#include <ncbi_pch.hpp>
#include "messages.hpp"
#include <algo/align/nw/nw_spliced_aligner32.hpp>
#include <algo/align/nw/align_exception.hpp>

Include dependency graph for nw_spliced_aligner32.cpp:

Go to the SVN repository for this file.

Classes
class	CDonorAcceptorMatrix

Variables
const unsigned char	g_nwspl32_donor [splice_type_count_32][2]

const unsigned char	g_nwspl32_acceptor [splice_type_count_32][2]

const Uint4	kTypeDiag = 0x00000000

const Uint4	kTypeGap = 0x40000000

const Uint4	kTypeIntron = 0x80000000

Variable Documentation

◆ g_nwspl32_acceptor

const unsigned char g_nwspl32_acceptor[splice_type_count_32][2]

Initial value:

= {
    {'A','G'}, 
    {'A','G'}, 
    {'A','C'}  
}

Definition at line 48 of file nw_spliced_aligner32.cpp.

Referenced by CSplicedAligner32::x_Align().

◆ g_nwspl32_donor

const unsigned char g_nwspl32_donor[splice_type_count_32][2]

Initial value:

= {
    {'G','T'}, 
    {'G','C'}, 
    {'A','T'}  
}

Definition at line 42 of file nw_spliced_aligner32.cpp.

Referenced by CSplicedAligner32::ScoreFromTranscript(), and CSplicedAligner32::x_Align().

◆ kTypeDiag

const Uint4 kTypeDiag = 0x00000000

Definition at line 57 of file nw_spliced_aligner32.cpp.

Referenced by CSplicedAligner32::x_Align(), and CSplicedAligner32::x_DoBackTrace().

◆ kTypeGap

const Uint4 kTypeGap = 0x40000000

Definition at line 58 of file nw_spliced_aligner32.cpp.

Referenced by CSplicedAligner32::x_Align().

◆ kTypeIntron

const Uint4 kTypeIntron = 0x80000000

Definition at line 59 of file nw_spliced_aligner32.cpp.