ymir::AlignmentMatrixBase< AlignmentType > Member List

This is the complete list of members for ymir::AlignmentMatrixBase< AlignmentType >, including all inherited members.

AlignmentMatrixBase() (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline
AlignmentMatrixBase(seg_index_t gene, const sequence_t &pattern, const sequence_t &text) (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline
bit_storage_t typedef (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >
default_ncols (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	static
default_nrows (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	static
getBestAlignment(AlignmentType *vec, const sequence_t &pattern, const sequence_t &text) const (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >
reinit(seg_index_t gene, const sequence_t &pattern, const sequence_t &text) (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline
score(seq_len_t row, seq_len_t col) const (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline
score(seq_len_t row, seq_len_t col) (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline
score_storage_t typedef (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >
setStart(seq_len_t row, seq_len_t col) (defined in ymir::AlignmentMatrixBase< AlignmentType >)	ymir::AlignmentMatrixBase< AlignmentType >	inline