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Cytoflow 1.3.1 documentation

  • User manual
  • Developer Manual
  • GitHub
  • User manual
  • Developer Manual
  • GitHub

Section Navigation

  • Tutorials
    • Basic example cytometry workflow
    • Tutorial: Estimating Genome Size
    • Hierarchical Gating
    • Interactive Plots
    • Machine Learning for Flow Cytometry
    • Tutorial: Microbial Diversity
    • Statistics in cytoflow
    • Yeast Dosage-Response Curve
  • Examples
    • Computational Cytometry
    • Yeast induction timecourse
    • Kiani et al, Nature Methods 2014
    • TASBE Workflow Example
  • How-To Guides for Developers and Contributors
    • HOWTO: Install Cytoflow Modules
    • HOWTO: Spin a new release
    • HOWTO: Use the logicle scale in other matplotlib plots
  • Topic Guides
    • Design Guide
    • Writing new cytoflow modules
    • Creating multiple plots
  • Frequently Asked Questions
  • cytoflow package
    • cytoflow.operations package
      • cytoflow.operations.autofluorescence
      • cytoflow.operations.base_op_views
      • cytoflow.operations.bead_calibration
      • cytoflow.operations.binning
      • cytoflow.operations.bleedthrough_linear
      • cytoflow.operations.category
      • cytoflow.operations.centroid
      • cytoflow.operations.channel_stat
      • cytoflow.operations.color_translation
      • cytoflow.operations.density
      • cytoflow.operations.flowclean
      • cytoflow.operations.flowpeaks
      • cytoflow.operations.frame_stat
      • cytoflow.operations.gaussian
      • cytoflow.operations.hierarchy
      • cytoflow.operations.i_operation
      • cytoflow.operations.import_op
      • cytoflow.operations.kmeans
      • cytoflow.operations.mst
      • cytoflow.operations.pca
      • cytoflow.operations.polygon
      • cytoflow.operations.quad
      • cytoflow.operations.range
      • cytoflow.operations.range2d
      • cytoflow.operations.ratio
      • cytoflow.operations.register
      • cytoflow.operations.som
      • cytoflow.operations.threshold
      • cytoflow.operations.tsne
      • cytoflow.operations.xform_stat
    • cytoflow.scripts package
      • cytoflow.scripts.channel_voltages
      • cytoflow.scripts.fcs_metadata
      • cytoflow.scripts.parse_beads
      • cytoflow.scripts.split_fcs
    • cytoflow.utility package
      • cytoflow.utility.algorithms
      • resample()
      • ConsensusCluster
      • cytoflow.utility.custom_traits
      • cytoflow.utility.cytoflow_errors
      • cytoflow.utility.docstring
      • cytoflow.utility.fcswrite
      • cytoflow.utility.hlog_scale
      • KneeLocator
      • cytoflow.utility.linear_scale
      • cytoflow.utility.log_scale
      • cytoflow.utility.logging_ext
      • cytoflow.utility.logicle_scale
      • cytoflow.utility.minisom
      • cytoflow.utility.scale
      • cytoflow.utility.util_functions
    • cytoflow.views package
      • cytoflow.views.bar_chart
      • cytoflow.views.base_views
      • cytoflow.views.densityplot
      • cytoflow.views.export_fcs
      • cytoflow.views.histogram
      • cytoflow.views.histogram_2d
      • cytoflow.views.i_selectionview
      • cytoflow.views.i_view
      • cytoflow.views.kde_1d
      • cytoflow.views.kde_2d
      • cytoflow.views.long_table
      • cytoflow.views.matrix
      • cytoflow.views.mst
      • cytoflow.views.parallel_coords
      • cytoflow.views.radviz
      • cytoflow.views.scatterplot
      • cytoflow.views.stats_1d
      • cytoflow.views.stats_2d
      • cytoflow.views.table
      • cytoflow.views.violin
    • cytoflow.experiment
  • cytoflowgui package
