Question: How to get genome coordinate of a refseq ID with biopython?
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gravatar for yuehu.mail
4.3 years ago by
yuehu.mail0
United States
yuehu.mail0 wrote:

Hi Everyone,

  I tried to get genome coordinate of a refseq with Entrez.efetch but couldn't. I can get it with a gene ID but not a refseq ID.

from Bio import Entrez
Entrez.email = 'xxx@xxx.xxx'
handle = Entrez.efetch(db = "nucleotide", id= 'NM_001006118', retmode="xml")

It will give me different information but not genome coordinate. I know how to download genome coordinates from UCSC but I want to check NCBI data.

Would appreciate your help!

 
biopython entrez refseq • 1.9k views
ADD COMMENTlink written 4.3 years ago by yuehu.mail0
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