| EventHandlerI | An abstract Event Handler for Search Result parsing |
| FastHitEventBuilder | Event Handler for SearchIO events. |
| SearchResultEventBuilder | Event Handler for SearchIO events. |
| SearchWriterI | Interface for outputting parsed Search results |
| blast | Event generator for event based parsing of blast reports |
| blastxml | A SearchIO implementation of NCBI Blast XML parsing. |
| chado | chado sequence input/output stream |
| chadosxpr | chadosxpr sequence input/output stream |
| exonerate | parser for Exonerate |
| fasta | A SearchIO parser for FASTA results |
| hmmer | A parser for HMMER output (hmmpfam, hmmsearch) |
| psiblast | Parser for traditional BLAST and PSI-BLAST reports |
| waba | SearchIO parser for Jim Kent WABA program
alignment output |