或者,从GitHub克隆此存储库,然后运行(在python虚拟环境中) pip install. 如果在旧版本的Python上失败,请先尝试更新您的pip工具: 然后重新运行ncbi-genome-download安装。 或者,ncbi-genome-download也被打包在conda。请参阅 Anaconda/miniconda 网站以安装发行版(强烈推荐)https://conda.io/miniconda.html安装后可以执...
Alternatively, clone this repository from GitHub, then run (in a python virtual environment) pip install . If this fails on older versions of Python, try updating your pip tool first: pip install --upgrade pip and then rerun the ncbi-genome-download install. Alternatively, ncbi-genome-download...
git clone https://github.com/kblin/ncbi-genome-download.git cd ncbi-genome-download 2.使用举例 注意:下载的时候出现过MD5不匹配的情况 根据--assembly-accessions,组装accessions下载,1.txt里边是:GCF_003721155.3,可以写多个 cd tests ../ncbi-genome-download-runner.py -p 4 -F fasta,gff,genbank,prot...
ncbi-genome-download能够批量下载NCBI的基因组相关数据,数据源自refseq数据库和genbank数据库,提供了多种文件格式和特定内容的下载。利用ncbi-genome-download能够避免从NCBI网页上查找下载的繁琐操作,在特定场景下使用可以高效获取数据,方便快捷。 一、下载 下载方法参考:github.com/kblin/ncbi-g 二、基本介绍 查看版本...
最新版本基于python3开发，ncbi-genome-download 0.2.12为最后一个支持python2的版本。通过pip或conda安装。github文档提供示例，本文补充未提及的示例。使用--strains选项下载特定菌株，如丁香假单胞杆菌番茄致病变种DC3000（Pseudomonas syringae pv. tomato str. DC3000）。使用--assembly-accessions下载特定...
下载链接:https://github.com/kblin/ncbi-genome-download/blob/master/README.md 比如说,你想下载全部NCBI的refseq的全体细菌基因组(默认是refseq参考序列数据库),默认的格式为genbank:ncbi-genome-download bacteria 只要genbank数据库的全体真菌基因组:ncbi-genome-download --sectiongenbank fungi ...
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wget --quiet --show-progress https://raw.githubusercontent.com/pirovc/genome_updater/master/genome_updater.sh chmod +x genome_updater.sh Download Download Archaeal complete genome sequences from the refseq repository (-t number parallel downloads): ./genome_updater.sh -o "arc_refseq_cg" -...
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