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genbank_to_fasta

Convert GenBank to nucleotide (.ffn) or protein FASTA (.faa).

Usage

genbank_to_fasta \
  --gbk /path/to/input.gbk \
  --out /path/to/output.fasta \
  --format faa

Parameters

  • --gbk: Path to the input GenBank file
  • --out: Path to the output FASTA file
  • --format: Output format - faa for protein or ffn for nucleotide

Example

Convert to protein FASTA: 

genbank_to_fasta --gbk input.gbk --out proteins.faa --format faa

Convert to nucleotide FASTA: 

genbank_to_fasta --gbk input.gbk --out nucleotides.ffn --format ffn

Help

genbank_to_fasta --help