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README.md

原始数据和比对数据的质量控制

Author:Shang Jun

Email: shangjunv@163.com

Date: 2020/03/26

APP 概述

本 APP 包含了原始数据质量控制软件 FastQC 和 FastqScreen 和比对质量控制软件 Qualimap

# 1. 启动choppy
open-choppy-env
# 2. 安装APP
choppy install junshang/iseq_qc
# 3. 获得choppy samples的csv文件
choppy samples iseq_qc-latest --output qc_samples
# 4. 编辑samples文件
# samples_id,inputSamplesFile
# samples_id是choppy对workflow的编号,写阿拉伯数字就行
# 即
# 1,inputSamplesFile的阿里云地址
# 5. 提交任务
choppy batch iseq_qc-latest --project-name <project_name>
# 6. 查询任务
choppy query -s <workflow_id>
choppy query -s <workflow_id> -m