Nucleotides

README

@@ -0,0 +1,3 @@
+A new design for core functionality of the Bioruby project
+
+Pjotr Prins

lib/bio2/chemistry/nucleotide.rb

@@ -0,0 +1,68 @@
+# 
+# Nucleotides (abreviated nt) are molecules that, when joined together, make
+# up the structural units of RNA and DNA. In addition, nucleotides play
+# central roles in metabolism.
+# 
+# The purines are adenine (A) and guanine (G).
+# The (complementary) pyrimidines are thymine (T) and cytosine (C).
+# In RNA uracil (U) is the complementary pyrimidine of adenine.
+#
+#   >> Bio2::DNA::A.to_s
+#   => "a"
+
+module Bio2
+
+  class Nucleotide 
+  end
+  class Purine < Nucleotide
+  end
+  class Pyrimidine <Nucleotide
+  end
+
+  module DNA
+    class A < Purine
+      def to_s()
+        "a"
+      end
+    end
+    class G < Purine
+      def to_s()
+        "g"
+      end
+    end
+    class T < Pyrimidine
+      def to_s()
+        "t"
+      end
+    end
+    class C < Pyrimidine
+      def to_s()
+        "c"
+      end
+    end
+  end # DNA
+
+  module RNA
+    class A < Purine
+      def to_s() 
+        "a"
+      end
+    end
+    class G < Purine
+      def to_s()
+        "g"
+      end
+    end
+    class U < Pyrimidine
+      def to_s()
+        "u"
+      end
+    end
+    class C < Pyrimidine
+      def to_s()
+        "c"
+      end
+    end
+  end # RNA
+
+end # Bio2