cytoflow.operations package#
cytoflow.operations#
This package contains all cytoflow operations – classes
implementing IOperation whose IOperation.apply function takes an
Experiment and returns an Experiment.
Submodules#
- cytoflow.operations.autofluorescence
AutofluorescenceOpAutofluorescenceDiagnosticView- cytoflow.operations.base_op_views
OpViewOp1DViewOp2DViewByViewBy1DViewBy2DViewNullViewAnnotatingView- cytoflow.operations.bead_calibration
BeadCalibrationOpBeadCalibrationOp.unitsBeadCalibrationOp.beads_fileBeadCalibrationOp.beadsBeadCalibrationOp.bead_peak_quantileBeadCalibrationOp.bead_brightness_thresholdBeadCalibrationOp.bead_brightness_cutoffBeadCalibrationOp.bead_histogram_binsBeadCalibrationOp.force_linearBeadCalibrationOp.estimate()BeadCalibrationOp.apply()BeadCalibrationOp.default_view()BeadCalibrationOp.BEADS
BeadCalibrationDiagnostic- cytoflow.operations.binning
BinningOpBinningView- cytoflow.operations.bleedthrough_linear
BleedthroughLinearOpBleedthroughLinearDiagnostic- cytoflow.operations.category
CategoryOp- cytoflow.operations.centroid
- cytoflow.operations.channel_stat
ChannelStatisticOp- cytoflow.operations.color_translation
ColorTranslationOpColorTranslationDiagnostic- cytoflow.operations.density
DensityGateOpDensityGateOp.nameDensityGateOp.xchannelDensityGateOp.ychannelDensityGateOp.xscaleDensityGateOp.yscaleDensityGateOp.keepDensityGateOp.binsDensityGateOp.min_quantileDensityGateOp.max_quantileDensityGateOp.sigmaDensityGateOp.byDensityGateOp.estimate()DensityGateOp.apply()DensityGateOp.default_view()
DensityGateView- cytoflow.operations.flowclean
FlowCleanOpFlowCleanOp.nameFlowCleanOp.time_channelFlowCleanOp.channelsFlowCleanOp.scaleFlowCleanOp.segment_sizeFlowCleanOp.density_cutoffFlowCleanOp.max_discontinuityFlowCleanOp.max_driftFlowCleanOp.max_mean_driftFlowCleanOp.segment_cutoffFlowCleanOp.detect_worst_channels_rangeFlowCleanOp.detect_worst_channels_sdFlowCleanOp.measuresFlowCleanOp.dont_cleanFlowCleanOp.force_cleanFlowCleanOp.tube_statusFlowCleanOp.tube_statisticsFlowCleanOp.estimate()FlowCleanOp.apply()FlowCleanOp.default_view()
FlowCleanDiagnostic- cytoflow.operations.flowpeaks
FlowPeaksOpFlowPeaks1DViewFlowPeaks2DViewFlowPeaks2DView.facetsFlowPeaks2DView.byFlowPeaks2DView.xchannelFlowPeaks2DView.ychannelFlowPeaks2DView.xscaleFlowPeaks2DView.yscaleFlowPeaks2DView.opFlowPeaks2DView.huechannelFlowPeaks2DView.subsetFlowPeaks2DView.xfacetFlowPeaks2DView.yfacetFlowPeaks2DView.huefacetFlowPeaks2DView.huescaleFlowPeaks2DView.plot()
FlowPeaks2DDensityViewFlowPeaks2DDensityView.facetsFlowPeaks2DDensityView.byFlowPeaks2DDensityView.xchannelFlowPeaks2DDensityView.ychannelFlowPeaks2DDensityView.xscaleFlowPeaks2DDensityView.yscaleFlowPeaks2DDensityView.opFlowPeaks2DDensityView.subsetFlowPeaks2DDensityView.xfacetFlowPeaks2DDensityView.yfacetFlowPeaks2DDensityView.huefacetFlowPeaks2DDensityView.huescaleFlowPeaks2DDensityView.plot()
- cytoflow.operations.frame_stat
FrameStatisticOp- cytoflow.operations.gaussian
GaussianMixtureOpGaussianMixture1DViewGaussianMixture1DView.facetsGaussianMixture1DView.byGaussianMixture1DView.channelGaussianMixture1DView.scaleGaussianMixture1DView.opGaussianMixture1DView.subsetGaussianMixture1DView.xfacetGaussianMixture1DView.yfacetGaussianMixture1DView.huefacetGaussianMixture1DView.huescaleGaussianMixture1DView.plot()
poly_area()GaussianMixture2DViewGaussianMixture2DView.facetsGaussianMixture2DView.byGaussianMixture2DView.xchannelGaussianMixture2DView.ychannelGaussianMixture2DView.xscaleGaussianMixture2DView.yscaleGaussianMixture2DView.opGaussianMixture2DView.huechannelGaussianMixture2DView.subsetGaussianMixture2DView.xfacetGaussianMixture2DView.yfacetGaussianMixture2DView.huefacetGaussianMixture2DView.huescaleGaussianMixture2DView.plot()
- cytoflow.operations.hierarchy
HierarchyOp- cytoflow.operations.i_operation
IOperation- cytoflow.operations.import_op
TubeImportOpcheck_tube()autodetect_name_metadata()parse_tube()- cytoflow.operations.kmeans
KMeansOpKMeans1DViewKMeans2DView- cytoflow.operations.mst
