Scanpy on Badran Elshenawy https://badran-elshenawy.netlify.app/tags/scanpy/ Recent content in Scanpy on Badran Elshenawy Hugo en Thu, 07 May 2026 09:00:00 +0000 From Tidyverse to Scverse – Post 6: Scanpy Done Right — The Modern PBMC 3k Pipeline https://badran-elshenawy.netlify.app/posts/tidyverse-to-scverse-scanpy-done-right/ Thu, 07 May 2026 09:00:00 +0000 https://badran-elshenawy.netlify.app/posts/tidyverse-to-scverse-scanpy-done-right/ Every tool from this series — Polars, uv, Marimo, and now Plotnine — converge in a real scRNA-seq pipeline. Clone it, run it, make it yours. From Tidyverse to Scverse – Post 1: Why I'm Making the Switch to Python https://badran-elshenawy.netlify.app/posts/tidyverse-to-scverse-why-switching/ Fri, 24 Apr 2026 09:00:00 +0000 https://badran-elshenawy.netlify.app/posts/tidyverse-to-scverse-why-switching/ After 33 posts in R and building my own package, I’m adding Python to the toolkit. Here’s why — and what’s coming next. Advanced scRNA-seq for Biologists – Post 5: PAGA — The Bird's Eye View https://badran-elshenawy.netlify.app/posts/advanced-scrnaseq-paga-birds-eye-view/ Fri, 17 Apr 2026 09:00:00 +0000 https://badran-elshenawy.netlify.app/posts/advanced-scrnaseq-paga-birds-eye-view/ Before mapping every single-cell footpath, scout the terrain from above. PAGA shows you which clusters connect to which.