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java.lang.Objectorg.systemsbiology.jrap.ScanHeader
public class ScanHeader
ScanHeader is a class that contains all information associated with a Scan, except for the actual peakList. The separation between the peaklist and the other information was made because parsing the peaklist costs a lot of time, and in this way, programs can parse headers separately, and not parse the peaklist when it's not needed.
Field Summary | |
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protected float |
basePeakIntensity
TODO: Describe |
protected float |
basePeakMz
TODO: Describe |
protected java.lang.String |
byteOrder
Peaks attribute for mzXML_3.0 |
protected int |
centroided
TODO: Describe |
protected int |
chargeDeconvoluted
TODO: Describe |
protected float |
collisionEnergy
TODO: Describe |
protected int |
compressedLen
|
protected java.lang.String |
compressionType
|
protected java.lang.String |
contentType
|
protected int |
deisotoped
TODO: Describe |
protected float |
endMz
TODO: Describe |
protected float |
highMz
TODO: Describe |
protected float |
ionisationEnergy
TODO: Describe |
protected float |
lowMz
TODO: Describe |
protected int |
msLevel
MS Scan Level |
protected int |
num
Scan Number |
protected int |
peaksCount
Number of peaks in scan |
protected java.lang.String |
polarity
TODO: Describe |
protected int |
precision
TODO: Describe |
protected int |
precursorCharge
TODO: Describe |
protected float |
precursorMz
TODO: Describe |
protected int |
precursorScanNum
TODO: Describe |
protected java.lang.String |
retentionTime
TODO: Describe |
protected java.lang.String |
scanType
TODO: Describe |
protected float |
startMz
TODO: Describe |
protected float |
totIonCurrent
TODO: Describe |
Constructor Summary | |
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ScanHeader()
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Method Summary | |
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float |
getBasePeakIntensity()
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float |
getBasePeakMz()
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java.lang.String |
getByteOrder()
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int |
getCentroided()
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int |
getChargeDeconvoluted()
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float |
getCollisionEnergy()
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int |
getCompressedLen()
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java.lang.String |
getCompressionType()
|
java.lang.String |
getContentType()
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int |
getDeisotoped()
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double |
getDoubleRetentionTime()
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float |
getEndMz()
|
float |
getHighMz()
|
float |
getIonisationEnergy()
|
float |
getLowMz()
|
int |
getMsLevel()
|
int |
getNum()
|
int |
getPeaksCount()
|
java.lang.String |
getPolarity()
|
int |
getPrecision()
|
int |
getPrecursorCharge()
|
float |
getPrecursorMz()
|
int |
getPrecursorScanNum()
|
java.lang.String |
getRetentionTime()
|
java.lang.String |
getScanType()
|
float |
getStartMz()
|
float |
getTotIonCurrent()
|
void |
setBasePeakIntensity(float basePeakIntensity)
|
void |
setBasePeakMz(float basePeakMz)
|
void |
setByteOrder(java.lang.String byteOrder)
|
void |
setCentroided(int centroided)
|
void |
setChargeDeconvoluted(int chargeDeconvoluted)
|
void |
setCollisionEnergy(float collisionEnergy)
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void |
setCompressedLen(int compressedLen)
|
void |
setCompressionType(java.lang.String compressionType)
|
void |
setContentType(java.lang.String contentType)
|
void |
setDeisotoped(int deisotoped)
|
void |
setEndMz(float endMz)
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void |
setHighMz(float highMz)
|
void |
setIonisationEnergy(float ionisationEnergy)
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void |
setLowMz(float lowMz)
|
void |
setMsLevel(int msLevel)
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void |
setNum(int num)
|
void |
setPeaksCount(int peaksCount)
|
void |
setPolarity(java.lang.String polarity)
|
void |
setPrecision(int precision)
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void |
setPrecursorCharge(int precursorCharge)
|
void |
setPrecursorMz(float precursorMz)
|
void |
setPrecursorScanNum(int precursorScanNum)
