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Agent skill

Omics Target Evidence Mapper

by ClawBio in ClawBio/ClawBio

Aggregate public target-level evidence across omics and translational sources for research triage.

MITAuto-check passedResearch & Science

Install Omics Target Evidence Mapper

skills CLI
$ npx skills add ClawBio/ClawBio --skill omics-target-evidence-mapper -a claude-code

Project install by default; add -g for ~/.claude/skills/.

GitHub CLI
$ gh skill install ClawBio/ClawBio omics-target-evidence-mapper --agent claude-code

Project scope by default; add --scope user for a personal install. Needs GitHub CLI 2.90.0 or later (public preview).

Manual copy
$ git clone --depth 1 https://github.com/ClawBio/ClawBio.git skills-src && mkdir -p .claude/skills && cp -r skills-src/skills/omics-target-evidence-mapper .claude/skills/omics-target-evidence-mapper && rm -rf skills-src

Use ~/.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/

Facts

Skill name
omics-target-evidence-mapper
GitHub stars
1.2k
Used in
1 other repo
Token cost
~648 tokens
SKILL.md length
248 words
Files
9
Skills in repo
104
Repo updated
First seen
Licence
MIT

At a glance

Aggregate public target-level evidence across omics and translational sources for research triage.

  • Works in 6 steps: Accept a gene or protein target and an… → Retrieve canonical target information… → Retrieve disease-target association… → …
  • Research & Science work in your project
  • Runs Python and Shell scripts from its folder; calls python

What it does

Omics Target Evidence Mapper is an agent skill from ClawBio/ClawBio. Aggregate public target-level evidence across omics and translational sources for research triage.

Its SKILL.md is about 650 tokens, which your agent loads only when the skill is triggered. The skill folder holds 10 other files (for example `commands.sh`, `environment.yml` and `examples/demo_input.json`).

It sits in Research & Science. The repository describes itself as: 🦖 ClawBio - The first bioinformatics-native AI agent skill library. Local-first. Reproducible. Open. Free. The licence is MIT.

When your agent uses it

  • Research & Science work in your project

Example prompts

  • “/omics-target-evidence-mapper”

Requirements

  • Python 3
  • A Bash shell

Workflow steps

6 steps, taken from the first numbered list in SKILL.md.

  1. Accept a gene or protein target and an optional disease term.
  2. Retrieve canonical target information from UniProt.
  3. Retrieve disease-target association evidence from Open Targets.
  4. Retrieve recent literature hits from PubMed.
  5. Optionally retrieve trial records relevant to the target and disease.
  6. Produce a machine-readable JSON file and a human-readable Markdown report.

What it can do on your machine

Read from SKILL.md and the folder at commit dece754. 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 script files (Python and Shell), which the agent can run.

    Shell commands in SKILL.md call:

    • python

    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

Omics Target Evidence Mapper loads about 648 tokens when it runs. Until then it costs about 32 tokens; SKILL.md has 248 words of instructions outside code blocks.

Always · name and description, kept in context so the agent knows when to use it
~32
When it runs · the whole SKILL.md, loaded when a task matches
~648

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); files beside SKILL.md are not scanned.

SKILL.md

The full file from ClawBio/ClawBio at commit dece754, republished under its MIT licence (© ClawBio). 248 words, ~648 tokens.

Download SKILL.mdSave it as .claude/skills/omics-target-evidence-mapper/SKILL.md (or your agent's skills folder). This skill also uses 8 other files; get the full folder from GitHub.
name
omics-target-evidence-mapper
description
Aggregate public target-level evidence across omics and translational sources for research triage.
license
MIT
metadata.version
0.1.0
metadata.tags
omics, targets, translational-research, literature, trials

Why This Exists

Researchers often need a quick first-pass view of whether a gene or protein target has evidence across multiple public sources. In practice, this usually means checking several websites manually and informally combining results. This skill makes that process reproducible by retrieving and organising public evidence into one structured output.

This skill is for research triage only. It does not infer causality, rank therapeutic value, or make clinical recommendations.

Core Capabilities

  1. Accept a gene or protein target and an optional disease term.
  2. Retrieve canonical target information from UniProt.
  3. Retrieve disease-target association evidence from Open Targets.
  4. Retrieve recent literature hits from PubMed.
  5. Optionally retrieve trial records relevant to the target and disease.
  6. Produce a machine-readable JSON file and a human-readable Markdown report.

Input Formats

ArgumentRequiredExampleNotes
--geneYes, unless --demo is usedIL6RGene or target symbol
--diseaseNocoronary artery diseaseOptional disease context
--outputYesdemo_outOutput directory
--max-papersNo5Number of PubMed hits to include
--max-trialsNo5Number of trial records to include
--demoNo--demoRuns the built-in demo query

Workflow

  1. Validate CLI inputs.
  2. Resolve the query from either user input or demo mode.
  3. Query public data sources.
  4. Normalise results into a structured evidence object.
  5. Write JSON and Markdown outputs.
  6. Write reproducibility bundle:
    • reproducibility/checksums.sha256 — SHA-256 hashes of all output files
    • reproducibility/environment.yml — pinned Conda/pip environment
    • ro-crate-metadata.json — RO-Crate 1.1 provenance record (run params, outputs, script)

CLI Reference

Demo mode

bash
python skills/omics-target-evidence-mapper/omics_target_evidence_mapper.py --demo --output demo_out

© ClawBio, MIT. Rendered from Markdown: HTML in the file is shown as text, images as links, and headings moved down two levels. Raw file

Files

SKILL.md and 8 other files in skills/omics-target-evidence-mapper of ClawBio/ClawBio.

