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java.lang.Objectgff.GFFFilter
public class GFFFilter
This tests the parsing and writing of GFF features.
Use: GFFToFeatures [in.gff [out.gff]]
If you do not supply out.gff, then output will go to stdout. If you do not supply in.gff, then input will come from stdin.
in.gff will be parsed into a stream of comments and GFFRecords. These will pass directly to a GFFWriter, which will write out the GFF.
You can extend this simple application to include a filter between the parser and the writer. This would allow you to write a GFFGrep application that only allows through GFF files that have some value in a given column.
You may notice that the input is not exactly identical to the output. In particular, white-space will be changed and some missing values will be written according to the GFF2 specification, regardless of what was read in. Also, the attribute value-list text may be re-ordered. None of this affects the validity of the file.
Have fun!
Constructor Summary | |
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GFFFilter()
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Method Summary | |
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static void |
main(String[] args)
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Methods inherited from class java.lang.Object |
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clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait |
Constructor Detail |
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public GFFFilter()
Method Detail |
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public static void main(String[] args) throws Exception
Exception
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