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Exploring the bioRxiv API with R, httr2, rvest, tidytext, and Datawrapper
Collect metadata and publication details for >200k preprints over a 10 year period, investigate trends, and scrape full text for sentiment analysis
Write code in unfamiliar territory with AI
I used Claude to build a Chrome extension to add a post-to-Bluesky button on bioRxiv. I've never written Javascript or a Chrome extension before. It…
Turn any webpage into markdown for LLM-friendly input
Add r.jina.ai/ in front of any URL to turn the entire page into Markdown for LLM-friendly input. Works on PDFs too.
TIL: dplyr::mutate()'s .keep argument
Use the .keep argument in dplyr::mutate() to control which variables to retain after mutating to create new variables.
Build a Python CLI with Click+Cookiecutter
Demonstration for how to build a Python command line utility with Click using a Cookiecutter project template, and how to publish to PyPI and Docker Hub
Use nanoparquet instead of readr/CSV
Parquet is interoperable between Python and R, fast to read+write, works well with databases, and stores complex data types (e.g., tibble listcols). Use…
DuckDB vs dplyr vs base R
Using DuckDB in R to analyze 100 million rows of data in 3 seconds
Learning in Public
A short essay on writing about what you're learning
Excalidraw: create and share workflow diagrams with end-to-end encryption
Excalidraw might be my new go-to open-source tool over draw.io for creating and sharing workflow diagrams. It's simple, fast, aesthetically pleasing…
Illuminate preprints with an AI-generated podcast discussion
Listen now | Google's new Illuminate tool takes a PDF from arXiv and generates a short podcast discussion on the paper's key points
43:17
Create a free Llama 3.1 405B-powered chatbot on a GitHub repo in <1 min
How to create and deploy a free GPT4-class chatbot on HuggingFace Assistants for any GitHub repo, using an R package as an example, in less than 60…
biorecap: an R package for summarizing bioRxiv preprints with a local LLM
The biorecap package summarizes bioRxiv preprints using a local LLM. I used two LLMs to help me write the package, and two other LLMs to help me write a…
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