Agent-Skills.md

Agent Skills: MEGAHIT Assembler Skill

MEGAHIT metagenomic assembly skill for reconstructing genomes from short reads

bioinformaticsID: a5c-ai/babysitter/megahit-assembler

Repository

a5c-ai/babysitter
a5c-aiLicense: MIT
244

Install this agent skill to your local

pnpm dlx add-skill https://github.com/a5c-ai/babysitter/tree/HEAD/plugins/babysitter/skills/babysit/process/specializations/domains/science/bioinformatics/skills/megahit-assembler

Skill Files

Browse the full folder contents for megahit-assembler.

Download Skill

Loading file tree…

plugins/babysitter/skills/babysit/process/specializations/domains/science/bioinformatics/skills/megahit-assembler/SKILL.md

Skill Metadata

Name
megahit-assembler
Description
MEGAHIT metagenomic assembly skill for reconstructing genomes from short reads

MEGAHIT Assembler Skill

Purpose

Enable MEGAHIT metagenomic assembly for reconstructing genomes from short reads.

Capabilities

  • Memory-efficient assembly
  • Multiple k-mer strategies
  • Contig quality assessment
  • Large dataset handling
  • Iterative assembly refinement
  • Assembly graph analysis

Usage Guidelines

  • Select k-mer strategy based on coverage
  • Assess contig quality metrics
  • Handle large datasets efficiently
  • Consider iterative refinement
  • Bin contigs for MAG recovery
  • Document assembly parameters

Dependencies

  • MEGAHIT
  • metaSPAdes
  • IDBA-UD

Process Integration

  • Shotgun Metagenomics Pipeline (shotgun-metagenomics)