Bio::EnsEMBL::MiscSet Class Reference

Inheritance diagram for Bio::EnsEMBL::MiscSet:

Public Member Functions
public Bio::EnsEMBL::MiscSet	new ()
public String	code ()
public String	name ()
public String	description ()
public Int	longest_feature ()
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 ()

Detailed Description

Synopsis

use Bio::EnsEMBL::MiscSet;
 
my $misc_set = Bio::EnsEMBL::MiscSet->new(
  1234, $adaptor, 'tilepath',
  'Assembly Tiling Path',
  'The tiling path of clones', 1e6
);
 
my $misc_feature->add_set($misc_set);

Description

MiscSets represent classsifications or groupings of MiscFeatures.
Features are classified into sets essentially to define what they are
and how they may be used.  Generally MiscFeatures are retrieved on
the basis of their associated sets. See Bio::EnsEMBL::MiscFeature,
Bio::EnsEMBL::DBSQL::MiscFeatureAdaptor.

Note that MiscSets and MiscFeatures were formerly known as MapSets and
MapFrags

Definition at line 31 of file MiscSet.pm.

Member Function Documentation

code()

public String Bio::EnsEMBL::MiscSet::code

(

)

  Arg [1]    : string $newval (optional) 
               The new value to set the code attribute to
  Example    :

$code = $obj->code()

  Description: Getter/Setter for the code attribute
  Returntype : string
  Exceptions : none
  Caller     : general
  Status     : Stable

Code:

description()

public String Bio::EnsEMBL::MiscSet::description

(

)

  Arg [1]    : string $newval (optional)
               The new value to set the description attribute to
  Example    :

$description = $obj->description()

  Description: Getter/Setter for the description attribute
  Returntype : string
  Exceptions : none
  Caller     : general
  Status     : Stable

Code:

longest_feature()

public Int Bio::EnsEMBL::MiscSet::longest_feature

(

)

  Arg [1]    : int $newval (optional) 
               The new value to set the longest_feature attribute to
  Example    :

$longest_feature = $obj->longest_feature()

  Description: Getter/Setter for the longest_feature attribute
  Returntype : int
  Exceptions : none
  Caller     : general
  Status     : Stable

Code:

name()

public String Bio::EnsEMBL::MiscSet::name

(

)

  Arg [1]    : string $newval (optional)
               The new value to set the code attribute to
  Example    :

$name = $obj->name()

  Description: Getter/Setter for the name attribute
  Returntype : string
  Exceptions : none
  Caller     : general
  Status     : Stable

Code:

new()

public Bio::EnsEMBL::MiscSet Bio::EnsEMBL::MiscSet::new

(

)

  Arg [1]    : int $misc_set_id
               The internal identifier for this misc set
  Arg [2]    : string $code
               The unique code which identifies this set type
  Arg [3]    : string $name
               The human readable name of this set
  Arg [4]    : string $desc
               The description of this set
  Arg [5]    : int $max_len
               The maximum length of features of this mapset
  Example    :

$set = new Bio::EnsEMBL::MiscSet(1234, 'tilepath',
                                               'Assembly Tiling Path',
                                               'The tiling path of clones',
                                               1e6);

  Description: Instantiates a Bio::EnsEMBL::MiscSet
  Returntype : Bio::EnsEMBL::MiscSet
  Exceptions : none
  Caller     : MiscFeatureAdaptor
  Status     : Stable

Code:

---

The documentation for this class was generated from the following file:

• ensembl/modules/Bio/EnsEMBL/MiscSet.pm