In 2022, I started my Master’s in Biology, at Radboud University in the Netherlands where I had just finished my Bachelor’s degree. The Master’s programme includes two research internships of 36 EC (approx. 6 months), both of which include writing a thesis. As I had been working on a database of identification keys, I was interested in a project focused on taxonomy for my first research internship.

The night is dark and full of errors—and durable Rust software is not only ready for them, but handles them sensibly. Let’s see how, by returning to our line-counter project.

This is part 2 of a series on uv. Other posts in this series: uv, part 1: running scripts and tools This post uv, part 3: Python in R with reticulate uv, part 4: uv with Jupyter Last year I wrote a post on creating a Python command line application with Click using a cookiecutter template, building with setuptools and publishing with twine.

Collection #24

A New Way to Teach AI How to Think, Not Just Respond. This article is based on the paper Meta Prompting for AI Systems, published by Tsinghua University and Shanghai Qi Zhi Institute.

CardioCurveR With the mission to aid everyone to be able to use and test our work, we developed and published an R package with easy and out-of-the-box solutions to analyze R-R intervals with dual-logistic behaviour! Go check it here! Introduction Let’s talk about your heart.

The NumFOCUS Diversity & Inclusion in Scientific Computing (“DISC”) Unconf took place as a hybrid event in São Paulo, Brazil, from March 14 to 16, 2025.Our community manager, Yanina Bellini Saibene, and rOpenSci Champions, Andrea Gomez Vargas and Liz Hare, participated.In this short post we report on our experience at and around the unconference.

Introduction Our Distance Learning GIScience course is pretty established at Leeds. Students enrol part-time and complete it over a 3-year period; the final year is 100% focussed on research (dissertation). The programme draws students from a range of backgrounds and they often combine study with work in industry or government, usually GIScience or adjacent roles.

Updates July 2025 Minor changes but good news in that SureChEMBL 2.0  (bless 'em) now  appears to be updating in PubChem more often and just broke 30 million :) In turn, this brings the total CNER submissions up to 47.7 million and, more importantly, the corroborative intersect between the big three active submitters to 9.7 million up from 9.04 back in March :).

Acquisition of pathology whole-slide images (WSI) generates confidential patient metadata which must be handled appropriately for non-clinical purposes. Free software with multi-vendor support to remove identifying metadata from WSI is available but may be difficult to use by teams with varying information technology comfort. This post describes my design of a cross-platform file drag-and-drop interface to help resolve this challenge.

While this was not the primary hack project during the ELIXIR BioHackathon Europe last autumn, but I really like BioHackrXiv and I got the question if I could have a look at getting the ORCID logo in generated PDF. The ORCID was already in the YAML metadata of report markdown, so it sounded easy.