This class represents growth data for one strain. More...

Inheritance diagram for GrowthCurveLibrary.GrowthCurve:

Classes
struct	GrowthRateInUse
	The growth rate currently fit for this guy More...

struct	MaximumGrowthRate

Public Member Functions
void	SetHandPicked ()
	Indicate that the data fit has been manually selected. More...

double	HoursTillODReached (double ODValue)
	Uses the parameters from the exponential fit to determine when a specific Y value is reached. More...

string	__repr__ ()

override string	ToString ()

void	RecreateFitAfterChange ()

	GrowthCurve (string name, DateTime[] timeValues, double[] odvalues)

void	FitData ()
	Function fits data, should be called everytime the fit changes More...

void	CallOutliers ()

void	GetResiduals (bool JustFittedValues, out List< double > Times, out List< double > Residuals)

void	SetFittedRangeFromIndexes (List< int > Indexes)

void	SetFittedRange (int startindex, int endindex)

void	SetFittedODRange (double startOD, double endOD, bool ODMustIncrease=true)
	Naive implementation, currently just goes from the value above the OD value and then grabs it while it is increasing More...

void	SetFittedODRangeFromPercent (double startOD, double PercentOfMaxOD)

void	ChangeODPoint (double xval, double yval)
	Attempts to fit or unfit a point that is selected by it's x,y value More...

void	RemoveFirstPointAsBlank ()

void	RemoveSecondPointAsBlank ()

void	RemoveAverageOfFirstThreePointsAsBlank ()

void	RemoveBlank (double Blank)

void	OutputDebugFile (string Fname)

void	CreateGrowthDataList (DateTime[] Times, double[] ODs)

void	OnPropertyChange (PropertyChangedEventArgs e)

Public Attributes
bool	SuspendRefit = false
	Indicates that the curve should not notify of events or attempt to refit data More...

const double	BAD_DATA_VALUE = -999
	Some constants related to the values. More...

const bool	USE_EXPONENTIAL_FITTING = true

const double	DEFAULTOD_MAX = 0.18

const double	DEFAULT_MAX_GROWTH_RATE = 10000

LinearFit	LinFit

ExponentialFit	ExpFit

OffSetExponentialFit	OffSetExp

GroupFitter	GroupFit

MixtureErrorModelClass	MixtureErrorModel

QuadraticLinearRegression	QuadModel

LogisticModel	LogisticModel

MaximumGrowthRate	MaxGrowthRate

DateTime	BaseTime
	Start time of OD readings. More...

int	TransferNumber

string	Population

int	ExpID

dynamic	FreeSpace

double[]	SlopeChange
	Holds the doubling time between each pair of points, poorly named variable More...

double[]	XvaluesForSlope

bool	ValidDataSet
	Determines if the data is valid for fitting or not. More...

Properties
List< GrowthDataPoint >	DataPoints `[get]`
	Just in case it wasn't clear that this class is inherited from a list, this returns itself More...

double	GroupFitGrowthRate `[get]`

double	GroupFitInitPop `[get]`

GrowthRateInUse	GrowthRate `[get, set]`

List< FitPoint >	FittedValues `[get]`

List< FitPoint >	FittedLogValues `[get]`

List< FitPoint >	FittedResidualValues `[get]`

double	HighestODValue `[get]`

string	DataSetName `[get, set]`
	Name of the dataset (usually a well name). More...

List< FitPoint >	SlopeValues `[get]`

bool	LinearModelFitted `[get]`

bool	ExpModelFitted `[get]`

double[]	ODValues `[get]`

double[]	TimeValues_As_Double `[get]`
	Time in hours since the start of the collecting More...

DateTime[]	Times `[get]`

double[]	LogODValues `[get]`

double[]	OutlierXValues `[get]`

double[]	OutlierYValues `[get]`

double[]	FittedXValues `[get]`

double[]	FittedLogYValues `[get]`

double[]	FittedYValues `[get]`

Events
PropertyChangedEventHandler	PropertyChanged

Detailed Description

This class represents growth data for one strain.

Constructor & Destructor Documentation

GrowthCurveLibrary.GrowthCurve.GrowthCurve	(	string	name,
		DateTime[]	timeValues,
		double[]	odvalues
	)

Member Function Documentation

string GrowthCurveLibrary.GrowthCurve.__repr__ ( )

void GrowthCurveLibrary.GrowthCurve.CallOutliers ( )

void GrowthCurveLibrary.GrowthCurve.ChangeODPoint	(	double	xval,
		double	yval
	)

Attempts to fit or unfit a point that is selected by it's x,y value

Parameters

xval	Time as Double in Hours
yval	Log OD

Returns

void GrowthCurveLibrary.GrowthCurve.CreateGrowthDataList	(	DateTime[]	Times,
		double[]	ODs
	)

void GrowthCurveLibrary.GrowthCurve.FitData ( )

Function fits data, should be called everytime the fit changes

void GrowthCurveLibrary.GrowthCurve.GetResiduals	(	bool	JustFittedValues,
		out List< double >	Times,
		out List< double >	Residuals
	)

double GrowthCurveLibrary.GrowthCurve.HoursTillODReached ( double ODValue )

Uses the parameters from the exponential fit to determine when a specific Y value is reached.

