CPANTS

Bio-EnsEMBL 113_51

Kwalitee Issues

This is not the latest release. The following issues may have already been fixed in the newer releases.

Add a Changelog (best named 'Changes') to the distribution. It should list at least major changes implemented in newer versions.

has_tests

Add tests!

prereq_matches_use

List all used modules in META.yml requires

Error:

Bio::Annotation::DBLink
Bio::LocatableSeq
Bio::PrimarySeqI
Bio::Root::Root
Bio::Seq
Bio::SeqFeature::FeaturePair
Bio::SeqFeature::Generic
Bio::SimpleAlign
Bio::Species
parent

main_module_version_matches_dist_version

Make sure that the main module name and version are the same of the distribution.

no_pod_errors

Remove the POD errors. You can check for POD errors automatically by including Test::Pod to your test suite.

Error: Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/DBSQL/DBEntryAdaptor.pm -- Around line 384: Unknown directive: =head Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/DBSQL/FastaSequenceAdaptor.pm -- Around line 144: Unknown directive: =head Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/External/ExternalFeatureAdaptor.pm -- Around line 35: Unknown directive: =head Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/IdMapping/TranscriptScoreBuilder.pm -- Around line 333: =cut found outside a pod block. Skipping to next block. Around line 344: =cut found outside a pod block. Skipping to next block. Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/Registry.pm -- Around line 1455: Unknown directive: =head Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/Transcript.pm -- Around line 2858: Unknown directive: =head Bio-EnsEMBL-113_51/lib/Bio/EnsEMBL/Utils/Tree/Interval/Mutable/Node.pm -- Around line 134: Unknown directive: =head

4 Extra Issues

meta_yml_declares_perl_version

If you are using Build.PL define the {requires}{perl} = VERSION field. If you are using MakeMaker (Makefile.PL) you should upgrade ExtUtils::MakeMaker to 6.48 and use MIN_PERL_VERSION parameter. Perl::MinimumVersion can help you determine which version of Perl your module needs.

has_meta_json

Add a META.json to the distribution. Your buildtool should be able to autogenerate it.

has_tests_in_t_dir

Add tests or move tests.pl to the t/ directory!

use_warnings

Add 'use warnings' (or its equivalents) to all modules, or convince us that your favorite module is well-known enough and people can easily see the modules warn when something bad happens.

