A B C D E F G H I J K L M N O P Q R S T U V W Z

I

id - Variable in class peakml.chemistry.PeriodicTable.Element

The index of the isotope in the list of elements.

id - Variable in class peakml.io.Vocabulary.Term

The unique id of the term.

identification - Static variable in class peakml.Annotation

System annotation for identification tags

identifier - Variable in class peakml.chemistry.PeriodicTable.Element

The short name for the element.

INDEX_INDEXTABLE - Static variable in class peakml.PeakData

INDEX_REAL - Static variable in class peakml.PeakData

indexMaxY() - Method in class peakml.math.Signal

indexOf(double) - Method in class peakml.math.BinArray

indexOfMass(double) - Method in class peakml.IPeakSet

Implementation of a binary search for the mass in the peak-list.

indexOfMax(double[]) - Static method in class peakml.math.Statistical

indexOfMaxIntensity() - Method in class peakml.PeakData

indexOfMeasurementInfo(int) - Method in class peakml.io.Header

Returns the index of the measurement information with the given id.

indexOfMeasurementInfo(String) - Method in class peakml.io.Header

Returns the index of the measurement information with the given label.

indexOfRetentionTime(double) - Method in class peakml.IPeakSet

Implementation of a binary search for a retention time in the peak-list.

indexOfScan(int) - Method in class peakml.IPeakSet

Implementation of a binary search for a scan in the peak-list.

indexOfSetInfo(String) - Method in class peakml.io.Header

Returns the index of the set information with the given id.

indexOfSetInfo(SetInfo) - Method in class peakml.io.Header

Returns the index of the set information with the given id.

init() - Static method in class peakml.io.dac.DAC

init() - Method in class peakml.io.xrawfile.IXRawfile

Initializes the OLE connection.

Init(int) - Method in class peakml.math.Signal

Initializes the signal to the given size.

inRange(double, double, double) - Static method in class peakml.chemistry.PeriodicTable

integrate(double[], int) - Method in class peakml.math.wavelet.MarrWavelet

integrate(double[], int) - Method in class peakml.math.wavelet.TemplateWavelet

integrate(double[], int) - Method in class peakml.math.wavelet.Wavelet

IntensityTrendGraph - Class in peakml.util.swt.widget

IntensityTrendGraph(Composite, int) - Constructor for class peakml.util.swt.widget.IntensityTrendGraph

interquartileRange(double[]) - Static method in class peakml.math.Statistical

In descriptive statistics, the interquartile range (IQR), also called the midspread, middle fifty and middle of the #s, is a measure of statistical dispersion, being equal to the difference between the third and first quartiles.

IO - Class in peakml.util

IO() - Constructor for class peakml.util.IO

IODINE - Static variable in class peakml.chemistry.PeriodicTable

The index of the iodine element in the PeriodicTable.elements array.

IPeak - Class in peakml

The base-class for all peak-types defined in the PeakML file format.

IPeak.AnnotationAscending - Class in peakml

Comparator for sorting on a vector of peaks on an annotations.

IPeak.AnnotationAscending(String) - Constructor for class peakml.IPeak.AnnotationAscending

Constructs a new instance, which sorts on the given label.

IPeak.AnnotationDescending - Class in peakml

Comparator for sorting on a vector of peaks on an annotations.

IPeak.AnnotationDescending(String) - Constructor for class peakml.IPeak.AnnotationDescending

Constructs a new instance, which sorts on the given label.

IPeak.MatchCompare<Type> - Interface in peakml

This interface defines the setup for the comparison of peaks from two datasets, in order to determine whether they were caused by the same molecule.

IPeak.RelationCompare<Type> - Interface in peakml

This interface defines the setup for comparing the relatedness of two peaks.

IPeakGraph - Class in peakml.util.swt.widget

IPeakGraph(Composite, int) - Constructor for class peakml.util.swt.widget.IPeakGraph

IPeakSet<Type extends IPeak> - Class in peakml

Implementation of a class maintaining a set of peaks.

IPeakSet(Type) - Constructor for class peakml.IPeakSet

IPeakSet(Type[]) - Constructor for class peakml.IPeakSet

Constructs a new peakset with the given set of peaks.

IPeakSet(List<Type>) - Constructor for class peakml.IPeakSet

Constructs a new peakset with the given set of peaks.

