA #aeDNA

Curious about which terrestrial animals are hidden in your modern or ancient environmental DNA? 🧬 Want to uncover signs of scavenger DNA in your aDNA datasets? Check out 'euka' – it's now available! 🔍 #eDNA #aDNA" #aeDNA besjournals.onlinelibrary.wiley.com/doi/10.1111/...