Error: Bio::EnsEMBL::Analysis, Bio::EnsEMBL::Analysis::PairAlign, Bio::EnsEMBL::Analysis::Programs, Bio::EnsEMBL::AssemblyExceptionFeature, Bio::EnsEMBL::BaseAlignFeature, Bio::EnsEMBL::CDS, Bio::EnsEMBL::CircularSlice, Bio::EnsEMBL::DBLoader, Bio::EnsEMBL::DBSQL::AnalysisAdaptor, Bio::EnsEMBL::DBSQL::AssemblyMapperAdaptor, Bio::EnsEMBL::DBSQL::BaseAdaptor, Bio::EnsEMBL::DBSQL::BaseAlignFeatureAdaptor, Bio::EnsEMBL::DBSQL::BaseFeatureAdaptor, Bio::EnsEMBL::DBSQL::BaseMetaContainer, Bio::EnsEMBL::DBSQL::DBAdaptor, Bio::EnsEMBL::DBSQL::DBConnection, Bio::EnsEMBL::DBSQL::DBEntryAdaptor, Bio::EnsEMBL::DBSQL::DensityFeatureAdaptor, Bio::EnsEMBL::DBSQL::DensityTypeAdaptor, Bio::EnsEMBL::DBSQL::DnaAlignFeatureAdaptor, Bio::EnsEMBL::DBSQL::ExonAdaptor, Bio::EnsEMBL::DBSQL::GeneAdaptor, Bio::EnsEMBL::DBSQL::KaryotypeBandAdaptor, Bio::EnsEMBL::DBSQL::MiscFeatureAdaptor, Bio::EnsEMBL::DBSQL::OperonAdaptor, Bio::EnsEMBL::DBSQL::OperonTranscriptAdaptor, Bio::EnsEMBL::DBSQL::PredictionExonAdaptor, Bio::EnsEMBL::DBSQL::PredictionTranscriptAdaptor, Bio::EnsEMBL::DBSQL::ProteinAlignFeatureAdaptor, Bio::EnsEMBL::DBSQL::ProteinFeatureAdaptor, Bio::EnsEMBL::DBSQL::RepeatFeatureAdaptor, Bio::EnsEMBL::DBSQL::SeqRegionSynonymAdaptor, Bio::EnsEMBL::DBSQL::SimpleFeatureAdaptor, Bio::EnsEMBL::DBSQL::SliceAdaptor, Bio::EnsEMBL::DBSQL::StatementHandle, Bio::EnsEMBL::DBSQL::SupportingFeatureAdaptor, Bio::EnsEMBL::DBSQL::TranscriptAdaptor, Bio::EnsEMBL::DBSQL::TranscriptSupportingFeatureAdaptor, Bio::EnsEMBL::DBSQL::TranslationAdaptor, Bio::EnsEMBL::DBSQL::UnmappedObjectAdaptor, Bio::EnsEMBL::DensityPlot::BinValue, Bio::EnsEMBL::DensityPlot::BinValueSet, Bio::EnsEMBL::DnaDnaAlignFeature, Bio::EnsEMBL::DnaPepAlignFeature, Bio::EnsEMBL::Exon, Bio::EnsEMBL::ExonTranscript, Bio::EnsEMBL::External::ExternalFeatureAdaptor, Bio::EnsEMBL::FeaturePair, Bio::EnsEMBL::Gene, Bio::EnsEMBL::IdentityXref, Bio::EnsEMBL::KaryotypeBand, Bio::EnsEMBL::LRGSlice, Bio::EnsEMBL::MANE, Bio::EnsEMBL::Map::DBSQL::DitagAdaptor, Bio::EnsEMBL::Map::DBSQL::DitagFeatureAdaptor, Bio::EnsEMBL::Map::DBSQL::MarkerAdaptor