Uses of Package
ubic.gemma.model.expression.bioAssayData
Packages that use ubic.gemma.model.expression.bioAssayData
Package
Description
This package contains classes for preprocessing expression data.
Convert data from one
QuantitationType to another.This package provides capabilities for slicing
BulkExpressionDataVector.This package contains classes for analysing single-cell expression data.
This package contains classes for splitting and aggregating single-cell data.
This package contains classes for computing various statistics.
This package contains data structures for representing matrices of gene expression.
This package contains I/O utilities for reading and writing expression data matrices.
This package contains classes for loading single cell expression data.
This package contains classes for loading single-cell metadata such as cell type assignment and cell-level
characteristics.
This package contains classes related to the Cell Browser visualization tool.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.expression.coexpression.linksClassDescriptionRepresents the processed data that is used for actual analyses.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.expression.diff
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.preprocessClassDescriptionData for one design element, across one or more bioassays, for a single quantitation type.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.preprocess.convertClassDescriptionAn abstract class representing a one-dimensional vector of data about some aspect of an
ExpressionExperiment. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.preprocess.filterClassDescriptionRepresents the processed data that is used for actual analyses.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.preprocess.svd
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.serviceClassDescriptionCharacteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.Represents the processed data that is used for actual analyses. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.singleCellClassDescriptionCharacteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.singleCell.aggregateClassDescriptionStores the order of BioAssays referred to in DataVectors.Characteristics applicable to individual cells in a
SingleCellDimension.Data for one design element, across one or more bioassays, for a single quantitation type.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.analysis.statsClassDescriptionAn abstract class representing a one-dimensional vector of data about some aspect of an
ExpressionExperiment. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.datastructure.matrixClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.Represents the processed data that is used for actual analyses.Represents a single-cell dimension, holding shared information for a set of
SingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.datastructure.matrix.ioClassDescriptionAn expression data vector that contains data at the resolution of individual cells.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.loader.expression.singleCellClassDescriptionCharacteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.loader.expression.singleCell.metadataClassDescriptionCharacteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.visualizationClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.Characteristics applicable to individual cells in a
SingleCellDimension.Value object for aBulkExpressionDataVectorcontaining doubles.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.core.visualization.cellbrowserClassDescriptionCharacteristics applicable to individual cells in a
SingleCellDimension.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.model.analysis.expression.pca
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.model.common.quantitationtypeClassDescriptionAn abstract class representing a one-dimensional vector of data about some aspect of an
ExpressionExperiment. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.model.expression.bioAssayDataClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.Characteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.An abstract class representing a one-dimensional vector of data about some aspect of anExpressionExperiment.Base class for value objects ofBulkExpressionDataVector.Data vector associated to aCompositeSequence.Value object for aBulkExpressionDataVectorcontaining doubles.Represents the processed data that is used for actual analyses.Data for one design element, across one or more bioassays, for a single quantitation type.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.model.expression.experimentClassDescriptionRepresents the processed data that is used for actual analyses.Data for one design element, across one or more bioassays, for a single quantitation type.An expression data vector that contains data at the resolution of individual cells.
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.persistence.service.common.quantitationtypeClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.An abstract class representing a one-dimensional vector of data about some aspect of an
ExpressionExperiment. -
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Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.persistence.service.expression.bioAssayDataClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.Data vector associated to a
CompositeSequence.Value object for aBulkExpressionDataVectorcontaining doubles.Represents the processed data that is used for actual analyses.Data for one design element, across one or more bioassays, for a single quantitation type. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.persistence.service.expression.experimentClassDescriptionStores the order of BioAssays referred to in DataVectors.A data vector storing bulk expression data.Characteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.An abstract class representing a one-dimensional vector of data about some aspect of anExpressionExperiment.Represents the processed data that is used for actual analyses.Data for one design element, across one or more bioassays, for a single quantitation type.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.An expression data vector that contains data at the resolution of individual cells. -
Classes in ubic.gemma.model.expression.bioAssayData used by ubic.gemma.persistence.utilClassDescriptionStores the order of BioAssays referred to in DataVectors.Characteristics applicable to individual cells in a
SingleCellDimension.Represents a cell type assignment where cells from a given dataset are assigned cell types.Data vector associated to aCompositeSequence.Represents a single-cell dimension, holding shared information for a set ofSingleCellExpressionDataVector.