Alphagenome Single Variant Analysis
google-deepmind/science-skills
Analyzes genetic variant effects on gene expression (RNA-seq), chromatin accessibility (DNASE), histone marks (ChIP), and transcription factors using the AlphaGenome API.
Build/run/audit bulk RNA, sc/snRNA and spatial workflows with traceable QC; not mechanism claims.
Install Radiology Transcriptomics Analysis
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a claude-codeProject install by default; add -g for ~/.claude/skills/.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysis --agent claude-codeProject scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .claude/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .claude/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.claude/skills/ instead of .claude/skills for a personal install. The folder must contain SKILL.md.
Claude Code skills documentation · loads skills from .claude/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .claude/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.Claude Code copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$skill-installer install https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysisType this inside Codex. $skill-installer <name> installs a curated skill from openai/skills. The installer writes to $CODEX_HOME/skills (default ~/.codex/skills). Restart Codex if the skill does not show up.
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a codexProject install goes to .agents/skills/; add -g for ~/.codex/skills/.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysis --agent codexProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .agents/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .agents/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.agents/skills/ instead of .agents/skills for a personal install.
Codex skills documentation · loads skills from .agents/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .agents/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.Codex copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a cursorProject install goes to .agents/skills/; add -g for ~/.cursor/skills/.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysis --agent cursorProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .cursor/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .cursor/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.cursor/skills/ instead of .cursor/skills for a personal install.
Cursor skills documentation · loads skills from .cursor/skills/, .agents/skills/, .claude/skills/, .codex/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .cursor/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.Cursor copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gemini skills install https://github.com/huang-sir1/radiology-skills.git --path radiology-skills/skills/radiology-transcriptomics-analysis--scope user (default) or --scope workspace; --path is the subfolder of the repo that holds the skill; --consent skips the security confirmation prompt.
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a gemini-cliProject install goes to .agents/skills/; add -g for ~/.gemini/skills/.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysis --agent gemini-cliProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .gemini/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .gemini/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.gemini/skills/ instead of .gemini/skills for a personal install, then run /skills reload.
Gemini CLI skills documentation · loads skills from .gemini/skills/, .agents/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .gemini/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.Gemini CLI copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysisInstalls for Copilot at project scope by default; add --scope user for a personal install. Preview a skill first with gh skill preview. Needs GitHub CLI 2.90.0 or later (public preview).
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a github-copilotProject install goes to .agents/skills/; add -g for ~/.copilot/skills/.
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .github/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .github/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.copilot/skills/ instead of .github/skills for a personal install. Commit .github/skills so cloud agent and code review can use it.
GitHub Copilot skills documentation · loads skills from .github/skills/, .claude/skills/, .agents/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .github/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.GitHub Copilot copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
$ npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a opencodeOpenCode documents no install command of its own. Project install goes to .agents/skills/; add -g for ~/.config/opencode/skills/.
$ gh skill install huang-sir1/radiology-skills radiology-transcriptomics-analysis --agent opencodeProject scope by default (.agents/skills/); add --scope user for a personal install.
$ git clone --depth 1 https://github.com/huang-sir1/radiology-skills.git skills-src && mkdir -p .opencode/skills && cp -r skills-src/radiology-skills/skills/radiology-transcriptomics-analysis .opencode/skills/radiology-transcriptomics-analysis && rm -rf skills-srcUse ~/.config/opencode/skills/ instead of .opencode/skills for a personal install.
OpenCode skills documentation · loads skills from .opencode/skills/, .claude/skills/, .agents/skills/
Install the "radiology-transcriptomics-analysis" agent skill from https://github.com/huang-sir1/radiology-skills/tree/main/radiology-skills/skills/radiology-transcriptomics-analysis into .opencode/skills/radiology-transcriptomics-analysis/ in this project. Copy the whole folder (SKILL.md and every file beside it), keep the folder name "radiology-transcriptomics-analysis", then confirm the skill loads.OpenCode copies the folder itself, the same result as the manual copy. Check what it changed before you commit it.
Facts
- Skill name
radiology-transcriptomics-analysis- GitHub stars
- 1.9k
- Token cost
- ~3.1k tokens
- SKILL.md length
- 1,408 words
- Files
- 11 (incl. scripts, references)
- Skills in repo
- 39
- Repo updated
- First seen
- Licence
- Custom licence
At a glance
Build/run/audit bulk RNA, sc/snRNA and spatial workflows with traceable QC; not mechanism claims.
