Scaffolding
0.1
This program can assemble genome scaffolds using the pairing information in paired-end reads.
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This is the complete list of members for phylo::PhyloNet, including all inherited members.
add_arc(const InternVertexPair &e) (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
add_arc(const InternVertex &u, const InternVertex &v) (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
add_vertex(const InternVertex &parent, const size_t idx=0, const std::string &name="") (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
add_vertex(const std::list< InternVertex > &parents, const size_t idx=0, const std::string &name="") (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
Arc typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
delete_vertex(const InternVertex &v) (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
get_leaves() const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
get_name(const InternVertex &v) const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
get_network() const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
get_parents(const InternVertex &u) const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
get_root() const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
InEdgeIter typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InEdgeIterRange typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InternalNet typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InternVertex typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InternVertexList typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InternVertexPair typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
InternVertexSet typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
make_leaf(const InternVertex &v, const std::string &name) (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
net (defined in phylo::PhyloNet) | phylo::PhyloNet | |
num_edges() const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
num_vertices() const (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |
OutEdgeIter typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
OutEdgeIterRange typedef (defined in phylo::PhyloNet) | phylo::PhyloNet | |
root (defined in phylo::PhyloNet) | phylo::PhyloNet | protected |
set_root(const size_t idx=0) (defined in phylo::PhyloNet) | phylo::PhyloNet | inline |