FlowMap¶

Single-cell RNA velocity geometry

FlowMap embeds single-cell gene expression and RNA velocity data into a smooth low-dimensional geometry where cell-state flow can be visualized, compared, and analyzed.

Install Tutorials

FlowMap overview schematic — FlowMap integrates single-cell expression and RNA velocity, fits smooth manifold geometry, maps vector fields into embedding space, and supports downstream dynamical analysis.¶

Embed flow

Construct embeddings that respect both cell-state similarity and velocity direction.

Map velocity

Use splines and Jacobians to project high-dimensional dynamics into embedding space.

Analyze geometry

Study trajectories, fixed points, curvature, and gene-level gradients.