Index of /data/main/s/seqan/1.3.1-1/docs

• Parent Directory
• ADAPTION.char+array.html
• ADAPTION.std_3a_3a_F_I_L_E+_2a.html
• ADAPTION.std_3a_3abasic__string.html
• ADAPTION.std_3a_3aiostream.html
• ADAPTION.std_3a_3alist.html
• ADAPTION.std_3a_3avector.html
• CLASS_Align.html
• CLASS_Align_Cols.html
• CLASS_Align_Config.html
• CLASS_Align_Quality_Store_Element.html
• CLASS_Aligned_Read_Layout.html
• CLASS_Aligned_Read_Store_Element.html
• CLASS_Allocator.html
• CLASS_Async_Request.html
• CLASS_Auto_Seq_Format.html
• CLASS_Blast_Hit.html
• CLASS_Blast_Hsp.html
• CLASS_Blast_Report.html
• CLASS_Bundle2.html
• CLASS_Bundle3.html
• CLASS_Bundle5.html
• CLASS_Command_Line_Option.html
• CLASS_Command_Line_Parser.html
• CLASS_Concatenator_Many_To_One.html
• CLASS_Contig_File.html
• CLASS_Contig_Store_Element.html
• CLASS_Dequeue.html
• CLASS_Edge_Stump.html
• CLASS_External+_Property+_Map.html
• CLASS_File.html
• CLASS_File_Format.html
• CLASS_Finder.html
• CLASS_Fragment.html
• CLASS_Fragment_Store.html
• CLASS_Frequency_Distribution.html
• CLASS_Functor_Complement.html
• CLASS_Functor_Convert.html
• CLASS_Functor_Lowcase.html
• CLASS_Functor_Upcase.html
• CLASS_Gap_Anchor.html
• CLASS_Gaps.html
• CLASS_Graph.html
• CLASS_Hardwired_Shape.html
• CLASS_Holder.html
• CLASS_Id_Manager.html
• CLASS_Index.html
• CLASS_Internal_Map.html
• CLASS_Internal_Pointer_Map.html
• CLASS_Internal_Raw_Map.html
• CLASS_Interval_And_Cargo.html
• CLASS_Interval_Tree.html
• CLASS_Interval_Tree_Node.html
• CLASS_Iter.html
• CLASS_Lexical.html
• CLASS_Library_Store_Element.html
• CLASS_Local_Alignment_Finder.html
• CLASS_Map.html
• CLASS_Markov_Model.html
• CLASS_Mate_Pair_Store_Element.html
• CLASS_Matrix.html
• CLASS_Memory_Manager.html
• CLASS_Modified_Alphabet.html
• CLASS_Modified_Iterator.html
• CLASS_Modified_String.html
• CLASS_Motif_Finder.html
• CLASS_Name_Store_Cache.html
• CLASS_Pair.html
• CLASS_Pattern.html
• CLASS_Pdf.html
• CLASS_Pipe.html
• CLASS_Point_And_Cargo.html
• CLASS_Pool.html
• CLASS_Priority_Type.html
• CLASS_Property_Map.html
• CLASS_Proxy.html
• CLASS_Pseudocount.html
• CLASS_Read_Store_Element.html
• CLASS_Rng.html
• CLASS_Score.html
• CLASS_Seed.html
• CLASS_Seed_Set.html
• CLASS_Segment.html
• CLASS_Shape.html
• CLASS_Simple_Type.html
• CLASS_String.html
• CLASS_String_Set.html
• CLASS_Tag_Selector.html
• CLASS_To_Std_Allocator.html
• CLASS_Triple.html
• CLASS_Tuple.html
• CONCEPT_Allocator.html
• CONCEPT_Container.html
• CONCEPT_Finder.html
• CONCEPT_Iterator.html
• CONCEPT_Pattern.html
• CONCEPT_Rooted+_Iterator.html
• CONCEPT_Simple+_Type.html
• DEMO_All+_Pairs+_Shortest+_Path.html
• DEMO_Allocators.html
• DEMO_Alphabets.html
• DEMO_Approximate+_Searching.html
• DEMO_Bellman-_Ford+_Algorithm.html
• DEMO_Blast+_Reports.html
• DEMO_Breadth-_First+_Search.html
• DEMO_Constraint+_Iterator.html
• DEMO_Depth-_First+_Search.html
• DEMO_Dijkstras+_Algorithm.html
• DEMO_Exact+_Searching.html
• DEMO_File+_Format+_I_2f_O.html
• DEMO_Floyd-_Warshall+_Algorithm.html
• DEMO_Global+_Alignments.html
• DEMO_H_M_M+_Silent+_States.html
• DEMO_H_M_M.html
• DEMO_Heaviest+_Increasing+_Subsequence.html
• DEMO_Index+_Finder+_String_Set.html
• DEMO_Index+_Finder.html
• DEMO_Iterator+_Basics.html
• DEMO_Kruskals+_Algorithm.html
• DEMO_Local+_Alignments.html
• DEMO_Longest+_Common+_Subsequence.html
• DEMO_Longest+_Increasing+_Subsequence.html
• DEMO_Maximal+_Repeats.html
• DEMO_Maximal+_Unique+_Matches.html
• DEMO_Maximum+_Flow.html
• DEMO_Mod_Reverse.html
• DEMO_Mod_View.html
• DEMO_Motif+_Finder.html
• DEMO_Mummy.html
• DEMO_Nested+_Modifiers.html
• DEMO_Pizza+_26+_Chili+_Index.html
• DEMO_Prims+_Algorithm.html
• DEMO_Rooted+_Iterators.html
• DEMO_Shortest+_Path+in+_D_A_Gs.html
• DEMO_String+_Basics.html
• DEMO_Strongly+_Connected+_Components.html
• DEMO_Suffix+_Array.html
• DEMO_Supermaximal+_Repeats.html
• DEMO_Topological+_Sort.html
• DEMO_Transitive+_Closure.html
• DEMO_Wildcard+_Searching.html
• FUNCTION.abs_Freq_Of_Letters_In_Seq.html
• FUNCTION.abs_Freq_Of_Letters_In_Set_Of_Seqs.html
• FUNCTION.add_Argument_Text.html
• FUNCTION.add_Child.html
• FUNCTION.add_Edge.html
• FUNCTION.add_Edges.html
• FUNCTION.add_Help_Line.html
• FUNCTION.add_Interval.html
• FUNCTION.add_Line.html
• FUNCTION.add_Option.html
• FUNCTION.add_Section.html
• FUNCTION.add_Seed.html
• FUNCTION.add_Seeds.html
• FUNCTION.add_Title_Line.html
• FUNCTION.add_Usage_Line.html
• FUNCTION.add_Value.html
• FUNCTION.add_Version_Line.html
• FUNCTION.add_Vertex.html
• FUNCTION.adjust_Top.html
• FUNCTION.alignment.html
• FUNCTION.alignment_Evaluation.html
• FUNCTION.all_Pairs_Shortest_Path.html
• FUNCTION.allocate.html
• FUNCTION.append.html
• FUNCTION.append_Aligned_Read.html
• FUNCTION.append_Diag.html
• FUNCTION.append_Mate_Pair.html
• FUNCTION.append_Name.html
• FUNCTION.append_Read.html
• FUNCTION.append_Seqs.html
• FUNCTION.append_Value.html
• FUNCTION.argument_Count.html
• FUNCTION.argument_Text.html
• FUNCTION.array_Clear_Space.html
• FUNCTION.array_Construct.html
• FUNCTION.array_Construct_Copy.html
• FUNCTION.array_Construct_Move.html
• FUNCTION.array_Copy.html
• FUNCTION.array_Copy_Backward.html
• FUNCTION.array_Copy_Forward.html
• FUNCTION.array_Destruct.html
• FUNCTION.array_Fill.html
• FUNCTION.array_Move.html
• FUNCTION.array_Move_Backward.html
• FUNCTION.array_Move_Forward.html
• FUNCTION.assign.html
• FUNCTION.assign_Begin_State.html
• FUNCTION.assign_Cargo.html
• FUNCTION.assign_Cropped_Seq_Id.html
• FUNCTION.assign_Emission_Probability.html
• FUNCTION.assign_End_State.html
• FUNCTION.assign_Next_S.html
• FUNCTION.assign_Next_T.html
• FUNCTION.assign_Property.html
• FUNCTION.assign_Qual.html
