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Genome engineering in biodiversity conservation and restoration
Our new perspective paper in Nature Reviews Biodiversity describes how modern gene editing technology can serve as a crucial "second aid" approach to…
14 hrs ago
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Stephen Turner
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Genome engineering in biodiversity conservation and restoration
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Positron Assistant: GitHub Copilot and Claude-Powered Agentic Coding in R
Positron Assistant provides inline completions with GitHub Copilot and chat using Claude 4 Sonnet. Demonstration: using agent mode to create an R…
Jul 16
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Stephen Turner
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Positron Assistant: GitHub Copilot and Claude-Powered Agentic Coding in R
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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…
Jul 15
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Stephen Turner
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Tidy RAG in R with ragnar
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Weekly Recap (July 2025, part 2)
Deep ancestral structure shared by humans, a genomic language model for enhancer prediction, enzyme active site scaffolding using RFdiffusion2…
Jul 11
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Weekly Recap (July 2025, part 2)
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Plot Data Along a Genome with karyoploteR
Demos plotting genome density, per-base coverage, structural variation, GWAS Manhattan plots, combine multiple data types, gene expression results from…
Jul 7
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Stephen Turner
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Plot Data Along a Genome with karyoploteR
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Weekly Recap (July 2025, part 1)
Rust-based wgatools for alignment manipulation & analysis, Nextflow nf-core/scnanoseq for ONT scRNA-seq, Sawfish for long-read SV analysis, BINSEQ…
Jul 3
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Weekly Recap (July 2025, part 1)
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June 2025
Moving from academia to biotech
Thoughts and advice on transitioning from a career in academia to industry biotech. 2.4k words, 11 minute reading time.
Jun 30
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Stephen Turner
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Moving from academia to biotech
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Weekly Recap (June 2025, part 2)
Interactive visualization of tabular data, shared foundations of gene expression and chromatin structure, fast protein structure searching with graph…
Jun 27
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Stephen Turner
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Weekly Recap (June 2025, part 2)
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uv, part 4: uv with Jupyter
Using uv with Jupyter: demo using polars and seaborn for analysis and visualization.
Jun 23
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Stephen Turner
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uv, part 4: uv with Jupyter
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Free AI courses from Google
Free short courses on GenAI, LLMs, responsible AI, image generation, encoder-decoder architectures, BERT, attention, transformers, ...
Jun 16
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Stephen Turner
5
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Free AI courses from Google
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Weekly Recap (June 2025, part 1)
PhyloSketch for drawing phylogenies, Uncalled4 for DNA/RNA modification detection, Severus for long read SV calling, CREsted for synthetic enhancer…
Jun 11
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Weekly Recap (June 2025, part 1)
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The Modern R Stack for Production AI
Python isn't the only game in town anymore: R can interact with local and cloud LLM APIs, inspect and modify your local R environment and files…
Jun 2
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Stephen Turner
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The Modern R Stack for Production AI
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