AlignmentOpts Struct Reference

options for local and global sequence alignment algorithms More...

#include <alignment_opts.hh>

Public Member Functions
	AlignmentOpts (int gap_open, int gap_ext, const SubstWeightMatrixPtr &weights)
Data Fields
int	gap_open_penalty
int	gap_extension_penalty
SubstWeightMatrixPtr	subst_weights

---

Detailed Description

options for local and global sequence alignment algorithms

See also:

LocalSequenceAlign, GlobalSequenceAlign

Definition at line 32 of file alignment_opts.hh.

---

Constructor & Destructor Documentation

AlignmentOpts	(	int	gap_open,
		int	gap_ext,
		const SubstWeightMatrixPtr &	weights
	)			[inline]

Definition at line 33 of file alignment_opts.hh.

---

Field Documentation

int gap_extension_penalty

Definition at line 40 of file alignment_opts.hh.

int gap_open_penalty

Definition at line 39 of file alignment_opts.hh.

SubstWeightMatrixPtr subst_weights

Definition at line 41 of file alignment_opts.hh.

---

The documentation for this struct was generated from the following file:

• stage/include/ost/seq/alg/alignment_opts.hh