• FUNCTION.assign_Qual_Id.html
• FUNCTION.assign_Qualities.html
• FUNCTION.assign_Quality_Value.html
• FUNCTION.assign_Root.html
• FUNCTION.assign_Seq.html
• FUNCTION.assign_Seq_Id.html
• FUNCTION.assign_Silent_Status.html
• FUNCTION.assign_Source.html
• FUNCTION.assign_String_Set.html
• FUNCTION.assign_Target.html
• FUNCTION.assign_Transition_Probability.html
• FUNCTION.assign_Value.html
• FUNCTION.assign_Value_By_Id.html
• FUNCTION.async_Read_At.html
• FUNCTION.async_Write_At.html
• FUNCTION.at_Begin.html
• FUNCTION.at_End.html
• FUNCTION.at_End_Of_Sequence.html
• FUNCTION.at_Nil.html
• FUNCTION.atomic_Add.html
• FUNCTION.atomic_Cas.html
• FUNCTION.atomic_Dec.html
• FUNCTION.atomic_Inc.html
• FUNCTION.atomic_Max.html
• FUNCTION.atomic_Min.html
• FUNCTION.atomic_Or.html
• FUNCTION.atomic_Xor.html
• FUNCTION.back.html
• FUNCTION.background_Frequency.html
• FUNCTION.backward_Algorithm.html
• FUNCTION.banded_Alignment.html
• FUNCTION.banded_Chain_Alignment.html
• FUNCTION.begin.html
• FUNCTION.begin_Position.html
• FUNCTION.begin_Read.html
• FUNCTION.begin_State.html
• FUNCTION.begin_Write.html
• FUNCTION.bellman_Ford_Algorithm.html
• FUNCTION.binomial_Coefficient.html
• FUNCTION.blast_23get_Alignment.html
• FUNCTION.breadth_First_Search.html
• FUNCTION.bundle2.html
• FUNCTION.bundle3.html
• FUNCTION.bundle5.html
• FUNCTION.bwt_At.html
• FUNCTION.calculate_Insert_Sizes.html
• FUNCTION.calculate_Mate_Indices.html
• FUNCTION.can_Parse_String.html
• FUNCTION.cancel.html
• FUNCTION.capacity.html
• FUNCTION.cargo.html
• FUNCTION.child_At.html
• FUNCTION.child_Vertex.html
• FUNCTION.children_Are_Leaves.html
• FUNCTION.clear.html
• FUNCTION.clear_Edges.html
• FUNCTION.clear_Gaps.html
• FUNCTION.clear_Reads.html
• FUNCTION.clear_Vertices.html
• FUNCTION.clipped_Begin_Position.html
• FUNCTION.clipped_End_Position.html
• FUNCTION.close.html
• FUNCTION.col.html
• FUNCTION.collect_Leaves.html
• FUNCTION.cols.html
• FUNCTION.compact_Aligned_Reads.html
• FUNCTION.compact_Pair_Match_Ids.html
• FUNCTION.compare.html
• FUNCTION.complement.html
• FUNCTION.complete_Profile.html
• FUNCTION.compute_Generous_Capacity.html
• FUNCTION.concat.html
• FUNCTION.connected_Components.html
• FUNCTION.container.html
• FUNCTION.convert.html
• FUNCTION.convert_Alignment.html
• FUNCTION.convert_Impl.html
• FUNCTION.convert_Matches_To_Global_Alignment.html
• FUNCTION.convert_Pair_Wise_To_Global_Alignment.html
• FUNCTION.convert_Pattern_To_Profile.html
• FUNCTION.convert_Residue_To_Frequency_Dist.html
• FUNCTION.convert_Set_Of_Patterns_To_Profile.html
• FUNCTION.count_Characters.html
• FUNCTION.count_Children.html
• FUNCTION.count_Gaps.html
• FUNCTION.count_Occurrences.html
• FUNCTION.count_Occurrences_Multiple.html
• FUNCTION.cpu_Time.html
• FUNCTION.create.html
• FUNCTION.create_B_W_Table.html
• FUNCTION.create_Childtab.html
• FUNCTION.create_Count_Array.html
• FUNCTION.create_Interval_Tree.html
• FUNCTION.create_Lcp_Table.html
• FUNCTION.create_Oracle.html
• FUNCTION.create_Oracle_On_Reverse.html
• FUNCTION.create_Q_Gram_Index.html
• FUNCTION.create_Q_Gram_Index_Dir_Only.html
• FUNCTION.create_Q_Gram_Index_S_A_Only.html
• FUNCTION.create_Root.html
• FUNCTION.create_Source.html
• FUNCTION.create_Suffix_Array.html
• FUNCTION.create_Suffix_Trie.html
• FUNCTION.create_Trie.html
• FUNCTION.create_Trie_On_Reverse.html
• FUNCTION.create_Wotd_Index.html
• FUNCTION.dag_Shortest_Path.html
• FUNCTION.database_Name.html
• FUNCTION.database_Orientation_Plus.html
• FUNCTION.deallocate.html
• FUNCTION.degree.html
• FUNCTION.dependent.html
• FUNCTION.dependent_Source.html
• FUNCTION.depth_First_Search.html
• FUNCTION.detach.html
• FUNCTION.determine_Consensus_Seq.html
• FUNCTION.difference.html
• FUNCTION.dijkstra.html
• FUNCTION.dimension.html
• FUNCTION.dir_At.html
• FUNCTION.display.html
• FUNCTION.display_Result.html
• FUNCTION.em.html
• FUNCTION.emission_Probability.html
• FUNCTION.empty.html
• FUNCTION.empty_Parent_Edge.html
• FUNCTION.empty_Source.html
• FUNCTION.end.html
• FUNCTION.end_Diagonal.html
• FUNCTION.end_Position.html
• FUNCTION.end_Read.html
• FUNCTION.end_State.html
• FUNCTION.end_Write.html
• FUNCTION.erase.html
• FUNCTION.erase_Back.html
• FUNCTION.expectation.html
• FUNCTION.extend_Seed.html
• FUNCTION.extend_Seed_Score.html
• FUNCTION.extend_Seeds.html
• FUNCTION.extend_Seeds_Score.html
• FUNCTION.factorial.html
• FUNCTION.find.html
• FUNCTION.find_Begin.html
• FUNCTION.find_Edge.html
• FUNCTION.find_Intervals.html
• FUNCTION.find_Intervals_Exclude_Touching.html
• FUNCTION.find_Motif.html
• FUNCTION.find_Vertex.html
• FUNCTION.flatten.html
• FUNCTION.floyd_Warshall_Algorithm.html
• FUNCTION.flush.html
• FUNCTION.ford_Fulkerson_Algorithm.html
• FUNCTION.forward_Algorithm.html
• FUNCTION.fragment_Begin.html
• FUNCTION.fragment_Length.html
• FUNCTION.front.html
• FUNCTION.gap_Value.html
• FUNCTION.gap_Value_Impl.html
• FUNCTION.generate_Sequence.html
• FUNCTION.get_Adjacency_Matrix.html
• FUNCTION.get_Alignment.html
• FUNCTION.get_Argument_Value.html
• FUNCTION.get_Argument_Values.html
• FUNCTION.get_Begin_Score.html
• FUNCTION.get_Begin_State.html
• FUNCTION.get_Bit_Score.html
• FUNCTION.get_Cargo.html
• FUNCTION.get_Database_Begin.html
• FUNCTION.get_Database_End.html
• FUNCTION.get_Database_Name.html
• FUNCTION.get_Distance_Matrix.html
• FUNCTION.get_E_Value.html
• FUNCTION.get_E_Value_Cutoff.html
• FUNCTION.get_Emission_Probability.html
• FUNCTION.get_End_State.html
• FUNCTION.get_Fibre.html
• FUNCTION.get_First_Covered_Position.html
• FUNCTION.get_Frequency.html
• FUNCTION.get_Gapped_Kappa.html
• FUNCTION.get_Gapped_Lambda.html
• FUNCTION.get_Get_Extension.html
