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Bio Expression Matrix Gene Id Mapping

Checked
gptomics·vlatest·backend·MIT

This skill maps bio expression matrix data to corresponding gene IDs, streamlining genomic analysis and facilitating precise identification of genes involved in biological processes.

Repository

Install on your platform

Showing Claude Code. One command installs this skill into any of the agents below.

  1. 1

    Run this in your project

    terminal
    $ npx skills add gptomics/bioskills --skill bio-expression-matrix-gene-id-mapping --full-depth -a claude-code

  2. Uses the open-source skills CLI and needs Node.js. Add -g to install it for your user instead of this project.

What we know about this skill

Publisher

gptomics

Taken from the source listing. We haven't verified who controls this account.

Install target

Live repository

Not pinned. Installing fetches whatever the repository holds at the time you run the command.

No human has reviewed this code. The checks below are a static scan of the files at one commit — nobody has run this skill or judged whether it works. A skill runs with whatever access you give your agent, so read the source before you install it.

Automated safety checks

scanned

This skill passed all 6 checks. We read its files at one commit and looked for the things that make a skill dangerous to run — not for whether it works.

  • Declares what it does: passed

    SKILL.md parses and declares a name and a description.

    SKILL.md exists, its frontmatter parses, and it declares a name and a description.

  • No undeclared network calls: passed

    Makes no network calls.

    Every host the skill dials — from its scripts, its config endpoints or the commands it tells the agent to run — is either well-known package and API infrastructure or declared in its own frontmatter. Links in documentation are not counted.

  • No obfuscated payloads: passed

    No encoded or obfuscated payloads.

    No base64, hex or compressed blob is decoded and then executed, and no encoded shell commands.

  • No credential access: passed

    Reads no keys, tokens, keychains or credential files.

    Neither the code nor the SKILL.md instructions read SSH keys, cloud credentials, keychains, token stores, browser cookie databases or dotfiles that hold secrets.

  • No pipe-to-shell installers: passed

    No pipe-to-shell or download-and-run installers.

    No `curl … | sh` pattern, in the code or in the instructions, that runs code fetched at run time.

  • Pinned to a commit: passed

    Scanned gptomics/bioskills at d91ed3d563.

    The exact upstream commit SHA that was scanned is recorded, so the result refers to specific bytes.

Commit
d91ed3d563
Manifest
expression-matrix/gene-id-mapping/SKILL.md
Scanned
3 files, 711 lines
This is a static scan, not a review. It reads the skill's files; it does not run them, and it cannot tell you whether the skill is any good or whether the code does what its description says. A skill runs with whatever access you give your agent.
What each check looks for →

About this skill

What it does

This skill maps gene identifiers between different bio-expression matrix formats. It facilitates data integration and analysis by translating gene IDs across various databases and platforms. The tool provides a standardized way to represent genes, enabling consistent downstream processing of biological datasets.

When to use it

  • You need to combine data from multiple sources that use different gene ID systems (e.g., Ensembl, NCBI Gene).
  • You are performing meta-analysis on expression data and require all gene IDs to be standardized.
  • You want to convert a dataset's gene identifiers for compatibility with specific analysis tools or databases.
  • Integrating publicly available datasets that use different naming conventions for genes.

Key capabilities

  • Gene ID mapping between various formats.
  • Bio-expression matrix format translation.
  • Standardization of gene identifier representation.

Example prompts

  • "Convert these gene IDs from Ensembl to NCBI Gene: ENSG00000141510, ENSG00000141511."
  • "Map the gene identifiers in this bio-expression matrix to HGNC symbols."
  • "Translate this expression data file from Entrez IDs to UniProt accession numbers."

Tips & gotchas

The skill requires a clear understanding of the input and desired output gene ID formats. Ensure accurate identification of source and target databases for successful mapping.