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SUMMARY: NESTED | FIELD | CONSTR | METHOD | DETAIL: FIELD | CONSTR | METHOD |
java.lang.Objectjava.lang.Thread
biggests.gui.ThreadPostProcessing
public class ThreadPostProcessing
Title: Post-Processing Thread
Description: Implements a thread to apply post-processing algorithms, such as filtering and sorting of biclusters based on well known metrics. Also informs a ProgressBarFrame about the progress of the post-processing operations.
Copyright: Copyright (C) 2007 Joana Gonçalves This program is free software; you can redistribute it and/or modify it under the terms of the GNU General Public License as published by the Free Software Foundation; either version 3 of the License, or any later version. This program is distributed in the hope that it will be useful, but WITHOUT ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU General Public License for more details.
Nested Class Summary |
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Nested classes/interfaces inherited from class java.lang.Thread |
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java.lang.Thread.State, java.lang.Thread.UncaughtExceptionHandler |
Field Summary |
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Fields inherited from class java.lang.Thread |
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MAX_PRIORITY, MIN_PRIORITY, NORM_PRIORITY |
Constructor Summary | |
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ThreadPostProcessing(smadeira.biclustering.Biclustering biclustering,
javax.swing.tree.TreePath selectionPath,
PanelPostProcessing panel)
Creates a new post-processing thread, to post-process a group of biclusters. |
Method Summary | |
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smadeira.biclustering.Biclustering |
filter_CONSTANT_PATTERN(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a constant pattern and a % of overlapping conditions below two given thresholds. |
smadeira.biclustering.Biclustering |
filter_PATTERN_COLUMNS_PVALUE_NOT_SIGNIFICANT(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Filters the biclusters of the given biclusters' group ( BiclusteringInDiscretizedMatrix ) for which
the pattern p-value with columns is not significant. |
smadeira.biclustering.Biclustering |
filter_PATTERN_PVALUE_NOT_SIGNIFICANT(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Filters the biclusters of the given biclusters' group ( BiclusteringInDiscretizedMatrix ) for which
the pattern p-value is not significant. |
smadeira.biclustering.Biclustering |
filter_TRIVIAL(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs trivial biclusters filtering algorithm. |
smadeira.biclustering.Biclustering |
filterBy_ACV_ARV_Thresholds(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with ACV and ARV below two given thresholds. |
smadeira.biclustering.Biclustering |
filterBy_ACV_Threshold(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with an ACV below a given threshold. |
smadeira.biclustering.Biclustering |
filterBy_ARV_Threshold(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with an ARV below a given threshold. |
smadeira.biclustering.Biclustering |
filterBy_MSR_Threshold(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a MSR below a given threshold. |
smadeira.biclustering.Biclustering |
filterBy_NR_CONDITIONS_NR_GENES_ARV_ACV_MSR_Thresholds(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a number of conditions, a number of genes, ACV, ARV and MSR below five given thresholds. |
smadeira.biclustering.Biclustering |
filterBy_NR_CONDITIONS_NR_GENES_ARV_ACV_Thresholds(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a number of conditions, a number of genes, ACV and ARV below four given thresholds. |
smadeira.biclustering.Biclustering |
filterBy_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with less than a given number of conditions. |
smadeira.biclustering.Biclustering |
filterBy_NR_GENES_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with less than a given number of genes and a given number of conditions. |
smadeira.biclustering.Biclustering |
filterBy_NR_GENES(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with less than a given number of genes. |
smadeira.biclustering.Biclustering |
filterBy_OVERLAPPING_GENES_CONDITIONS_Thresholds(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a % of overlapping genes and a % of overlapping conditions below two given thresholds. |
smadeira.biclustering.Biclustering |
filterBy_OVERLAPPING_GENES_Threshold(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with a % of overlapping genes below a given threshold. |
smadeira.biclustering.Biclustering |
filterBy_SIZE_ARV_ACV_Thresholds(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with size, ACV and ARV below three given thresholds. |
smadeira.biclustering.Biclustering |
filterBy_SIZE_Threshold(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs filtering of biclusters with size below a given threshold. |
void |
run()
Overrides Thread 's run method. |
smadeira.biclustering.Biclustering |
sortBy_ACV(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their ACV. |
smadeira.biclustering.Biclustering |
sortBy_ARV_ACV_DIFF(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by the difference of their ARV and ACV (ARV-ACV). |
smadeira.biclustering.Biclustering |
sortBy_ARV_MSR_DIFF(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by the difference of their ARV and MSR (ARV-MSR). |
smadeira.biclustering.Biclustering |
sortBy_ARV(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their ARV. |
smadeira.biclustering.Biclustering |
sortBy_BEST_GO_BONFERRONI_PVALUE(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their best GO Bonferroni corrected p-values in ascending order. |
smadeira.biclustering.Biclustering |
sortBy_BEST_GO_PVALUE(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their best GO p-values in ascending order. |
smadeira.biclustering.Biclustering |
sortBy_MSR(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their MSR. |
smadeira.biclustering.Biclustering |
