Bio::Expression::FeatureGroup(3)

NAME
Bio::Expression::FeatureGroup - a set of DNA/RNA features. ISA Bio::Expression::FeatureI

SYNOPSIS
#

DESCRIPTION
A set of DNA/RNA features.

FEEDBACK

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  bioperl-l@bioperl.org                  - General discussion
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  Support
Please direct usage questions or support issues to the mailing list:

bioperl-l@bioperl.org

rather than to the module maintainer directly. Many experienced and reponsive experts will be able look at the problem and quickly address it. Please include a thorough description of the problem with code and data examples if at all possible.

  Reporting Bugs
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AUTHOR
Allen Day <allenday@ucla.edu>

APPENDIX
The rest of the documentation details each of the object methods. Internal methods are usually preceded with a _

  new
 Title   : new
 Usage   : $featuregroup = Bio::Expression::FeatureGroup->new(%args);
 Function: create a new featuregroup object
 Returns : a Bio::Expression::FeatureGroup object
 Args    : an optional hash of parameters to be used in initialization:
           -id    --  the featuregroup ID
           -type  --  the featuregroup type

  _initialize
 Title   : _initialize
 Usage   : $featuregroup->_initialize(@args);
 Function: initialize the featuregroup object
 Returns : nothing
 Args    : @args

  type
 Title   : type
 Usage   : $featuregroup->type($optional_arg);
 Function: get/set the type of the featuregroup
 Comments: this is probably going to be a string like
           "quality control", "mismatch blah blah", etc.
 Returns : the featuregroup type
 Args    : a new value for the featuregroup type

  id
 Title   : id
 Usage   : $featuregroup->id($optional_arg);
 Function: get/set the id of the featuregroup
 Returns : the featuregroup id
 Args    : a new value for the featuregroup id

  standard_deviation
 Title   : standard_deviation
 Usage   : $featuregroup->standard_deviation($optional_arg);
 Function: get/set the standard deviation of the featuregroup value
 Returns : the featuregroup standard deviation
 Args    : a new value for the featuregroup standard deviation
 Notes   : this method does no calculation, it merely holds a value

  quantitation
 Title   : quantitation
 Usage   : $featuregroup->quantitation($optional_arg);
 Function: get/set the quantitation of the featuregroup
 Returns : the featuregroup's quantitated value
 Args    : a new value for the featuregroup's quantitated value
 Notes   : this method does no calculation, it merely holds a value

  quantitation_units
 Title   : quantitation_units
 Usage   : $featuregroup->quantitation_units($optional_arg);
 Function: get/set the quantitation units of the featuregroup
 Returns : the featuregroup's quantitated value units
 Args    : a new value for the featuregroup's quantitated value units

  presence
 Title   : presence
 Usage   : $featuregroup->presence($optional_arg);
 Function: get/set the presence call of the featuregroup
 Returns : the featuregroup's presence call
 Args    : a new value for the featuregroup's presence call

  add_feature
 Title   : add_feature
 Usage   : $feature_copy = $featuregroup->add_feature($feature);
 Function: add a feature to the featuregroup
 Returns : see this_feature()
 Args    : a Bio::Expression::FeatureI compliant object

  this_feature
 Title   : this_feature
 Usage   : $feature = $featuregroup->this_feature
 Function: access the last feature added to the featuregroup
 Returns : the last feature added to the featuregroup
 Args    : none

  each_feature
 Title   : each_feature
 Usage   : @features = $featuregroup->each_feature
 Function: returns a list of Bio::Expression::FeatureI compliant
           objects
 Returns : a list of objects
 Args    : none

  each_feature_quantitation
 Title   : each_feature_quantitation
 Usage   : @featurequantitions = $featuregroup->each_feature_quantitation;
 Function: returns an list of quantitations of the features in the featuregroup
 Returns : a list of numeric values
 Args    : none

  is_qc
 Title   : is_qc
 Usage   : $is_quality_control = $featuregroup->is_qc
 Function: get/set whether or not the featuregroup is used for quality control purposes
 Returns : a boolean (equivalent)
 Args    : a new value