Package org.snpeff.gtex
Class Gtex
- java.lang.Object
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- org.snpeff.gtex.Gtex
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- All Implemented Interfaces:
java.lang.Iterable<GtexExperiment>
public class Gtex extends java.lang.Object implements java.lang.Iterable<GtexExperiment>
Load data from GTEx files. References: http://www.broadinstitute.org/gtex/- Author:
- pcingola
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Field Summary
Fields Modifier and Type Field Description static java.lang.String
NA_VALUE
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Constructor Summary
Constructors Constructor Description Gtex()
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Method Summary
All Methods Instance Methods Concrete Methods Modifier and Type Method Description java.util.Collection<java.lang.String>
getGeneIds()
int
getIndex(java.lang.String geneId)
java.util.Iterator<GtexExperiment>
iterator()
void
load(java.lang.String samples, java.lang.String data)
protected void
loadData(java.lang.String data)
Load data: Experimental (sometimes normalized) valuesprotected void
loadSamples(java.lang.String samples)
Load samples namesvoid
setVerbose(boolean verbose)
java.lang.String
toString()
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Field Detail
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NA_VALUE
public static final java.lang.String NA_VALUE
- See Also:
- Constant Field Values
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Method Detail
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getGeneIds
public java.util.Collection<java.lang.String> getGeneIds()
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getIndex
public int getIndex(java.lang.String geneId)
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iterator
public java.util.Iterator<GtexExperiment> iterator()
- Specified by:
iterator
in interfacejava.lang.Iterable<GtexExperiment>
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load
public void load(java.lang.String samples, java.lang.String data)
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loadData
protected void loadData(java.lang.String data)
Load data: Experimental (sometimes normalized) values- Parameters:
data
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loadSamples
protected void loadSamples(java.lang.String samples)
Load samples names- Parameters:
samples
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setVerbose
public void setVerbose(boolean verbose)
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toString
public java.lang.String toString()
- Overrides:
toString
in classjava.lang.Object
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