sortBy_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their number of conditions. |
smadeira.biclustering.Biclustering |
sortBy_NR_GENES(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their number of genes. |
smadeira.biclustering.Biclustering |
sortBy_PATTERN_PVALUE(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their pattern p-value in ascending order. |
smadeira.biclustering.Biclustering |
sortBy_PATTERN_WITH_COLUMNS_PVALUE(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their pattern with columns p-value in ascending order. |
smadeira.biclustering.Biclustering |
sortBy_SIZE(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their sizes. |
smadeira.biclustering.Biclustering |
sortBy_VARIANCE(smadeira.biclustering.Biclustering biclustering,
java.util.ArrayList<java.lang.String> infoStrings,
java.util.ArrayList<java.lang.String> infoStyles)
Performs sorting of biclusters by their variances. |
Methods inherited from class java.lang.Thread |
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activeCount, checkAccess, countStackFrames, currentThread, destroy, dumpStack, enumerate, getAllStackTraces, getContextClassLoader, getDefaultUncaughtExceptionHandler, getId, getName, getPriority, getStackTrace, getState, getThreadGroup, getUncaughtExceptionHandler, holdsLock, interrupt, interrupted, isAlive, isDaemon, isInterrupted, join, join, join, resume, setContextClassLoader, setDaemon, setDefaultUncaughtExceptionHandler, setName, setPriority, setUncaughtExceptionHandler, sleep, sleep, start, stop, stop, suspend, toString, yield |
Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, wait, wait, wait |
Constructor Detail |
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public ThreadPostProcessing(smadeira.biclustering.Biclustering biclustering, javax.swing.tree.TreePath selectionPath, PanelPostProcessing panel)
biclustering
- Biclustering
the group of
biclusters to post-processselectionPath
- the selected TreePath
in
the dataset tree, which contains the biclustering
objectpanel
- the PanelPostProcessing
which makes the
user interface with post-processing optionsMethod Detail |
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public void run()
Thread
's run
method.
Performs the actual work of this thread, that is, applies
post-processing algorithms to the group of biclusters in
biclustering
attribute.
run
in interface java.lang.Runnable
run
in class java.lang.Thread
public smadeira.biclustering.Biclustering filter_TRIVIAL(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_NR_GENES(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_NR_GENES_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_ACV_Threshold(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_ARV_Threshold(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_ACV_ARV_Thresholds(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_MSR_Threshold(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_SIZE_Threshold(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_SIZE_ARV_ACV_Thresholds(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_NR_CONDITIONS_NR_GENES_ARV_ACV_Thresholds(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_NR_CONDITIONS_NR_GENES_ARV_ACV_MSR_Thresholds(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_OVERLAPPING_GENES_Threshold(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filterBy_OVERLAPPING_GENES_CONDITIONS_Thresholds(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filter_CONSTANT_PATTERN(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
This method is suited only for biclusters extracted from
discretized epression matrices.
biclustering
- BiclusteringInDiscretizedMatrix
the group of biclusters to filterinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be filteredpublic smadeira.biclustering.Biclustering filter_PATTERN_PVALUE_NOT_SIGNIFICANT(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
BiclusteringInDiscretizedMatrix
) for which
the pattern p-value is not significant.
biclustering
- BiclusteringInDiscretizedMatrix
(the biclusters' group)infoStrings
- ArrayList
information stringsinfoStyles
- ArrayList
styles for information strings
biclustering
object after filtering
java.lang.Exception
public smadeira.biclustering.Biclustering filter_PATTERN_COLUMNS_PVALUE_NOT_SIGNIFICANT(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
BiclusteringInDiscretizedMatrix
) for which
the pattern p-value with columns is not significant.
biclustering
- BiclusteringInDiscretizedMatrix
(the biclusters' group)infoStrings
- ArrayList
information stringsinfoStyles
- ArrayList
styles for information strings
biclustering
object after filtering
java.lang.Exception
public smadeira.biclustering.Biclustering sortBy_ACV(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_ARV(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_MSR(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_ARV_ACV_DIFF(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_ARV_MSR_DIFF(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_NR_GENES(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_NR_CONDITIONS(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_SIZE(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_VARIANCE(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_BEST_GO_PVALUE(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_BEST_GO_BONFERRONI_PVALUE(smadeira.biclustering.Biclustering biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_PATTERN_PVALUE(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sortedpublic smadeira.biclustering.Biclustering sortBy_PATTERN_WITH_COLUMNS_PVALUE(smadeira.biclustering.BiclusteringInDiscretizedMatrix biclustering, java.util.ArrayList<java.lang.String> infoStrings, java.util.ArrayList<java.lang.String> infoStyles) throws java.lang.Exception
postProcessingPanel
.
biclustering
- Biclustering
the group of
biclusters to sortinfoStrings
- ArrayList
the set of information
strings for the group of biclustersinfoStyles
- java.lang.Exception
- if the group of biclusters cannot be sorted
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