• FUNCTION.get_Get_Open.html
• FUNCTION.get_Id_By_Name.html
• FUNCTION.get_Id_Lower_Bound.html
• FUNCTION.get_Id_Upper_Bound.html
• FUNCTION.get_Kappa.html
• FUNCTION.get_Kmer_Similarity_Matrix.html
• FUNCTION.get_Lambda.html
• FUNCTION.get_Last_Covered_Position.html
• FUNCTION.get_Left_Boundary.html
• FUNCTION.get_Mate_No.html
• FUNCTION.get_Motif.html
• FUNCTION.get_Next.html
• FUNCTION.get_Next_S.html
• FUNCTION.get_Next_T.html
• FUNCTION.get_Nil.html
• FUNCTION.get_Num_Gaps.html
• FUNCTION.get_Occurrence.html
• FUNCTION.get_Occurrences.html
• FUNCTION.get_Occurrences_Bwt.html
• FUNCTION.get_Option_Value_Long.html
• FUNCTION.get_Option_Value_Short.html
• FUNCTION.get_Option_Values_Long.html
• FUNCTION.get_Option_Values_Short.html
• FUNCTION.get_Projected_Position.html
• FUNCTION.get_Property.html
• FUNCTION.get_Query_Begin.html
• FUNCTION.get_Query_End.html
• FUNCTION.get_Query_Name.html
• FUNCTION.get_Read.html
• FUNCTION.get_Right_Boundary.html
• FUNCTION.get_Root.html
• FUNCTION.get_Score.html
• FUNCTION.get_Seq_No.html
• FUNCTION.get_Seq_Offset.html
• FUNCTION.get_Source.html
• FUNCTION.get_Step_Size.html
• FUNCTION.get_String_Set.html
• FUNCTION.get_Successor.html
• FUNCTION.get_Swift_Hits.html
• FUNCTION.get_Target.html
• FUNCTION.get_Transition_Probability.html
• FUNCTION.get_Value.html
• FUNCTION.get_Value_By_Id.html
• FUNCTION.global_Alignment.html
• FUNCTION.global_Chaining.html
• FUNCTION.global_Msa_Alignment.html
• FUNCTION.go_Begin.html
• FUNCTION.go_Down.html
• FUNCTION.go_End.html
• FUNCTION.go_Further.html
• FUNCTION.go_Next.html
• FUNCTION.go_Nil.html
• FUNCTION.go_Previous.html
• FUNCTION.go_Right.html
• FUNCTION.go_Root.html
• FUNCTION.go_Up.html
• FUNCTION.guess_File_Format.html
• FUNCTION.guess_Format.html
• FUNCTION.guess_Format_From_Filename.html
• FUNCTION.hamming_Distance.html
• FUNCTION.has_Option_Long.html
• FUNCTION.has_Option_Short.html
• FUNCTION.has_Prefix.html
• FUNCTION.hash.html
• FUNCTION.hash2.html
• FUNCTION.hash2_Next.html
• FUNCTION.hash2_Upper.html
• FUNCTION.hash_Next.html
• FUNCTION.hash_Upper.html
• FUNCTION.haystack.html
• FUNCTION.heaviest_Increasing_Subsequence.html
• FUNCTION.help.html
• FUNCTION.help_Text.html
• FUNCTION.host.html
• FUNCTION.host_Graph.html
• FUNCTION.host_Hit.html
• FUNCTION.host_Report.html
• FUNCTION.id.html
• FUNCTION.id_Count.html
• FUNCTION.id_In_Use.html
• FUNCTION.id_To_Position.html
• FUNCTION.in_Degree.html
• FUNCTION.index_Bucket_Map.html
• FUNCTION.index_Bwt.html
• FUNCTION.index_Childtab.html
• FUNCTION.index_Counts.html
• FUNCTION.index_Counts_Dir.html
• FUNCTION.index_Create.html
• FUNCTION.index_Dir.html
• FUNCTION.index_Lcp.html
• FUNCTION.index_Lcpe.html
• FUNCTION.index_Raw_S_A.html
• FUNCTION.index_Raw_Text.html
• FUNCTION.index_Require.html
• FUNCTION.index_S_A.html
• FUNCTION.index_Shape.html
• FUNCTION.index_Supplied.html
• FUNCTION.index_Text.html
• FUNCTION.infimum_Value_Impl.html
• FUNCTION.infix.html
• FUNCTION.infix_With_Length.html
• FUNCTION.insert.html
• FUNCTION.insert_Gap.html
• FUNCTION.insert_Gaps.html
• FUNCTION.insert_Value.html
• FUNCTION.integrate_Align.html
• FUNCTION.inverse_Hash.html
• FUNCTION.is_Boolean_Option.html
• FUNCTION.is_Double_Option.html
• FUNCTION.is_Equal.html
• FUNCTION.is_Gap.html
• FUNCTION.is_Greater.html
• FUNCTION.is_Greater_Or_Equal.html
• FUNCTION.is_Hidden_Option.html
• FUNCTION.is_Int_Option.html
• FUNCTION.is_Label_Option.html
• FUNCTION.is_Left_Maximal.html
• FUNCTION.is_Less.html
• FUNCTION.is_Less_Or_Equal.html
• FUNCTION.is_Not_Equal.html
• FUNCTION.is_Option_List.html
• FUNCTION.is_Option_Mandatory.html
• FUNCTION.is_Partially_Left_Extensible.html
• FUNCTION.is_Prefix.html
• FUNCTION.is_Reversed.html
• FUNCTION.is_Right_Terminal.html
• FUNCTION.is_Root.html
• FUNCTION.is_Set_Long.html
• FUNCTION.is_Set_Short.html
• FUNCTION.is_Silent.html
• FUNCTION.is_String_Option.html
• FUNCTION.is_Unique.html
• FUNCTION.iter.html
• FUNCTION.key.html
• FUNCTION.kruskals_Algorithm.html
• FUNCTION.label.html
• FUNCTION.layout_Alignment.html
• FUNCTION.lca.html
• FUNCTION.lcp.html
• FUNCTION.lcp_At.html
• FUNCTION.lcp_Length.html
• FUNCTION.lcpe_At.html
• FUNCTION.left_Boundary.html
• FUNCTION.left_Diagonal.html
• FUNCTION.left_Dim0.html
• FUNCTION.left_Dim1.html
• FUNCTION.left_Position.html
• FUNCTION.length.html
• FUNCTION.load_Contig.html
• FUNCTION.load_Contigs.html
• FUNCTION.load_Reads.html
• FUNCTION.load_Score_Matrix.html
• FUNCTION.local_Alignment.html
• FUNCTION.lock_Contig.html
• FUNCTION.lock_Contigs.html
• FUNCTION.log2.html
• FUNCTION.logarithmize.html
• FUNCTION.long_Name.html
• FUNCTION.longest_Common_Subsequence.html
• FUNCTION.longest_Increasing_Subsequence.html
• FUNCTION.lower_Bound_Aligned_Reads.html
• FUNCTION.map_23add.html
• FUNCTION.map_23cargo.html
• FUNCTION.map_23erase.html
• FUNCTION.map_23erase_All.html
• FUNCTION.map_23find.html
• FUNCTION.map_23has_Key.html
• FUNCTION.map_23insert.html
• FUNCTION.map_23value.html
• FUNCTION.map_Value.html
• FUNCTION.match_Refinement.html
• FUNCTION.max_Value.html
• FUNCTION.maximum_Distance.html
• FUNCTION.min_Value.html
• FUNCTION.motif_Count.html
• FUNCTION.move.html
• FUNCTION.move_Source.html
• FUNCTION.move_Value.html
• FUNCTION.mt_Rand.html
• FUNCTION.mt_Rand_Double.html
• FUNCTION.mt_Rand_Init.html
• FUNCTION.multi_Local_Alignment.html
• FUNCTION.needle.html
• FUNCTION.next_S.html
• FUNCTION.next_T.html
• FUNCTION.node_Depth.html
• FUNCTION.node_Hull_Predicate.html
• FUNCTION.node_Predicate.html
• FUNCTION.node_Up.html
• FUNCTION.normalize.html
• FUNCTION.num_Children.html
• FUNCTION.num_Edges.html
• FUNCTION.num_Hits.html
• FUNCTION.num_Hsps.html