, Bio::EnsEMBL::Map::DBSQL::MarkerFeatureAdaptor, Bio::EnsEMBL::Map::Ditag, Bio::EnsEMBL::Map::DitagFeature, Bio::EnsEMBL::Map::MapLocation, Bio::EnsEMBL::Map::Marker, Bio::EnsEMBL::Map::MarkerFeature, Bio::EnsEMBL::Map::MarkerSynonym, Bio::EnsEMBL::Mapper, Bio::EnsEMBL::Mapper::Coordinate, Bio::EnsEMBL::Mapper::Gap, Bio::EnsEMBL::Mapper::IndelCoordinate, Bio::EnsEMBL::Mapper::IndelPair, Bio::EnsEMBL::Mapper::Pair, Bio::EnsEMBL::Mapper::RangeRegistry, Bio::EnsEMBL::Mapper::Unit, Bio::EnsEMBL::MiscSet, Bio::EnsEMBL::PepDnaAlignFeature, Bio::EnsEMBL::PredictionExon, Bio::EnsEMBL::PredictionTranscript, Bio::EnsEMBL::ProteinFeature, Bio::EnsEMBL::RepeatConsensus, Bio::EnsEMBL::RepeatFeature, Bio::EnsEMBL::SeqFeature, Bio::EnsEMBL::SimpleFeature, Bio::EnsEMBL::Slice, Bio::EnsEMBL::Transcript, Bio::EnsEMBL::TranscriptFactory, Bio::EnsEMBL::Translation, Bio::EnsEMBL::UTR, Bio::EnsEMBL::Upstream, Bio::EnsEMBL::Utils::Cache, Bio::EnsEMBL::Utils::CigarString, Bio::EnsEMBL::Utils::Converter, Bio::EnsEMBL::Utils::Converter::bio_ens, Bio::EnsEMBL::Utils::Converter::bio_ens_analysis, Bio::EnsEMBL::Utils::Converter::bio_ens_exon, Bio::EnsEMBL::Utils::Converter::bio_ens_featurePair, Bio::EnsEMBL::Utils::Converter::bio_ens_gene, Bio::EnsEMBL::Utils::Converter::bio_ens_hit, Bio::EnsEMBL::Utils::Converter::bio_ens_hsp, Bio::EnsEMBL::Utils::Converter::bio_ens_predictionExon, Bio::EnsEMBL::Utils::Converter::bio_ens_predictionGene, Bio::EnsEMBL::Utils::Converter::bio_ens_seqFeature, Bio::EnsEMBL::Utils::Converter::bio_ens_transcript, Bio::EnsEMBL::Utils::Converter::ens_bio, Bio::EnsEMBL::Utils::Converter::ens_bio_featurePair, Bio::EnsEMBL::Utils::Converter::ens_bio_seqFeature, Bio::EnsEMBL::Utils::EasyArgv, Bio::EnsEMBL::Utils::Interval, Bio::EnsEMBL::Utils::PolyA, Bio::EnsEMBL::Utils::SeqDumper, Bio::EnsEMBL::Utils::SeqRegionCache, Bio::EnsEMBL::Utils::Tree::Interval::Immutable, Bio::EnsEMBL::Utils::Tree::Interval::Immutable::Node, Bio::EnsEMBL::Utils::Tree::Interval::Mutable, Bio::EnsEMBL::Utils::Tree::Interval::Mutable::Node, Bio::EnsEMBL::Utils::Tree::Interval::Mutable::PP

