| Accumulator | Bio::EnsEMBL::Analysis::RunnableDB::Accumulator |
| AlignAffyProbes | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| AlignmentChains | Bio::EnsEMBL::Analysis::RunnableDB::AlignmentChains |
| AlignmentFilter | Bio::EnsEMBL::Analysis::RunnableDB::AlignmentFilter |
| AlignmentNets | Bio::EnsEMBL::Analysis::RunnableDB::AlignmentNets |
| BaseGeneBuild | |
| BestPmatch | |
| BestTargetted | Bio::EnsEMBL::Analysis::RunnableDB::BestTargetted |
| Blast | Bio::EnsEMBL::Analysis::RunnableDB::Blast |
| BlastGenscanDNA | Bio::EnsEMBL::Analysis::RunnableDB::Blast |
| BlastGenscanPep | Bio::EnsEMBL::Analysis::RunnableDB::Blast |
| BlastMiniGenewise | Bio::EnsEMBL::Analysis::RunnableDB::BlastMiniGenewise |
| BlastRfam | Bio::EnsEMBL::Analysis::RunnableDB::BlastRfam |
| BlastTranscriptDNA | Bio::EnsEMBL::Analysis::RunnableDB::BlastTranscriptDNA |
| BlastTranscriptPep | Bio::EnsEMBL::Analysis::RunnableDB::BlastTranscriptPep |
| BlastmiRNA | Bio::EnsEMBL::Analysis::RunnableDB::BlastRfam |
| CPG | Bio::EnsEMBL::Analysis::RunnableDB::CPG |
| CollapseAffyProbes | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| CopyGenes | DESCRIPTION of Object |
| Dust | Bio::EnsEMBL::Analysis::RunnableDB::Dust |
| EPCR | |
| EponineTSS | Bio::EnsEMBL::Analysis::RunnableDB::EponineTSS |
| Exonerate2Array | Bio::EnsEMBL::Pipeline::RunnableDB::Exonerate2Array |
| Exonerate2Genes | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| ExonerateAlignFeature | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateAlignFeature |
| ExonerateCloneEnds | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| ExonerateClones | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| ExonerateForGenewise | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateForGenewise |
| ExonerateOrthologueEvaluator | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateOrthologueEvaluator; |
| ExonerateRefineCloneEnds | Bio::EnsEMBL::Analysis::RunnableDB::Exonerate2Genes; |
| ExonerateSolexa | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateSolexa |
| ExonerateSolexaTranscript | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateSolexaTranscript |
| ExonerateTags | Bio::EnsEMBL::Analysis::RunnableDB::ExonerateTags |
| Fgenesh | |
| FilterGenes | Bio::EnsEMBL::Analysis::RunnableDB::FilterGenes; |
| FindFalseIntrons | Bio::EnsEMBL::Analysis::RunnableDB::FindFalseIntrons |
| FindMissingOrthologues | Bio::EnsEMBL::Analysis::RunnableDB::FindMissingOrthologues; |
| FindPartialGenes | ; |
| FindSplitGenes | |
| Finished | |
| FirstEF | Bio::EnsEMBL::Analysis::RunnableDB::FirstEF |
| Funcgen | Bio::EnsEMBL::Analysis::RunnableDB::Fungen |
| GeneBuilder | |
| GeneRecord | |
| Genefinder | |
| Genscan | |
| HaplotypeMapper | Bio::EnsEMBL::Analysis::RunnableDB::HaplotypeProjection |
| HaplotypeProjection | Bio::EnsEMBL::Analysis::RunnableDB::HaplotypeProjection |
| HavanaAdder | Bio::EnsEMBL::Analysis::RunnableDB::HavanaAdder |
| IgSegBuilder | Bio::EnsEMBL::Analysis::RunnableDB::IgSegBuilder |
| ImportArrays | Bio::EnsEMBL::Analysis::RunnableDB::ImportArrays; |
| IncrementalBuild | |
| Infernal | Bio::EnsEMBL::Analysis::RunnableDB::Infernal; |
| Layer | |
| LayerAnnotation | DESCRIPTION of Object |
| MakeSimilarityInputIDs | |
| MapCloneEnds | Bio::EnsEMBL::Analysis::RunnableDB::MapCloneEnds; |
| MissingOrthologues | Bio::EnsEMBL::Analysis::RunnableDB::MissingOrthologues; |
| OrthologueEvaluator | Bio::EnsEMBL::Analysis::RunnableDB::OrthologueEvaluator; |
| PSILC | Bio::EnsEMBL::Analysis::RunnableDB::PSILC; |
| Pmatch | aligns protein sequence to genomic sequence |
| ProbeAlign | Bio::EnsEMBL::Analysis::RunnableDB::ProbeAlign; |
| ProteinAnnotation | DESCRIPTION of Object |
| Pseudogene2x | Bio::EnsEMBL::Analysis::RunnableDB::Pseudogene2x.pm |
| Pseudogene_DB | Bio::EnsEMBL::Analysis::RunnableDB::Pseudogene_DB.pm |
| RecoverFalseIntrons | Bio::EnsEMBL::Analysis::RunnableDB::RecoverFalseIntrons; |
| RefineSolexaGenes | Bio::EnsEMBL::Analysis::RunnableDB::RefineSolexaGenes |
| RepeatMasker | Bio::EnsEMBL::Analysis::RunnableDB::RepeatMasker |
| Snap | |
| Solexa2Genes | Bio::EnsEMBL::Analysis::RunnableDB::Solexa2Genes |
| Spliced_elsewhere | Bio::EnsEMBL::Analysis::RunnableDB::Spliced_elsewhere; |
| TRF | Bio::EnsEMBL::Analysis::RunnableDB::TRF |
| TranscriptCoalescer | Bio::EnsEMBL::Analysis::RunnableDB::TranscriptCoalescer |
| TranscriptConsensus | |
| UTR_Builder | Bio::EnsEMBL::Analysis::RunnableDB::UTR_Builder |
| WGA2Genes | Bio::EnsEMBL::Analysis::RunnableDB::WGA2Genes |
| WGA2GenesDirect | Bio::EnsEMBL::Analysis::RunnableDB::WGA2GenesDirect |
| miRNA | Bio::EnsEMBL::Analysis::RunnableDB::miRNA |
| tRNAscan_SE | Bio::EnsEMBL::Analysis::RunnableDB::tRNAscan_SE |