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sequence-search

Search one concrete protein or nucleotide sequence against a FASTA database inside the local Molemo workspace with NCBI BLAST+.

Skill by phenixace

IndexedMIT★ 2
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Install

Works with Claude Code, Claude apps, Codex, Cursor, Gemini CLI, GitHub Copilot, VS Code, OpenCode, Goose, Windsurf. Read the repository before you give any tool access to your data.

npx agentmarket install skill/phenixace-sequence-search

Asks which of your tools to add it to (Claude Code, Codex, Cursor, VS Code, Windsurf, Gemini CLI, Claude Desktop) and shows the change first. See https://agentmart.dev/cli.

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About

Search one concrete protein or nucleotide sequence against a FASTA database inside the local Molemo workspace with NCBI BLAST+. Use for ranked similarity or homolog candidates after the researcher has reviewed and approved a workflow plan.

Use cases: backend, productivity

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Permissions

What this skill can do and what it asks for, from its SKILL.md. Checked Oct 25, 2026.

Tools
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Secrets
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Install scripts
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Runs as
Python package

Network hosts it talks to 1

  • codeload.github.com · found in install command

Files it touches

  • ~/.claude/skills/sequence-search

What's inside

Skill name
sequence-search
Description
Search one concrete protein or nucleotide sequence against a FASTA database inside the local Molemo workspace with NCBI BLAST+. Use for ranked similarity or homolog candidates after the researcher has reviewed and approved a workflow plan.
License
MIT
Instructions
9 lines in SKILL.md · view on GitHub

Before installing

  • Ships executable scripts

Files (4)

  • SKILL.md
  • openai.yaml · agents/
  • handler.py · scripts/
  • skill.json

SKILL.md (first lines)

# Local Sequence Search

Use `sequence_search_local` only through a researcher-approved guided workflow. The tool builds a temporary local BLAST database, runs bounded BLASTP or BLASTN, and returns ranked hits with E-value, bit score, identity, query coverage, and the top alignment for inspection.

Use `blastp-short` automatically for protein queries shorter than 30 residues and `blastn-short` for nucleotide queries shorter than 50 bases. Keep the database inside the constrained workspace.

Treat similarity as evidence, not a functional annotation. Interpret hits with domain architecture, taxonomy, experiment, and database provenance when those claims matter.

From phenixace/Molemo_WorkBench, MIT.

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    Last commit (this folder)
    Aug 29, 2026 (2 months ago)

    From GitHub (fetched Oct 24, 2026).

    Details

    License
    MIT
    Repository
    github.com/phenixace/Molemo_WorkBench
    First seen
    Oct 24, 2026
    Last checked
    Oct 24, 2026
    Source
    GitHubgithub-graphql

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    Cite this page

    sequence-search skill. Agent Mart. https://agentmart.dev/skills/phenixace-sequence-search (last updated 2026-10-24)