deeptools

仓库创建 2025年10月20日最近提交 5 小时前SkillHot 收录 20 天前

▸ 精选理由

对 ChIP-seq/RNA-seq/ATAC 常见分析流程与图表生成非常实用。

这个 Skill 做什么

处理与可视化高通量测序数据，生成QC、热图和归一化结果。

把测序比对结果（比如 BAM）处理成可视化和 QC 报表：转 bigWig、做样本相关性/PCA/指纹图，画 TSS/peak 的 heatmap 和 profile。做 ChIP-seq、RNA-seq、ATAC-seq 等实验的数据探索、归一化和出图时会用到，能直接产出发表级别的图表。特点是命令行工具链丰富、适合批量比较和样品间标准化。

▸ 展开 SKILL.md 英文原文

NGS analysis toolkit. BAM to bigWig conversion, QC (correlation, PCA, fingerprints), heatmaps/profiles (TSS, peaks), for ChIP-seq, RNA-seq, ATAC-seq visualization.

研究检索NGS 分析可视化质量控制通用

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帮我安装这个 skill：https://raw.githubusercontent.com/K-Dense-AI/scientific-agent-skills/main/skills/deeptools/SKILL.md

或 curl 直取 SKILL.md

curl -fsSL "https://raw.githubusercontent.com/K-Dense-AI/scientific-agent-skills/main/skills/deeptools/SKILL.md"

SKILL.MD 节选查看完整文件 ↗

# deepTools: NGS Data Analysis Toolkit

## Overview

deepTools is a comprehensive suite of Python command-line tools designed for processing and analyzing high-throughput sequencing data. Use deepTools to perform quality control, normalize data, compare samples, and generate publication-quality visualizations for ChIP-seq, RNA-seq, ATAC-seq, MNase-seq, and other NGS experiments.

**Core capabilities:**
- Convert BAM alignments to normalized coverage tracks (bigWig/bedGraph)
- Quality control assessment (fingerprint, correlation, coverage)
- Sample comparison and correlation analysis
- Heatmap and profile plot generation around genomic features
- Enrichment analysis and peak region visualizat

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