public class FilterAlignmentPlugin
extends AbstractPlugin
public FilterAlignmentPlugin(java.awt.Frame parentFrame,
boolean isInteractive)
public int getStart()
public void setStart(int start)
public int getEnd()
public void setEnd(int end)
public int getStartPos()
public void setStartPos(int start)
public int getEndPos()
public void setEndPos(int end)
public java.lang.String getLocusStr()
public void setLocusStr(java.lang.String name)
public Chromosome getLocus()
public void setLocus(Chromosome locus)
public int getMinCount()
public void setMinCount(int minCount)
public double getMinFreq()
public void setMinFreq(double minFreq)
public double getMaxFreq()
public void setMaxFreq(double maxFreq)
public boolean isExtractIndels()
public void setExtractIndels(boolean extractIndels)
public boolean isFilterMinorSNPs()
public void setFilterMinorSNPs(boolean filterMinorSNPs)
public boolean isUseAllSiteTypes()
public void setUseAllSiteTypes(boolean useAllSiteTypes)
public boolean isDoSlidingHaps()
public void setDoSlidingHaps(boolean doSlidingHaps)
public int getWinSize()
public void setWinSize(int winSize)
public int getStepSize()
public void setStepSize(int stepSize)
public javax.swing.ImageIcon getIcon()
Icon for this plugin to be used in buttons, etc.
public java.lang.String getButtonName()
Button name for this plugin to be used in buttons, etc.
public java.lang.String getToolTipText()
Tool Tip Text for this plugin