Package ubic.gemma.core.loader.expression.simple

Interface SimpleExpressionDataLoaderService

All Known Implementing Classes:

SimpleExpressionDataLoaderServiceImpl

public interface SimpleExpressionDataLoaderService

Load experiment from a flat file. See also DataUpdater for related operations on experiments already in the system.

Author:

paul

Method Summary

Modifier and Type	Method	Description
ExpressionExperiment	convert(SimpleExpressionExperimentMetadata metaData, DoubleMatrix<String,String> data)	Convert simple experiment metadata and data into Gemma objects.
ExpressionExperiment	create(SimpleExpressionExperimentMetadata metaData, DoubleMatrix<String,String> data)	Parses, converts (into Gemma objects), and loads data into the database.

Method Detail

create

ExpressionExperiment create(SimpleExpressionExperimentMetadata metaData,
                            @Nullable
                            DoubleMatrix<String,String> data)

Parses, converts (into Gemma objects), and loads data into the database.

If data is provided and preferred, post-processing will be triggered.

Parameters:

metaData - meta data

data - tab-delimited file with row names corresponding to CompositeSequence names and column names corresponding to BioAssay names. Note that if you provide samples in the metadata, all the samples referenced in the data file must be declared.

Returns:

new experiment

convert

ExpressionExperiment convert(SimpleExpressionExperimentMetadata metaData,
                             @Nullable
                             DoubleMatrix<String,String> data)

Convert simple experiment metadata and data into Gemma objects.