| FTHelper | Helper class for Embl/Genbank feature tables |
| MultiFile | Treating a set of files as a single input stream |
| abi | abi trace sequence input/output stream |
| ace | ace sequence input/output stream |
| alf | alf trace sequence input/output stream |
| bsml | BSML sequence input/output stream |
| chado | chado sequence input/output stream |
| chadoitext | chadoitext sequence input/output stream |
| chadosxpr | chadosxpr sequence input/output stream |
| chadoxml | chadoxml sequence input/output stream |
| ctf | ctf trace sequence input/output stream |
| embl | EMBL sequence input/output stream |
| exp | exp trace sequence input/output stream |
| fasta | fasta sequence input/output stream |
| fastq | fastq sequence input/output stream |
| game | Parses GAME XML 0.1 and higher into and out of Bio::Seq objects. |
| gcg | GCG sequence input/output stream |
| genbank | GenBank sequence input/output stream |
| largefasta | method i/o on very large fasta sequence files |
| locuslink | DESCRIPTION of Object |
| phd | .phd file input/output stream |
| pir | PIR sequence input/output stream |
| pln | pln trace sequence input/output stream |
| qual | .qual file input/output stream |
| raw | raw sequence file input/output stream |
| scf | .scf file input/output stream |
| swiss | Swissprot sequence input/output stream |
| ztr | ztr trace sequence input/output stream |