SCI Skills

EN Index
Data & ReproBioinformatics & GenomicsFreedomIntelligence/OpenClaw-Medical-SkillsData & Reproduction
BI

bio-systems-biology-metabolic-reconstruction

Maintainer FreedomIntelligence · Last updated April 1, 2026

Reconstruct genome-scale metabolic models from genome annotations.

OpenClawNanoClawAnalysisReproductionbio-systems-biology-metabolic-reconstruction🧠 bioos extended suitebioos extended bioinformatics suitereconstruct

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-systems-biology-metabolic-reconstruction

Maintainer
FreedomIntelligence
License
MIT
Last updated
April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

  • carve genome.faa -o model.xml.
  • carve genome.faa -o model.xml --format sbml carve genome.faa -o model.json --format json.

Source Doc

Excerpt From SKILL.md

Gap-fill for specific media

carve genome.faa -o model.xml --gapfill M9

Use diamond instead of blastp (faster)

carve genome.faa -o model.xml --diamond

Specify organism type

carve genome.faa -o model.xml --grampos # Gram-positive carve genome.faa -o model.xml --gramneg # Gram-negative (default)

Use cases

  • Use bio-systems-biology-metabolic-reconstruction for genomics and bioinformatics workflows.
  • Apply bio-systems-biology-metabolic-reconstruction to sequencing, variant, or omics analysis tasks.

Not for

  • Do not rely on this catalog entry alone for installation or maintenance details.

Upstream Related Skills

  • systems-biology/model-curation - Validate and curate draft models
  • systems-biology/flux-balance-analysis - Analyze reconstructed models
  • database-access/entrez-fetch - Download genome sequences

Related skills

Related skills

Back to directory
AG
Data & ReproBioinformatics & Genomics

agent-browser

Browse the web for any task — research topics, read articles, interact with web apps, fill forms, take screenshots, extract data, and test w…

OpenClawNanoClawAnalysis
FreedomIntelligence/OpenClaw-Medical-SkillsView
AL
Data & ReproBioinformatics & Genomics

alpha-vantage

Access 20+ years of global financial data: equities, options, forex, crypto, commodities, economic indicators, and 50+ technical indicators.

Claude CodeAnalysis
K-Dense-AI/claude-scientific-skillsView
BI
Data & ReproBioinformatics & Genomics

bio-alignment-filtering

Filter alignments by flag, quality, region, or paired status.

OpenClawNanoClawAnalysis
FreedomIntelligence/OpenClaw-Medical-SkillsView
BI
Data & ReproBioinformatics & Genomics

bio-alignment-indexing

Index BAM/CRAM files with samtools index for random access.

OpenClawNanoClawAnalysis
FreedomIntelligence/OpenClaw-Medical-SkillsView