Package de.julielab.genemapper.filtering

Class GeneSequence2SingleGene

java.lang.Object

cc.mallet.pipe.Pipe

de.julielab.genemapper.filtering.GeneSequence2SingleGene

All Implemented Interfaces:

cc.mallet.types.AlphabetCarrying, Serializable

public class GeneSequence2SingleGene
extends cc.mallet.pipe.Pipe

For non-sequence filtering, we will have a single gene per GeneSet in the GeneDocument passed to GeneSet2GeneSequence which should be the very first pipe to be employed in each pipe sequence. In this case, we do still create TokenSequences but they will always just have a single element. This pipe transfers this representation into a single token without the sequence.

Author:

faessler

See Also:

Serialized Form

Constructor Summary

Constructors

Constructor	Description
GeneSequence2SingleGene()

Method Summary

Modifier and Type	Method	Description
cc.mallet.types.Instance	pipe(cc.mallet.types.Instance inst)

Methods inherited from class cc.mallet.pipe.Pipe

alphabetsMatch, getAlphabet, getAlphabets, getDataAlphabet, getInstanceId, getTargetAlphabet, instanceFrom, instancesFrom, instancesFrom, isDataAlphabetSet, isTargetProcessing, newIteratorFrom, preceedingPipeDataAlphabetNotification, preceedingPipeTargetAlphabetNotification, precondition, readResolve, setDataAlphabet, setOrCheckDataAlphabet, setOrCheckTargetAlphabet, setTargetAlphabet, setTargetProcessing

Methods inherited from class java.lang.Object

clone, equals, finalize, getClass, hashCode, notify, notifyAll, toString, wait, wait, wait

Constructor Detail

GeneSequence2SingleGene

public GeneSequence2SingleGene()

Method Detail

pipe

public cc.mallet.types.Instance pipe(cc.mallet.types.Instance inst)

Overrides:

pipe in class cc.mallet.pipe.Pipe