• FUNCTION.num_Tree_Edges.html
• FUNCTION.num_Vertices.html
• FUNCTION.obtain_I_D.html
• FUNCTION.obtain_Id.html
• FUNCTION.open.html
• FUNCTION.open_Temp.html
• FUNCTION.ord_Value.html
• FUNCTION.order_Occurrences.html
• FUNCTION.out_Degree.html
• FUNCTION.parent_Edge_First_Char.html
• FUNCTION.parent_Edge_Label.html
• FUNCTION.parent_Edge_Length.html
• FUNCTION.parent_Rep_Length.html
• FUNCTION.parent_Vertex.html
• FUNCTION.parse.html
• FUNCTION.parse_String.html
• FUNCTION.pick_Random_Number.html
• FUNCTION.pop.html
• FUNCTION.pos_Globalize.html
• FUNCTION.pos_Local_To_X.html
• FUNCTION.pos_Localize.html
• FUNCTION.pos_Of_Max.html
• FUNCTION.position.html
• FUNCTION.position_Range.html
• FUNCTION.position_Range_No_Clip.html
• FUNCTION.position_To_Id.html
• FUNCTION.prefix.html
• FUNCTION.prepend_Value.html
• FUNCTION.prims_Algorithm.html
• FUNCTION.print_Alignment.html
• FUNCTION.print_Debug_Level.html
• FUNCTION.progressive_Alignment.html
• FUNCTION.property.html
• FUNCTION.push.html
• FUNCTION.quality_Value.html
• FUNCTION.query_Name.html
• FUNCTION.query_Orientation_Plus.html
• FUNCTION.range.html
• FUNCTION.rawsa_At.html
• FUNCTION.rawtext_At.html
• FUNCTION.re_Align.html
• FUNCTION.read.html
• FUNCTION.read_At.html
• FUNCTION.read_Feature.html
• FUNCTION.read_Line_Type.html
• FUNCTION.read_Meta.html
• FUNCTION.refresh.html
• FUNCTION.release_All.html
• FUNCTION.release_I_D.html
• FUNCTION.release_Id.html
• FUNCTION.remove_All_Children.html
• FUNCTION.remove_Child.html
• FUNCTION.remove_Edge.html
• FUNCTION.remove_Gap.html
• FUNCTION.remove_Gaps.html
• FUNCTION.remove_In_Edges.html
• FUNCTION.remove_Out_Edges.html
• FUNCTION.remove_Value_By_Id.html
• FUNCTION.remove_Vertex.html
• FUNCTION.rep_Length.html
• FUNCTION.replace.html
• FUNCTION.representative.html
• FUNCTION.required_Arguments.html
• FUNCTION.reserve.html
• FUNCTION.resize.html
• FUNCTION.resize_Edge_Map.html
• FUNCTION.resize_Space.html
• FUNCTION.resize_Vertex_Map.html
• FUNCTION.reverse.html
• FUNCTION.reverse_Complement.html
• FUNCTION.rewind.html
• FUNCTION.right_Boundary.html
• FUNCTION.right_Diagonal.html
• FUNCTION.right_Dim0.html
• FUNCTION.right_Dim1.html
• FUNCTION.right_Position.html
• FUNCTION.root.html
• FUNCTION.row.html
• FUNCTION.rows.html
• FUNCTION.sa_At.html
• FUNCTION.score.html
• FUNCTION.score_Gap.html
• FUNCTION.score_Gap_Extend.html
• FUNCTION.score_Gap_Extend_Horizontal.html
• FUNCTION.score_Gap_Extend_Vertical.html
• FUNCTION.score_Gap_Horizontal.html
• FUNCTION.score_Gap_Open.html
• FUNCTION.score_Gap_Open_Horizontal.html
• FUNCTION.score_Gap_Open_Vertical.html
• FUNCTION.score_Gap_Vertical.html
• FUNCTION.score_Limit.html
• FUNCTION.score_Match.html
• FUNCTION.score_Mismatch.html
• FUNCTION.score_Seed.html
• FUNCTION.scoring_Scheme.html
• FUNCTION.seed_Score.html
• FUNCTION.seek.html
• FUNCTION.sequence_Id.html
• FUNCTION.set.html
• FUNCTION.set_Begin.html
• FUNCTION.set_Begin_Position.html
• FUNCTION.set_Default_Score_Matrix.html
• FUNCTION.set_End.html
• FUNCTION.set_End_Position.html
• FUNCTION.set_Eof.html
• FUNCTION.set_Haystack.html
• FUNCTION.set_Help_Text.html
• FUNCTION.set_Host.html
• FUNCTION.set_Left_Diagonal.html
• FUNCTION.set_Left_Dim0.html
• FUNCTION.set_Left_Dim1.html
• FUNCTION.set_Left_Position.html
• FUNCTION.set_Long_Name.html
• FUNCTION.set_Maximum_Distance.html
• FUNCTION.set_Needle.html
• FUNCTION.set_Option_Type.html
• FUNCTION.set_Position.html
• FUNCTION.set_Quality_Value.html
• FUNCTION.set_Right_Diagonal.html
• FUNCTION.set_Right_Dim0.html
• FUNCTION.set_Right_Dim1.html
• FUNCTION.set_Right_Position.html
• FUNCTION.set_Score.html
• FUNCTION.set_Score_Gap.html
• FUNCTION.set_Score_Gap_Extend.html
• FUNCTION.set_Score_Gap_Open.html
• FUNCTION.set_Score_Limit.html
• FUNCTION.set_Score_Match.html
• FUNCTION.set_Score_Mismatch.html
• FUNCTION.set_Scoring_Scheme.html
• FUNCTION.set_Short_Name.html
• FUNCTION.set_Source.html
• FUNCTION.set_Step_Size.html
• FUNCTION.set_Strings.html
• FUNCTION.set_Value.html
• FUNCTION.shape_To_String.html
• FUNCTION.share_Resources.html
• FUNCTION.short_Help.html
• FUNCTION.short_Name.html
• FUNCTION.shrink_To_Fit.html
• FUNCTION.shuffle.html
• FUNCTION.silent_Status.html
• FUNCTION.size.html
• FUNCTION.slow_Nj_Tree.html
• FUNCTION.sort_Aligned_Reads.html
• FUNCTION.source.html
• FUNCTION.source_Begin.html
• FUNCTION.source_End.html
• FUNCTION.source_Length.html
• FUNCTION.source_Segment.html
• FUNCTION.source_Vertex.html
• FUNCTION.split.html
• FUNCTION.start_Diagonal.html
• FUNCTION.string_Set.html
• FUNCTION.string_Set_Limits.html
• FUNCTION.string_To_Shape.html
• FUNCTION.strongly_Connected_Components.html
• FUNCTION.suffix.html
• FUNCTION.sum.html
• FUNCTION.sum_Of_Pairs_Score.html
• FUNCTION.supremum_Value_Impl.html
• FUNCTION.swap.html
• FUNCTION.sys_Time.html
• FUNCTION.target.html
• FUNCTION.target_Vertex.html
• FUNCTION.tell.html
• FUNCTION.text_At.html
• FUNCTION.to_C_String.html
• FUNCTION.to_Lower.html
• FUNCTION.to_Source_Position.html
• FUNCTION.to_Upper.html
• FUNCTION.to_View_Position.html
• FUNCTION.topological_Sort.html
• FUNCTION.transition_Probability.html
• FUNCTION.transitive_Closure.html
• FUNCTION.transpose.html
• FUNCTION.triplet_Library_Extension.html
• FUNCTION.unlock_And_Free_Contig.html
• FUNCTION.unlock_And_Free_Contigs.html
• FUNCTION.unlock_Contig.html
• FUNCTION.unlock_Contigs.html
• FUNCTION.upgma_Tree.html
• FUNCTION.upper_Bound_Aligned_Reads.html
• FUNCTION.value.html
• FUNCTION.value_By_Id.html
• FUNCTION.value_Construct.html
• FUNCTION.value_Construct_Move.html
• FUNCTION.value_Destruct.html
• FUNCTION.variance.html
• FUNCTION.version.html
• FUNCTION.viterbi_Algorithm.html
