#include <params.hh>

Inheritance diagram for LocARNA::AlignerPParams:

Public Member Functions
AlignerPParams &	min_am_prob (double min_am_prob)
	set parameter min_am_prob
AlignerPParams &	min_bm_prob (double min_bm_prob)
	set parameter min_bm_prob
AlignerPParams &	pf_scale (pf_score_t pf_scale)
	set parameter pf_scale
Protected Member Functions
	AlignerPParams ()
Protected Attributes
double	min_am_prob_
	minimal probability of an arc match
double	min_bm_prob_
	minimal probability of a base match
pf_score_t	pf_scale_
	scaling factor for partition function
Friends
class	AlignerP

Detailed Description

parameters for AlignerP

Constructor & Destructor Documentation

LocARNA::AlignerPParams::AlignerPParams ( ) [inline, protected]

Construct with default parameters

AlignerPParams& LocARNA::AlignerPParams::min_am_prob ( double min_am_prob ) [inline]

set parameter min_am_prob

Parameters:

min_am_prob minimal probability of an arc match

AlignerPParams& LocARNA::AlignerPParams::min_bm_prob ( double min_bm_prob ) [inline]

set parameter min_bm_prob

Parameters:

min_bm_prob minimal probability of a base match

AlignerPParams& LocARNA::AlignerPParams::pf_scale ( pf_score_t pf_scale ) [inline]

set parameter pf_scale

Parameters:

pf_scale scaling factor for partition function

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