3 Experimental Issues

meta_yml_has_provides: Add all modules contained in this distribution to the META.yml field 'provides'. Module::Build or Dist::Zilla::Plugin::MetaProvides do this automatically for you.
meta_yml_has_repository_resource: Add a 'repository' resource to the META.yml via 'meta_add' accessor (for Module::Build) or META_ADD parameter (for ExtUtils::MakeMaker).
has_separate_license_file: This is not a critical issue. Currently mainly informative for the CPANTS authors. It might be removed later.

Modules

Name	Abstract	Version	View
Bio::EnsEMBL::AltAlleleGroup			metacpan
Bio::EnsEMBL::Analysis			metacpan
Bio::EnsEMBL::Analysis::PairAlign			metacpan
Bio::EnsEMBL::Analysis::Programs			metacpan
Bio::EnsEMBL::ApiVersion			metacpan
Bio::EnsEMBL::ArchiveStableId			metacpan
Bio::EnsEMBL::AssemblyExceptionFeature	A feature that represents an assembly exception		metacpan
Bio::EnsEMBL::AssemblyMapper			metacpan
Bio::EnsEMBL::Attribute	A generic Attribute class.		metacpan
Bio::EnsEMBL::BaseAlignFeature	Baseclass providing a common abstract implmentation for alignment features		metacpan
Bio::EnsEMBL::Biotype			metacpan
Bio::EnsEMBL::CDS	Object representing a CDS		metacpan
Bio::EnsEMBL::ChainedAssemblyMapper			metacpan
Bio::EnsEMBL::CircularSlice	Arbitary Slice of a genome		metacpan
Bio::EnsEMBL::CoordSystem			metacpan
Bio::EnsEMBL::DB::ExternalFeatureFactoryI			metacpan
Bio::EnsEMBL::DBEntry			metacpan
Bio::EnsEMBL::DBLoader	Run time database loader		metacpan
Bio::EnsEMBL::DBSQL::AltAlleleGroupAdaptor	Adaptor for the manipulation of Alternative allele groupings		metacpan
Bio::EnsEMBL::DBSQL::AnalysisAdaptor			metacpan
Bio::EnsEMBL::DBSQL::ArchiveStableIdAdaptor			metacpan
Bio::EnsEMBL::DBSQL::AssemblyExceptionFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::AssemblyMapperAdaptor			metacpan
Bio::EnsEMBL::DBSQL::AssemblySliceAdaptor	adaptor/factory for MappedSlices representing alternative assemblies		metacpan
Bio::EnsEMBL::DBSQL::AttributeAdaptor	Provides database interaction for Bio::EnsEMBL::Attribute objects.		metacpan
Bio::EnsEMBL::DBSQL::BaseAdaptor	Base Adaptor for DBSQL adaptors		metacpan
Bio::EnsEMBL::DBSQL::BaseAlignFeatureAdaptor	Abstract Base class for AlignFeatureAdaptors		metacpan
Bio::EnsEMBL::DBSQL::BaseFeatureAdaptor	An Abstract Base class for all FeatureAdaptors		metacpan
Bio::EnsEMBL::DBSQL::BaseMetaContainer	Encapsulates all generic access to database meta information		metacpan
Bio::EnsEMBL::DBSQL::BaseSequenceAdaptor			metacpan
Bio::EnsEMBL::DBSQL::BiotypeAdaptor	An adaptor which performs database interaction relating to the storage and retrieval of Biotypes		metacpan
Bio::EnsEMBL::DBSQL::CoordSystemAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DBAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DBConnection			metacpan
Bio::EnsEMBL::DBSQL::DBEntryAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DataFileAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DensityFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DensityTypeAdaptor			metacpan
Bio::EnsEMBL::DBSQL::DnaAlignFeatureAdaptor	Adaptor for DnaAlignFeatures		metacpan
Bio::EnsEMBL::DBSQL::Driver			metacpan
Bio::EnsEMBL::DBSQL::Driver::Oracle			metacpan
Bio::EnsEMBL::DBSQL::Driver::Pg			metacpan
Bio::EnsEMBL::DBSQL::Driver::SQLite			metacpan
Bio::EnsEMBL::DBSQL::Driver::Sybase			metacpan
Bio::EnsEMBL::DBSQL::Driver::TestDummy			metacpan
