SeqIO.parse on a fasta.gz

Question

New to coding. New to Pytho/biopython; this is my first question online, ever. How do I open a compressed fasta.gz file to extract info and perform calcuations in my functi

Answer 1

Are you using python3?

This ("r" --> "rt") could solve your problem.

import gzip
from Bio import SeqIO

with gzip.open("practicezip.fasta.gz", "rt") as handle:
    for record in SeqIO.parse(handle, "fasta"):
        print(record.id)