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README.md
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| README.md | |||||
| # README.md | |||||
| Author: Qingwang Chen; Chenglin Liu | Author: Qingwang Chen; Chenglin Liu | ||||
| Email: qwch20@fudan.edu.cn | Email: qwch20@fudan.edu.cn | ||||
| Last Updates: 17/01/2022 | Last Updates: 17/01/2022 | ||||
| Brief Introduction | |||||
| ## Brief Introduction | |||||
| For RNA-seq data, from bams to AS Information files. | For RNA-seq data, from bams to AS Information files. | ||||
| Requirements | Requirements | ||||
| choppy | choppy | ||||
| Ali-Cloud | Ali-Cloud | ||||
| Linux | Linux | ||||
| # 激活choppy环境 | |||||
| ``` | |||||
| ### 激活choppy环境 | |||||
| $ source activate choppy (open-choppy-env) | $ source activate choppy (open-choppy-env) | ||||
| # 第一次安装 | |||||
| ### 第一次安装 | |||||
| $ choppy install chenqingwang/fastp_suppa2 | $ choppy install chenqingwang/fastp_suppa2 | ||||
| # 非第一次安装 | |||||
| ### 非第一次安装 | |||||
| $ choppy install chenqingwang/fastp_suppa2 -f | $ choppy install chenqingwang/fastp_suppa2 -f | ||||
| # 查询已安装APP | # 查询已安装APP | ||||
| $ choppy apps | $ choppy apps | ||||
| Quick Start | Quick Start | ||||
| # 准备 samples.csv 文件 | # 准备 samples.csv 文件 | ||||
| $ choppy samples chenqingwang/fastp_suppa2-latest > samples.csv | $ choppy samples chenqingwang/fastp_suppa2-latest > samples.csv | ||||
| # 准备无默认参数的samples.csv 文件 | # 准备无默认参数的samples.csv 文件 | ||||
| choppy samples --no-default chenqingwang/fastp_suppa2-latest > samples.csv | choppy samples --no-default chenqingwang/fastp_suppa2-latest > samples.csv | ||||
| # 结果文件地址 | # 结果文件地址 | ||||
| $ oss://choppy-cromwell-result/test-choppy/Your_project_name/ | $ oss://choppy-cromwell-result/test-choppy/Your_project_name/ | ||||
| ``` | |||||
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