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Weekly Recap (May 2025, part 2)
Comprehensive evolutionary modeling of human gene function, an AI reasoning model for rare disease diagnosis, an AI agent for scRNA-seq data…
uv, part 3: Python in R with reticulate
Two demos using Python in R via reticulate+uv: (1) Hugging Face transformers for sentiment analysis, (2) pyBigWig to query a BigWig file and visualize…
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Stephen Turner
Weekly Recap (May 2025, part 1)
Methods in genetic epidemiology, privacy-preserving methods for QTL and GWAS analysis, family-based GWAS, lots of Nextflow for PGS construction…

April 2025

Listen to papers, PDFs, and articles with ElevenReader
ElevenReader (free for iOS/Android) will read articles and PDFs in realistic voices. Example clips here with Burt Reynolds, Maya Angelou, and Richard…
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Stephen Turner
Weekly Recap (April 2025, part 2)
Effector genes at GWAS hits, protein evolution, regulatory variant prediction, gene/genome duplication analysis, genomic foundation models, Nextflow…
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Stephen Turner
R 4.5.0 and Bioconductor 3.21
Faster package installation, import only the functions you want with use(), built-in Palmer penguins data, grep values shortcut, and lots of new…
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Stephen Turner
Weekly Recap (April 2025, part 1)
Evo2, genomic foundationless models, the ggalign R package, ancestral reconstruction for ancient DNA, biodiversity genomics reviews, structural…
Build a local RAG application with Open WebUI to chat with your Zotero library
Demonstration using Mistral and Nomic Embed with Ollama and Open WebUI
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Stephen Turner

March 2025

Weekly Recap (March 2025, part 2)
AI agents for biomedical reasoning, species tree inference, a spatial transcriptomics foundation model, biomedical research with LLMs, mapping cells…
uv, part 2: building and publishing packages
Using uv to create, manage, build, and publish a Python package to PyPI
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Stephen Turner
Weekly Recap (March 2025, part 1)
Heritable polygenic editing, self-supervised learning in single-cell genomics, predictive modeling with tabular foundation models, ESM3, pangenome…
GUIs for Local LLMs with RAG
Running local LLMs with Ollama, LMStudio, Open WebUI, and others for private and secure chat, vibe coding, image analysis, and "chat with your…
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Stephen Turner
© 2025 Stephen Turner
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