Parameters

ODValue

Returns

void GrowthCurveLibrary.GrowthCurve.OnPropertyChange ( PropertyChangedEventArgs e )

void GrowthCurveLibrary.GrowthCurve.OutputDebugFile ( string Fname )

void GrowthCurveLibrary.GrowthCurve.RecreateFitAfterChange ( )

void GrowthCurveLibrary.GrowthCurve.RemoveAverageOfFirstThreePointsAsBlank ( )

void GrowthCurveLibrary.GrowthCurve.RemoveBlank ( double Blank )

void GrowthCurveLibrary.GrowthCurve.RemoveFirstPointAsBlank ( )

void GrowthCurveLibrary.GrowthCurve.RemoveSecondPointAsBlank ( )

void GrowthCurveLibrary.GrowthCurve.SetFittedODRange	(	double	startOD,
		double	endOD,
		bool	ODMustIncrease = `true`
	)

Naive implementation, currently just goes from the value above the OD value and then grabs it while it is increasing

Parameters

startOD
minOD

void GrowthCurveLibrary.GrowthCurve.SetFittedODRangeFromPercent	(	double	startOD,
		double	PercentOfMaxOD
	)

void GrowthCurveLibrary.GrowthCurve.SetFittedRange	(	int	startindex,
		int	endindex
	)

void GrowthCurveLibrary.GrowthCurve.SetFittedRangeFromIndexes ( List< int > Indexes )

void GrowthCurveLibrary.GrowthCurve.SetHandPicked ( )

Indicate that the data fit has been manually selected.

override string GrowthCurveLibrary.GrowthCurve.ToString ( )

Member Data Documentation

const double GrowthCurveLibrary.GrowthCurve.BAD_DATA_VALUE = -999

Some constants related to the values.

DateTime GrowthCurveLibrary.GrowthCurve.BaseTime

Start time of OD readings.

const double GrowthCurveLibrary.GrowthCurve.DEFAULT_MAX_GROWTH_RATE = 10000

const double GrowthCurveLibrary.GrowthCurve.DEFAULTOD_MAX = 0.18

ExponentialFit GrowthCurveLibrary.GrowthCurve.ExpFit

int GrowthCurveLibrary.GrowthCurve.ExpID

dynamic GrowthCurveLibrary.GrowthCurve.FreeSpace

GroupFitter GrowthCurveLibrary.GrowthCurve.GroupFit

LinearFit GrowthCurveLibrary.GrowthCurve.LinFit

LogisticModel GrowthCurveLibrary.GrowthCurve.LogisticModel

MaximumGrowthRate GrowthCurveLibrary.GrowthCurve.MaxGrowthRate

MixtureErrorModelClass GrowthCurveLibrary.GrowthCurve.MixtureErrorModel

OffSetExponentialFit GrowthCurveLibrary.GrowthCurve.OffSetExp

string GrowthCurveLibrary.GrowthCurve.Population

QuadraticLinearRegression GrowthCurveLibrary.GrowthCurve.QuadModel

double [] GrowthCurveLibrary.GrowthCurve.SlopeChange

Holds the doubling time between each pair of points, poorly named variable

bool GrowthCurveLibrary.GrowthCurve.SuspendRefit = false

Indicates that the curve should not notify of events or attempt to refit data

int GrowthCurveLibrary.GrowthCurve.TransferNumber

const bool GrowthCurveLibrary.GrowthCurve.USE_EXPONENTIAL_FITTING = true

bool GrowthCurveLibrary.GrowthCurve.ValidDataSet

Determines if the data is valid for fitting or not.

double [] GrowthCurveLibrary.GrowthCurve.XvaluesForSlope

Property Documentation

List<GrowthDataPoint> GrowthCurveLibrary.GrowthCurve.DataPoints

get

Just in case it wasn't clear that this class is inherited from a list, this returns itself

string GrowthCurveLibrary.GrowthCurve.DataSetName

getset

Name of the dataset (usually a well name).

bool GrowthCurveLibrary.GrowthCurve.ExpModelFitted

get

List<FitPoint> GrowthCurveLibrary.GrowthCurve.FittedLogValues

get

double [] GrowthCurveLibrary.GrowthCurve.FittedLogYValues

get

List<FitPoint> GrowthCurveLibrary.GrowthCurve.FittedResidualValues

get

List<FitPoint> GrowthCurveLibrary.GrowthCurve.FittedValues

get

double [] GrowthCurveLibrary.GrowthCurve.FittedXValues

get

double [] GrowthCurveLibrary.GrowthCurve.FittedYValues

get

double GrowthCurveLibrary.GrowthCurve.GroupFitGrowthRate

get

double GrowthCurveLibrary.GrowthCurve.GroupFitInitPop

get

GrowthRateInUse GrowthCurveLibrary.GrowthCurve.GrowthRate

getset

double GrowthCurveLibrary.GrowthCurve.HighestODValue

get

bool GrowthCurveLibrary.GrowthCurve.LinearModelFitted

get

double [] GrowthCurveLibrary.GrowthCurve.LogODValues

get

double [] GrowthCurveLibrary.GrowthCurve.ODValues

get

double [] GrowthCurveLibrary.GrowthCurve.OutlierXValues

get

double [] GrowthCurveLibrary.GrowthCurve.OutlierYValues

get

List<FitPoint> GrowthCurveLibrary.GrowthCurve.SlopeValues

get

DateTime [] GrowthCurveLibrary.GrowthCurve.Times

get

double [] GrowthCurveLibrary.GrowthCurve.TimeValues_As_Double

get

Time in hours since the start of the collecting

Event Documentation

PropertyChangedEventHandler GrowthCurveLibrary.GrowthCurve.PropertyChanged

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

D:/Dropbox/Software/CurveFitter/GrowthCurveLibrary/GrowthCurve.cs

Classes

Public Member Functions

Public Attributes

Properties

Events

Detailed Description

Constructor & Destructor Documentation

Member Function Documentation

Member Data Documentation

Property Documentation

Event Documentation