Bio::EnsEMBL::DBSQL::Driver::mysql			metacpan
Bio::EnsEMBL::DBSQL::Driver::odbc			metacpan
Bio::EnsEMBL::DBSQL::ExonAdaptor	An adaptor responsible for the retrieval and storage of exon objects		metacpan
Bio::EnsEMBL::DBSQL::FastaSequenceAdaptor			metacpan
Bio::EnsEMBL::DBSQL::GeneAdaptor	Database adaptor for the retrieval and storage of Gene objects		metacpan
Bio::EnsEMBL::DBSQL::GenomeContainer	Encapsulates all access to genome related information		metacpan
Bio::EnsEMBL::DBSQL::IntronSupportingEvidenceAdaptor			metacpan
Bio::EnsEMBL::DBSQL::KaryotypeBandAdaptor			metacpan
Bio::EnsEMBL::DBSQL::MergedAdaptor			metacpan
Bio::EnsEMBL::DBSQL::MetaContainer	Encapsulates all access to core database meta information		metacpan
Bio::EnsEMBL::DBSQL::MetaCoordContainer			metacpan
Bio::EnsEMBL::DBSQL::MiscFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::MiscSetAdaptor	Provides database interaction for Bio::EnsEMBL::MiscSet objects.		metacpan
Bio::EnsEMBL::DBSQL::OntologyDBAdaptor			metacpan
Bio::EnsEMBL::DBSQL::OntologyTermAdaptor			metacpan
Bio::EnsEMBL::DBSQL::OperonAdaptor	Database adaptor for the retrieval and storage of OperonTranscript objects		metacpan
Bio::EnsEMBL::DBSQL::OperonTranscriptAdaptor			metacpan
Bio::EnsEMBL::DBSQL::PredictionExonAdaptor	Performs database interaction for PredictionExons.		metacpan
Bio::EnsEMBL::DBSQL::PredictionTranscriptAdaptor			metacpan
Bio::EnsEMBL::DBSQL::ProteinAlignFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::ProteinFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::ProxyDBConnection	Database connection wrapper allowing for one backing connection to be used for multiple DBs		metacpan
Bio::EnsEMBL::DBSQL::RNAProductAdaptor	Provides a means to fetch and store RNAProduct objects from a database.		metacpan
Bio::EnsEMBL::DBSQL::RepeatConsensusAdaptor			metacpan
Bio::EnsEMBL::DBSQL::RepeatFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::SeqRegionSynonymAdaptor			metacpan
Bio::EnsEMBL::DBSQL::SequenceAdaptor	produce sequence strings from locations		metacpan
Bio::EnsEMBL::DBSQL::SimpleFeatureAdaptor			metacpan
Bio::EnsEMBL::DBSQL::SliceAdaptor	A database aware adaptor responsible for the creation of Slice objects.		metacpan
Bio::EnsEMBL::DBSQL::StatementHandle			metacpan
Bio::EnsEMBL::DBSQL::Support::BaseCache	Base cache code		metacpan
Bio::EnsEMBL::DBSQL::Support::FullIdCache	ID based caching using all available values		metacpan
Bio::EnsEMBL::DBSQL::Support::LruIdCache	ID based caching using an LRU backed cache		metacpan
Bio::EnsEMBL::DBSQL::SupportingFeatureAdaptor	Retrieves supporting features from the database.		metacpan
Bio::EnsEMBL::DBSQL::TranscriptAdaptor	An adaptor which performs database interaction relating to the storage and retrieval of Transcripts		metacpan
Bio::EnsEMBL::DBSQL::TranscriptSupportingFeatureAdaptor	Retrieves supporting features from the database.		metacpan
Bio::EnsEMBL::DBSQL::TranslationAdaptor	Provides a means to fetch and store Translation objects from a database.		metacpan
Bio::EnsEMBL::DBSQL::UnmappedObjectAdaptor			metacpan
Bio::EnsEMBL::DataFile			metacpan
Bio::EnsEMBL::DensityFeature	A feature representing a density, or precentage coverage etc. in a given region.		metacpan
Bio::EnsEMBL::DensityFeatureSet			metacpan
Bio::EnsEMBL::DensityPlot::BinValue			metacpan
Bio::EnsEMBL::DensityPlot::BinValueSet			metacpan
