| Abstract | Abstract interface for indexing a flat file |
| AbstractSeq | base class for AbstractSeq |
| Blast | Indexes Blast reports and supports retrieval
based on query accession(s) |
| BlastTable | Indexes tabular Blast reports (-m 8 or -m 9 format) and
supports retrieval based on query accession(s) |
| EMBL | Interface for indexing (multiple) EMBL/Swissprot
.dat files (i.e. flat file EMBL/Swissprot format). |
| Fasta | Interface for indexing (multiple) fasta files |
| Fastq | Interface for indexing (multiple) fastq files |
| GenBank | Interface for indexing one or more GenBank
files (i.e. flat file GenBank format). |
| Hmmer | indexes HMMER reports and supports retreival based on query |
| Qual | Interface for indexing (multiple) fasta qual files |
| Stockholm | Bio::Index::Stockholm |
| SwissPfam | Interface for indexing swisspfam files |
| Swissprot | Interface for indexing one or more
Swissprot files. |