D3GB (version 1.1)

genome_addSequence: Add genome sequence on Fasta format to

Description

genome_addSequence add FASTA sequences to genomeviewer.

Usage

genome_addSequence(gb, fastafile)

Arguments

gb

a genome browser object produced by the function genomebrowser.

fastafile

a "character" string representing the input Fasta file to be added in the genome browser.

Value

The function add genome sequence on Fasta format to genomebrowser.

See Also

The ‘D3GB’ Website: http://d3gb.usal.es genomebrowser, genome_addGFF, genome_addTrack, genome_addVCF.

Examples

## Not run: ------------------------------------
# # Download fasta file
# fasta <- tempfile()
# download.file(paste0("ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/000/297/395/",
# "GCF_000297395.2_ASM29739v2/GCF_000297395.2_ASM29739v2_genomic.fna.gz"),fasta)
# 
# # Genome browser generation.
# # It creates a genome browser ready to be viewed in Firefox.
# # For a server version, ready to be shared with Apache as a Website, set the parameter server=True
# gb <- genomebrowser(getAssemblyFromFasta(fasta), dir = "Micromonospora_sequence")
# 
# genome_addSequence(gb,fasta)
## ---------------------------------------------