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java.lang.Objecthalo.halflife.HalfLife
halo.halflife.HalfLife_Pre
public class HalfLife_Pre
Implementation of HalfLife providing methods for the usual calculation of half-life values for pre-existing RNA, based on the ratio of pre-existing to total RNA
Field Summary |
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Fields inherited from class halo.halflife.HalfLife |
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NEWLY, NEWPRE, PRE |
Constructor Summary | |
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HalfLife_Pre()
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Method Summary | |
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CorrectionFactors |
calculateCorrectionFactors(double medianHWZ,
double t)
Calculation of correction factors based on a median |
void |
calculateHalfLives(double t)
Calculation of half-lives |
void |
initialize(Data data)
initializes the HalfLife object & extracts the needed values of the Data object |
void |
initialize(Data data,
int replicate)
initializes the HalfLife object for a specific replicate of the data |
void |
setCorrectionFactor(CorrectionFactors corr)
Sets the set of correction factors |
Methods inherited from class halo.halflife.HalfLife |
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getAlpha, getC_l, getC_u, getData, getHwz, getMax, getMaximumHalfLife, getMinimumHalfLife, getName, getNewMapping, getRatio, getReplicate, median, printHalfLivesWithAttributes, ratioOfReplicate, setAlpha, setCorrectionFactors, setHwz, setMaximumHalfLife, setMinimumHalfLife, setNewMap, writeToFileHalfLives, writeToFileRatios |
Methods inherited from class java.lang.Object |
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equals, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public HalfLife_Pre()
Method Detail |
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public void initialize(Data data)
HalfLife
initialize
in class HalfLife
data
- The data object for which the half-life calculation shall be donepublic void initialize(Data data, int replicate)
HalfLife
initialize
in class HalfLife
data
- The data object for which the half-life calculation shall be donereplicate
- The replicate that shall be usedpublic void calculateHalfLives(double t)
HalfLife
calculateHalfLives
in class HalfLife
t
- Timepublic CorrectionFactors calculateCorrectionFactors(double medianHWZ, double t)
HalfLife
calculateCorrectionFactors
in class HalfLife
medianHWZ
- median mRNA half-lifet
- Time
public void setCorrectionFactor(CorrectionFactors corr)
HalfLife
setCorrectionFactor
in class HalfLife
corr
- The correction factors
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