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bio-reference-operations

Maintainer FreedomIntelligence · Last updated April 1, 2026

Download, index, and manage reference genome FASTA files.

OpenClawNanoClawDiscoveryReadingbio-reference-operations🧠 bioos extended suitebioos extended bioinformatics suitedownload

Original source

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-reference-operations

Maintainer
FreedomIntelligence
License
MIT
Last updated
April 1, 2026

Skill Snapshot

Key Details From SKILL.md

2 min

Key Notes

  • Generate consensus sequences and manage reference files using samtools.
  • samtools consensus -f fasta input.bam -o consensus.fa.

Source Doc

Excerpt From SKILL.md

samtools faidx - Index Reference FASTA

Create index for random access to reference sequences.

Create Index

samtools faidx reference.fa

## FAI File Format

Columns: name, length, offset, line bases, line width

Use cases

  • Use bio-reference-operations for manuscript drafting and submission workflows.
  • Apply bio-reference-operations when polishing research communication outputs.

Not for

  • Do not treat this catalog entry as a substitute for the full upstream workflow.

Upstream Related Skills

  • sam-bam-basics - Reference required for CRAM
  • alignment-indexing - faidx for reference access
  • pileup-generation - Pileup for consensus building
  • variant-calling - bcftools consensus from VCF
  • sequence-io/read-sequences - Parse FASTA with Biopython

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