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NCBI C++ ToolKit: src/objtools/alnmgr/alndiag.cpp Source File

m_FirstWidth(first_width),

m_SecondWidth(second_width)

difference.

(*substrahend_it);

((

)

.GetLength() <= 0) {

(r_it ==

()) {

trim =

.GetFirstToOpen() - r_it->GetFirstFrom();

TAlnRngCollExt::const_iterator& r_it)

trim = (r_it->second->GetSecondFrom() <= rng.

());

((

)

.GetLength() <= 0) {

trim =

.GetSecondToOpen() - r_it->second->GetSecondFrom();

void Init(const TColl &coll)

const_iterator end() const

TFrom2Range::const_iterator const_iterator

const_iterator begin() const

class CAlignRangeCollection<TAlignRange> represent a sorted collection of TAlignRange.

TAlignRangeVector::const_iterator const_iterator

const_iterator insert(const TAlignRange &r)

const_iterator end() const

const_iterator begin() const

CAlignRange Represents an element of pairwise alignment of two sequences.

void x_Diff(const TAlnRng &rng, TAlnRngColl &result, TAlnRngColl::const_iterator &r_it)

void TrimFirstTo(TAlnRng &rng, int trim)

void TrimSecondTo(TAlnRng &rng, int trim)

CDiagRangeCollection(int first_width=1, int second_width=1)

Constructor.

void TrimSecondFrom(TAlnRng &rng, int trim)

void TrimFirstFrom(TAlnRng &rng, int trim)

Trimming methods.

void x_DiffSecond(const TAlnRng &rng, TAlnRngColl &result, TAlnRngCollExt::const_iterator &r_it)

void Diff(const TAlnRngColl &substrahend, TAlnRngColl &difference)

Calculate a difference.

TAlnRngCollExt m_Extender

#define ITERATE(Type, Var, Cont)

ITERATE macro to sequence through container elements.

position_type GetFirstToOpen(void) const

position_type GetSecondFrom(void) const

position_type GetFirstFrom(void) const

position_type GetSecondToOpen(void) const

#define END_NCBI_SCOPE

End previously defined NCBI scope.

#define BEGIN_NCBI_SCOPE

Define ncbi namespace.

double r(size_t dimension_, const Int4 *score_, const double *prob_, double theta_)

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