spatial-transcriptomics-tutorials-with-omicverse
Guide users through omicverse's spatial transcriptomics tutorials covering preprocessing, deconvolution, and downstream modelling workflows across Visium, Visium HD, Stereo-seq, and Slide-seq datasets.
npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill spatial-tutorials --agent claude-code
Same command for any agent — swap --agent for codex, cursor, copilot.
Weekly change comes from our own snapshots, not the repository page — it measures attention, not adoption.
# Spatial transcriptomics tutorials with omicverse ## Overview Use this skill to navigate the spatial analysis tutorials located under [`Tutorials-space`](../../omicverse_guide/docs/Tutorials-space/). The notebooks span preprocessing utilities ([`t_crop_rotate.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_crop_rotate.ipynb), [`t_cellpose.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_cellpose.ipynb)), deconvolution frameworks ([`t_decov.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_decov.ipynb), [`t_starfysh.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_starfysh.ipynb)), and downstream spatial modelling or integration tasks ([`t_cluster_space.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_cluster_space.ipynb), [`t_staligner.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_staligner.ipynb), [`t_spaceflow.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_spaceflow.ipynb), [`t_commot_flowsig.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_commot_flowsig.ipynb), [`t_gaston.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_gaston.ipynb), [`t_slat.ipynb`](../../omicverse_guide/docs/Tutorials-space/t_slat.ipynb), [`t_stt.ipynb`](../../omicve
- Overview
- Instructions
- Preprocess
- Deconvolution
- Downstream
- Dependencies
- Critical functions and artefacts to surface quickly
- Troubleshooting
- Examples
- References
What does the spatial-transcriptomics-tutorials-with-omicverse skill do?
Guide users through omicverse's spatial transcriptomics tutorials covering preprocessing, deconvolution, and downstream modelling workflows across Visium, Visium HD, Stereo-seq, and Slide-seq datasets.
How do I install it?
Run `npx skills add FreedomIntelligence/OpenClaw-Medical-Skills --skill spatial-tutorials --agent claude-code` — it drops the skill into your project so the agent can pick it up. Swap the --agent value for codex, cursor or copilot if you use one of those.
Where does this skill come from?
From FreedomIntelligence/OpenClaw-Medical-Skills, a repository with 2,909 stars. We read it straight from the repository tree rather than a submitted listing, so what you see here is what is actually published.
Is a popular skill a good skill?
Not necessarily. Stars measure attention, not adoption — a repository can trend for a week and be abandoned. That is why we show the weekly change from our own snapshots next to the total, instead of a single flattering number.