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数据与复现
BI
bio-genome-assembly-short-read-assembly
维护者 FreedomIntelligence · 最近更新 2026年4月1日
Illumina de novo assembly with SPAdes for metagenomes/bacteria/transcriptomes.
原始来源
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-genome-assembly-short-read-assembly
- 维护者
- FreedomIntelligence
- 许可
- MIT
- 最近更新
- 2026年4月1日
技能摘要
来自 SKILL.md 的关键信息
核心说明
- Assemble genomes ，面向 Illumina paired-end 或 single-end reads ，使用 SPAdes。
- spades.py \ -1 illumina_R1.fq.gz -2 illumina_R2.fq.gz \ --nanopore nanopore.fq.gz \ -o hybrid_assembly。
原始文档
SKILL.md 摘录
SPAdes Overview
SPAdes (St. Petersburg genome Assembler) uses de Bruijn graph approach with multiple k-mer sizes for robust assembly.
Isolate Mode (Default for Bacteria)
Best for single-organism isolates with uniform coverage.
Careful Mode
Reduces misassemblies at cost of speed. Recommended for small genomes.
适用场景
- Use bio-genome-assembly-short-read-assembly ，用于 genomics 、 bioinformatics workflows。
- Apply bio-genome-assembly-short-read-assembly to sequencing，variant，或 omics analysis tasks。
不适用场景
- Do not rely on this catalog entry alone ，用于 installation 或 maintenance details。
上游相关技能
- read-qc - Preprocess reads before assembly
- assembly-polishing - Polish assembly with Pilon
- assembly-qc - Assess with QUAST/BUSCO
- long-read-assembly - Long-read alternatives
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