ReddRadar
Agent skill
megahit-assembler
MEGAHIT metagenomic assembly skill for reconstructing genomes from short reads
Install this agent skill to your Project
npx add-skill https://github.com/a5c-ai/babysitter/tree/main/library/specializations/domains/science/bioinformatics/skills/megahit-assembler
Metadata
Additional technical details for this skill
- tags
-
metagenomics assembly genomes contigs
- version
- 1.0
- category
- bioinformatics
SKILL.md
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)
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