{"name":"MACS2","category":"Peak Calling","category_key":"epigenomics","category_name":"表观组学分析","tool_type":"命令行软件","summary":"ChIP-seq/CUT&Tag/CUT&RUN 常用 peak calling 工具，用于定位蛋白-DNA 结合或组蛋白修饰区域。","performance_json":{"x_axis":["10M reads","50M reads","100M reads"],"series":[{"name":"时间消耗","unit":"分钟","y_axis":"time","data":[3,14,31]},{"name":"峰值内存","unit":"GB","y_axis":"memory","data":[1.2,3.1,6.4]}],"environment":"MACS2 / BAMPE / human genome size"},"markdown_docs":"# MACS2\n\n## 工具定位\nMACS2 常用于从免疫沉淀类测序数据中识别 enriched regions，是表观组学流程中的关键节点。\n\n## 核心思想\n通过动态背景模型估计 reads 富集显著性，并输出 narrowPeak 或 broadPeak。\n\n## 输入与输出\n| 数据对象 | 说明 |\n| --- | --- |\n| 去重 BAM | 上游分析输入 |\n| input/control BAM | 上游分析输入 |\n| narrowPeak/broadPeak | 下游解读结果 |\n| summits | 下游解读结果 |\n| peak annotation 输入 | 下游解读结果 |\n\n## 示例命令\n```bash\nmacs2 callpeak -t sample.bam -c input.bam -f BAMPE -g hs -n sample_H3K27ac --outdir peaks -q 0.01\n```\n\n## 解读要点\n1. 转录因子通常使用 narrow peak，组蛋白修饰可能需要 broad peak 模式。\n2. CUT&Tag 数据是否提供 input/control 要结合实验方案判断。\n3. peak 数量异常通常提示抗体、测序深度或去重策略问题。\n","id":17,"created_at":"2026-06-03T17:48:59.833455Z"}