• FUNCTION.wait_For.html
• FUNCTION.weight.html
• FUNCTION.window_Find_Begin.html
• FUNCTION.window_Find_End.html
• FUNCTION.window_Find_Next.html
• FUNCTION.write.html
• FUNCTION.write_At.html
• FUNCTION.write_Contigs.html
• FUNCTION.zscore.html
• FUNCTION_Allocator_23clear.html
• FUNCTION_Automaton_23label.html
• FUNCTION_Blast_23get_Blast_Match_Score.html
• FUNCTION_Fileformat_23read.html
• FUNCTION_Fileformat_23write.html
• FUNCTION_Graph_23assign_Source.html
• FUNCTION_Graph_23is_Leaf.html
• FUNCTION_Graph_23is_Root.html
• FUNCTION_Index_23is_Leaf.html
• FUNCTION_Pipelining_23front.html
• FUNCTION_Priority_Type_23pop.html
• FUNCTION_Priority_Type_23push.html
• FUNCTION_Priority_Type_23top.html
• INDEXPAGE_Adaption.html
• INDEXPAGE_Class.html
• INDEXPAGE_Concept.html
• INDEXPAGE_Demo.html
• INDEXPAGE_Function.html
• INDEXPAGE_Metafunction.html
• INDEXPAGE_Shortcut.html
• INDEXPAGE_Spec.html
• INDEXPAGE_Tag.html
• INDEX_Adaption.html
• INDEX_Class.html
• INDEX_Class_Aggregates.html
• INDEX_Class_Alignments.html
• INDEX_Class_Basic.html
• INDEX_Class_Blast.html
• INDEX_Class_Fragment+_Store.html
• INDEX_Class_Graph.html
• INDEX_Class_Index.html
• INDEX_Class_Input_2f_Output.html
• INDEX_Class_Map.html
• INDEX_Class_Markov_Model.html
• INDEX_Class_Miscellaneous.html
• INDEX_Class_Modifier.html
• INDEX_Class_Motif+_Search.html
• INDEX_Class_Pipelining.html
• INDEX_Class_Random.html
• INDEX_Class_Searching.html
• INDEX_Class_Seed+_Handling.html
• INDEX_Class_Sequences.html
• INDEX_Concept.html
• INDEX_Demo.html
• INDEX_Demo_Basics.html
• INDEX_Demo_Graph.html
• INDEX_Demo_Index.html
• INDEX_Demo_Miscellaneous.html
• INDEX_Demo_Modifier.html
• INDEX_Demo_Motif+_Search.html
• INDEX_Demo_Searching.html
• INDEX_Demo_System.html
• INDEX_Function.html
• INDEX_Function.sequences.html
• INDEX_Function_Alignments.html
• INDEX_Function_Alphabets.html
• INDEX_Function_Array+_Handling.html
• INDEX_Function_Atomic+_Operations.html
• INDEX_Function_Blast.html
• INDEX_Function_Chaining.html
• INDEX_Function_Class._Align.html
• INDEX_Function_Class.html
• INDEX_Function_Comparisons.html
• INDEX_Function_Containers.html
• INDEX_Function_Content+_Manipulation.html
• INDEX_Function_Dependent+_Objects.html
• INDEX_Function_Fragment+_Store.html
• INDEX_Function_Graph.html
• INDEX_Function_Index.html
• INDEX_Function_Input_2f_Output.html
• INDEX_Function_Iteration.html
• INDEX_Function_Map.html
• INDEX_Function_Memory.html
• INDEX_Function_Misc.html
• INDEX_Function_Miscellaneous.html
• INDEX_Function_Miscellaneous_3a.html
• INDEX_Function_Modifier.html
• INDEX_Function_Modifiers.html
• INDEX_Function_Motif+_Search.html
• INDEX_Function_Pipelining.html
• INDEX_Function_Random.html
• INDEX_Function_Scoring.html
• INDEX_Function_Searching.html
• INDEX_Function_Seed+_Handling.html
• INDEX_Function_Sequences.html
• INDEX_Metafunction.html
• INDEX_Metafunction_Basic.html
• INDEX_Metafunction_Index.html
• INDEX_Metafunction_Map.html
• INDEX_Metafunction_Miscellaneous.html
• INDEX_Metafunction_Searching.html
• INDEX_Metafunction_Sequences.html
• INDEX_Page.html
• INDEX_Shortcut.html
• INDEX_Shortcut_Input_2f_Output.html
• INDEX_Shortcut_Iterators.html
• INDEX_Shortcut_Modifier.html
• INDEX_Shortcut_Pattern+_Matching.html
• INDEX_Shortcut_Scoring.html
• INDEX_Shortcut_Strings.html
• INDEX_Spec.html
• INDEX_Spec_Aggregates.html
• INDEX_Spec_Alignments.html
• INDEX_Spec_Allocators.html
• INDEX_Spec_Alphabets.html
• INDEX_Spec_Blast.html
• INDEX_Spec_Chaining.html
• INDEX_Spec_Files.html
• INDEX_Spec_Graph.html
• INDEX_Spec_Holders.html
• INDEX_Spec_Index.html
• INDEX_Spec_Iterators.html
• INDEX_Spec_Map.html
• INDEX_Spec_Miscellaneous.html
• INDEX_Spec_Modifier.html
• INDEX_Spec_Motif+_Search.html
• INDEX_Spec_Pattern+_Matching.html
• INDEX_Spec_Pipelining.html
• INDEX_Spec_Proxies.html
• INDEX_Spec_Random.html
• INDEX_Spec_Scoring.html
• INDEX_Spec_Searching.html
• INDEX_Spec_Seed+_Handling.html
• INDEX_Spec_Segments.html
• INDEX_Spec_Sequences.html
• INDEX_Spec_Strings.html
• INDEX_Tag.html
• INDEX_Tag_Fragment+_Store.html
• INDEX_Tag_Index.html
• INDEX_Tag_Miscellaneous.html
• INDEX_Tag_Motif+_Search.html
• INDEX_Tag_Random.html
• INDEX_Tag_Scoring.html
• INDEX_Tag_Searching.html
• INDEX_Tag_Seed+_Handling.html
• INDEX_Tag_Strings.html
• MEMFUNC.~_Holder.html
• MEMFUNC_Adaptor_Iterator_23_Iter.html
• MEMFUNC_Align_Quality_Store_Element_23_Align_Quality_Store_Element.html
• MEMFUNC_Aligned_Read_Store_Element_23_Aligned_Read_Store_Element.html
• MEMFUNC_Bottom_Up+_Iterator_23_Iterator.html
• MEMFUNC_Chained_Seed_23_Seed.html
• MEMFUNC_Command_Line_Option_23_Command_Line_Option.html
• MEMFUNC_Command_Line_Parser_23_Command_Line_Parser.html
• MEMFUNC_Concat_Virtual+_Iterator_23_Iter.html
• MEMFUNC_Concatenator_Many_To_One_23_Concatenator_Many_To_One.html
• MEMFUNC_Contig_Store_Element_23_Contig_Store_Element.html
• MEMFUNC_Ext_String_23_String.html
• MEMFUNC_Filter_23_Pipe.html
• MEMFUNC_Finder_23_Finder.html
• MEMFUNC_Fragment_23_Fragment.html
• MEMFUNC_Gap_Anchor_23_Gap_Anchor.html
• MEMFUNC_Gaps_23_Gaps.html
• MEMFUNC_Generic_Shape_23_Shape.html
• MEMFUNC_Geometric+_Pdf_23_Pdf.html
• MEMFUNC_Holder.html
• MEMFUNC_Infix_Segment_23_Segment.html
• MEMFUNC_Interval_And_Cargo_23_Interval_And_Cargo.html
• MEMFUNC_Interval_Tree_23_Interval_Tree.html
• MEMFUNC_Interval_Tree_Node_23_Interval_Tree_Node.html
• MEMFUNC_Library_Store_Element_23_Library_Store_Element.html
• MEMFUNC_Local_Alignment_Finder_23_Local_Alignment_Finder.html
• MEMFUNC_Log-_Normal+_Pdf_23_Pdf.html
• MEMFUNC_Markov_Model_23_Markov_Model.html
• MEMFUNC_Markov_Model_23build.html
• MEMFUNC_Markov_Model_23emitted_Probability.html