IRON - Static variable in class peakml.chemistry.PeriodicTable

The index of the iron element in the PeriodicTable.elements array.

is_a - Variable in class peakml.io.Vocabulary.Term

Vector with all the parents of this term.

is_obsolete - Variable in class peakml.io.Vocabulary.Term

Indicates whether this term is obsolete.

isCentroidScanForScanNum(int) - Method in class peakml.io.xrawfile.IXRawfile

Returns TRUE if the scan specified by nScanNumber is a centroid scan, FALSE if the scan is a profile scan.

isDomainPannable() - Method in class peakml.util.jfreechart.FastSpectrumPlot

isDomainPannable() - Method in class peakml.util.jfreechart.FastTimePlot

isDomainZoomable() - Method in class peakml.util.jfreechart.FastSpectrumPlot

isDomainZoomable() - Method in class peakml.util.jfreechart.FastTimePlot

isotopes - Variable in class peakml.chemistry.PeriodicTable.Element

The list of isotopes.

isProfileScanForScanNum(int) - Method in class peakml.io.xrawfile.IXRawfile

Returns TRUE if the scan specified by nScanNumber is a profile scan, FALSE if the scan is a centroid scan.

isRangePannable() - Method in class peakml.util.jfreechart.FastSpectrumPlot

isRangePannable() - Method in class peakml.util.jfreechart.FastTimePlot

isRangeZoomable() - Method in class peakml.util.jfreechart.FastSpectrumPlot

isRangeZoomable() - Method in class peakml.util.jfreechart.FastTimePlot

isTermChildOf(Vocabulary.Term, Vocabulary.Term) - Method in class peakml.io.Vocabulary

Determines whether the given term is a child of the given parent.

isValid() - Method in class peakml.chemistry.MolecularFormula

Validity check for molecular formulae.

iterator() - Method in class peakml.BackgroundIon

iterator() - Method in class peakml.ChromatographyMS

Iterable.iterator()

iterator() - Method in class peakml.io.Vocabulary

iterator() - Method in class peakml.IPeakSet

Iterable.iterator()

iterator() - Method in class peakml.MassChromatogram

iterator() - Method in class peakml.PeakData

iterator() - Method in class peakml.Spectrum

IXRawfile - Class in peakml.io.xrawfile

This class provides a 1-to-1 mapping to the XRawfile DLL of Thermo, for reading the RAW file format.

IXRawfile() - Constructor for class peakml.io.xrawfile.IXRawfile

IXRawfile.Controller - Class in peakml.io.xrawfile

Central class for collecting all information about a controller.

IXRawfile.Controller(int, int) - Constructor for class peakml.io.xrawfile.IXRawfile.Controller

Standard constructor setting all the class members.

IXRawfile.Label - Class in peakml.io.xrawfile

Central class for collecting the label data for a mass peak.

IXRawfile.Label(double, double, double, double, double, int, boolean, boolean, boolean, boolean, boolean, boolean) - Constructor for class peakml.io.xrawfile.IXRawfile.Label

Standard constructor setting all the class members.

IXRawfile.Noise - Class in peakml.io.xrawfile

Central class for collecting the data of a noise-packet.

IXRawfile.Noise(double, double, double) - Constructor for class peakml.io.xrawfile.IXRawfile.Noise

Standard constructor setting all the class members.

IXRawfile.PrecursorInfo - Class in peakml.io.xrawfile

Central class for collecting all information about a precursor scan.

IXRawfile.PrecursorInfo(double, double, int, int) - Constructor for class peakml.io.xrawfile.IXRawfile.PrecursorInfo

Standard constructor setting all the class members.

IXRawfile.ScanHeaderInfo - Class in peakml.io.xrawfile

Central class for collecting all information about a scan.

IXRawfile.ScanHeaderInfo(int, int, double, double, double, double, double, double, int, boolean, double) - Constructor for class peakml.io.xrawfile.IXRawfile.ScanHeaderInfo

Standard constructor setting all the class members.

IXRawfileException - Exception in peakml.io.xrawfile

IXRawfileException(int, String) - Constructor for exception peakml.io.xrawfile.IXRawfileException

IXRawParser - Class in peakml.io.xrawfile

IXRawParser() - Constructor for class peakml.io.xrawfile.IXRawParser