Uses of Class
ubic.gemma.core.analysis.preprocess.PreprocessingException

Packages that use PreprocessingException

Package	Description
ubic.gemma.core.analysis.preprocess
ubic.gemma.core.analysis.preprocess.batcheffects
ubic.gemma.core.analysis.preprocess.filter

Uses of PreprocessingException in ubic.gemma.core.analysis.preprocess

Subclasses of PreprocessingException in ubic.gemma.core.analysis.preprocess

Modifier and Type	Class	Description
class	FailedToComputeSingularValueDecomposition
class	InsufficientProbesException
class	QuantitationMismatchPreprocessingException
class	SampleCoexpressionRelatedPreprocessingException	Exception raised in preprocessing when there is a problem with sample coexpression analysis.
class	SVDRelatedPreprocessingException	Exception raised if a SVD cannot be computed.

Methods in ubic.gemma.core.analysis.preprocess that throw PreprocessingException

Modifier and Type	Method	Description
default void	PreprocessorService.process(ExpressionExperiment ee)	Preprocess a dataset.
default void	PreprocessorService.process(ExpressionExperiment ee, boolean ignoreQuantitationMismatch)	Preprocess a dataset.
void	PreprocessorService.process(ExpressionExperiment ee, boolean ignoreQuantitationMismatch, boolean ignoreDiagnosticFailure)	Preprocess a dataset.
void	PreprocessorServiceImpl.process(ExpressionExperiment ee, boolean ignoreQuantitationMismatch, boolean ignoreDiagnosticsFailure)
void	PreprocessorService.processDiagnostics(ExpressionExperiment ee)	Create or update the sample correlation, PCA and M-V data.
void	PreprocessorServiceImpl.processDiagnostics(ExpressionExperiment ee)

Uses of PreprocessingException in ubic.gemma.core.analysis.preprocess.batcheffects

Subclasses of PreprocessingException in ubic.gemma.core.analysis.preprocess.batcheffects

Modifier and Type	Class	Description
class	BatchInfoMissingException	Indicate that batch information is missing.
class	BatchInfoPopulationException	Used to indicate a problem with the population of batch information for a given ExpressionExperiment.
class	FASTQHeadersPresentButNotUsableException	Indicates that FASTQ headers were present, but were not in a format that yields usable information on batches.
class	SingletonBatchesException	Indicates that batches with only a single sample were found, which means we don't form batches at all.
class	UnsupportedRawdataFileFormatException	Used to indicate failure was due to the format being unusable, but the files are available.

Uses of PreprocessingException in ubic.gemma.core.analysis.preprocess.filter

Subclasses of PreprocessingException in ubic.gemma.core.analysis.preprocess.filter

Modifier and Type	Class	Description
class	FilteringException
class	InsufficientDataException	Used to indicate that analysis was skipped, not necessarily an error.
class	InsufficientSamplesException
class	NoRowsLeftAfterFilteringException	This is a special kind of preprocessing exception that occurs when filtering the expression data matrix result in no rows left.