• MEMFUNC_Markov_Model_23read.html
• MEMFUNC_Markov_Model_23set.html
• MEMFUNC_Markov_Model_23write.html
• MEMFUNC_Mate_Pair_Store_Element_23_Mate_Pair_Store_Element.html
• MEMFUNC_Max_Repeats+_Iterator_23_Iterator.html
• MEMFUNC_Mersenne+_Twister+_Rng_23_Rng.html
• MEMFUNC_Multi_Mems+_Iterator_23_Iterator.html
• MEMFUNC_Mums+_Iterator_23_Iterator.html
• MEMFUNC_Namer_23_Pipe.html
• MEMFUNC_Normal+_Pdf_23_Pdf.html
• MEMFUNC_One_Gapped_Shape_23_Shape.html
• MEMFUNC_Pair_23_Pair.html
• MEMFUNC_Pipe_23_Pipe.html
• MEMFUNC_Point_And_Cargo_23_Point_And_Cargo.html
• MEMFUNC_Position_Iterator_23_Iter.html
• MEMFUNC_Prefix_Segment_23_Segment.html
• MEMFUNC_Read_Store_Element_23_Read_Store_Element.html
• MEMFUNC_Rng+_Functor_23_Rng.html
• MEMFUNC_Rng_23operator_28_29.html
• MEMFUNC_Score+_Matrix_23_Score.html
• MEMFUNC_Score_23_Score.html
• MEMFUNC_Seed_Set_23_Seed_Set.html
• MEMFUNC_Shape_23_Shape.html
• MEMFUNC_Simple_Seed_23_Seed.html
• MEMFUNC_Simple_Shape_23_Shape.html
• MEMFUNC_Suffix_Segment_23_Segment.html
• MEMFUNC_Super_Max_Repeats+_Iterator_23_Iterator.html
• MEMFUNC_Super_Max_Repeats_Fast+_Iterator_23_Iterator.html
• MEMFUNC_To_Std_Allocator.html
• MEMFUNC_Top_Down+_Iterator_23_Iterator.html
• MEMFUNC_Top_Down_History+_Iterator_23_Iterator.html
• MEMFUNC_Triple_23_Triple.html
• MEMVAR_Align_Quality_Store_Element_23errors.html
• MEMVAR_Align_Quality_Store_Element_23pair_Score.html
• MEMVAR_Align_Quality_Store_Element_23score.html
• MEMVAR_Aligned_Read_Layout_23contig_Rows.html
• MEMVAR_Aligned_Read_Store_Element_23_I_N_V_A_L_I_D___I_D.html
• MEMVAR_Aligned_Read_Store_Element_23begin_Pos.html
• MEMVAR_Aligned_Read_Store_Element_23contig_Id.html
• MEMVAR_Aligned_Read_Store_Element_23end_Pos.html
• MEMVAR_Aligned_Read_Store_Element_23gaps.html
• MEMVAR_Aligned_Read_Store_Element_23id.html
• MEMVAR_Aligned_Read_Store_Element_23pair_Match_Id.html
• MEMVAR_Aligned_Read_Store_Element_23read_Id.html
• MEMVAR_Bundle2_23in1.html
• MEMVAR_Bundle2_23in2.html
• MEMVAR_Bundle3_23in1.html
• MEMVAR_Bundle3_23in2.html
• MEMVAR_Bundle3_23in3.html
• MEMVAR_Bundle5_23in1.html
• MEMVAR_Bundle5_23in2.html
• MEMVAR_Bundle5_23in3.html
• MEMVAR_Bundle5_23in4.html
• MEMVAR_Bundle5_23in5.html
• MEMVAR_Concat_Direct_23concat.html
• MEMVAR_Contig_File_23file_Name.html
• MEMVAR_Contig_File_23first_Contig_Id.html
• MEMVAR_Contig_File_23format.html
• MEMVAR_Contig_Store_Element_23_I_N_V_A_L_I_D___I_D.html
• MEMVAR_Contig_Store_Element_23file_Begin_Pos.html
• MEMVAR_Contig_Store_Element_23file_End_Pos.html
• MEMVAR_Contig_Store_Element_23file_Id.html
• MEMVAR_Contig_Store_Element_23gaps.html
• MEMVAR_Contig_Store_Element_23seq.html
• MEMVAR_Contig_Store_Element_23usage.html
• MEMVAR_Fragment_Store_23align_Quality_Store.html
• MEMVAR_Fragment_Store_23aligned_Read_Store.html
• MEMVAR_Fragment_Store_23aligned_Read_Tag_Store.html
• MEMVAR_Fragment_Store_23annotation_Name_Store.html
• MEMVAR_Fragment_Store_23annotation_Store.html
• MEMVAR_Fragment_Store_23contig_File_Store.html
• MEMVAR_Fragment_Store_23contig_Name_Store.html
• MEMVAR_Fragment_Store_23contig_Store.html
• MEMVAR_Fragment_Store_23library_Name_Store.html
• MEMVAR_Fragment_Store_23library_Store.html
• MEMVAR_Fragment_Store_23mate_Pair_Name_Store.html
• MEMVAR_Fragment_Store_23mate_Pair_Store.html
• MEMVAR_Fragment_Store_23read_Name_Store.html
• MEMVAR_Fragment_Store_23read_Seq_Store.html
• MEMVAR_Fragment_Store_23read_Store.html
• MEMVAR_Gap_Anchor_23gap_Pos.html
• MEMVAR_Gap_Anchor_23seq_Pos.html
• MEMVAR_Interval_And_Cargo_23cargo.html
• MEMVAR_Interval_And_Cargo_23i1.html
• MEMVAR_Interval_And_Cargo_23i2.html
• MEMVAR_Interval_Tree_Node_23center.html
• MEMVAR_Interval_Tree_Node_23list1.html
• MEMVAR_Interval_Tree_Node_23list2.html
• MEMVAR_Library_Store_Element_23mean.html
• MEMVAR_Library_Store_Element_23std.html
• MEMVAR_Markov_Model_23order.html
• MEMVAR_Markov_Model_23stationary_Distribution.html
• MEMVAR_Markov_Model_23transition.html
• MEMVAR_Mate_Pair_Store_Element_23_I_N_V_A_L_I_D___I_D.html
• MEMVAR_Mate_Pair_Store_Element_23lib_Id.html
• MEMVAR_Mate_Pair_Store_Element_23read_Id[2].html
• MEMVAR_Name_Store_Cache_23_Name_Store_Cache.html
• MEMVAR_Open_Addressing_23alpha.html
• MEMVAR_Pair_23i1.html
• MEMVAR_Pair_23i2.html
• MEMVAR_Point_And_Cargo_23cargo.html
• MEMVAR_Point_And_Cargo_23point.html
• MEMVAR_Read_Store_Element_23_I_N_V_A_L_I_D___I_D.html
• MEMVAR_Read_Store_Element_23mate_Pair_Id.html
• MEMVAR_Tag_Selector_23tag_Id.html
• MEMVAR_Triple_23i1.html
• MEMVAR_Triple_23i2.html
• MEMVAR_Triple_23i3.html
• METAFUNCTION_Allows_Fast_Random_Access.html
• METAFUNCTION_Alphabet.html
• METAFUNCTION_Bits_Per_Value.html
• METAFUNCTION_Bytes_Per_Value.html
• METAFUNCTION_Cargo.html
• METAFUNCTION_Col.html
• METAFUNCTION_Cols.html
• METAFUNCTION_Comparator.html
• METAFUNCTION_Compare_Type.html
• METAFUNCTION_Concatenator.html
• METAFUNCTION_Container.html
• METAFUNCTION_Convert.html
• METAFUNCTION_Deepest_Spec.html
• METAFUNCTION_Default_Find_Begin_Pattern_Spec.html
• METAFUNCTION_Default_Finder.html
• METAFUNCTION_Default_Get_Iterator_Spec.html
• METAFUNCTION_Default_Index_Creator.html
• METAFUNCTION_Default_Index_Spec.html
• METAFUNCTION_Default_Index_String_Spec.html
• METAFUNCTION_Default_Iterator_Spec.html
• METAFUNCTION_Default_Overflow_Explicit.html
• METAFUNCTION_Default_Overflow_Implicit.html
• METAFUNCTION_Default_Pattern.html
• METAFUNCTION_Default_Prefix_Order.html
• METAFUNCTION_Difference.html
• METAFUNCTION_Edge_Descriptor.html
• METAFUNCTION_Edge_Id_Handler.html
• METAFUNCTION_Edge_Type.html
• METAFUNCTION_Fibre.html
• METAFUNCTION_Gapped_Value_Type.html
• METAFUNCTION_Get_Source.html
