I’m thrilled to share the publication of our new paper published today in Nature Reviews Biodiversity : You can read the paper (free) here: https://rdcu.be/ewG5R.Read the paper (free) This Perspective paper was a global collaboration between Colossal Biosciences, the University of East Anglia, the Globe institute at the University of Copenhagen, the Mauritian Wildlife Foundation, Durrell Wildlife Conservation Trust, the government of

I have a little hobby project I’m working on and I wanted to use the opportunity to fully make the switch to Positron from RStudio. I used Positron here and there when it first came out, but now that it’s out of beta and has a more complete feature set (like remote SSH sessions!) I have everything I need to switch and not look back.

Reposted from the original at: https://blog.stephenturner.us/p/tidy-rag-in-r-with-ragnar Retrieval augmented generation in R using the ragnar package. Demonstration: scraping text from relevant links on a website and using RAG to ask about a university's grant funding.

The call for applications for round 2 of the OBF Event Fellowship for 2025 is now open. The deadline for this round is 1 August 2025. You can submit your application through this Google Form. We have provided a Word template to help you draft the application locally before filling out the form – make a copy of this template.

Note: After I wrote this post last week, the Tidyverse team released ragnar 0.2.0 on July 12. Everything here should still work, but take a look at the release notes to learn about some nice new features that aren’t covered here. I’ve written a little about retrieval-augmented generation (RAG) here before.

This week’s recap highlights an interesting new model of deep ancestral structure shared by humans unearthed using a new coalescent-based HMM (cobraa), a genomic language model for predicting enhancers and their allele-specific activity, atom-level enzyme active site scaffolding using RFdiffusion2, and a new perspective article on multimodal foundation models in biology.

Ever since Werner Heisenberg formulated the uncertainty principle, physics has been grappling with the unsettling realization that the universe does not function like clockwork—a metaphor Newton introduced and which held sway for centuries.

karyoploteR is an R package that’s been in Bioconductor for nearly a decade. It lets you create linear chromosomal representations of any genome with genomic annotations and experimental data plotted along them. Bioconductor : https://bioconductor.org/packages/karyoploteR/ Tutorial : https://bernatgel.github.io/karyoploter_tutorial/ Paper : Bernat Gel & Eduard Serra. (2017).

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This week’s recap highlights the Rust-based wgatools for manipulating alignments and visualizing in the terminal, the nf-core scnanoseq Nextflow pipeline for ONT scRNA-seq, sawfish for better SV discovery and genotyping with long reads, the BINSEQ high-performance binary formats for nucleotide sequence data, and a unified analysis of atlas single-cell data.

Durante el semestre 2026-1 existe la opción de tomar el curso que impartiré en la carrera de Matemáticas Aplicadas de la Facultad de Ciencias de la UNAM. Modalidad: virtual Material : computadora o laptop, cámara, micrófono e internet Día y hora : Lu-Vi 18:00 a 19:00 hrs Asistencia : 90% indispensableCaracterísticas: Curso activo enfocado en la investigación y el uso de bioinformación, bioliteratura y biodatos.