fastaparser 1.0

A python FASTA parser

FastaParser

A python FASTA parser

>>> import fastaparser
>>> with open("fasta_file.fasta") as fasta_file:
...     parser = fastaparser.Reader(fasta_file)
...     for seq in parser:
...         print(seq.id, seq.description)

HSBGPG Human gene for bone gla protein (BGP)
HSGLTH1 Human theta 1-globin gene

Work in Progress

• PyPi package
• Documentation (readthedocs)
  • Home
  • Installation
  • Usage
  • Examples
  • API Specification
  • Contributing
  • Authors
  • History
• Conda package (?)
• README

Maybe

• Identify FASTA ID's
• FASTAID class, to then return in the id property of FastaSequence
• FASTQ parser
• Per fasta sequence, show warning if there are characters not in the FASTA specification
• Way to disable warnings
• Allow setting of id/description