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Bio::EnsEMBL::SeqFeatureI Class Reference
Inheritance diagram for Bio::EnsEMBL::SeqFeatureI:

List of all members.


Class Summary

Description

Do not use this class. It is deprecated and has been replaced by 
Bio::EnsEMBL::Feature.
 

Definition at line 12 of file SeqFeatureI.pm.

Available Methods

protected _rearrange ()
public analysis ()
public Float e_value ()
public end_phase ()
public id ()
public location ()
public new ()
public Float percent_id ()
public phase ()
public stack_trace ()
public stack_trace_dump ()
public throw ()
public validate ()
public verbose ()
public warn ()

Method Documentation

protected Bio::EnsEMBL::Root::_rearrange ( ) [inherited]
Deprecated:
 
Code:
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public Bio::EnsEMBL::SeqFeatureI::analysis ( )

Undocumented method

Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Float Bio::EnsEMBL::SeqFeatureI::e_value ( )
 Title   : p_value
 Usage   : $p_val = $feat->p_value()
           $feat->p_value($p_val)
 Function: get/set on p value information
 Returns : float
 Args    : none if get, the new value if set
 
Code:
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public Bio::EnsEMBL::SeqFeatureI::end_phase ( )
 Title   : end_phase
 Usage   : $end_phase = $feat->end_phase()
           $feat->end_phase($end_phase)
 Function: get/set on end phase of predicted exon feature
 Returns : [0,1,2]
 Args    : none if get, 0,1 or 2 if set.
 
Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Bio::EnsEMBL::SeqFeatureI::id ( )

Undocumented method

Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Bio::EnsEMBL::SeqFeatureI::location ( )

Undocumented method

Code:
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public Bio::EnsEMBL::Root::new ( ) [inherited]
public Float Bio::EnsEMBL::SeqFeatureI::percent_id ( )
 Title   : percent_id
 Usage   : $pid = $feat->percent_id()
           $feat->percent_id($pid)
 Function: get/set on percentage identity information
 Returns : float
 Args    : none if get, the new value if set
 
Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Bio::EnsEMBL::SeqFeatureI::phase ( )
 Title   : phase
 Usage   : $phase = $feat->phase()
           $feat->phase($phase)
 Function: get/set on start phase of predicted exon feature
 Returns : [0,1,2]
 Args    : none if get, 0,1 or 2 if set.
 
Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Bio::EnsEMBL::Root::stack_trace ( ) [inherited]
Deprecated:
 
Code:
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public Bio::EnsEMBL::Root::stack_trace_dump ( ) [inherited]
Deprecated:
 
Code:
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public Bio::EnsEMBL::Root::throw ( ) [inherited]
Deprecated:
 
Code:
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public Bio::EnsEMBL::SeqFeatureI::validate ( )
 Title   : validate
 Usage   : $sf->validate;
 Function: Checks whether all the data is present in the
           object.
 Example :
 Returns : 
 Args    :
 
Code:
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Reimplemented in Bio::EnsEMBL::SeqFeature.

public Bio::EnsEMBL::Root::verbose ( ) [inherited]
Deprecated:
 
Code:
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public Bio::EnsEMBL::Root::warn ( ) [inherited]
Deprecated:
 
Code:
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The documentation for this class was generated from the following file: