I am looking to establish the total number of complete phage genomes available on NCBI.
I am not looking for any specific type, but want to understand the total diversity available.
How can I perform the search?
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Go to the NCBI nuccore database, at https://www.ncbi.nlm.nih.gov/nuccore Copy and paste the search term:
(bacterial virus[Organism]) AND (3000:110000[sequence length]) NOT bacteria[Organism]
You'll get 74583 results.
Click on the link
send to and click the checkbox called
It will then download.
Check the downloaded file is in
fasta format with ">" to start the ID.
If fasta format is absent, return to the webpage and where it states
summary switch that to
I can't remember if point 4 is needed.
How about trying this?
(bacterial virus[Organism]) AND (complete genome[ti]) NOT shotgun[ti] NOT plasmid[ti] NOT bacteria[Organism]