seqinr (version 3.3-3)

get.ncbi: Bacterial complete genome data from ncbi ftp site

Description

Try to connect to ncbi ftp site to get a list of complete bacterial genomes.

Usage

get.ncbi(repository = "ftp://ftp.ncbi.nih.gov/genomes/Bacteria/")

Arguments

repository

Where to look for data. The default value is the location of the complete bacterial genome sequences at ncbi ftp repository.

Value

Returns a data frame which contains the following columns:

WARNING

This function is highly dependant on ncbi ftp site conventions for which we have no control. The ftp connection apparently does not work when there is a proxy, this problem is circumvented here in a rather crude way.

References

citation("seqinr")

Examples

## Not run: bacteria <- get.ncbi()
## Not run: summary(bacteria)