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java.lang.Object | +--uk.ac.sanger.psu.gfmerge.util.io.GFMergeOutput
class which writes EMBL files using BioJava SeqIOTools.writeEmbl().
Constructor Summary | |
GFMergeOutput()
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Method Summary | |
static void |
saveFeat2File(java.lang.String filename,
java.util.ArrayList arrListOfFeatRegions,
Prediction prediction)
method which saves picked features to a file. |
static void |
saveRemovedFeat2File(java.lang.String filename,
java.util.ArrayList arrListOfFeatRegions_before,
java.util.ArrayList arrListOfFeatRegions_after,
Prediction prediction)
method which saves removed features to a file. |
private static void |
writeSeq2File(java.lang.String filename,
org.biojava.bio.seq.Sequence seq)
method which writes BioJava sequence to a file. |
Methods inherited from class java.lang.Object |
clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
public GFMergeOutput()
Method Detail |
public static void saveFeat2File(java.lang.String filename, java.util.ArrayList arrListOfFeatRegions, Prediction prediction)
filename
- output filenamearrListOfFeatRegions
- ArrayList of genemodel regionsprediction
- Prediction object from which sequence is retrievedpublic static void saveRemovedFeat2File(java.lang.String filename, java.util.ArrayList arrListOfFeatRegions_before, java.util.ArrayList arrListOfFeatRegions_after, Prediction prediction)
filename
- output filenamearrListOfFeatRegions_before
- ArrayList of genemodel regions
before processingarrListOfFeatRegions_after
- ArrayList of genemodel regions
after processingprediction
- Prediction object from which sequence is retrievedprivate static void writeSeq2File(java.lang.String filename, org.biojava.bio.seq.Sequence seq)
filename
- output filenameseq
- BioJava sequence
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