spatial-trajectory

What problem does it solve?

This Skill automates the complex process of understanding cellular differentiation and developmental trajectories from single-cell RNA sequencing data, transforming raw data into clear biological insights.

Core Features & Use Cases

• Trajectory Inference: Utilizes multiple state-of-the-art algorithms (DPT, PAGA, Monocle3, Slingshot) to model cell lineage.
• RNA Velocity Analysis: Predicts future cell states and differentiation dynamics using scVelo.
• Pseudotime Ordering: Assigns a developmental time to each cell along inferred trajectories.
• Use Case: Analyze a dataset of developing immune cells to identify distinct differentiation paths, predict progenitor cell populations, and visualize the flow of cells towards mature states.

Quick Start

Infer cellular trajectories and pseudotime using the DPT method on the provided AnnData file.