Uses of Class
ubic.gemma.core.loader.expression.geo.model.GeoSample
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Packages that use GeoSample Package Description ubic.gemma.core.loader.expression.geo ubic.gemma.core.loader.expression.geo.model -
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Uses of GeoSample in ubic.gemma.core.loader.expression.geo
Methods in ubic.gemma.core.loader.expression.geo that return types with arguments of type GeoSample Modifier and Type Method Description static Map<GeoPlatform,List<GeoSample>>
DatasetCombiner. getPlatformSampleMap(GeoSeries geoSeries)
Map<String,GeoSample>
GeoParseResult. getSampleMap()
Map<String,GeoSample>
GeoParseResult. getSamples()
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Uses of GeoSample in ubic.gemma.core.loader.expression.geo.model
Methods in ubic.gemma.core.loader.expression.geo.model that return types with arguments of type GeoSample Modifier and Type Method Description Collection<GeoSample>
GeoReplication. getSamples()
Collection<GeoSample>
GeoSeries. getSamples()
Collection<GeoSample>
GeoSubset. getSamples()
Collection<GeoSample>
GeoVariable. getSamples()
Methods in ubic.gemma.core.loader.expression.geo.model with parameters of type GeoSample Modifier and Type Method Description void
GeoSeries. addSample(GeoSample sample)
void
GeoSubset. addSample(GeoSample sample)
void
GeoValues. addSample(GeoSample sample)
Only call this to add a sample for which there are no data.void
GeoReplication. addToRepeatsSampleList(GeoSample sample)
void
GeoVariable. addToVariableSampleList(GeoSample sample)
void
GeoValues. addValue(GeoSample sample, Integer quantitationTypeIndex, String designElement, Object value)
Store a value.Method parameters in ubic.gemma.core.loader.expression.geo.model with type arguments of type GeoSample Modifier and Type Method Description void
GeoSeries. addSamples(Collection<GeoSample> s)
Add a group of samples to this series.void
GeoValues. clear(GeoPlatform platform, List<GeoSample> datasetSamples, Integer quantitationTypeIndex)
If possible, null out the data for a quantitation type on a given platform.Integer[]
GeoValues. getIndices(GeoPlatform platform, List<GeoSample> neededSamples, Integer quantitationType)
Get the indices of the data for a set of samples - this can be used to get a slice of the data.GeoValues
GeoSeries. getValues(Collection<GeoSample> s)
Get a subset of the values.void
GeoSeries. removeSamples(Collection<GeoSample> samplesToSkip)
Clean up samples we have decided are ineligible (i.e., non transcriptomic)void
GeoSubset. setSample(Collection<GeoSample> samples)
void
GeoReplication. setSamples(Collection<GeoSample> repeatsSampleList)
void
GeoVariable. setSamples(Collection<GeoSample> variableSampleList)
GeoValues
GeoValues. subset(Collection<GeoSample> samples)
This creates a new GeoValues that has data only for the selected samples.
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