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java.lang.Objectcom.compomics.util.experiment.personalization.ExperimentObject
com.compomics.util.experiment.io.massspectrometry.MgfIndex
public class MgfIndex
This class contains the indexes of an mgf file after indexing mapped with the title of the spectrum
Constructor Summary | |
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MgfIndex(ArrayList<String> spectrumTitles,
HashMap<String,Long> indexMap,
String fileName,
double minRT,
double maxRT,
double maxMz)
Constructor. |
Method Summary | |
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boolean |
containsSpectrum(String spectrumTitle)
Returns a boolean indicating whether the spectrum title is implemented in this index |
String |
getFileName()
Returns the name of the indexed file. |
Long |
getIndex(String spectrumTitle)
Returns the index corresponding to the desired spectrum. |
Double |
getMaxMz()
Returns the maximum m/z in this file. |
Double |
getMaxRT()
Returns the maximal RT in this file. |
Double |
getMinRT()
Returns the minimum RT in this file. |
int |
getNSpectra()
Returns the number of imported spectra. |
ArrayList<String> |
getSpectrumTitles()
Returns an ordered list of all spectrum titles |
void |
setMaxMz(Double maxMz)
Sets the maximum m/z in this file. |
void |
setMaxRT(Double maxRT)
Sets the maximal RT in this file. |
void |
setMinRT(Double minRT)
Sets the minimum RT in this file. |
Methods inherited from class com.compomics.util.experiment.personalization.ExperimentObject |
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addUrParam, getParameterKey, getUrParam |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public MgfIndex(ArrayList<String> spectrumTitles, HashMap<String,Long> indexMap, String fileName, double minRT, double maxRT, double maxMz)
spectrumTitles
- an ordered list of all spectrum titlesindexMap
- map of all indexes: spectrum title -> index in the filefileName
- the mgf file namemaxRT
- the maximum retention timeminRT
- the minimum retention tomemaxMz
- Method Detail |
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public Long getIndex(String spectrumTitle)
spectrumTitle
- the desired spectrum
public boolean containsSpectrum(String spectrumTitle)
spectrumTitle
- the spectrum title
public ArrayList<String> getSpectrumTitles()
public String getFileName()
public Double getMaxRT()
public void setMaxRT(Double maxRT)
maxRT
- the maximal RT in this filepublic Double getMaxMz()
public void setMaxMz(Double maxMz)
maxMz
- the maximum m/z in this filepublic Double getMinRT()
public void setMinRT(Double minRT)
minRT
- the minimum RT in this filepublic int getNSpectra()
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