ConditionSelectionOpMSTOpMSTSelectionViewMSTSelectionView.opMSTSelectionView.statisticMSTSelectionView.locationsMSTSelectionView.locations_levelMSTSelectionView.locations_featuresMSTSelectionView.variableMSTSelectionView.featureMSTSelectionView.styleMSTSelectionView.scaleMSTSelectionView.size_functionMSTSelectionView.metricMSTSelectionView.subsetMSTSelectionView.plot()
- cytoflow.operations.pca
PCAOp- cytoflow.operations.polygon
PolygonOpScatterplotPolygonSelectionViewScatterplotPolygonSelectionView.interactiveScatterplotPolygonSelectionView.xchannelScatterplotPolygonSelectionView.ychannelScatterplotPolygonSelectionView.xscaleScatterplotPolygonSelectionView.yscaleScatterplotPolygonSelectionView.opScatterplotPolygonSelectionView.huechannelScatterplotPolygonSelectionView.subsetScatterplotPolygonSelectionView.xfacetScatterplotPolygonSelectionView.yfacetScatterplotPolygonSelectionView.huefacetScatterplotPolygonSelectionView.huescaleScatterplotPolygonSelectionView.plot()
DensityPolygonSelectionViewDensityPolygonSelectionView.interactiveDensityPolygonSelectionView.xchannelDensityPolygonSelectionView.ychannelDensityPolygonSelectionView.xscaleDensityPolygonSelectionView.yscaleDensityPolygonSelectionView.opDensityPolygonSelectionView.huefacetDensityPolygonSelectionView.subsetDensityPolygonSelectionView.xfacetDensityPolygonSelectionView.yfacetDensityPolygonSelectionView.huescaleDensityPolygonSelectionView.plot()
- cytoflow.operations.quad
QuadOpScatterplotQuadSelectionViewScatterplotQuadSelectionView.interactiveScatterplotQuadSelectionView.xchannelScatterplotQuadSelectionView.ychannelScatterplotQuadSelectionView.xscaleScatterplotQuadSelectionView.yscaleScatterplotQuadSelectionView.opScatterplotQuadSelectionView.huechannelScatterplotQuadSelectionView.subsetScatterplotQuadSelectionView.xfacetScatterplotQuadSelectionView.yfacetScatterplotQuadSelectionView.huefacetScatterplotQuadSelectionView.huescaleScatterplotQuadSelectionView.plot()
DensityQuadSelectionViewDensityQuadSelectionView.interactiveDensityQuadSelectionView.xchannelDensityQuadSelectionView.ychannelDensityQuadSelectionView.xscaleDensityQuadSelectionView.yscaleDensityQuadSelectionView.opDensityQuadSelectionView.huefacetDensityQuadSelectionView.subsetDensityQuadSelectionView.xfacetDensityQuadSelectionView.yfacetDensityQuadSelectionView.huescaleDensityQuadSelectionView.plot()
- cytoflow.operations.range
RangeOpRangeSelection- cytoflow.operations.range2d
Range2DOpScatterplotRangeSelection2DViewScatterplotRangeSelection2DView.interactiveScatterplotRangeSelection2DView.xchannelScatterplotRangeSelection2DView.ychannelScatterplotRangeSelection2DView.xscaleScatterplotRangeSelection2DView.yscaleScatterplotRangeSelection2DView.opScatterplotRangeSelection2DView.huechannelScatterplotRangeSelection2DView.subsetScatterplotRangeSelection2DView.xfacetScatterplotRangeSelection2DView.yfacetScatterplotRangeSelection2DView.huefacetScatterplotRangeSelection2DView.huescale
DensityRangeSelection2DViewDensityRangeSelection2DView.interactiveDensityRangeSelection2DView.xchannelDensityRangeSelection2DView.ychannelDensityRangeSelection2DView.xscaleDensityRangeSelection2DView.yscaleDensityRangeSelection2DView.opDensityRangeSelection2DView.huefacetDensityRangeSelection2DView.subsetDensityRangeSelection2DView.xfacetDensityRangeSelection2DView.yfacetDensityRangeSelection2DView.huescale
- cytoflow.operations.ratio
RatioOp- cytoflow.operations.register
RegistrationOpRegistrationDiagnosticView- cytoflow.operations.som
SOMOpSOMOp.nameSOMOp.channelsSOMOp.scaleSOMOp.consensus_clusterSOMOp.num_iterationsSOMOp.bySOMOp.sampleSOMOp.widthSOMOp.heightSOMOp.distanceSOMOp.learning_rateSOMOp.sigmaSOMOp.min_clustersSOMOp.max_clustersSOMOp.n_resamplesSOMOp.resample_fracSOMOp.StatisticsSOMOp.estimate()SOMOp.update_consensus_clusters()SOMOp.apply()SOMOp.default_view()
SOMDiagnosticView- cytoflow.operations.threshold
ThresholdOpThresholdSelection- cytoflow.operations.tsne
tSNEOp- cytoflow.operations.xform_stat
TransformStatisticOp