Parsing FASTA files

To parse a FASTA file we make use of the tinyfasta.FastaParser class.

>>> from tinyfasta import FastaParser

To create a tinyfasta.FastaParser instance we simply need the path to the FASTA file of interest.

>>> fasta_parser = FastaParser('tests/data/dummy.fasta')
>>> fasta_parser.fpath
'tests/data/dummy.fasta'

We can then iterate over all the tinyfasta.FastaRecord instances in the FASTA file.

>>> for fasta_record in fasta_parser:  
...     print(fasta_record)
...
>seq1|contains 2x78 A's
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
>seq2|starts with ATTA motif in first line
ATTAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
...