Uses of Class
net.talvi.puffinplot.data.Sample

Packages that use Sample
net.talvi.puffinplot   
net.talvi.puffinplot.data   
net.talvi.puffinplot.plots   
net.talvi.puffinplot.window   
 

Uses of Sample in net.talvi.puffinplot
 

Methods in net.talvi.puffinplot that return Sample
 Sample PuffinApp.getSample()
          Gets the current Sample
 

Methods in net.talvi.puffinplot that return types with arguments of type Sample
 java.util.List<Sample> PuffinApp.getAllSamplesInSelectedSites()
          Gets all the samples in all the sites having at least one selected sample.
 java.util.List<Sample> PuffinApp.getSelectedSamples()
          Gets all the currently selected samples.
 

Uses of Sample in net.talvi.puffinplot.data
 

Methods in net.talvi.puffinplot.data that return Sample
 Sample Suite.getCurrentSample()
          Returns the current sample
 Sample Datum.getSample()
          Returns the sample of which this measurement was made.
 Sample Suite.getSampleByIndex(int i)
          Returns the sample with the specified index.
 Sample Suite.getSampleByName(java.lang.String name)
          Returns a sample from this suite with the specified name, or null if no such sample exists.
 

Methods in net.talvi.puffinplot.data that return types with arguments of type Sample
 java.util.List<Sample> Site.getSamples()
          Returns the samples in this site
 java.util.List<Sample> Suite.getSamples()
          Returns all the samples in this suite.
 

Methods in net.talvi.puffinplot.data with parameters of type Sample
static PcaAnnotated PcaAnnotated.calculate(Sample sample, Correction correction)
          Performs principal component analysis (PCA) on the specified sample.
 int Suite.getIndexBySample(Sample sample)
          Returns the index of a specified sample within this suite.
 void Datum.setSample(Sample v)
          Sets the sampe on which this measurement was made.
 java.lang.String Suite.SiteNamer.siteName(Sample sample)
          Determines a site name from a sample name.
 

Method parameters in net.talvi.puffinplot.data with type arguments of type Sample
 void Suite.calculateAmsStatistics(java.util.List<Sample> samples, Suite.AmsCalcType calcType, java.lang.String scriptPath)
          Calculates and stores AMS statistics using an external script.
 void Suite.setNamedSiteForSamples(java.util.Collection<Sample> samples, java.lang.String siteName)
          Explicitly sets a site for the specified samples.
 void Suite.setSiteNamesByDepth(java.util.Collection<Sample> samples, double thickness)
          Sets site names for a continuous suite according to the depth of the samples.
 void Suite.setSiteNamesBySubstring(java.util.Collection<Sample> samples, java.util.BitSet charMask)
          Sets site names for samples according to chosen characters from the sample names.
 void Suite.setSitesForSamples(java.util.Collection<Sample> samples, Suite.SiteNamer siteNamer)
          Sets sites for supplied samples according to a supplied site namer.
 

Constructor parameters in net.talvi.puffinplot.data with type arguments of type Sample
Site(java.lang.String name, java.util.List<Sample> samples)
          Creates a site containing the specified samples.
 

Uses of Sample in net.talvi.puffinplot.plots
 

Methods in net.talvi.puffinplot.plots with parameters of type Sample
 void SampleClickListener.sampleClicked(Sample sample)
          Invoked when a sample is clicked in a plot.
 

Uses of Sample in net.talvi.puffinplot.window
 

Methods in net.talvi.puffinplot.window that return Sample
 Sample PlotParams.getSample()
          Returns the sample to plot.
 

Methods in net.talvi.puffinplot.window that return types with arguments of type Sample
 java.util.List<Sample> SampleChooser.getSelectedSamples()
          Returns all the currently selected samples.