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Packages that use de.jstacs.data.sequences.annotation | |
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de.jstacs.data | Provides classes for the representation of data. |
de.jstacs.data.sequences | Provides classes for representing sequences. |
de.jstacs.data.sequences.annotation | Provides the facilities to annotate Sequence s using a number of pre-defined annotation types, or additional
implementations of the SequenceAnnotation class |
de.jstacs.models.mixture.motif | |
de.jstacs.motifDiscovery | This package provides the framework including the interface for any de novo motif discoverer |
de.jstacs.scoringFunctions | Provides ScoringFunction s that can be used in a ScoreClassifier . |
de.jstacs.scoringFunctions.mix | Provides ScoringFunction s that are mixtures of other ScoringFunction s. |
de.jstacs.scoringFunctions.mix.motifSearch |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.data | |
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SequenceAnnotation
Class for a general annotation of a Sequence . |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.data.sequences | |
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SequenceAnnotation
Class for a general annotation of a Sequence . |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.data.sequences.annotation | |
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LocatedSequenceAnnotation
Class for a SequenceAnnotation that has a position on the sequence,
e.g for transcription start sites or intron-exon junctions. |
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LocatedSequenceAnnotationWithLength
Class for a SequenceAnnotation that has a position on the sequence
and a length, e.g. for donor splice sites, exons or genes. |
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MotifAnnotation
Class for a StrandedLocatedSequenceAnnotationWithLength that is a
motif. |
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SequenceAnnotation
Class for a general annotation of a Sequence . |
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SinglePositionSequenceAnnotation
Class for some annotations that consist mainly of one position on a sequence. |
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SinglePositionSequenceAnnotation.Type
This enum defines possible types of a
SinglePositionSequenceAnnotation . |
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StrandedLocatedSequenceAnnotationWithLength
Class for a SequenceAnnotation that has a position, a length and an
orientation on the strand of a Sequence . |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.models.mixture.motif | |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.motifDiscovery | |
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MotifAnnotation
Class for a StrandedLocatedSequenceAnnotationWithLength that is a
motif. |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.scoringFunctions | |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.scoringFunctions.mix | |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
Classes in de.jstacs.data.sequences.annotation used by de.jstacs.scoringFunctions.mix.motifSearch | |
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StrandedLocatedSequenceAnnotationWithLength.Strand
This enum defines possible orientations on the strands. |
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