scrna-integration
Run normalization, PCA, dimensionality reduction, batch correction (Harmony if needed), and clustering on single-cell RNA-seq data.
Skill by fanjiacheng-max
Chalk Labs
Need help deploying scrna-integration?
Chalk Labs sets up agents like this inside real teams: connected to your tools, tested on your data, with a human in the loop where it matters.
Install
Works with Claude Code, Claude apps, Codex, Cursor, Gemini CLI, GitHub Copilot, VS Code, OpenCode, Goose, Windsurf. Read the repository before you give any tool access to your data.
npx agentmarket install skill/fanjiacheng-max-scrna-integration
Asks which of your tools to add it to (Claude Code, Codex, Cursor, VS Code, Windsurf, Gemini CLI, Claude Desktop) and shows the change first. See https://agentmart.dev/cli.
Get the weekly diff
The weekly diff: one email a week with new agent tools, notable updates and grade changes, plus security alerts for tools you follow. Double opt-in, one-click unsubscribe.
About
Use cases: data
Reviews
Write a reviewNo reviews yet. Installed it? Reviews come from verified installers only. How reviews work
Permissions
What this skill can do and what it asks for, from its SKILL.md. Checked Oct 25, 2026.
- Tools
- No tools found
- Secrets
- None asked for
- Install scripts
- None found
Network hosts it talks to 1
codeload.github.com· found in install command
Files it touches
~/.claude/skills/scrna-integration
What's inside
- Skill name
scrna-integration- Description
- Run normalization, PCA, dimensionality reduction, batch correction (Harmony if needed), and clustering on single-cell RNA-seq data. Produces UMAP embeddings and cluster assignments. Requires QC to be completed first.
- License
- unknown
- Instructions
- 41 lines in SKILL.md · view on GitHub
Files (1)
- SKILL.md
The license isn't open source, so the instructions aren't shown here. Read SKILL.md on GitHub
More from fanjiacheng-max/auto-rs-agent
- 0.524score
geo-scrna-workflow
fanjiacheng-max
Configure, run, troubleshoot, and review a data-adaptive single-cell RNA-seq workflow in R for GEO or local 10x/H5/H5AD/loom/RDS/count-matrix inputs.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-annotation
fanjiacheng-max
Annotate cell types in single-cell RNA-seq data using SingleR reference and/or tissue-specific marker genes.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-cellchat
fanjiacheng-max
Infer cell-cell communication potential using CellChat on single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-composition
fanjiacheng-max
Analyse cell type composition changes between groups in single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-configure
fanjiacheng-max
Bootstrap a scRNA-seq analysis project and generate a configuration file from reviewed input data and sample sheet.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-differential
fanjiacheng-max
Run pseudobulk differential expression analysis between two groups in single-cell RNA-seq data using edgeR.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-enrichment
fanjiacheng-max
Run Gene Ontology and pathway enrichment analysis on pseudobulk differential expression results from single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-hdwgcna
fanjiacheng-max
Build a co-expression gene network using hdWGCNA on a specified cell type subset from single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-markers
fanjiacheng-max
Find marker genes for each cell type in a single-cell RNA-seq dataset using FindAllMarkers.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-pathway-scores
fanjiacheng-max
Compute gene signature pathway scores for all cells in single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-pseudotime
fanjiacheng-max
Run pseudotime / trajectory analysis on a selected subset of cell types using Slingshot.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-qc
fanjiacheng-max
Run quality control on single-cell RNA-seq data with automatic parameter sweep.
SkillBFreshness: BClaude Code +9
Signals
- Stars
- 0
- Forks
- 0
- Open issues
- 0
- Last commit (this folder)
- Aug 28, 2026 (2 months ago)
From GitHub (fetched Oct 24, 2026).
Details
- License
- License unknown
- Repository
- github.com/fanjiacheng-max/auto-rs-agent
- First seen
- Oct 24, 2026
- Last checked
- Oct 24, 2026
- Source
- GitHubgithub-graphql
More from fanjiacheng-max
- 0.524score
geo-scrna-workflow
fanjiacheng-max
Configure, run, troubleshoot, and review a data-adaptive single-cell RNA-seq workflow in R for GEO or local 10x/H5/H5AD/loom/RDS/count-matrix inputs.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-cellchat
fanjiacheng-max
Infer cell-cell communication potential using CellChat on single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-composition
fanjiacheng-max
Analyse cell type composition changes between groups in single-cell RNA-seq data.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-configure
fanjiacheng-max
Bootstrap a scRNA-seq analysis project and generate a configuration file from reviewed input data and sample sheet.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-differential
fanjiacheng-max
Run pseudobulk differential expression analysis between two groups in single-cell RNA-seq data using edgeR.
SkillBFreshness: BClaude Code +9 - 0.516score
scrna-annotation
fanjiacheng-max
Annotate cell types in single-cell RNA-seq data using SingleR reference and/or tissue-specific marker genes.
SkillBFreshness: BClaude Code +9
Done for you
Rather not set it up yourself?
Chalk Labs scopes, builds and runs agents for your team: the task audit, the eval harness, the integrations and the weekly ops report. Fixed scope, priced before we start.
See how we build AI agents →Read the case studies
Chalk Labs is a two-founder AI and growth studio. We build AI agents, CRMs and MVPs for Web3 and AI companies, and have shipped 50+ product and token launches.
- launches shipped
- 50+
- launches shipped
- media placements
- 500+
- media placements
- founders on every account
- 2
- founders on every account
Press we've placed: Forbes · CoinDesk · Decrypt · Cointelegraph · The Block
Rahil Jain, Co-founder, Chalk Labs. Ex-Goldman Sachs engineer. You talk to the person who builds it.
Get scrna-integration running in your business
Tell us what you want to automate. A founder replies within one working day with a plan, not a pitch deck.
Cite this page
scrna-integration skill. Agent Mart. https://agentmart.dev/skills/fanjiacheng-max-scrna-integration (last updated 2026-10-24)