git clone https://github.com/glarue/biogl.git Additionally, sincefasterq_dumpis just a wrapper script, you will also need to have installed NCBI'sSRA-Tools Usage info usage: fasterq_dump [-h] [-f FILE] [-k] [-t] [-w] [-m] [-u {all,curl,wget,prefetch}] [--log] [accessions...
git clone https://github.com/glarue/biogl.git Additionally, sincefasterq_dumpis just a wrapper script, you will also need to have installed NCBI'sSRA-Tools Usage info usage: fasterq_dump [-h] [-f FILE] [-k] [-t] [-w] [-m] [-u {all,curl,wget,prefetch}] [--log] [accessions...
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 (...
github链接 github.com/rvalieris/pa 需要把fastq-dump这个命令添加到环境变量 使用到的命令是 parallel-fastq-dump --threads 12 --outdir ./ --split-files -s SRR5187763.sra -T tmp/ 如果sra文件已经下载好了,-s参数后指定的内容就是文件名,如果没有下载就指定 SRR5187763 不带后缀名sra 文件下载好以...
github链接https://github.com/rvalieris/parallel-fastq-dump 需要把fastq-dump这个命令添加到环境变量 使用到的命令是 parallel-fastq-dump--threads12--outdir./--split-files-sSRR5187763.sra-T tmp/ 如果sra文件已经下载好了,-s参数后指定的内容就是文件名,如果没有下载就指定SRR5187763不带后缀名sra ...
github链接 https://github.com/rvalieris/parallel-fastq-dump 需要把fastq-dump这个命令添加到环境变量 使用到的命令是 代码语言:javascript 代码运行次数:0 复制 Cloud Studio代码运行 parallel-fastq-dump--threads12--outdir./--split-files-sSRR5187763.sra-Ttmp/ ...
References [1] SRA Toolkit Development Team https://github.com/ncbi/sra-tools/wiki/01.-Downloading-SRA-Toolkit Version History Introduced in R2024a See Also SRAFasterqDumpOptions | srasamdump | SRASAMDumpOptions Topics Bioinformatics Toolbox Software Support PackagesWhy...
一、parallel-fastq-dump基本信息 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: ...
https://github.com/wwood/kingfisher-download 下载方法选的是aws-http 默认会将sra格式转换为fastq格式,使用到的工具是fasterq-dump这个工具,试了几次一直遇到报错,所以就将下载格式默认选择为sra 需要制定参数-f sra 想的是后续再单独转成fastq格式
//www.biostars.org/p/176809/ https://vip.biotrainee.com/d/215-如何使用fastq-dump转换sra格式 https://www.biostars.org/p/251020/#251029 https://github.com/ncbi/sra-tools https://github.com/ncbi/sra-tools/wiki/HowTo:-fasterq-dump https://github.com/ncbi/sra-tools/wiki/Downloads ...