数据与复现生物信息与基因组学FreedomIntelligence/OpenClaw-Medical-Skills数据与复现

bio-read-qc-quality-reports

维护者 FreedomIntelligence · 最近更新 2026年4月1日

Generate and interpret quality reports from FASTQ files using FastQC and MultiQC. Assess per-base quality, adapter content, GC bias, duplication levels, and overrepresented sequences. Use when performing initial QC on raw sequencing data or validating preprocessing results.

OpenClawNanoClaw分析处理复现实验bio-read-qc-quality-reports🧬 bioinformatics (gptomics bio-* suite)bioinformatics — sequencing & read qcgenerate

原始来源

FreedomIntelligence/OpenClaw-Medical-Skills

https://github.com/FreedomIntelligence/OpenClaw-Medical-Skills/tree/main/skills/bio-read-qc-quality-reports

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

2 min

核心说明

CLI：fastqc *.fastq.gz then multiqc。
生成 quality reports ，用于 FASTQ files ，使用 FastQC 、 aggregate multiple reports ，支持 MultiQC。
运行 quality control on FASTQ files" → Generate per-base quality，adapter content，、 duplication plots，then aggregate across samples. CLI：fastqc *.fastq.gz then multiqc。
fastqc -o qc_reports/ sample_R1.fastq.gz sample_R2.fastq.gz。

原始文档

SKILL.md 摘录

Output Files

FastQC produces two files per input:

sample_fastqc.html - Interactive HTML report
sample_fastqc.zip - Data files and images

Key Modules

Module	What It Shows	Warning Signs
Per base sequence quality	Quality scores across read	Drop below Q20 at 3' end
Per sequence quality	Quality score distribution	Bimodal distribution
Per base sequence content	Nucleotide composition	Imbalance at start (normal)
Per sequence GC content	GC distribution	Secondary peak (contamination)
Per base N content	Unknown bases	High N content
Sequence length distribution	Read lengths	Unexpected variation
Sequence duplication	Duplicate reads	High duplication (PCR)
Overrepresented sequences	Common sequences	Adapter contamination
Adapter content	Adapter sequences	Visible adapter curves

Get per-base quality

cat sample_fastqc/fastqc_data.txt | grep -A 50 ">>Per base sequence quality"

适用场景

适合在performing initial QC on raw sequencing data 或 validating preprocessing results时使用。

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

adapter-trimming - Remove adapters detected by FastQC
fastp-workflow - All-in-one QC and trimming
sequence-io/read-sequences - FASTQ file reading/writing

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