io.repseq.core

Class RangeTranslationParameters

java.lang.Object

io.repseq.core.RangeTranslationParameters

public final class RangeTranslationParameters
extends java.lang.Object

Field Summary

Fields

Modifier and Type	Field and Description
ReferencePoint	beginPoint
com.milaboratory.core.Range	codonLeftoverRange Position of nucleotides required to fulfill left or right incomplete codon
ReferencePoint	endPoint
com.milaboratory.core.Range	range
com.milaboratory.core.sequence.TranslationParameters	translationParameters

Constructor Summary

Constructors

Constructor and Description
RangeTranslationParameters(ReferencePoint beginPoint, ReferencePoint endPoint, com.milaboratory.core.Range range)
RangeTranslationParameters(ReferencePoint beginPoint, ReferencePoint endPoint, com.milaboratory.core.Range range, com.milaboratory.core.Range codonLeftoverRange)

Method Summary

Modifier and Type	Method and Description
boolean	acceptCodonLeftover()
boolean	equals(java.lang.Object o)
int	hashCode()
boolean	inFrame()
com.milaboratory.core.Range	leftIncompleteCodonRange()
com.milaboratory.core.Range	rightIncompleteCodonRange()
java.lang.String	toString()
RangeTranslationParameters	tryMergeRight(RangeTranslationParameters right)
RangeTranslationParameters	withCodonLeftover(com.milaboratory.core.Range leftover)

Methods inherited from class java.lang.Object

clone, finalize, getClass, notify, notifyAll, wait, wait, wait

Field Detail

beginPoint

public final ReferencePoint beginPoint

endPoint

public final ReferencePoint endPoint

range

public final com.milaboratory.core.Range range

translationParameters

public final com.milaboratory.core.sequence.TranslationParameters translationParameters

codonLeftoverRange

public final com.milaboratory.core.Range codonLeftoverRange

Position of nucleotides required to fulfill left or right incomplete codon

Constructor Detail

RangeTranslationParameters

public RangeTranslationParameters(ReferencePoint beginPoint,
                                  ReferencePoint endPoint,
                                  com.milaboratory.core.Range range)

RangeTranslationParameters

public RangeTranslationParameters(ReferencePoint beginPoint,
                                  ReferencePoint endPoint,
                                  com.milaboratory.core.Range range,
                                  com.milaboratory.core.Range codonLeftoverRange)

Method Detail

leftIncompleteCodonRange

public com.milaboratory.core.Range leftIncompleteCodonRange()

rightIncompleteCodonRange

public com.milaboratory.core.Range rightIncompleteCodonRange()

acceptCodonLeftover

public boolean acceptCodonLeftover()

withCodonLeftover

public RangeTranslationParameters withCodonLeftover(com.milaboratory.core.Range leftover)

inFrame

public boolean inFrame()

tryMergeRight

public RangeTranslationParameters tryMergeRight(RangeTranslationParameters right)

toString

public java.lang.String toString()

Overrides:

toString in class java.lang.Object

equals

public boolean equals(java.lang.Object o)

Overrides:

equals in class java.lang.Object

hashCode

public int hashCode()

Overrides:

hashCode in class java.lang.Object