Bio::EnsEMBL::DensityType	A type representing a density, or percentage coverage etc. in a given region.		metacpan
Bio::EnsEMBL::DnaDnaAlignFeature	Ensembl specific dna-dna pairwise alignment feature		metacpan
Bio::EnsEMBL::DnaPepAlignFeature	Ensembl specific dna-pep pairwise alignment feature		metacpan
Bio::EnsEMBL::Exon	A class representing an Exon		metacpan
Bio::EnsEMBL::ExonTranscript	An Exon feature in relation to a transcript		metacpan
Bio::EnsEMBL::External::ExternalFeatureAdaptor			metacpan
Bio::EnsEMBL::Feature	Ensembl specific sequence feature.		metacpan
Bio::EnsEMBL::FeaturePair	Stores sequence Features which are themselves hits to other sequence features.		metacpan
Bio::EnsEMBL::Gene	Object representing a genes		metacpan
Bio::EnsEMBL::Genome	A generic Genome class.		metacpan
Bio::EnsEMBL::IdMapping::Archiver	create gene_archive and peptide_archive		metacpan
Bio::EnsEMBL::IdMapping::BaseObject	base object for IdMapping objects		metacpan
Bio::EnsEMBL::IdMapping::Cache	a cache to hold data objects used by the IdMapping application		metacpan
Bio::EnsEMBL::IdMapping::Entry	object representing a ScoredMappingMatrix entry		metacpan
Bio::EnsEMBL::IdMapping::ExonScoreBuilder			metacpan
Bio::EnsEMBL::IdMapping::GeneScoreBuilder			metacpan
Bio::EnsEMBL::IdMapping::InternalIdMapper			metacpan
Bio::EnsEMBL::IdMapping::InternalIdMapper::BaseMapper			metacpan
Bio::EnsEMBL::IdMapping::InternalIdMapper::EnsemblExonGeneric			metacpan
Bio::EnsEMBL::IdMapping::InternalIdMapper::EnsemblGeneGeneric	default Ensembl InternalIdMapper implementation for genes		metacpan
Bio::EnsEMBL::IdMapping::InternalIdMapper::EnsemblTranscriptGeneric			metacpan
Bio::EnsEMBL::IdMapping::MappingList	object holding a list of Entries		metacpan
Bio::EnsEMBL::IdMapping::ResultAnalyser	analyse stable Id mapping results		metacpan
Bio::EnsEMBL::IdMapping::ScoreBuilder	score builder base class		metacpan
Bio::EnsEMBL::IdMapping::ScoredMappingMatrix	object holding a list of scored Entries		metacpan
Bio::EnsEMBL::IdMapping::Serialisable	base class for serialisable objects		metacpan
Bio::EnsEMBL::IdMapping::StableIdGenerator::AedesAegypti			metacpan
Bio::EnsEMBL::IdMapping::StableIdGenerator::AnophelesGambiae			metacpan
Bio::EnsEMBL::IdMapping::StableIdGenerator::EnsemblGeneric	default Ensembl StableIdGenerator implementation		metacpan
Bio::EnsEMBL::IdMapping::StableIdGenerator::PristionchusPacificus			metacpan
Bio::EnsEMBL::IdMapping::StableIdMapper			metacpan
Bio::EnsEMBL::IdMapping::SyntenyFramework	framework representing syntenic regions across the genome		metacpan
Bio::EnsEMBL::IdMapping::SyntenyRegion	object representing syntenic regions		metacpan
Bio::EnsEMBL::IdMapping::TinyExon	lightweight exon object		metacpan
Bio::EnsEMBL::IdMapping::TinyFeature	lightweight feature object		metacpan
Bio::EnsEMBL::IdMapping::TinyGene	lightweight gene object		metacpan
Bio::EnsEMBL::IdMapping::TinyTranscript	lightweight transcript object		metacpan
Bio::EnsEMBL::IdMapping::TinyTranslation	lightweight translation object		metacpan
Bio::EnsEMBL::IdMapping::TranscriptScoreBuilder			metacpan
Bio::EnsEMBL::IdentityXref			metacpan
Bio::EnsEMBL::Intron			metacpan
Bio::EnsEMBL::IntronSupportingEvidence			metacpan
Bio::EnsEMBL::KaryotypeBand			metacpan
Bio::EnsEMBL::LRGSlice	Arbitary Slice of a genome		metacpan
Bio::EnsEMBL::MANE	Object representing a MANE transcript		metacpan
Bio::EnsEMBL::Map::DBSQL::DitagAdaptor			metacpan
