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Data & Repro
BI
bio-genome-assembly-long-read-assembly
Maintainer FreedomIntelligence · Last updated April 1, 2026
De novo assembly from ONT/PacBio long reads with Flye or Canu.
Original source
FreedomIntelligence/OpenClaw-Medical-Skills
https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-genome-assembly-long-read-assembly
- Maintainer
- FreedomIntelligence
- License
- MIT
- Last updated
- April 1, 2026
Skill Snapshot
Key Details From SKILL.md
Key Notes
- Assemble genomes from Oxford Nanopore (ONT) or PacBio long reads for highly contiguous assemblies.
- flye --nano-raw reads.fastq.gz --out-dir flye_output --threads 16.
Source Doc
Excerpt From SKILL.md
Tool Comparison
| Tool | Speed | Memory | Best For |
|---|---|---|---|
| Flye | Fast | Moderate | General purpose, bacteria, ONT |
| Canu | Slow | High | High accuracy, complex genomes |
| Wtdbg2 | Very fast | Low | Draft assemblies |
Note: For PacBio HiFi data, see the dedicated hifi-assembly skill which covers hifiasm.
PacBio CLR
flye --pacbio-raw reads.fastq.gz --out-dir flye_output --threads 16
PacBio HiFi
flye --pacbio-hifi reads.fastq.gz --out-dir flye_output --threads 16
Use cases
- Use bio-genome-assembly-long-read-assembly for genomics and bioinformatics workflows.
- Apply bio-genome-assembly-long-read-assembly 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
- hifi-assembly - PacBio HiFi assembly with hifiasm
- assembly-polishing - Polish long-read assemblies
- assembly-qc - QUAST and BUSCO assessment
- short-read-assembly - Hybrid with Illumina
- long-read-sequencing - Read QC and alignment
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