conda install parallel-fastq-dump 这个命令需要fastq-dump,所以我还是安装在系统环境: sudo apt install parallel-fastq-dump parallel-fastq-dump直接调用fastq-dump命令,所以使用起来差不多。 示例: parallel-fastq-dump --sra-id SRR2244401 --threads 4 --outdir out/ --split-files --gzip --threads 4设...
parallel-fastq-dump的Github地址:https://github.com/rvalieris/parallel-fastq-dump* 注意,parallel-fastq-dump的使用依赖于fastq-dump,需要预先安装sra-tools: conda install -c bioconda sra-tools conda命令安装parallel-fastq-dump: conda install -c bioconda parallel-fastq-dump parallel-fastq-dump参数如下 (...
安装和运行安装pip install fastapiFastAPI 是一个为你的 API 提供了 python怎么运行fastq文件 ico 服务器 json 转载 话不是这么说的 2月前 43阅读 用python打开fastq文件 # 使用Python打开fastq文件的步骤 ## 1. 导入模块 在开始之前,我们需要导入相应的模块,以便在Python中操作fastq文件。我们可以使用`Bio`...
支持多线程,默认6 threads,但不支持压缩成gz格式 下载安装脚本Cloud - apt-get install script- for Debian and Ubuntu - requires sudo permissions derek@Ubuntu1804:~/Downloads$ bash setup-apt.sh[sudo]derek 的密码: setup-apt.sh:3:[:-ne:unexpected operator 正在读取软件包列表...正在分析软件包的依赖...
conda install-c bioconda parallel-fastq-dump parallel-fastq-dump参数如下 (由于是直接依赖于fastq-dump命令,因此fastq-dump的参数也可使用,如--split-files、--gzip、--split-3等): 二、各命令处理SRA文件用时比较 1. 先测试处理一个450MB的单端测序SRA文件所用时间 ...
python3 -m pip install biogl to add the package to a location reachable by your Python installation. Otherwise, you can clone thebioglrepo and source it locally (to run from anywhere, you'll need to add it to your PYTHONPATH environment variable, a process that varies by OS): ...
conda install parallel-fastq-dump 'sra-tools>=3.0.0' If that doesn't work you could also install it on a separate new env: conda create -n testenv parallel-fastq-dump 'sra-tools>=3.0.0' Examples $ parallel-fastq-dump --sra-id SRR2244401 --threads 4 --outdir out/ --split-files ...
2019-12-05 09:01 −创建自己的虚拟环境 conda create -n learn python=3 切换环境: activate learn 查看所有环境: conda env list 安装第三方包: conda install requests 常用的指令 activate // 切换到bas... 淼哥学习园地 0 630 MySQL dump 备份 ...
1.安装sra-tools: conda install sra-tools=3.0.7 -y 2. 下载Accession List 进入NCBISRA搜索页,使用BioprojectID搜索,然后点击Biosample,将列出来的所有Biosample都选中,在右上脚有个Send,选择File,Format选择 AccessionList,然后将保存的text移到你需要下载文件的目录下# 3. 使用Prefetch进行快速下载 ...
Installsra-toolsand make sure two binaries below are in$PATH. fastq-dump sra-stat Usage Basic usage: $ pfastq-dump -t <number of threads> [options] <path to .sra file> [<path> ...] It is strongly recommended here as well that the.sradata should be downloaded via aspera-connect/ftp...