Bio::EnsEMBL::Map::DBSQL::DitagFeatureAdaptor			metacpan
Bio::EnsEMBL::Map::DBSQL::MarkerAdaptor			metacpan
Bio::EnsEMBL::Map::DBSQL::MarkerFeatureAdaptor			metacpan
Bio::EnsEMBL::Map::Ditag			metacpan
Bio::EnsEMBL::Map::DitagFeature			metacpan
Bio::EnsEMBL::Map::MapLocation			metacpan
Bio::EnsEMBL::Map::Marker			metacpan
Bio::EnsEMBL::Map::MarkerFeature			metacpan
Bio::EnsEMBL::Map::MarkerSynonym			metacpan
Bio::EnsEMBL::MappedSlice	an object representing a mapped slice		metacpan
Bio::EnsEMBL::MappedSliceContainer	container for mapped slices		metacpan
Bio::EnsEMBL::Mapper			metacpan
Bio::EnsEMBL::Mapper::Coordinate			metacpan
Bio::EnsEMBL::Mapper::Gap			metacpan
Bio::EnsEMBL::Mapper::IndelCoordinate			metacpan
Bio::EnsEMBL::Mapper::IndelPair			metacpan
Bio::EnsEMBL::Mapper::Pair			metacpan
Bio::EnsEMBL::Mapper::RangeRegistry			metacpan
Bio::EnsEMBL::Mapper::Unit	One side of a map pair		metacpan
Bio::EnsEMBL::MicroRNA	A class representing a microRNA product of a transcript		metacpan
Bio::EnsEMBL::MiscFeature	A miscelaneous feature with arbitrary features and associations.		metacpan
Bio::EnsEMBL::MiscSet	This is a set representing a classification of a group of miscellaneuos features.		metacpan
Bio::EnsEMBL::OntologyTerm			metacpan
Bio::EnsEMBL::OntologyXref			metacpan
Bio::EnsEMBL::Operon	Object representing an operon		metacpan
Bio::EnsEMBL::OperonTranscript	Object representing a polycistronic transcript that is part of an operon		metacpan
Bio::EnsEMBL::PaddedSlice			metacpan
Bio::EnsEMBL::PepDnaAlignFeature	Ensembl specific pep-dna pairwise alignment feature		metacpan
Bio::EnsEMBL::PredictionExon	A class representing an Exon from an ab initio prediction method		metacpan
Bio::EnsEMBL::PredictionTranscript			metacpan
Bio::EnsEMBL::ProjectionSegment	part of the list that is returned from project function calls		metacpan
Bio::EnsEMBL::ProteinFeature			metacpan
Bio::EnsEMBL::RNAProduct	A class representing the mature RNA product of a transcript		metacpan
Bio::EnsEMBL::Registry			metacpan
Bio::EnsEMBL::RepeatConsensus			metacpan
Bio::EnsEMBL::RepeatFeature	A feature representing a repeat on a piece of sequence.		metacpan
Bio::EnsEMBL::RepeatMaskedSlice	Arbitary Slice of a genome		metacpan
Bio::EnsEMBL::SeqEdit			metacpan
Bio::EnsEMBL::SeqFeature	Ensembl specific sequence feature.		metacpan
Bio::EnsEMBL::SeqRegionSynonym			metacpan
Bio::EnsEMBL::SimpleFeature	A simple feature with a location and label		metacpan
Bio::EnsEMBL::Slice	Arbitary Slice of a genome		metacpan
Bio::EnsEMBL::StableIdEvent			metacpan
Bio::EnsEMBL::StableIdHistoryTree	object representing a stable ID history tree		metacpan
Bio::EnsEMBL::StopCodonReadthroughEdit	Object representing a stop codon readthrough edit in a sequence		metacpan
Bio::EnsEMBL::Storable			metacpan
Bio::EnsEMBL::SubSlicedFeature			metacpan
Bio::EnsEMBL::TopLevelAssemblyMapper			metacpan
Bio::EnsEMBL::Transcript	object representing an Ensembl transcript		metacpan
Bio::EnsEMBL::TranscriptFactory	Module having the fset2transcript* subroutines		metacpan
Bio::EnsEMBL::TranscriptMapper			metacpan
Bio::EnsEMBL::Translation	A class representing the translation of a transcript		metacpan
Bio::EnsEMBL::UTR	A UTR feature with a location and a type (five prime/3 prime)		metacpan
Bio::EnsEMBL::UnmappedObject			metacpan
Bio::EnsEMBL::Upstream	Object that defines an upstream region		metacpan