- Works in 7 steps: question, endpoint/contrast, intended… → source type and exact locations: FASTQ,… → donor/patient/specimen/region/section/bat… → …
- Tasks that involve Bioinformatics
- SKILL.md covers Core contract, Choose the entry mode, Minimal intake and Required workflow, plus 4 more sections
- Runs PowerShell scripts from its folder
What it does
Radiology Transcriptomics Analysis is an agent skill from huang-sir1/radiology-skills. Build/run/audit bulk RNA, sc/snRNA and spatial workflows with traceable QC; not mechanism claims.
Its SKILL.md is about 3.1k tokens, which your agent loads only when the skill is triggered. The skill folder holds 15 other files, including scripts and reference files (for example `agents/openai.yaml`, `references/modality-execution-workflows.md` and `references/runtime-and-reproducibility-contract.md`).
It sits in Research & Science, covering Bioinformatics.
When your agent uses it
- Tasks that involve Bioinformatics
Example prompts
- “/radiology-transcriptomics-analysis”
Requirements
- PowerShell
Workflow steps
7 steps, taken from the first numbered list in SKILL.md.
- question, endpoint/contrast, intended use, affected Claim IDs and whether imaging is involved;
- source type and exact locations: FASTQ, counts, features/barcodes, matrices, object files,
- donor/patient/specimen/region/section/batch/library hierarchy and matched-sample map;
- platform/chemistry/reference build or assay version when known; strandedness and feature
- clinical covariates, group/contrast, repeated measures, confounders and protected test state;
- environment, package lock, compute limits, output root, seed policy and execution authority;
- pre-existing QC thresholds, exclusions, reference atlases, labels, checkpoints and deviations.
What it can do on your machine
Read from SKILL.md and the folder at commit aaa0fe6. It shows what the files ask for, not the result of running them.
Tool permissions
Pre-approves nothing: there is no allowed-tools line, so your agent's usual permission prompts apply.
From allowed-tools in the SKILL.md frontmatter.
Runs code
Ships 1 file in scripts/ (PowerShell), which the agent can run.
From the folder's file list and the shell code blocks in SKILL.md.
Network
No URLs in SKILL.md.
From URLs in SKILL.md, links to its own repository left out.
Credentials
Names no API keys, tokens, secrets or passwords.
From names ending in _API_KEY, _TOKEN, _SECRET, _KEY or _PASSWORD in SKILL.md.
Context cost
Radiology Transcriptomics Analysis loads about 3.1k tokens when it runs, and up to ~7.6k if it reads all its reference files. Until then it costs about 33 tokens; SKILL.md has 1,408 words of instructions outside code blocks.
Estimates: characters ÷ 4, the usual rule of thumb; real counts depend on the model's tokenizer. Scripts and assets cost tokens only if the agent reads them.
Safety
Auto-check passed
The automated check found no risky patterns in SKILL.md.
Automated static check — not a guarantee. Review scripts before installing. It scans the text of SKILL.md for risky patterns (piping downloads into a shell, reading credential files, hidden Unicode, destructive commands); the scripts in this folder are not scanned.
SKILL.md
Its licence (Custom licence) doesn't allow us to republish the file, so here is its outline and opening line. It has 1,408 words (~3,147 tokens).
“Use this skill when the requested object is an executable or auditable bulk RNA, sc/snRNA, or spatial-transcriptomics workflow. It can be entered directly with raw matrices, processed objects, code, logs, or only a proposed analysis. It does not require an…”
- name
- radiology-transcriptomics-analysis
Files
SKILL.md and 10 other files (scripts, references) in radiology-skills/skills/radiology-transcriptomics-analysis of huang-sir1/radiology-skills.
- SKILL.md
- agents/openai.yaml
- references/modality-execution-workflows.md
- references/runtime-and-reproducibility-contract.md
- scripts/validate_transcriptomics_analysis_skill.ps1
- templates/analysis-run-manifest.md
- templates/local-analysis-experience-registry.md
- templates/local-transcriptomics-runtime-profile.md
- templates/qc-decision-log.md
- templates/transcriptomics-analysis-plan.md
- tests/routing-cases.json
Open the folder on GitHubat commit aaa0fe6
Compare with similar skills
Radiology Transcriptomics Analysis next to the 5 skills that share the most tags, products or categories with it. Stars are the repository's; “used in” counts other GitHub owners with a copy.
