Compute RNA velocity vectors from spatial transcriptomics AnnData objects.
npx skills add https://github.com/TianGzlab/OmicsClaw --skill spatial-velocity
Please help me install this Agent Skill. Skill: spatial-velocity Source: https://github.com/TianGzlab/OmicsClaw/tree/main/skills/spatial/spatial-velocity Command: npx skills add https://github.com/TianGzlab/OmicsClaw --skill spatial-velocity
This Skill automates the complex process of inferring cellular dynamics and directional movement from spatial transcriptomics data, which traditionally requires manual configuration of sophisticated bioinformatics pipelines.
Compute RNA velocity and map the arrows onto my tissue using the default stochastic model.
High-intent search queries and answers about installing and using this skill.
To compute RNA velocity on spatial transcriptomics data, this Skill analyzes AnnData objects containing spliced and unspliced RNA count layers to infer cellular dynamics and predict future cell states.
RNA velocity kinetic modeling differs by approach: stochastic models handle transcriptional variability, deterministic models assume fixed rates, and dynamical models infer transient cell states to map cellular dynamics.
Yes, inferring cellular dynamics requires AnnData objects with spliced and unspliced RNA count layers, as these counts form the mathematical basis for calculating RNA velocity vectors.
Yes, you can use VELOVI for variational inference alongside scVelo stochastic, deterministic, and dynamical models to analyze gene expression changes and predict future cell states.
You can visualize RNA velocity vectors by overlaying the computed arrows onto UMAP embeddings or spatial expression maps to analyze how cells are differentiating or migrating within a tissue.
Yes, the RNA velocity pipeline integrates with scvi-tools and scvelo to automate the complex process of inferring directional movement from spatial transcriptomics data.
AlterLab-IEUAnalyze RNA velocity to infer cell state transitions from spliced and unspliced counts.
CHENyiru3Reconstruct cellular trajectories and pseudotime from single-cell RNA-seq data.
Estrella-231Infer RNA velocity and cell fate trajectories from single-cell RNA-seq AnnData.
SciMate-AIModel RNA velocity from spliced and unspliced counts in AnnData.
