Otto Sumray

1/5 Very happy to share our work on flexible, multiscale cell type assignment for subcellular spatial transcriptomics, now in @Nature nature.com/articles/s4158…

Arguably one of the least utilised but most powerful features of persistent homology (PH) is functoriality. Large swathes of data come pre-divided into distinguished, disjoint subsets (a priori/via clustering). A functorial PH pipeline lets us analyse how these subsets interact!

Really pleased to finally share my preprint: Diffusion Geometry (1/4) Diffusion geometry defines Riemannian geometry for data and probability spaces! arxiv.org/abs/2405.10858

Baby #2 is due any day now, and I am too wired to do the intelligent thing (i.e., sleep). So please join me, the wonderful @osumray, and @haharrington on a journey through some fun machine learning & representation theory. 1/11

@MotivicKyle Thanks! Ripserer now added, always love a Julia package

Starting a new TDA project? Need persistent homology on cubical complexes and a custom filtration in C++? Or just a Rips filtration but in parallel and using Python? Wading through all those repos giving you a headache? 1/3

We might have missed your favourite package or not tagged all its capabilities so please feel free to contribute with a PR at github.com/cat-list/cat-l… 3/3

@tomrchaplin and I made a website cat-list.github.io allowing you to filter through all those PH packages based on tags 2/3

If you're in need to find points nearby, But afraid that your computer will fry, Don't be a fool! Use the right tool! A ball tree is the right guy.

I'm very excited to announce that our latest pre-print just went up on the arxiv, joint work with @haharrington and Ulrike Tillmann. Grounded persistent path homology: a stable, topological descriptor for weighted digraphs arxiv.org/abs/2210.11274

🚨 New pub out at @Entropy_MDPI, developing topology-informed methods to identify interesting gene expression patterns in scRNA-seq datasets. Fun @OxUniMaths x @Ludwig_Cancer Oxford collab led by Renee Hoekzema, Lewis Marsh, @osumray, Helen Byrne, and @haharrington. Quick 🧵: