Uses of Package
com.milaboratory.core.alignment.batch

Packages that use com.milaboratory.core.alignment.batch

Package	Description
com.milaboratory.core.alignment.batch
com.milaboratory.core.alignment.benchmark
com.milaboratory.core.alignment.blast
com.milaboratory.core.alignment.kaligner1
com.milaboratory.core.alignment.kaligner2
com.milaboratory.core.sequence

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.alignment.batch

Class and Description
AbstractBatchAligner
AlignmentHit
AlignmentResult
AlignmentResultImpl
BatchAligner Represents aligner that can align a sequence against a set of other sequences.
BatchAlignerWithBase BatchAligner with self-managed database (user can directly add subject sequences before running alignment).
BatchAlignerWithBaseParameters
BatchAlignerWithBaseWithFilter
HasSequence Interface for objects which natively have a sequence as their distinctive property.
PipedAlignmentResult
PipedBatchAligner Represents aligner that can align a sequence against a set of other sequences.
SequenceExtractor Interface for class to extract sequences from objects
SimpleBatchAlignerParameters Parameters of SimpleBatchAligner.
WithBase Interface for aligners with self-managed database (user can directly add subject sequences before running alignment)

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.alignment.benchmark

Class and Description
BatchAlignerWithBaseParameters

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.alignment.blast

Class and Description
AlignmentHit
AlignmentHitImpl
HasSequence Interface for objects which natively have a sequence as their distinctive property.
PipedAlignmentResult
PipedBatchAligner Represents aligner that can align a sequence against a set of other sequences.
PipedBatchAlignerWithBase PipedBatchAligner with self-managed database (user can directly add subject sequences before running alignment).
SequenceExtractor Interface for class to extract sequences from objects
WithBase Interface for aligners with self-managed database (user can directly add subject sequences before running alignment)

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.alignment.kaligner1

Class and Description
AlignmentHit
AlignmentResult
BatchAligner Represents aligner that can align a sequence against a set of other sequences.
BatchAlignerWithBase BatchAligner with self-managed database (user can directly add subject sequences before running alignment).
BatchAlignerWithBaseParameters
BatchAlignerWithBaseWithFilter
HasSequence Interface for objects which natively have a sequence as their distinctive property.
PipedAlignmentResult
PipedBatchAligner Represents aligner that can align a sequence against a set of other sequences.
PipedBatchAlignerWithBase PipedBatchAligner with self-managed database (user can directly add subject sequences before running alignment).
SequenceExtractor Interface for class to extract sequences from objects
WithBase Interface for aligners with self-managed database (user can directly add subject sequences before running alignment)

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.alignment.kaligner2

Class and Description
AlignmentHit
AlignmentResult
BatchAligner Represents aligner that can align a sequence against a set of other sequences.
BatchAlignerWithBase BatchAligner with self-managed database (user can directly add subject sequences before running alignment).
BatchAlignerWithBaseParameters
BatchAlignerWithBaseWithFilter
WithBase Interface for aligners with self-managed database (user can directly add subject sequences before running alignment)

Classes in com.milaboratory.core.alignment.batch used by com.milaboratory.core.sequence

Class and Description
HasSequence Interface for objects which natively have a sequence as their distinctive property.