sub ensembl_start {
my $self = shift;
$self->{'ensembl_start'} = shift if( @_ );
return $self->{'ensembl_start'};
}
ensembl-hive
2.6
|
Public Member Functions | |
public Bio::EnsEMBL::IdentityXref | new () |
public String | xref_identity () |
public String | ensembl_identity () |
public String | cigar_line () |
public String | ensembl_start () |
public String | ensembl_end () |
public String | xref_start () |
public String | xref_end () |
public String | score () |
public String | evalue () |
public Bio::EnsEMBL::Mapper | get_mapper () |
public | transform_feature () |
public List | map_feature () |
Public Member Functions inherited from Bio::EnsEMBL::DBEntry | |
public Bio::EnsEMBL::DBEntry | new () |
public String | primary_id () |
public String | display_id () |
public String | optional_id () |
public String | dbname () |
public String | database () |
public String | release () |
public String | version () |
public String | db_version () |
public String | description () |
public Bio::EnsEMBL::Analysis | analysis () |
public String | comment () |
public String | priority () |
public String | db_display_name () |
public String | info_type () |
public String | info_text () |
public String | linkage_annotation () |
public String | type () |
public String | secondary_db_name () |
public String | secondary_db_table () |
public void | add_synonym () |
public Listref | get_all_synonyms () |
public Listref | get_all_dependents () |
public Listref | get_all_masters () |
public void | flush_synonyms () |
public String | status () |
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 () |
Definition at line 23 of file IdentityXref.pm.
public String Bio::EnsEMBL::IdentityXref::cigar_line | ( | ) |
Arg [1] : string $cigar_line Example :
Description: get/set for attribute cigar_line Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::ensembl_end | ( | ) |
Arg [1] : string $ensembl_end Example :
Description: get/set for attribute ensembl_end Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::ensembl_identity | ( | ) |
Arg [1] : (optional) string $value Example :
Description: Getter/Setter for ensembl identity Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::ensembl_start | ( | ) |
Arg [1] : string $ensembl_start Example :
Description: get/set for attribute ensembl_start Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::evalue | ( | ) |
Arg [1] : string $evalue Example :
Description: get/set for attribute evalue Returntype : string Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::Mapper Bio::EnsEMBL::IdentityXref::get_mapper | ( | ) |
Args : none Example :
Description: produces a mapper object that takes coordinates from one side of the alignment to the other side. "ensembl" and "external" are the two coordinate systems contained. Returntype : Bio::EnsEMBL::Mapper Exceptions : none Caller : general, ProteinDAS subsystem Status : Stable
public List Bio::EnsEMBL::IdentityXref::map_feature | ( | ) |
Arg [1] : a start,end capable feature object Example :
Description: Returntype : list of Coordinates/Gaps which represents the mapping Exceptions : none Caller : another way of doing ProteinDAS Status : Stable
public Bio::EnsEMBL::IdentityXref Bio::EnsEMBL::IdentityXref::new | ( | ) |
Arg [...] : XREF_IDENTITY ENSEMBL_IDENTITY SCORE EVALUE CIGAR_LINE : XREF_START XREF_END ENSEMBL_START ENSEMBL_END : ANALYSIS pairs Example :
Description: Create a new Bio::EnsEMBL::IdentityXref object Returntype : Bio::EnsEMBL::IdentityXref Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::score | ( | ) |
Arg [1] : string $score Example :
Description: get/set for attribute score Returntype : string Exceptions : none Caller : general Status : Stable
public Bio::EnsEMBL::IdentityXref::transform_feature | ( | ) |
Undocumented method
public String Bio::EnsEMBL::IdentityXref::xref_end | ( | ) |
Arg [1] : string $xref_end Example :
Description: get/set for attribute xref_end Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::xref_identity | ( | ) |
Arg [1] : (optional) string $value Example :
Description: Getter/Setter for xref identity Returntype : string Exceptions : none Caller : general Status : Stable
public String Bio::EnsEMBL::IdentityXref::xref_start | ( | ) |
Arg [1] : string $xref_start Example :
Description: get/set for attribute xref_start Returntype : string Exceptions : none Caller : general Status : Stable