Bio::EnsEMBL::Utils::Argument	Utility functions for argument handling		metacpan
Bio::EnsEMBL::Utils::AssemblyProjector			metacpan
Bio::EnsEMBL::Utils::BitString	bitstring object implementation		metacpan
Bio::EnsEMBL::Utils::Cache		0.17	metacpan
Bio::EnsEMBL::Utils::CigarString			metacpan
Bio::EnsEMBL::Utils::CliHelper			metacpan
Bio::EnsEMBL::Utils::ConfParser	configuration parser for perl scripts		metacpan
Bio::EnsEMBL::Utils::ConfigRegistry			metacpan
Bio::EnsEMBL::Utils::ConversionSupport	Utility module for Vega release and schema conversion scripts		metacpan
Bio::EnsEMBL::Utils::Converter			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_analysis			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_exon			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_featurePair			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_gene			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_hit			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_hsp			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_predictionExon			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_predictionGene			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_seqFeature			metacpan
Bio::EnsEMBL::Utils::Converter::bio_ens_transcript	the instance converter		metacpan
Bio::EnsEMBL::Utils::Converter::ens_bio			metacpan
Bio::EnsEMBL::Utils::Converter::ens_bio_featurePair			metacpan
Bio::EnsEMBL::Utils::Converter::ens_bio_seqFeature			metacpan
Bio::EnsEMBL::Utils::EasyArgv			metacpan
Bio::EnsEMBL::Utils::Eprof	Bespoke Ensembl profiler		metacpan
Bio::EnsEMBL::Utils::EprofStack			metacpan
Bio::EnsEMBL::Utils::Exception	Utility functions for error handling		metacpan
Bio::EnsEMBL::Utils::IO			metacpan
Bio::EnsEMBL::Utils::Interval			metacpan
Bio::EnsEMBL::Utils::Iterator			metacpan
Bio::EnsEMBL::Utils::Logger			metacpan
Bio::EnsEMBL::Utils::Net			metacpan
Bio::EnsEMBL::Utils::PolyA			metacpan
Bio::EnsEMBL::Utils::Proxy			metacpan
Bio::EnsEMBL::Utils::RNAProductTypeMapper	Utility class for mapping between RNA-product types used in the Ensembl database and respective Perl API classes.		metacpan
Bio::EnsEMBL::Utils::Scalar			metacpan
Bio::EnsEMBL::Utils::SchemaConversion	Utility module for Vega schema conversion script		metacpan
Bio::EnsEMBL::Utils::ScriptUtils			metacpan
Bio::EnsEMBL::Utils::SeqDumper			metacpan
Bio::EnsEMBL::Utils::SeqRegionCache	A shared LRU cache of information about seq_regions		metacpan
Bio::EnsEMBL::Utils::Sequence	Utility functions for sequences		metacpan
Bio::EnsEMBL::Utils::Slice	Utility functions for slices		metacpan
Bio::EnsEMBL::Utils::SqlHelper			metacpan
Bio::EnsEMBL::Utils::TranscriptSelector	Finds canonical transcripts		metacpan
Bio::EnsEMBL::Utils::Tree::Interval::Immutable			metacpan
Bio::EnsEMBL::Utils::Tree::Interval::Immutable::Node			metacpan
Bio::EnsEMBL::Utils::Tree::Interval::Mutable			metacpan
Bio::EnsEMBL::Utils::Tree::Interval::Mutable::Node			metacpan
Bio::EnsEMBL::Utils::Tree::Interval::Mutable::PP			metacpan
Bio::EnsEMBL::Utils::URI			metacpan
Bio::EnsEMBL::Utils::VegaCuration::Gene			metacpan
Bio::EnsEMBL::Utils::VegaCuration::Transcript			metacpan
Bio::EnsEMBL::Utils::VegaCuration::Translation			metacpan

Provides

Name	File	View
Bio::EnsEMBL::Utils::Scalar::ScopeGuard	lib/Bio/EnsEMBL/Utils/Scalar.pm	metacpan

Other Files


MANIFEST	metacpan
META.yml	metacpan
Makefile.PL	metacpan
README	metacpan