  • SKILL.md
  • commands.sh
  • environment.yml
  • examples/demo_input.json
  • examples/expected_output.md
  • omics_target_evidence_mapper.py
  • tests/test_omics_target_evidence_mapper.py
  • tests/test_omics_unavailable.py
  • tests/test_smoke.py

Open the folder on GitHubat commit dece754

Used in 1 other repository

We found 1 copy of this SKILL.md (exact, near-identical or edited) in other folders, from 1 other GitHub owner. This page covers the copy in ClawBio/ClawBio, which our catalogue first saw on October 7, 2026.

Compare with similar skills

Omics Target Evidence Mapper 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.

Omics Target Evidence Mapper compared with similar skills
SkillStarsUsed inTokensAuto-checkLicenceRepo updated
Omics Target Evidence Mapper this skillClawBio/ClawBio1.2k1 repos~648Automated safety check: PassMIT
Hypothesis Generationspacering-net/codeg3.9k14 repos~3.6kAutomated safety check: NotesMIT
GitHub Deep Researchbytedance/deer-flow84k4 repos~1.3kAutomated safety check: PassMIT
Nature Paper CardYuan1z0825/nature-skills47k2 repos~2.1kAutomated safety check: PassApache-2.0
Content Research Writerweapp-tailwindcss/weapp-tailwindcss1.9k25 repos~3.5kAutomated safety check: PassMIT
Peer Reviewspacering-net/codeg3.9k17 repos~5.9kAutomated safety check: NotesMIT

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Categories

Questions about Omics Target Evidence Mapper

What does Omics Target Evidence Mapper do?

Aggregate public target-level evidence across omics and translational sources for research triage. Omics Target Evidence Mapper is an agent skill from ClawBio/ClawBio. Aggregate public target-level evidence across omics and translational sources for research triage.

When should I use Omics Target Evidence Mapper?

Omics Target Evidence Mapper fits situations like: research & Science work in your project.

How do I install Omics Target Evidence Mapper in Claude Code?

Run `npx skills add ClawBio/ClawBio --skill omics-target-evidence-mapper -a claude-code`. Or copy the skill folder (skills/omics-target-evidence-mapper in ClawBio/ClawBio) into .claude/skills/omics-target-evidence-mapper in your project. Claude Code loads it when a task matches its description.

How do I install Omics Target Evidence Mapper in Codex?

Run `npx skills add ClawBio/ClawBio --skill omics-target-evidence-mapper -a codex`. Or copy the skill folder (skills/omics-target-evidence-mapper in ClawBio/ClawBio) into .agents/skills/omics-target-evidence-mapper in your project. Codex loads it when a task matches its description.

Can I use Omics Target Evidence Mapper 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 ClawBio/ClawBio --skill omics-target-evidence-mapper -a cursor` (or -a gemini-cli, github-copilot or opencode for the others). To copy it by hand, put the folder in .cursor/skills/omics-target-evidence-mapper, .gemini/skills/omics-target-evidence-mapper, .github/skills/omics-target-evidence-mapper and .opencode/skills/omics-target-evidence-mapper in your project.

What does Omics Target Evidence Mapper need to run?

Going by SKILL.md and its folder, Omics Target Evidence Mapper needs Python and a shell for the scripts in its folder and the command-line tools its instructions call (python). Our summary lists: Python 3; A Bash shell.

Does Omics Target Evidence Mapper 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 Omics Target Evidence Mapper 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. Review the folder before installing.

What licence does Omics Target Evidence Mapper use?

Omics Target Evidence Mapper is published under the MIT licence (declared in SKILL.md). It allows redistribution, so the full SKILL.md is shown on this page.

How many tokens does Omics Target Evidence Mapper use?

About 648 tokens (SKILL.md is roughly 2.6k characters). Agents keep only the skill's name and description in context until a task matches; then they load SKILL.md in full.

What are the alternatives to Omics Target Evidence Mapper?

Skills that share tags, products or a category with Omics Target Evidence Mapper: Hypothesis Generation (spacering-net/codeg, 3.9k stars), GitHub Deep Research (bytedance/deer-flow, 84k stars), Nature Paper Card (Yuan1z0825/nature-skills, 47k stars) and Content Research Writer (weapp-tailwindcss/weapp-tailwindcss, 1.9k stars). The comparison table on this page puts their stars, adoption, token cost, safety result and licence side by side.

Who maintains Omics Target Evidence Mapper?

ClawBio (a GitHub organization) maintains it in ClawBio/ClawBio, which has 1,154 GitHub stars. The repository holds 104 skills in this directory. The repository was last updated on October 8, 2026.

Source: ClawBio/ClawBio on GitHub. Facts on this page come from the repository at the commit we read; the author's words are quoted as theirs.