#include <genome_state.hpp>
Inheritance diagram for vg::ReplaceLocalHaplotypeCommand:
Public Member Functions | |
| virtual GenomeStateCommand * | execute (GenomeState &state) const |
| virtual | ~ReplaceLocalHaplotypeCommand ()=default |
 Public Member Functions inherited from vg::GenomeStateCommand | |
| virtual | ~GenomeStateCommand ()=default |
Public Attributes | |
| unordered_map< const Snarl *, vector< size_t > > | deletions |
| unordered_map< const Snarl *, vector< vector< pair< handle_t, size_t > > > > | insertions |
Detailed Description
We can use this to replace a local haplotype within one or more snarls. We also could just express all the deletions and insertions in terms of this.
Constructor & Destructor Documentation
◆ ~ReplaceLocalHaplotypeCommand()
|
virtualdefault |
Member Function Documentation
◆ execute()
|
virtual |
Execute this command on the given state and return the reverse command. Generally ends up calling a command-type-specific method on the GenomeState that does the actual work.
Implements vg::GenomeStateCommand.
Member Data Documentation
◆ deletions
| unordered_map<const Snarl*, vector<size_t> > vg::ReplaceLocalHaplotypeCommand::deletions |
Holds, for each snarl, the overall lanes that have to be deleted. Each deleted overall lane for a snarl that is still traversed from its parent needs to be replaced in insertions. Deletions happen first.
◆ insertions
| unordered_map<const Snarl*, vector<vector<pair<handle_t, size_t> > > > vg::ReplaceLocalHaplotypeCommand::insertions |
Holds, for each Snarl, the visits and their lane assignments that have to be inserted.
The documentation for this struct was generated from the following files:
- src/genome_state.hpp
- src/genome_state.cpp
