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bdbe_scnorm

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用于单细胞测序数据预处理的专用技能，对单细胞表达矩阵进行标准化处理，以消除技术偏差，为聚类、差异表达分析提供可靠的数据基础。

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bdbe_scnorm Skill

功能描述

本skill是用于单细胞测序数据预处理的专用技能，首先需要用户上传需要处理的单细胞测序数据，再对单细胞表达矩阵进行标准化处理，以消除技术偏差，为聚类、差异表达分析提供可靠的数据基础。

核心功能

  • 支持上传单细胞测序数据文件
  • 触发标准化分析任务
  • 获取并展示分析结果
  • 支持下载标准化后的数据集

参数说明

  • input_file：输入单细胞测序数据文件路径（必要参数）
  • species：物种类型（必要参数），如 mouse、human 等

依赖

  • requests
  • json

使用示例

基本使用

python scripts/bdbe_scnorm.py --input_file mouse_ERX2557277.csv --species mouse

输入输出示例

输入

python scripts/bdbe_scnorm.py --input_file mouse_ERX2557277.csv --species mouse

输出

正在上传文件: mouse_ERX2557277.csv
上传成功，文件ID: 36885

正在启动标准化分析...
分析任务启动成功，任务ID: 1063

正在获取分析结果...
分析完成，结果文件：

核心文件：
- d5f99079c24ca7b47667bddd59d23621.h5ad
  下载链接: https://www.bdbe.cn/kun/api/result/download?link=-1/python3/mnt/run.py/2026-03-10T10_40_10.091473/output/mouse/d5f99079c24ca7b47667bddd59d23621.h5ad

辅助文件：
- state.json
- dataset_info.json
- sorted_length.pickle
- data-00000-of-00001.arrow
- logs.txt

分析完成！

注意事项

  • 支持的文件格式：h5ad、csv 等常见单细胞数据格式
  • 文件大小限制：建议不超过100MB
  • 分析时间：根据数据大小，可能需要几分钟到几十分钟
  • 物种参数：必须指定正确的物种类型，如 mouse、human 等