Compute RNA velocity and latent time from scRNA-seq data.
npx skills add https://github.com/OwnLabAI/ownlab --skill scvelo-ownlabai
Please help me install this Agent Skill. Skill: scvelo Source: https://github.com/OwnLabAI/ownlab/tree/main/mart/skills/scientific-skills/scvelo Command: npx skills add https://github.com/OwnLabAI/ownlab --skill scvelo-ownlabai
scVelo provides RNA velocity analysis to infer cell-state trajectories from snapshot single-cell RNA-seq data by modeling spliced and unspliced mRNA dynamics, enabling researchers to predict future cell states and differentiation directions.
Load your AnnData with spliced and unspliced layers, then run the dynamical velocity workflow to obtain latent time and driver genes.
High-intent search queries and answers about installing and using this skill.
RNA velocity is computed by applying stochastic or dynamical models to spliced and unspliced counts within an AnnData object to infer transcriptional kinetics and predict future cell states.
Latent time estimation orders cells along developmental trajectories by computing a velocityGraph from mRNA dynamics, revealing the actual temporal progression of cell states from snapshot scRNA-seq data.
Yes, inferring cell-state trajectories requires an AnnData object containing spliced and unspliced layers, as scVelo models transcriptional kinetics by comparing these counts to determine differentiation directions.
RNA velocity analysis integrates seamlessly with Scanpy workflows on AnnData objects, extending standard single-cell analyses by computing neighbors and moments before running the dynamical velocity workflow.
Driver genes are identified after computing dynamical velocity by analyzing gene-specific dynamics to highlight and visualize the genes driving cell state transitions along the inferred trajectories.
Dynamical mode trajectory inference requires preprocessing steps to compute neighbors and moments from the spliced and unspliced layers, demanding a Python environment with scvelo and Scanpy properly configured.
dralkhAnalyze RNA velocity data from single-cell transcriptomic matrices with scVelo.
crazymsnIdentify cellular trajectories from scRNA-seq data using scVelo dynamical models.
CodingKaiserRun a compact Scanpy single-cell RNA-seq workflow on an AnnData object.
Estrella-231Infer RNA velocity and cell fate trajectories from single-cell RNA-seq AnnData.
