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- All Implemented Interfaces:
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java.lang.Runnable
,net.maizegenetics.plugindef.Plugin
,net.maizegenetics.plugindef.PluginListener
,net.maizegenetics.util.ProgressListener
@Deprecated() public class FastqToKmerCountPlugin extends AbstractPlugin
Created by zrm22 on 10/23/17.
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Field Summary
Fields Modifier and Type Field Description public final static String
DEFAULT_CITATION
public final static String
POSITION_LIST_NONE
public final static String
TAXA_LIST_NONE
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Constructor Summary
Constructors Constructor Description FastqToKmerCountPlugin(Frame parentFrame, boolean isInteractive)
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Method Summary
Modifier and Type Method Description DataSet
processData(DataSet input)
String
pluginUserManualURL()
ImageIcon
getIcon()
String
getButtonName()
String
getToolTipText()
String
readFile()
Raw Read file aligned to the reference FastqToKmerCountPlugin
readFile(String value)
Set Raw Read File. String
exportHaplotypeFile()
Text file to store haplotype scoring FastqToKmerCountPlugin
exportHaplotypeFile(String value)
Set Export Haplo File. String
debugTaxon()
Debug taxon FastqToKmerCountPlugin
debugTaxon(String value)
Set Debug Taxon. -
Methods inherited from class net.maizegenetics.plugindef.AbstractPlugin
addListener, cancel, convert, dataSetReturned, getCitation, getInputs, getListeners, getMenu, getPanel, getParameter, getParentFrame, getUsage, getUsageHTML, hasListeners, isInteractive, isPluginParameter, performFunction, pluginDescription, pluginParameters, progress, receiveInput, reverseTrace, run, setConfigParameters, setParameter, setParameters, setParametersToDefault, setThreaded, trace, usageParameters, wasCancelled
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Methods inherited from class net.maizegenetics.plugindef.Plugin
getPluginInstance, isPlugin
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Methods inherited from class java.lang.Object
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait
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Constructor Detail
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FastqToKmerCountPlugin
FastqToKmerCountPlugin(Frame parentFrame, boolean isInteractive)
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Method Detail
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processData
DataSet processData(DataSet input)
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pluginUserManualURL
String pluginUserManualURL()
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getButtonName
String getButtonName()
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getToolTipText
String getToolTipText()
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readFile
FastqToKmerCountPlugin readFile(String value)
Set Raw Read File. Raw Read file aligned to the reference
- Parameters:
value
- Raw Read File
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exportHaplotypeFile
String exportHaplotypeFile()
Text file to store haplotype scoring
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exportHaplotypeFile
FastqToKmerCountPlugin exportHaplotypeFile(String value)
Set Export Haplo File. Text file to store haplotype scoring
- Parameters:
value
- Export Haplo File
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debugTaxon
String debugTaxon()
Debug taxon
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debugTaxon
FastqToKmerCountPlugin debugTaxon(String value)
Set Debug Taxon. Debug taxon
- Parameters:
value
- Debug Taxon
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