read.NCBI(ProGenExpress) | R Documentation |
A utility function that attempts to download and read .ptt file from the NCBI using a GUI interface
read.NCBI(ftp = NULL)
ftp |
The url of the FTP site. Defaults to ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/ |
Uses select.list, url and download.file to browse the NCBI ftp site.
After downloading the .ptt file it calls read.ptt
A data frame as returned by read.ptt
See STLT2
for details
Michael Watson
Tatusov RL, Fedorova ND, Jackson JD, Jacobs AR, Kiryutin B, Koonin EV, Krylov DM, Mazumder R, Mekhedov SL, Nikolskaya AN, Rao BS, Smirnov S, Sverdlov AV, Vasudevan S, Wolf YI, Yin JJ, Natale DA. The COG database: an updated version includes eukaryotes. BMC Bioinformatics. 2003 Sep 11;4(1):41.
ftp://ftp.ncbi.nlm.nih.gov/genomes/Bacteria/
# browse first to Salmonella typhimurium # then select NC_003197.ptt #TYPHIM <- read.NCBI()