pyfastatools 2.1.1

Simple FASTA file tools to parse, edit, subset, split, and perform stats on FASTA files

C++ bindings for FASTA file parsing

Installation

pip install pyfastatools

Usage

The pyfastatools.Parser object is the primary API that parses FASTA files and yields pyfastatools.Record objects.

If you have a FASTA file called proteins.faa that looks like this:

>seq_1
MSKFKKIPL
>seq_2
MQSSSKTCN
>seq_3
MEDNMITIY

Then you can parse this file in python like this:

from pyfastatools import Parser

for record in Parser("proteins.faa"):
    print(record.name, record.seq)

which will print:

>>> 'seq_1 MSKFKKIPL'
>>> 'seq_2 MQSSSKTCN'
>>> 'seq_3 MEDNMITIY'