Analyze RNA velocity in single-cell RNA-seq data with scVelo models.
npx skills add https://github.com/mkurman/tamux --skill scvelo-mkurman
Please help me install this Agent Skill. Skill: scvelo Source: https://github.com/mkurman/tamux/tree/main/skills/scientific-skills/scvelo Command: npx skills add https://github.com/mkurman/tamux --skill scvelo-mkurman
RNA velocity analysis enables inference of cell state transitions from unspliced and spliced mRNA dynamics in single-cell RNA-seq data, providing directional insight into development and differentiation.
Run the velocity workflow on an AnnData object that contains spliced and unspliced layers to generate velocity embeddings and downstream plots.
High-intent search queries and answers about installing and using this skill.
RNA velocity infers cell state transitions by analyzing spliced and unspliced mRNA dynamics in scRNA-seq data. This Skill applies stochastic and dynamical models to recover transcription kinetics and estimate cell trajectories.
Latent time analysis estimates a developmental timeline for cells by ranking velocity genes. It identifies fate decisions and driver genes to provide directional insight into differentiation and development across scRNA-seq datasets.
Yes, scVelo requires Scanpy and AnnData for a complete velocity workflow. Your AnnData object must contain spliced and unspliced layers to generate velocity embeddings and downstream plots.
Computing velocity graphs requires applying stochastic or dynamical models to spliced and unspliced mRNA counts. This workflow integrates with Scanpy for end-to-end processing from preprocessing to visualization.
Yes, driver gene analysis ranks velocity genes computed from unspliced and spliced mRNA dynamics. This identifies specific genes responsible for fate decisions during cell state transitions and differentiation.
Stochastic and dynamical models recover different aspects of transcription kinetics. The dynamical model estimates latent time and cell trajectories, while the stochastic model provides robust velocity estimates for diverse scRNA-seq datasets.
Estrella-231Infer RNA velocity and cell fate trajectories from single-cell RNA-seq AnnData.
swaruplabCompute RNA velocity trajectories from scRNA-seq data using scVelo models.
ya-wayCluster single-cell RNA-seq data with Seurat or Scanpy workflows.
LeonChaoXInfer RNA velocity and latent time from spliced and unspliced mRNA in AnnData.
