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transcriptformer-cell-embeddings

85 / 100 · Low risk

Fine to try.

By mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills- (GitHub) · other · 36 stars · scanned at commit fde6cd1

Operate CZI TranscriptFormer cross-species generative single-cell models to produce cell embeddings, contextual gene embeddings, likelihoods, zero-shot classifiers, disease-state representations, and regulatory analyses from raw-count AnnData files. Use when selecting TF-Sapiens, TF-Exemplar, or TF-Metazoa, processing in- or out-of-distribution species, or scaling embedding extraction across GPUs.

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/'transcriptformer-cell-embeddings' ] || [ -L ~/.agents/skills/'transcriptformer-cell-embeddings' ]; then echo 'A skill folder named transcriptformer-cell-embeddings already exists — not replacing it' >&2; false; else d=$(mktemp -d) && git clone --quiet --filter=blob:none --no-checkout 'https://github.com/mdbabumiamssm/LLMs-Universal-Life-Science-and-Clinical-Skills-' "$d" && git -C "$d" checkout --quiet 'fde6cd1025d8a9300ad783b3d6696fa708a5cdb0' -- 'Skills/Genomics/Single_Cell/transcriptformer-cell-embeddings' && mkdir -p ~/.agents/skills && cp -R "$d"/'Skills/Genomics/Single_Cell/transcriptformer-cell-embeddings' ~/.agents/skills/'transcriptformer-cell-embeddings' && 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/'transcriptformer-cell-embeddings' ~/.claude/skills/'transcriptformer-cell-embeddings' (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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