数据集：GSE86958，6v6 的 肺腺癌 vs 癌旁组织。

图片

下面直接让codex 安排下

图片

直接YES 就行

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

让他下载count 矩阵

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

他好像不知道有count 矩阵链接。它在用recount3进行 Count矩阵提取。

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

本地文件显示它已经处理好了Count矩阵，样本分组信息都下载好了。真的很快。

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

代码流程都整理好了

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

他会自己校正结果

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

分析完了

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

贴几张它出的图。都是python跑的，挺难看的。当然默认是第一次使用，没有给他任何指导意见。下次用专业的角度去调整下。

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)

![图片](data:image/svg+xml,%3C%3Fxml version=‘1.0’ encoding=‘UTF-8’%3F%3E%3Csvg width=‘1px’ height=‘1px’ viewBox=‘0 0 1 1’ version=‘1.1’ xmlns=‘http://www.w3.org/2000/svg' xmlns:xlink=‘http://www.w3.org/1999/xlink'%3E%3Ctitle%3E%3C/title%3E%3Cg stroke=‘none’ stroke-width=‘1’ fill=‘none’ fill-rule=‘evenodd’ fill-opacity=‘0’%3E%3Cg transform=‘translate(-249.000000, -126.000000)’ fill=’%23FFFFFF’%3E%3Crect x=‘249’ y=‘126’ width=‘1’ height=‘1’%3E%3C/rect%3E%3C/g%3E%3C/g%3E%3C/svg%3E)