| Skill | Stars | Used in | Tokens | Auto-check | Licence | Repo updated |
|---|---|---|---|---|---|---|
| Radiology Transcriptomics Analysis this skillhuang-sir1/radiology-skills | 1.9k | — | ~3.1k | Automated safety check: Pass | Custom licence | |
| Alphagenome Single Variant Analysisgoogle-deepmind/science-skills | 3.2k | 2 repos | ~3k | Automated safety check: Notes | Apache-2.0 | |
| 13C Metabolic Flux AnalysisK-Dense-AI/scientific-agent-skills | 48k | 1 repos | ~3.2k | Automated safety check: Pass | MIT | |
| Clinvar Databasegoogle-deepmind/science-skills | 3.2k | 2 repos | ~3.9k | Automated safety check: Notes | Apache-2.0 | |
| Metabolic Study Planneraiming-lab/AutoResearchClaw | 15k | — | ~1.9k | Automated safety check: Pass | MIT | |
| Dbsnp Databasegoogle-deepmind/science-skills | 3.2k | 2 repos | ~3.4k | Automated safety check: Notes | Apache-2.0 |
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Dbsnp Database
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A skill your agent uses when you want to look up, map, and search for short genetic variants (SNPs, indels) in NCBI's dbSNP database.
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Related
Categories
Questions about Radiology Transcriptomics Analysis
What does Radiology Transcriptomics Analysis do?
Build/run/audit bulk RNA, sc/snRNA and spatial workflows with traceable QC; not mechanism claims. Radiology Transcriptomics Analysis is an agent skill from huang-sir1/radiology-skills. Build/run/audit bulk RNA, sc/snRNA and spatial workflows with traceable QC; not mechanism claims.
When should I use Radiology Transcriptomics Analysis?
Radiology Transcriptomics Analysis fits situations like: tasks that involve Bioinformatics.
How do I install Radiology Transcriptomics Analysis in Claude Code?
Run `npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a claude-code`. Or copy the skill folder (radiology-skills/skills/radiology-transcriptomics-analysis in huang-sir1/radiology-skills) into .claude/skills/radiology-transcriptomics-analysis in your project. Claude Code loads it when a task matches its description.
How do I install Radiology Transcriptomics Analysis in Codex?
Run `npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a codex`. Or copy the skill folder (radiology-skills/skills/radiology-transcriptomics-analysis in huang-sir1/radiology-skills) into .agents/skills/radiology-transcriptomics-analysis in your project. Codex loads it when a task matches its description.
Can I use Radiology Transcriptomics Analysis in Cursor, Gemini CLI or GitHub Copilot?
Cursor, Gemini CLI, GitHub Copilot and OpenCode also load SKILL.md folders. With the skills CLI, run `npx skills add huang-sir1/radiology-skills --skill radiology-transcriptomics-analysis -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/radiology-transcriptomics-analysis, .gemini/skills/radiology-transcriptomics-analysis, .github/skills/radiology-transcriptomics-analysis and .opencode/skills/radiology-transcriptomics-analysis in your project.
What does Radiology Transcriptomics Analysis need to run?
Going by SKILL.md and its folder, Radiology Transcriptomics Analysis needs PowerShell for the scripts in its folder. Our summary lists: PowerShell.
Does Radiology Transcriptomics Analysis access the network?
SKILL.md contains no URLs. Any network use would come from the scripts or tools the agent runs. This is read from the text; nothing was executed.
Is Radiology Transcriptomics Analysis safe to install?
Our automated static check of SKILL.md found no risky patterns, such as piping downloads into a shell, reading credential files or hidden Unicode. It is not a guarantee. The check reads SKILL.md only: the scripts in the folder are not scanned, so read them before running anything.
What licence does Radiology Transcriptomics Analysis use?
Radiology Transcriptomics Analysis has a licence file (the repository's licence) that doesn't match a standard licence. Read it on GitHub before reusing the skill.
How many tokens does Radiology Transcriptomics Analysis use?
About 3.1k tokens (SKILL.md is roughly 13k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full. Its references folder adds about 4.5k tokens, read only when the agent opens those files.
What are the alternatives to Radiology Transcriptomics Analysis?
Skills that share tags, products or a category with Radiology Transcriptomics Analysis: Alphagenome Single Variant Analysis (google-deepmind/science-skills, 3.2k stars), 13C Metabolic Flux Analysis (K-Dense-AI/scientific-agent-skills, 48k stars), Clinvar Database (google-deepmind/science-skills, 3.2k stars) and Metabolic Study Planner (aiming-lab/AutoResearchClaw, 15k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.
Who maintains Radiology Transcriptomics Analysis?
huang-sir1 (a GitHub user) maintains it in huang-sir1/radiology-skills, which has 1,923 GitHub stars. The repository holds 39 skills in this directory. The repository was last updated on September 21, 2026.
Source: huang-sir1/radiology-skills on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.