ensembl-hive
2.6
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Public Member Functions | |
public Bio::EnsEMBL::MANE | new () |
public Bio::EnsEMBL::Transcript | transcript () |
public String | stable_id () |
public String | refseq () |
public String | type () |
public | display_id () |
public Hash | summary_as_hash () |
Public Member Functions inherited from Bio::EnsEMBL::Feature | |
public Bio::EnsEMBL::Feature | new () |
public Int | start () |
public Int | end () |
public Int | strand () |
public void | move () |
public Int | length () |
public Bio::EnsEMBL::Analysis | analysis () |
public Bio::EnsEMBL::Slice | slice () |
public Boolean Or Undef | equals () |
public Bio::EnsEMBL::Feature | transform () |
public Bio::EnsEMBL::Feature | transfer () |
public Listref | project_to_slice () |
public Listref | project () |
public String | seqname () |
public String | display_id () |
public String | version () |
public Bio::EnsEMBL::Slice | feature_Slice () |
public String | seq_region_name () |
public Int | seq_region_length () |
public Boolean | seq_region_strand () |
public Int | seq_region_start () |
public Int | seq_region_end () |
public String | coord_system_name () |
public String | seq () |
public Listref | get_all_alt_locations () |
public Boolean | overlaps () |
public Boolean | overlaps_local () |
public List | get_overlapping_Genes () |
public Bio::EnsEMBL::Gene | get_nearest_Gene () |
public String | feature_so_acc () |
public String | feature_so_term () |
public Hashref | summary_as_hash () |
public String | species () |
public | sub_SeqFeature () |
public | add_sub_SeqFeature () |
public | flush_sub_SeqFeature () |
Public Member Functions inherited from Bio::EnsEMBL::Storable | |
public Bio::EnsEMBL::Storable | new () |
public Instance | new_fast () |
public Int | dbID () |
public Bio::EnsEMBL::DBSQL::BaseAdaptor | adaptor () |
public Boolean | is_stored () |
public | get_all_DAS_Features () |
This is a MANE transcript It represents an Ensembl transcript that has a matching RefSeq equivalent
public Bio::EnsEMBL::MANE::display_id | ( | ) |
Undocumented method
public Bio::EnsEMBL::MANE Bio::EnsEMBL::MANE::new | ( | ) |
Arg [...] : Named arguments passed to superclass Example :
Description: Constructs a new Bio::EnsEMBL::MANE. Returntype : Bio::EnsEMBL::MANE Exceptions : Caller : general, subclass constructors Status : Stable
public String Bio::EnsEMBL::MANE::refseq | ( | ) |
Arg [1] : Fetch the RefSeq accession associated with this transcript Example :
Description: Getter/Setter for the RefSeq associated with this MANE transcript. Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::MANE::stable_id | ( | ) |
Arg [1] : (optional) string $stable_id Example :
Description: Getter/Setter for the stable_id for the transcript associated with this MANE transcript Returntype : String Exceptions : none Caller : general Status : Stable
public Hash Bio::EnsEMBL::MANE::summary_as_hash | ( | ) |
public Bio::EnsEMBL::Transcript Bio::EnsEMBL::MANE::transcript | ( | ) |
Arg [1] : Fetch the original transcript object Example :
Description: Getter/Setter for the transcript object Returntype : Bio::EnsEMBL::Transcript Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::MANE::type | ( | ) |
Arg [1] : (optional) string mane class Example :
Description: Getter/Setter for the class of MANE associated with this transcript. Returntype : String Exceptions : none Caller : general Status : Stable