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stead99
093ef14fa7
revise fastqscreen output
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| README.md | 4 years ago | |
| fastq_screen.conf | 4 years ago | |
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| workflow.wdl | 4 years ago | |
README.md
原始数据和比对数据的质量控制
Author：Shang Jun
Email: shangjunv@163.com
Date: 2020/12/15
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/fa_first_qc
# 3. 获得choppy samples的csv文件
choppy samples fa_first_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 fa_first_qc-latest --project-name <project_name>
# 6. 查询任务
choppy query -s <workflow_id>
choppy query -s <workflow_id> -m