InputData Class Reference

#include <input_data.h>

Collaboration diagram for InputData:

Public Member Functions
	InputData ()
void	printParameters () const
std::string	getLongReadBam () const
void	setLongReadBam (std::string filepath)
void	setHMMFilepath (std::string filepath)
std::string	getHMMFilepath () const
void	setRefGenome (std::string filepath)
std::string	getRefGenome () const
void	setAlleleFreqFilepaths (std::string filepath)
std::string	getAlleleFreqFilepath (std::string chr) const
void	setSNPFilepath (std::string filepath)
std::string	getSNPFilepath () const
void	setEthnicity (std::string ethnicity)
std::string	getEthnicity () const
void	setAssemblyGaps (std::string filepath)
std::string	getAssemblyGaps () const
void	setSampleSize (int sample_size)
int	getSampleSize () const
void	setMinCNVLength (int min_cnv_length)
uint32_t	getMinCNVLength () const
void	setDBSCAN_Epsilon (double epsilon)
double	getDBSCAN_Epsilon () const
void	setDBSCAN_MinPtsPct (double min_pts_pct)
double	getDBSCAN_MinPtsPct () const
void	setChromosome (std::string chr)
std::string	getChromosome () const
bool	isSingleChr () const
void	setRegion (std::string region)
std::pair< int32_t, int32_t >	getRegion () const
bool	isRegionSet () const
void	setOutputDir (std::string dirpath)
std::string	getOutputDir () const
void	setThreadCount (int thread_count)
int	getThreadCount () const
void	setVerbose (bool verbose)
bool	getVerbose ()
void	saveCNVData (bool save_cnv_data)
bool	getSaveCNVData () const
void	setCNVOutputFile (std::string filepath)
std::string	getCNVOutputFile () const

Constructor & Destructor Documentation

InputData()

InputData::InputData

(

)

Member Function Documentation

getAlleleFreqFilepath()

std::string InputData::getAlleleFreqFilepath

(

std::string

chr

)

const

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getAssemblyGaps()

std::string InputData::getAssemblyGaps

(

)

const

getChromosome()

std::string InputData::getChromosome

(

)

const

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getCNVOutputFile()

std::string InputData::getCNVOutputFile

(

)

const

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getDBSCAN_Epsilon()

double InputData::getDBSCAN_Epsilon

(

)

const

getDBSCAN_MinPtsPct()

double InputData::getDBSCAN_MinPtsPct

(

)

const

getEthnicity()

std::string InputData::getEthnicity

(

)

const

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getHMMFilepath()

std::string InputData::getHMMFilepath

(

)

const

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getLongReadBam()

std::string InputData::getLongReadBam

(

)

const

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getMinCNVLength()

uint32_t InputData::getMinCNVLength

(

)

const

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getOutputDir()

std::string InputData::getOutputDir

(

)

const

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getRefGenome()

std::string InputData::getRefGenome

(

)

const

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getRegion()

std::pair< int32_t, int32_t > InputData::getRegion

(

)

const

getSampleSize()

int InputData::getSampleSize

(

)

const

getSaveCNVData()

bool InputData::getSaveCNVData

(

)

const

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getSNPFilepath()

std::string InputData::getSNPFilepath

(

)

const

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getThreadCount()

int InputData::getThreadCount

(

)

const

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getVerbose()

bool InputData::getVerbose

(

)

isRegionSet()

bool InputData::isRegionSet

(

)

const

isSingleChr()

bool InputData::isSingleChr

(

)

const

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printParameters()

void InputData::printParameters

(

)

const

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saveCNVData()

void InputData::saveCNVData

(

bool

save_cnv_data

)

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setAlleleFreqFilepaths()

void InputData::setAlleleFreqFilepaths

(

std::string

filepath

)

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setAssemblyGaps()

void InputData::setAssemblyGaps

(

std::string

filepath

)

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setChromosome()

void InputData::setChromosome

(

std::string

chr

)

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setCNVOutputFile()

void InputData::setCNVOutputFile

(

std::string

filepath

)

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setDBSCAN_Epsilon()

void InputData::setDBSCAN_Epsilon

(

double

epsilon

)

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setDBSCAN_MinPtsPct()

void InputData::setDBSCAN_MinPtsPct

(

double

min_pts_pct

)

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setEthnicity()

void InputData::setEthnicity

(

std::string

ethnicity

)

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setHMMFilepath()

void InputData::setHMMFilepath

(

std::string

filepath

)

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setLongReadBam()

void InputData::setLongReadBam

(

std::string

filepath

)

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setMinCNVLength()

void InputData::setMinCNVLength

(

int

min_cnv_length

)

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setOutputDir()

void InputData::setOutputDir

(

std::string

dirpath

)

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setRefGenome()

void InputData::setRefGenome

(

std::string

filepath

)

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setRegion()

void InputData::setRegion

(

std::string

region

)

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setSampleSize()

void InputData::setSampleSize

(

int

sample_size

)

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setSNPFilepath()

void InputData::setSNPFilepath

(

std::string

filepath

)

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setThreadCount()

void InputData::setThreadCount

(

int

thread_count

)

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setVerbose()

void InputData::setVerbose

(

bool

verbose

)

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

• include/input_data.h
• src/input_data.cpp