• METAFUNCTION_Get_V_S_Tree_Iterator_Traits.html
• METAFUNCTION_Get_Value.html
• METAFUNCTION_Haystack.html
• METAFUNCTION_Hit.html
• METAFUNCTION_Host.html
• METAFUNCTION_Hsp.html
• METAFUNCTION_Id.html
• METAFUNCTION_Infix.html
• METAFUNCTION_Insertion_Buffer.html
• METAFUNCTION_Integral_For_Value.html
• METAFUNCTION_Is_Contiguous.html
• METAFUNCTION_Is_Integral.html
• METAFUNCTION_Is_Sequence.html
• METAFUNCTION_Is_Simple.html
• METAFUNCTION_Iter_Complement_Const.html
• METAFUNCTION_Iter_Make_Const.html
• METAFUNCTION_Iterator.html
• METAFUNCTION_Journal_Type.html
• METAFUNCTION_Key.html
• METAFUNCTION_L_E_N_G_T_H.html
• METAFUNCTION_List_Type.html
• METAFUNCTION_Map_Value.html
• METAFUNCTION_Max_Value.html
• METAFUNCTION_Min_Value.html
• METAFUNCTION_Motif.html
• METAFUNCTION_Needle.html
• METAFUNCTION_Pex_Multi_Finder.html
• METAFUNCTION_Position.html
• METAFUNCTION_Prefix.html
• METAFUNCTION_Reference.html
• METAFUNCTION_Row.html
• METAFUNCTION_Rows.html
• METAFUNCTION_S_A_Value.html
• METAFUNCTION_Scoring_Scheme.html
• METAFUNCTION_Size.html
• METAFUNCTION_Source.html
• METAFUNCTION_Spec.html
• METAFUNCTION_Std_Container_Iterator.html
• METAFUNCTION_String_Set_Type.html
• METAFUNCTION_Suffix.html
• METAFUNCTION_Value.html
• METAFUNCTION_Value_Size.html
• METAFUNCTION_Vertex_Descriptor.html
• METAFUNCTION_Vertex_Id_Handler.html
• METAFUNCTION_W_E_I_G_H_T.html
• METAFUNCTION_Weight.html
• PAGE.dddoc.html
• PAGE_Glossary.html
• SHORTCUT_Blosum30.html
• SHORTCUT_Blosum45.html
• SHORTCUT_Blosum62.html
• SHORTCUT_Blosum80.html
• SHORTCUT_Char_Iterator.html
• SHORTCUT_Char_String.html
• SHORTCUT_Dna5_Iterator.html
• SHORTCUT_Dna5_String.html
• SHORTCUT_Dna5_String_Complement.html
• SHORTCUT_Dna5_String_Reverse.html
• SHORTCUT_Dna5_String_Reverse_Complement.html
• SHORTCUT_Dna_Iterator.html
• SHORTCUT_Dna_String.html
• SHORTCUT_Dna_String_Complement.html
• SHORTCUT_Dna_String_Reverse.html
• SHORTCUT_Dna_String_Reverse_Complement.html
• SHORTCUT_Edit_Distance_Score.html
• SHORTCUT_Iupac_Iterator.html
• SHORTCUT_Iupac_String.html
• SHORTCUT_Mod_Complement_Dna.html
• SHORTCUT_Mod_Complement_Dna5.html
• SHORTCUT_Mod_Complement_Rna.html
• SHORTCUT_Mod_Complement_Rna5.html
• SHORTCUT_Multi_Fasta.html
• SHORTCUT_Multi_Seq_File.html
• SHORTCUT_Myers_Ukkonen.html
• SHORTCUT_Myers_Ukkonen_Banded.html
• SHORTCUT_Myers_Ukkonen_Global.html
• SHORTCUT_Myers_Ukkonen_Global_Banded.html
• SHORTCUT_Pam40.html
• SHORTCUT_Pam120.html
• SHORTCUT_Pam200.html
• SHORTCUT_Pam250.html
• SHORTCUT_Peptide.html
• SHORTCUT_Peptide_Iterator.html
• SHORTCUT_Rna5_Iterator.html
• SHORTCUT_Rna5_String.html
• SHORTCUT_Rna5_String_Complement.html
• SHORTCUT_Rna5_String_Reverse.html
• SHORTCUT_Rna5_String_Reverse_Complement.html
• SHORTCUT_Rna_Iterator.html
• SHORTCUT_Rna_String.html
• SHORTCUT_Rna_String_Complement.html
• SHORTCUT_Rna_String_Reverse.html
• SHORTCUT_Rna_String_Reverse_Complement.html
• SHORTCUT_Simple_Score.html
• SHORTCUT_Unicode_Iterator.html
• SHORTCUT_Unicode_String.html
• SHORTCUT_Vtml200.html
• SPEC_Abndm_Algo.html
• SPEC_Adaptor+_Iterator.html
• SPEC_Adjacency+_Iterator.html
• SPEC_Aho_Corasick.html
• SPEC_Align_Col_Iterator.html
• SPEC_Alignment+_Graph.html
• SPEC_Alloc+_String.html
• SPEC_Alphabet+_Expansion.html
• SPEC_Amino_Acid.html
• SPEC_Anchor_Gaps.html
• SPEC_Array+_String.html
• SPEC_Array_Gaps.html
• SPEC_Async.html
• SPEC_Automaton.html
• SPEC_Basic_Info.html
• SPEC_Bfam.html
• SPEC_Bfam_3c_Oracle_3e.html
• SPEC_Bfam_3c_Trie_3e.html
• SPEC_Bfs+_Iterator.html
• SPEC_Bit+_Compressed+_Pair.html
• SPEC_Bit+_Packed+_Tuple.html
• SPEC_Blast_N.html
• SPEC_Blast_P.html
• SPEC_Block+_String.html
• SPEC_Bndm_Algo.html
• SPEC_Bottom_Up+_Iterator.html
• SPEC_C_Mode.html
• SPEC_C_Style+_String.html
• SPEC_Caster.html
• SPEC_Chained.html
• SPEC_Chained_Seed.html
• SPEC_Chunk+_Pool+_Allocator.html
• SPEC_Concat_Direct.html
• SPEC_Concat_Virtual+_Iterator.html
• SPEC_Counter.html
• SPEC_Counting+_Id_Manager.html
• SPEC_D_P_Search.html
• SPEC_Dependent.html
• SPEC_Dfs+_Preorder+_Iterator.html
• SPEC_Directed+_Graph.html
• SPEC_Dna.html
• SPEC_Dna5.html
• SPEC_Dna5_Q.html
• SPEC_Dna_Q.html
• SPEC_E_Pattern_Branching.html
• SPEC_Echoer.html
• SPEC_Edge+_Iterator.html
• SPEC_Edit_Distance.html
• SPEC_Edit_Environment.html
• SPEC_Exact_Fragment.html
• SPEC_Exact_Reversable_Fragment.html
• SPEC_External+_String.html
• SPEC_File+_Reader+_String.html
• SPEC_Filter.html
• SPEC_Finite.html
• SPEC_Full_Info.html
• SPEC_Gapped_Shape.html
• SPEC_Generic_Shape.html
• SPEC_Geometric+_Pdf.html
• SPEC_Hamming_Simple_Finder.html
• SPEC_Hierarchical.html
• SPEC_Hit_Iterator.html
• SPEC_Hmm.html
• SPEC_Horspool.html
• SPEC_Hsp_Iterator.html
• SPEC_Index_Dfi.html
• SPEC_Index_Esa.html
• SPEC_Index_Q_Gram.html
• SPEC_Index_Wotd.html
• SPEC_Infix_Segment.html
• SPEC_Interval+_Tree+_Node.html
• SPEC_Iterator+_Proxy.html
• SPEC_Iupac.html
• SPEC_Joiner.html
• SPEC_Journaled+_String.html
• SPEC_Log-_Normal+_Pdf.html
• SPEC_M_Map+_String.html
• SPEC_Mapper_Config.html
• SPEC_Mapper_Config_Size.html
• SPEC_Mapper_Spec.html
• SPEC_Max_Repeats+_Iterator.html
• SPEC_Memory_Manager_Index.html
• SPEC_Memory_Manager_Pointer.html
• SPEC_Mersenne+_Twister+_Rng.html
• SPEC_Mod_Reverse.html
• SPEC_Mod_View.html
• SPEC_Multi+_Pool+_Allocator.html
• SPEC_Multi_Bfam.html
• SPEC_Multi_Bfam_3c_Oracle_3e.html
• SPEC_Multi_Mems+_Iterator.html
• SPEC_Multi_Seed.html
• SPEC_Multiple_Shift_And.html
• SPEC_Mums+_Iterator.html
• SPEC_Myers.html
• SPEC_Namer.html
• SPEC_Non_Hierarchical.html
• SPEC_Non_Scored+_Seed_Set.html
• SPEC_Normal+_Pdf.html
• SPEC_One_Gapped_Shape.html
• SPEC_Open_Addressing.html
• SPEC_Oracle.html
