Scaffolding  0.1
This program can assemble genome scaffolds using the pairing information in paired-end reads.
Class Index
B | C | D | E | G | I | L | M | N | O | P | R | S | T | U | V | Y
  B  
Instance (scaffold)   
  R  
  b  
graph_parameters (scaffold::graph_parameters)   
  L  
gviz_edge_writer_with_jumps (scaffold::io)   
Branch (scaffold::solv)   RelaxCallback (scaffold::solv::ilp)   bad_syntax (except)   gviz_property_writer (scaffold::io)   
BridgeInfo (scaffold::graph_infos)   LazyCyclesBlockCallback (scaffold::solv::ilp)   
  S  
  c  
gviz_simple_edge_writer (scaffold::io)   
  C  
  M  
gviz_simple_graph_writer (scaffold::io)   
ScafEdgeProperty (scaffold)   callback_statistics (scaffold::solv::ilp)   gviz_simple_vertex_writer (scaffold::io)   
Compare_Instance_Size (scaffold::solv::DP)   MatchingPredicate (scaffold::predicates)   ScaffoldGraph (scaffold)   contained_filter (scaffold::filters)   
  i  
ComponentInfo (scaffold::graph_infos)   MatrixEntry (scaffold)   ScafGraphProperty (scaffold)   contig_jump (scaffold)   
ContainedPredicate (scaffold::predicates)   MaxDegreeInfo (scaffold::graph_infos)   ScafVertexProperty (scaffold)   
  d  
ilp_options (scaffold::solv::ilp)   
  D  
  O  
Solution (scaffold)   info_not_up_to_date (except)   
StructuralInfo (scaffold::graph_infos)   d_to_P_map (scaffold::solv::DP)   interval (scaffold::graph_parameters)   
DistanceScore (scaffold::scoring)   OrientedSequence (scaffold)   
  T  
degree_cmp   invalid_assumption (except)   
DP_Table (scaffold::solv::DP)   
  P  
degree_greater (scaffold::graph_parameters)   invalid_options (except)   
DynProgSolution (scaffold::solv::DP)   TargetContainedPredicate (scaffold::predicates)   degree_less (scaffold::graph_parameters)   
  l  
  E  
P_to_pc_map (scaffold::solv::DP)   TD_Subgraph (scaffold)   diagonal_counter   
PathsAndCycles   TreeDPinfos (scaffold::solv::trees)   
  e  
low_priority_queue (std)   
EdgeHasher   PCMinMatrix (scaffold)   TruePredicate (scaffold::predicates)   
  m  
  G  
PermissiveMatching (scaffold)   
  U  
edge_component_t   
Predicate (scaffold::predicates)   
  g  
map_filter (scaffold::filters)   
GraphInfos (scaffold::graph_infos)   Predicated_EdgeIter (scaffold)   UseCountedOrientedSequence (scaffold)   
  n  
  I  
PredicatedDistanceScore (scaffold::scoring)   
  V  
global_list (scaffold)   
normal_distribution (scaffold)   
IdentityScore (scaffold::scoring)   VP_contained_filter (scaffold::filters)   
B | C | D | E | G | I | L | M | N | O | P | R | S | T | U | V | Y