ensembl-hive
2.6
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Public Member Functions | |
public Bio::EnsEMBL::UnmappedObject | new () |
public String | description () |
public String | summary () |
public String | type () |
public String | ensembl_object_type () |
public String | ensembl_id () |
public Int | external_db_id () |
public Int | external_db_name () |
public | stable_id () |
public String | identifier () |
public Float | query_score () |
public Float | target_score () |
public Int | unmapped_reason_id () |
public Bio::EnsEMBL::Analysis | analysis () |
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 () |
UnmappedObjects represent entities NOT mapped to ensembl. Therefore this should help users to find out why certain accessions etc can not be found.
Definition at line 33 of file UnmappedObject.pm.
public Bio::EnsEMBL::Analysis Bio::EnsEMBL::UnmappedObject::analysis | ( | ) |
Arg [1] : (optional) analysis to be set to Example :
Description : Basic getter/setter for analysis ReturnType : Bio::EnsEMBL::Analysis Exceptions : none Caller : general Status : At Risk
public String Bio::EnsEMBL::UnmappedObject::description | ( | ) |
Arg [1] : (optional) * to be set to Example :
Description : Basic getter/setter for description ReturnType : String Exceptions : none Caller : general Status : At Risk
public String Bio::EnsEMBL::UnmappedObject::ensembl_id | ( | ) |
Arg [1] : (optional) ensembl id to be set to Example :
Description : Basic getter/setter for ensembl id ReturnType : String Exceptions : none Caller : general Status : At Risk
public String Bio::EnsEMBL::UnmappedObject::ensembl_object_type | ( | ) |
Arg [1] : (optional) ensembl object type to be set to Example :
Description : Basic getter/setter for ensembl object type ReturnType : String Exceptions : none Caller : general Status : At Risk
public Int Bio::EnsEMBL::UnmappedObject::external_db_id | ( | ) |
Arg [1] : (optional) external_db_id to be set to Example :
Description : Basic getter/setter for external_db_id ReturnType : int Exceptions : none Caller : general Status : At Risk
public Int Bio::EnsEMBL::UnmappedObject::external_db_name | ( | ) |
Example :
Description : Basic getter for external_db_name ReturnType : int Exceptions : none Caller : general Status : At Risk
public String Bio::EnsEMBL::UnmappedObject::identifier | ( | ) |
Arg [1] : (optional) identifier to be set to Example :
Description : Basic getter/setter for identifier ReturnType : String Exceptions : none Caller : general Status : At Risk
public Bio::EnsEMBL::UnmappedObject Bio::EnsEMBL::UnmappedObject::new | ( | ) |
Arg [TYPE] : the type of mapping i.e. 'xref','cDNA' Arg [ANALYSIS] : Analysis object. Arg [EXTERNAL_DB_ID] : id for the external db id this identifier is from Arg [IDENTIFIER] : name of the identifier i.e. accession Arg [QUERY_SCORE] : (optional) The query score Arg [TARGET_SCORE] : (optional) The target score Arg [SUMMARY] : The summary reason for not mapping. Arg [FULL_DESC] : The Full description of why it did not map. Arg [ENSEMBL_ID] : (optional) internal ensembl id for the best match Arg [ENSEMBL_OBJECT_TYPE] : (optional) the type of object for the best match Example :
Returntype : Bio::EnsEMBL::UnmappedObject Exceptions : If any of the none optional args are missing Caller : general Status : At Risk
public Float Bio::EnsEMBL::UnmappedObject::query_score | ( | ) |
Arg [1] : (optional) query_score to be set to Example :
Description : Basic getter/setter for query_score ReturnType : float Exceptions : none Caller : general Status : At Risk
public Bio::EnsEMBL::UnmappedObject::stable_id | ( | ) |
Undocumented method
public String Bio::EnsEMBL::UnmappedObject::summary | ( | ) |
Arg [1] : (optional) summary to be set to Example :
Description : Basic getter/setter for summary ReturnType : String Exceptions : none Caller : general Status : At Risk
public Float Bio::EnsEMBL::UnmappedObject::target_score | ( | ) |
Arg [1] : (optional) target_score to be set to Example :
Description : Basic getter/setter for target_score ReturnType : float Exceptions : none Caller : general Status : At Risk
public String Bio::EnsEMBL::UnmappedObject::type | ( | ) |
Arg [1] : (optional) type to be set to Example :
Description : Basic getter/setter for type ReturnType : String Exceptions : none Caller : general Status : At Risk
public Int Bio::EnsEMBL::UnmappedObject::unmapped_reason_id | ( | ) |
Arg [1] : (optional) unmapped_reason_id to be set to Example :
Description : Basic getter/setter for unmapped_reason_id ReturnType : int Exceptions : none Caller : general Status : At Risk