• SPEC_Out-_Edge+_Iterator.html
• SPEC_Owner.html
• SPEC_P_Mode.html
• SPEC_Packed+_Pair.html
• SPEC_Packed+_String.html
• SPEC_Packed+_Triple.html
• SPEC_Pex.html
• SPEC_Pizza+_26+_Chili+_Index.html
• SPEC_Pizza+_26+_Chili+_String.html
• SPEC_Pms1.html
• SPEC_Pmsp.html
• SPEC_Points+_Only+_Tree+_Node.html
• SPEC_Pool_Config.html
• SPEC_Pool_Config_Size.html
• SPEC_Pool_Spec.html
• SPEC_Position+_Iterator.html
• SPEC_Prefix_Segment.html
• SPEC_Priority_Heap.html
• SPEC_Projection.html
• SPEC_Rna.html
• SPEC_Rna5.html
• SPEC_Rng+_Functor.html
• SPEC_Sampler.html
• SPEC_Score+_Chain_So_P.html
• SPEC_Score+_Manhattan.html
• SPEC_Score+_Matrix.html
• SPEC_Score+_Zero.html
• SPEC_Scored+_Seed_Set.html
• SPEC_Set_Horspool.html
• SPEC_Shift_And.html
• SPEC_Shift_Or.html
• SPEC_Shifter.html
• SPEC_Simple+_Allocator.html
• SPEC_Simple+_Finder.html
• SPEC_Simple+_Score.html
• SPEC_Simple_Iterator.html
• SPEC_Simple_Seed.html
• SPEC_Simple_Shape.html
• SPEC_Single+_Pool+_Allocator.html
• SPEC_Skiplist.html
• SPEC_Sorter_Config.html
• SPEC_Sorter_Config_Size.html
• SPEC_Sorter_Spec.html
• SPEC_Source.html
• SPEC_Store_Report.html
• SPEC_Stream_Report.html
• SPEC_Striped.html
• SPEC_Suffix_Segment.html
• SPEC_Sumlist_Gaps.html
• SPEC_Super_Max_Repeats+_Iterator.html
• SPEC_Super_Max_Repeats_Fast+_Iterator.html
• SPEC_Swift.html
• SPEC_Swift_Local.html
• SPEC_Swift_Semi_Global.html
• SPEC_Sync.html
• SPEC_Top_Down+_Iterator.html
• SPEC_Top_Down_History+_Iterator.html
• SPEC_Trace_Back.html
• SPEC_Tree.html
• SPEC_Trie.html
• SPEC_Tristate+_Holder.html
• SPEC_Tupler.html
• SPEC_Undirected+_Graph.html
• SPEC_Ungapped_Shape.html
• SPEC_Uniform+_Pdf.html
• SPEC_V_S_Tree+_Iterator.html
• SPEC_Vector_Set.html
• SPEC_Vertex+_Iterator.html
• SPEC_Wild_Shift_And.html
• SPEC_Word+_Graph.html
• SPEC_Wu_Manber.html
• TAG.sort_Aligned_Read+_Tags.html
• TAG_Alignment+_Graph+_Combination.html
• TAG_Alignment+_Graph+_Format.html
• TAG_Allocator+_Usage.html
• TAG_Consensus+_Calling.html
• TAG_Default.html
• TAG_Distance+_Calculation.html
• TAG_Dot_Drawing.html
• TAG_E_S_A+_Index+_Fibres.html
• TAG_Empty_Edges.html
• TAG_External_Config.html
• TAG_External_Config_Large.html
• TAG_External_Config_Size.html
• TAG_File+_Format.html
• TAG_Find_Infix.html
• TAG_Find_Prefix.html
• TAG_Global+_Alignment+_Algorithms.html
• TAG_Graph+_Iterator.html
• TAG_Hamming_Distance.html
• TAG_Hide_Empty_Edges.html
• TAG_Index+_Find+_Algorithm.html
• TAG_Interval_Tree+_Centers.html
• TAG_Interval_Tree+_Node+_Types.html
• TAG_Iterator+_Spec.html
• TAG_Levenshtein_Distance.html
• TAG_Local+_Alignment+_Algorithms.html
• TAG_Logical+_Values.html
• TAG_Mean_Std_Dev.html
• TAG_Move+_Switch.html
• TAG_Mu_Sigma.html
• TAG_Nothing.html
• TAG_Omops.html
• TAG_Oops.html
• TAG_Overflow+_Strategy.html
• TAG_Pizza+_26+_Chili+_Index+_Fibres.html
• TAG_Pizza+_26+_Chili+_Index+_Tags.html
• TAG_Postorder.html
• TAG_Postorder_Empty_Edges.html
• TAG_Prefix+_Order.html
• TAG_Preorder.html
• TAG_Preorder_Empty_Edges.html
• TAG_Q_Gram+_Index+_Fibres.html
• TAG_Seed+_Adding.html
• TAG_Seed+_Extension.html
• TAG_Seed_Set.html
• TAG_Segment+_Match+_Generation.html
• TAG_Simple.html
• TAG_Tag_List.html
• TAG_Tcm.html
• TAG_Upgma+_Configurator.html
• TAG_W_O_T_D+_Index+_Fibres.html
• TAG_Zoops.html
• TYPEDEF_Aligned_Read_Store_Element_23_T_Gap_Anchors.html
• TYPEDEF_Aligned_Read_Store_Element_23_T_Pos.html
• TYPEDEF_Aligned_Read_Store_Element_23_T_Spec.html
• TYPEDEF_Contig_Store_Element_23_T_Contig_Seq.html
• TYPEDEF_Contig_Store_Element_23_T_Gap_Anchors.html
• TYPEDEF_Contig_Store_Element_23_T_Pos.html
• TYPEDEF_Contig_Store_Element_23_T_Spec.html
• TYPEDEF_Fragment_Store_23_T_Align_Quality_Store.html
• TYPEDEF_Fragment_Store_23_T_Aligned_Read_Store.html
• TYPEDEF_Fragment_Store_23_T_Aligned_Read_Tag_Store.html
• TYPEDEF_Fragment_Store_23_T_Annotation_Name_Store.html
• TYPEDEF_Fragment_Store_23_T_Annotation_Store.html
• TYPEDEF_Fragment_Store_23_T_Contig_File_Store.html
• TYPEDEF_Fragment_Store_23_T_Contig_Name_Store.html
• TYPEDEF_Fragment_Store_23_T_Contig_Store.html
• TYPEDEF_Fragment_Store_23_T_Library_Name_Store.html
• TYPEDEF_Fragment_Store_23_T_Library_Store.html
• TYPEDEF_Fragment_Store_23_T_Mate_Pair_Name_Store.html
• TYPEDEF_Fragment_Store_23_T_Mate_Pair_Store.html
• TYPEDEF_Fragment_Store_23_T_Read_Name_Store.html
• TYPEDEF_Fragment_Store_23_T_Read_Seq_Store.html
• TYPEDEF_Fragment_Store_23_T_Read_Store.html
• alignment.cpp
• alignmentGraph.png
• alignment_local.cpp
• allocator.cpp
• alphabet.cpp
• automatonGraph.png
• blast_report.cpp
• dddoc.js
• dddoc_empty.gif
• dddoc_html.css
• dddoc_minus.gif
• dddoc_plus.gif
• directedGraph.png
• file_format.cpp
• find_approx.cpp
• find_exact.cpp
• find_motif.cpp
• find_wild.cpp
• graph_algo_bfs.cpp
• graph_algo_dfs.cpp
• graph_algo_flow_fordfulkerson.cpp
• graph_algo_his.cpp
• graph_algo_lcs.cpp
• graph_algo_lis.cpp
• graph_algo_path_allpairs.cpp
• graph_algo_path_bellmanford.cpp
• graph_algo_path_dag.cpp
• graph_algo_path_dijkstra.cpp
• graph_algo_path_floydwarshall.cpp
• graph_algo_path_transitive.cpp
• graph_algo_scc.cpp
• graph_algo_topsort.cpp
• graph_algo_tree_kruskal.cpp
• graph_algo_tree_prim.cpp
• graph_hmm.cpp
• graph_hmm_silent.cpp
• index.html
• index_find.cpp
• index_find_stringset.cpp
• index_maxrepeats.cpp
• index_mummy.cpp
• index_mums.cpp
• index_node_predicate.cpp
• index_sufarray.cpp
• index_supermaxrepeats.cpp
• iterator.cpp
• modifier_modreverse.cpp
• modifier_modview.cpp
• modifier_nested.cpp
• pizzachili.cpp
• rooted_iterator.cpp
• searchfile.js
• seqan_logo.gif
• seqan_logo_large.png
• shape_predefined.h
• treeGraph.png
• trieGraph.png
• undirectedGraph.png