Class: Bio::NucleicAcid

Inherits:
Object
  • Object
show all
Defined in:
lib/bio/BIOExtensions.rb

Class Method Summary collapse

Class Method Details

.is_unambiguous(base) ⇒ Object 



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# File 'lib/bio/BIOExtensions.rb', line 105

def self.is_unambiguous(base)
  "acgtACGT".match(base)
end

.is_valid(code, base) ⇒ Object 



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# File 'lib/bio/BIOExtensions.rb', line 118

def self.is_valid(code, base)
  IUPAC_CODES[code.downcase].chars.include? base.downcase
end

.to_IUAPC(bases) ⇒ Object 



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# File 'lib/bio/BIOExtensions.rb', line 109

def self.to_IUAPC(bases)    
  base = IUPAC_CODES[bases.to_s.downcase.chars.sort.uniq.join]
  if base == nil
    p "Invalid base! #{base}"
    base = 'n' #This is a patch... as one of the scripts failed here. 
  end
  base.upcase
end