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Downloading complete genomes from ncbi ftp (from terminal)

May 31, 2012 2 comments

First,

Open Terminal

Second,

Connect to NCBI genome FTP

$ftp ftp://ftp.ncbi.nih.gov/genomes/Bacteria/

Third,

Check out the list of genomes

ftp>ls

Fourth,

cd into the directory of your organism

ftp>cd <favorite_microbe>
 Fifth,
download the file you desire using mget
ftp>mget *.gbk
which will result in
mget *.gbk [anpqy?]?

type y and enter and the file will be downloaded in your computer (at the same directory from where you connected to ftp)

Categories: Bioinformatics, BLAST