合并fastq文件
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README.md

Author: Yueqiang Song
Email: songyq_hello@163.com
Last Updates: 15/12/2020

Requirements

  • choppy
  • Ali-Cloud
# 激活choppy环境
$ source activate choppy-pipe-0.3.8.dev0
# 安装 mergefq
$ choppy install songyueqiang/mergefq
# 如果已安装,可加参数 -f强制安装
$ choppy install songyueqiang/mergefq -f
# 查看已安装的app
$ choppy apps

quick start

# 准备sample.csv
$ choppy samples songyueqiang/mergefq-latest > samples.csv
# 运行命令
$ choppy batch songyueqiang/mergefq-latest sample.csv --project-name Your_project_name
# 查询运行情况
$ choppy query -s ID 
# 查询报错信息
$ choppy query -s ID -m

参数

  • fq1,需要merge的第一个fastq文件
  • fq2,需要merge的第二个fastq文件
  • fq3,可选参数, 需要merge的第三个fastq文件,如果没有, 在sample.csv中则为空.这里设置, 最多合并3个fastq文件
  • fq_m, merge之后的fastq文件
  • sample_id, sample id
  • disk_size,数据盘大小,单位是GB