1st Gen. Single-cell bioinformatics. Neuroimmunometabolism. AI dreams for fun. Postdoc @UniofOxford at the @AnaDomingosLab
Jul 19, 2023 • 25 tweets • 8 min read
You'll never see single-cell analysis the same way:
Sharing TopOMetry, a tool to interrogate latent manifolds in single-cell data!
Learns and evaluates topological representations, estimates dimensionalities, visualizes distortions, and more! 🧵 1/n
biorxiv.org/content/10.110…
TopOMetry is based on the realization that the landscapes of cellular identities are ideally modeled as Riemannian manifolds underlying single-cell data.
Hence, to faithfully reconstruct these landscapes, one needs to learn these manifolds: 2/n
Mar 17, 2022 • 21 tweets • 9 min read
Announcing TopOMetry, a dimensional reduction (DR) tool to learn #SingleCell data phenotypic topology. Finds >100 CD4 #Tcells in public blood data with very specific marker genes. You can use any method for visualization, such as MDE (@akshaykagrawal):
I'm still learning a lot, as I did this mostly on my own during my clinical rounds in pandemic Brazil. If you spot any mistakes or have comments, please be kind to reach out. I plan on improving.
