SeqAn support many standard file formats for sequence analysis and additional provides directives to write new I/O modules. Among the sequence file formats are:

  • FASTA/FASTQ,
  • indexed FASTA,
  • BLAST,
  • SAM/BAM
  • VCF
  • BED
  • GFF and GTF

Especially in BAM I/O SeqAn is among the fastest implementations around. Try it out!