scvelo

What problem does it solve?

This Skill addresses the challenge of understanding dynamic biological processes like cell differentiation and development from static single-cell RNA sequencing data. It allows researchers to infer future cell states and identify key regulatory genes.

Core Features & Use Cases

• RNA Velocity Estimation: Computes the rate of change of gene expression based on spliced and unspliced mRNA counts.
• Trajectory Inference: Infers the direction of cell differentiation and developmental trajectories.
• Latent Time Calculation: Estimates a pseudotime that reflects the progression through a biological process.
• Driver Gene Identification: Identifies genes that are most influential in driving cell fate decisions.
• Use Case: Analyze a single-cell RNA-seq dataset of developing stem cells to predict which cell types they will differentiate into and identify the genes that control this transition.

Quick Start

Run the RNA velocity analysis workflow on your AnnData object with spliced and unspliced layers.