NCBI - Gene File to GenBank file in R
0
0
Entering edit mode
5.6 years ago
jaschelite • 0

Hello, 

 I'm trying to use R to download GenBank-Files from Identifiers given by Panther.

For example:

I have this Identifier: F1RAP5

The Ncbi-Search points me to the Gene Page of the Identifier which is: 

http://www.ncbi.nlm.nih.gov/gene/?term=F1RAP5

I get there with rentrez via:

entrez_search(db="gene" , "F1RAP5")

This gives me the gene Id.

On the ncbi page my next step would be to hit the link "GenBank" under "Genomic regions, transcripts and products" which leads me to the GenBank file and I can easily download it from there.

However I can't get that to work in R. I tried 

entrez_link(dbfrom="gene" , geneid , db="nuccore")

But that doesn't direct me to the GenBank - File.

Is there a way to download GenBank files from Geneids?

I need those because I'm interested in the whole Sequence and Exon/Intron Sequences of a specific gene.

 

NCBI GenBank R rentrez • 2.4k views
ADD COMMENT

Login before adding your answer.

Traffic: 2380 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6