FASTA file reader/writer.
Project description
Welcome to fasta-reader 👋
Read and write FASTA file
🏠 Homepage
⚡️ Requirements
- Python >= 3.9
Install
pip install fasta-reader
Examples
The following example show that it can read a compressed file remotely seamlessly:
from fasta_reader import read_fasta
ROOT = "https://ftp.ncbi.nlm.nih.gov/genomes/all/GCF/009/858/895"
REF = "GCF_009858895.2_ASM985889v3"
FILE = f"{ROOT}/{REF}/{REF}_genomic.fna.gz"
print("Severe acute respiratory syndrome coronavirus 2:")
for item in read_fasta(FILE):
print(item)
We can also write a FASTA file in a compressed format directly:
from fasta_reader import write_fasta
with write_fasta("protein.faa.gz") as file:
file.write_item("P01013 GENE X PROTEIN", "QIKDLLVSSSTDLDT...")
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