File: fetchPlasmid.sh

package info (click to toggle)
bbmap 39.01%2Bdfsg-2
  • links: PTS, VCS
  • area: main
  • in suites: bookworm
  • size: 21,760 kB
  • sloc: java: 267,418; sh: 15,163; python: 5,247; ansic: 2,074; perl: 96; xml: 38; makefile: 38
file content (6 lines) | stat: -rwxr-xr-x 315 bytes parent folder | download | duplicates (4) 
1
2
3
4
5
6
 
#Fetches plasmid genomes and annotations from NCBI.

wget -q -O - ftp://ftp.ncbi.nih.gov/genomes/refseq/plasmid/*genomic.gbff.gz > plasmid.genomic.gbff.gz
wget -q -O - ftp://ftp.ncbi.nih.gov/genomes/refseq/plasmid/*genomic.fna.gz > plasmid.genomic.fna.gz
gbff2gff.sh plasmid.genomic.gbff.gz plasmid.genomic.gff.gz