R/getMetaGenomeAnnotations.R
getMetaGenomeAnnotations.Rd
Retrieve available annotation *.gff files for metagenomes
from NCBI Genbank. NCBI Genbank allows users
to download entire metagenomes and their annotations of several metagenome
projects. This function downloads available metagenomes that can then be
downloaded via getMetaGenomes
.
getMetaGenomeAnnotations(
name,
path = file.path("_ncbi_downloads", "metagenome", "annotations")
)
metagenome name retrieved by listMetaGenomes
.
a character string specifying the location (a folder)
in which the corresponding metagenome annotations shall be stored.
Default is
path
= file.path("_ncbi_downloads","metagenome","annotations")
.
if (FALSE) {
# Frist, retrieve a list of available metagenomes
listMetaGenomes()
# Now, retrieve the 'human gut metagenome'
getMetaGenomeAnnotations(name = "human gut metagenome")
}