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void |
setRetentionTime(java.lang.String retentionTime)
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void |
setScanType(java.lang.String scanType)
|
void |
setStartMz(float startMz)
|
void |
setTotIonCurrent(float totIonCurrent)
|
java.lang.String |
toString()
String respresentation of a ScanHeader object. |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Field Detail |
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protected int num
protected int msLevel
protected int peaksCount
protected java.lang.String polarity
protected java.lang.String scanType
protected int centroided
protected int deisotoped
protected int chargeDeconvoluted
protected java.lang.String retentionTime
protected float startMz
protected float endMz
protected float lowMz
protected float highMz
protected float basePeakMz
protected float basePeakIntensity
protected float totIonCurrent
protected float precursorMz
protected int precursorScanNum
protected int precursorCharge
protected float collisionEnergy
protected float ionisationEnergy
protected int precision
protected java.lang.String byteOrder
protected java.lang.String contentType
protected java.lang.String compressionType
protected int compressedLen
Constructor Detail |
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public ScanHeader()
Method Detail |
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public float getBasePeakIntensity()
public void setBasePeakIntensity(float basePeakIntensity)
basePeakIntensity
- The basePeakIntensity to set.public float getBasePeakMz()
public void setBasePeakMz(float basePeakMz)
basePeakMz
- The basePeakMz to set.public java.lang.String getByteOrder()
public void setByteOrder(java.lang.String byteOrder)
set
- the byteOrderpublic int getCentroided()
public void setCentroided(int centroided)
centroided
- The centroided to set.public int getChargeDeconvoluted()
public void setChargeDeconvoluted(int chargeDeconvoluted)
chargeDeconvoluted
- The chargeDeconvoluted to set.public float getCollisionEnergy()
public void setCollisionEnergy(float collisionEnergy)
collisionEnergy
- The collisionEnergy to set.public java.lang.String getCompressionType()
public void setCompressionType(java.lang.String compressionType)
set
- compressionTypepublic int getCompressedLen()
public void setCompressedLen(int compressedLen)
set
- compressedLenpublic java.lang.String getContentType()
public void setContentType(java.lang.String contentType)
set
- the contentTypepublic int getDeisotoped()
public void setDeisotoped(int deisotoped)
deisotoped
- The deisotoped to set.public float getEndMz()
public void setEndMz(float endMz)
endMz
- The endMz to set.public float getHighMz()
public void setHighMz(float highMz)
highMz
- The highMz to set.public float getIonisationEnergy()
public void setIonisationEnergy(float ionisationEnergy)
ionisationEnergy
- The ionisationEnergy to set.public float getLowMz()
public void setLowMz(float lowMz)
lowMz
- The lowMz to set.public int getMsLevel()
public void setMsLevel(int msLevel)
msLevel
- The msLevel to set.public int getNum()
public void setNum(int num)
num
- The num to set.public int getPeaksCount()
public void setPeaksCount(int peaksCount)
peaksCount
- The peaksCount to set.public java.lang.String getPolarity()
public void setPolarity(java.lang.String polarity)
polarity
- The polarity to set.public int getPrecision()
public void setPrecision(int precision)
precision
- The precision to set.public int getPrecursorCharge()
public void setPrecursorCharge(int precursorCharge)
precursorCharge
- The precursorCharge to set.public float getPrecursorMz()
public void setPrecursorMz(float precursorMz)
precursorMz
- The precursorMz to set.public int getPrecursorScanNum()
public void setPrecursorScanNum(int precursorScanNum)
precursorScanNum
- The precursorScanNum to set.public java.lang.String getRetentionTime()
public void setRetentionTime(java.lang.String retentionTime)
retentionTime
- The retentionTime to set.public java.lang.String getScanType()
public void setScanType(java.lang.String scanType)
scanType
- The scanType to set.public float getStartMz()
public void setStartMz(float startMz)
startMz
- The startMz to set.public float getTotIonCurrent()
public void setTotIonCurrent(float totIonCurrent)
totIonCurrent
- The totIonCurrent to set.public double getDoubleRetentionTime()
public java.lang.String toString()
toString
in class java.lang.Object
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