I Like Writing Code
On finding joy in slow, imperfect code in an age of copilots, agents, and chatbots. 1.2k words, 5 min reading time....
HAMRLNC – a comprehensive and scalable pipeline for integrated epitranscriptomic analysis
An integrated workflow extends RNA sequencing by unifying gene expression, RNA modification detection, and long non-coding RNA annotation to reveal deeper layers of......
Beyond polyA – mapping total RNA in single cells
TotalX extends RNA sequencing beyond polyA mRNA to capture coding and non-coding RNA in 10x droplets, enabling miRNA modules, viral RNA load profiling, and developmental brain regulatory insights......
CellUntangler – separating distinct biological signals in single-cell data with deep generative models
CellUntangler uses RNA sequencing data to separate overlapping biological signals in single cells, helping researchers isolate cell cycle effects, cell identity, and other processes with greater clari...
Benchmarking single-cell RNA-seq data normalization
When scientists use single-cell RNA sequencing to study thousands of individual cells, they must first correct the raw data so that meaningful biological differences aren’t obscured by technical quirk...
Scorpion venom transcriptomes unlocked with optimized RNA-seq analysis
Understanding all the genes active in a complex tissue can be difficult because of technical hurdles like assembly mistakes, many versions of the same gene, and problems with how sequences are labeled...
The Joy of Rediscovery
A key goal of science is to discover new information, and it is one of the great joys of science to believe you have done so. Sometimes it really does prove novel and interesting - an experience our ...
Quoting Sal Khan
AI creates an education challenge, not just a job crisis. We haven't built systems to help people to continue learning and connect them to new opportunities....
The AI Attribution Error
If an AI produces something useful it's because of your own skill in model choice, prompting, and steering. If not, it's because the model is a useless lying machine that can't follow directions....
Weekly Recap (December 24, 2025)
R updates (R Data Scientist, R Weekly), AI accelerating wet lab bio research, Docker hardened images, LLMs in review, machinal bypass, science funding, new papers....