python mlst analysis tool
Project description
metadownload
此脚本为下载NCBI中biosample相关字段信息的python脚本
Installation
pip3 install metadownload
Dependency
you should add E-utilities in your PATH
E-utilities install:
sh -c "$(curl -fsSL ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/install-edirect.sh)"
sh -c "$(wget -q ftp://ftp.ncbi.nlm.nih.gov/entrez/entrezdirect/install-edirect.sh -O -)"
Usage
usage: metadownload -list <biosample_acc_list> -outdir <output>
Author: Qingpo Cui(SZQ Lab, China Agricultural University)
optional arguments:
-h, --help show this help message and exit
-list LIST <file>: biosample_acc_list, one accession per line
-outdir OUTDIR <path>: output directory name
-v, --version Display version
Output
You will get text file contains metainfo for each biosample accession named with the accession number and a csv format summary file
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