Class: Bio::RestrictionEnzyme::Fragment

Inherits:
Struct
  • Object
show all
Defined in:
lib/bio/util/restriction_enzyme.rb

Overview

A Bio::RestrictionEnzyme::Fragment is a DNA fragment composed of fused primary and complementary strands that would be found floating in solution after a full sequence is digested by one or more RestrictionEnzymes.

You will notice that either the primary or complement strand will be padded with spaces to make them line up according to the original DNA configuration before they were cut.

Example:

Fragment 1:

primary =    "attaca"
complement = "  atga"

Fragment 2:

primary =    "g  "
complement = "cta"

View these with the primary and complement methods.

Bio::RestrictionEnzyme::Fragment is a simple Struct object.

Note: unrelated to Bio::RestrictionEnzyme::Range::SequenceRange::Fragment

Instance Attribute Summary collapse

Instance Attribute Details

#c_leftObject

Returns the value of attribute c_left


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def c_left
  @c_left
end

#c_rightObject

Returns the value of attribute c_right


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def c_right
  @c_right
end

#complementObject

Returns the value of attribute complement


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def complement
  @complement
end

#p_leftObject

Returns the value of attribute p_left


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def p_left
  @p_left
end

#p_rightObject

Returns the value of attribute p_right


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def p_right
  @p_right
end

#primaryObject

Returns the value of attribute primary


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# File 'lib/bio/util/restriction_enzyme.rb', line 200

def primary
  @primary
end