spVelo

中文導讀

spVelo(Genome Biology 2025)做 multi-batch spatial transcriptomics 的 RNA velocity, 是 spatial-velocity 這條線上 TopoVelo 的 sibling,特別處理跨 batch 的 spatial 資料。 目前只從 bookmark(velocity-discourse-2025-2026)收錄,paper 還沒 deep-ingest,physical- time 四軸待補。

What it is

An RNA-velocity method for multi-batch spatial transcriptomic data (Long et al., Genome Biology 2025; spvelo-2025) — a veloVI-based VAE with an MLP expression encoder + a GAT spatial encoder, fused with an MMD batch penalty. A spatial-velocity sibling of TopoVelo.

Physical-time scorecard

Axis	spVelo
Latent time	ordinal (veloVI-style per-cell)
Rate scale	inherited (relative)
External anchor	none — spatial info used for batch correction / neighbors, not migration velocity
Constant rates	per-gene β, γ constant (veloVI)
Verdict	spatial-context velocity; ordinal — not physical units (unlike TopoVelo)

The key contrast: spVelo uses space as context/batch structure; TopoVelo uses space to recover a physical migration velocity (μm/h). “Spatial” ≠ physical-time. See spatial-velocity.

Related

spvelo-2025 · veloVI · spatial-velocity · TopoVelo · RNA velocity · latent-time · physical-time-grounding · velocity-discourse-2025-2026 · FlowVelo