| EventHandlerI | An abstract Event Handler for Search Result parsing |
| FastHitEventBuilder | Event Handler for SearchIO events. |
| IteratedSearchResultEventBuilder | Event Handler for
SearchIO events. |
| SearchResultEventBuilder | Event Handler for SearchIO events. |
| SearchWriterI | Interface for outputting parsed Search results |
| axt | a parser for axt format reports |
| blast | Event generator for event based parsing of
blast reports |
| blast_pull | A parser for BLAST output |
| blasttable | Driver module for SearchIO for parsing NCBI -m 8/9 format |
| blastxml | A SearchIO implementation of NCBI Blast XML parsing. |
| cross_match | CrossMatch-specific subclass of Bio::SearchIO |
| erpin | SearchIO-based ERPIN parser |
| exonerate | parser for Exonerate |
| fasta | A SearchIO parser for FASTA results |
| gmap_f9 | Event generator for parsing gmap reports (Z format) |
| hmmer | A parser for HMMER2 and HMMER3 output (hmmscan, hmmsearch, hmmpfam) |
| hmmer2 | A parser for HMMER output (hmmpfam, hmmsearch) |
| hmmer3 | DESCRIPTION of Object |
| hmmer_pull | A parser for HMMER output |
| infernal | SearchIO-based Infernal parser |
| megablast | a driver module for Bio::SearchIO to parse
megablast reports (format 0) |
| psl | A parser for PSL output (UCSC) |
| rnamotif | SearchIO-based RNAMotif parser |
| sim4 | parser for Sim4 alignments |
| waba | SearchIO parser for Jim Kent WABA program
alignment output |
| wise | Parsing of wise output as alignments |