Geometric Sketching


Geometric sketching finds random subsamples of a dataset that preserve the underlying geometry, which is described in the paper “Geometric sketching compactly summarizes the single-cell transcriptomic landscape” by Brian Hie, Hyunghoon Cho, Benjamin DeMeo, Bryan Bryson, and Bonnie Berger.

Code and Docs
Data
Geometric sketches of large single cell datasets

Sketches are stored using a sparse MatrixMarket format.
Contact us if you would like to see sketches of other large datasets

Adult mouse brain cells from Saunders et al. (2018) (665,858 cells)
Original Data

1,000 Cells
6,658 Cells (1%)
26,634 Cells (5%)
66,585 Cells (10%)

E18 mouse brain cells from 10X Genomics (1,287,273 cells)
Original Data

1,000 Cells
12,872 Cells (1%)
32,181 Cells (2.5%)
64,363 Cells (5%)

Immune Cell Atlas (534,253 cells)
Original Data

1,000 Cells
5,342 Cells (1%)
21,369 Cells (5%)
53,424 Cells (10%)