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scRNA-seq analysis pipeline v1.0.0
Use this resource to automate a single-cell transcriptomics analysis
New
- 428 downloads
- 167 likes
- 128 saves
Free
Install with the CLI
In a terminal, from the folder you want:
npx --yes palatekit@latest install single-cell-rnaseq-pipelineWith no option, the skill goes to ~/.agents/skills/; add --agent claude-code (or codex, cursor…) to target an agent.
First time: connect the CLI with
npx --yes palatekit@latest loginThe agent chains quality control and doublet removal, normalisation, dimensionality reduction (PCA, UMAP), Leiden or Louvain clustering, differential expression and plots. You get the pipeline steps and visualisations.
Mostly picked by
Updated November 2, 2026
Previews
Details
- Install guides
- Generates with
- Your agent's model
- Licence
- MIT
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What you get
- SKILL.md : pipeline capabilities, from quality control to visualisation
- SKILL.md : dependencies and example queries
Good fit for
- You need to characterise a single-cell dataset
- You are looking for marker genes for each cluster
Not for
Tags
- scRNA-seq
- bioinformatics
- clustering
About
You say
“Run Leiden clustering on this scRNA-seq dataset and list the marker genes.”
Skill published by aaaaqwq under the MIT license, delivered in its original version.
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How to use it
- Install the skill in your agent's skills folder
- Ask your agent to automate a single-cell transcriptomics analysis
- Review and adjust the result
Content preview
Files
- LICENSE1.1 KB
- NOTICE-PALATEKIT.md0.5 KB
- SKILL.md1.7 KB
Origin and licence
Listed unmodified
- Author
- aaaaqwq
- Source
- github.com/aaaaqwq/agi-super-team/tree/4c7b20bc52ad8d4a89fa3f5185abc455ef9248de/skills/scrna-orchestrator
- Licence
- MIT
Notice
« scrna-orchestrator » (aaaaqwq, MIT) livré dans sa version d'origine : fiche en français et en anglais par PalateKit.
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