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sciagent-muon-multiomics-singlecell

85 / 100 · Low risk

Fine to try.

By ai4nucleome/BioMaster (GitHub) · other · 118 stars · scanned at commit 6f98a63

Multi-modal single-cell analysis with muon/MuData. Joint RNA+ATAC (10x Multiome), CITE-seq (RNA+protein), other multi-omics. MuData holds per-modality AnnData with shared obs. WNN joint embedding, per-modality preprocessing, MOFA factor analysis. Use scanpy-scrna-seq for single-modality RNA; use muon when combining 2+ omics from the same cells.

Works with any agent that supports SKILL.md skills.

What this skill can do

Install

Paste this into your terminal. It downloads exactly the version we scanned, not whatever is newest.

if [ -e ~/.agents/skills/'sciagent-muon-multiomics-singlecell' ] || [ -L ~/.agents/skills/'sciagent-muon-multiomics-singlecell' ]; then echo 'A skill folder named sciagent-muon-multiomics-singlecell already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/ai4nucleome/BioMaster' "$d" && git -C "$d" checkout --quiet '6f98a63aa1823304403475b1929424ccf9d4ec46' -- '.opencode/bioskills/sciagent-muon-multiomics-singlecell' && mkdir -p ~/.agents/skills && cp -R "$d"/'.opencode/bioskills/sciagent-muon-multiomics-singlecell' ~/.agents/skills/'sciagent-muon-multiomics-singlecell' && rm -rf "$d"; fi

Codex reads ~/.agents/skills directly. For Claude Code, Cursor, Copilot, Gemini CLI, Antigravity or OpenCode, also link it. For Claude Code: ln -s ~/.agents/skills/'sciagent-muon-multiomics-singlecell' ~/.claude/skills/'sciagent-muon-multiomics-singlecell' (other agents: ~/.cursor/skills, ~/.copilot/skills, ~/.gemini/skills, ~/.gemini/config/skills, ~/.config/opencode/skills). Or install through the finder skill, which does both.

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