    • cytoflowgui.editors package
      • cytoflowgui.editors.color_text_editor
      • cytoflowgui.editors.ext_enum_editor
      • cytoflowgui.editors.instance_handler_editor
      • cytoflowgui.editors.range_slider
      • cytoflowgui.editors.subset_list_editor
      • cytoflowgui.editors.tab_list_editor
      • cytoflowgui.editors.toggle_button
      • cytoflowgui.editors.value_bounds_editor
      • cytoflowgui.editors.vertical_list_editor
      • cytoflowgui.editors.vertical_notebook
      • cytoflowgui.editors.vertical_notebook_editor
    • cytoflowgui.op_plugins package
      • cytoflowgui.op_plugins.autofluorescence
      • cytoflowgui.op_plugins.bead_calibration
      • cytoflowgui.op_plugins.binning
      • cytoflowgui.op_plugins.bleedthrough_linear
      • cytoflowgui.op_plugins.category
      • cytoflowgui.op_plugins.channel_stat
      • cytoflowgui.op_plugins.color_translation
      • cytoflowgui.op_plugins.density
      • cytoflowgui.op_plugins.flowclean
      • cytoflowgui.op_plugins.flowpeaks
      • cytoflowgui.op_plugins.gaussian_1d
      • cytoflowgui.op_plugins.gaussian_2d
      • cytoflowgui.op_plugins.hierarchy
      • cytoflowgui.op_plugins.i_op_plugin
      • cytoflowgui.op_plugins.import_op
      • cytoflowgui.op_plugins.kmeans
      • cytoflowgui.op_plugins.merge_stat
      • cytoflowgui.op_plugins.mst
      • cytoflowgui.op_plugins.multi_channel_stat
      • cytoflowgui.op_plugins.op_plugin_base
      • cytoflowgui.op_plugins.pca
      • cytoflowgui.op_plugins.polygon
      • cytoflowgui.op_plugins.quad
      • cytoflowgui.op_plugins.range
      • cytoflowgui.op_plugins.range2d
      • cytoflowgui.op_plugins.ratio
      • cytoflowgui.op_plugins.register
      • cytoflowgui.op_plugins.som
      • cytoflowgui.op_plugins.tasbe
      • cytoflowgui.op_plugins.threshold
      • cytoflowgui.op_plugins.tsne
      • cytoflowgui.op_plugins.xform_stat
    • cytoflowgui.utility package
      • cytoflowgui.utility.event_tracer
      • cytoflowgui.utility.logging
    • cytoflowgui.view_plugins package
      • cytoflowgui.view_plugins.bar_chart
      • cytoflowgui.view_plugins.density
      • cytoflowgui.view_plugins.export_fcs
      • cytoflowgui.view_plugins.histogram
      • cytoflowgui.view_plugins.histogram_2d
      • cytoflowgui.view_plugins.i_view_plugin
      • cytoflowgui.view_plugins.kde_1d
      • cytoflowgui.view_plugins.kde_2d
      • cytoflowgui.view_plugins.long_table
      • cytoflowgui.view_plugins.matrix
      • cytoflowgui.view_plugins.mst
      • cytoflowgui.view_plugins.parallel_coords
      • cytoflowgui.view_plugins.radviz
      • cytoflowgui.view_plugins.scatterplot
      • cytoflowgui.view_plugins.stats_1d
      • cytoflowgui.view_plugins.stats_2d
      • cytoflowgui.view_plugins.table
      • cytoflowgui.view_plugins.view_plugin_base
      • cytoflowgui.view_plugins.violin
    • cytoflowgui.workflow package
      • cytoflowgui.workflow.operations package
        • cytoflowgui.workflow.operations.autofluorescence
        • cytoflowgui.workflow.operations.bead_calibration
        • cytoflowgui.workflow.operations.binning
        • cytoflowgui.workflow.operations.bleedthrough_linear
        • CategoryOpSubset
        • cytoflowgui.workflow.operations.channel_stat
        • cytoflowgui.workflow.operations.color_translation
        • cytoflowgui.workflow.operations.density
        • cytoflowgui.workflow.operations.flowclean
        • cytoflowgui.workflow.operations.flowpeaks
        • cytoflowgui.workflow.operations.gaussian_1d
        • cytoflowgui.workflow.operations.gaussian_2d
        • HierarchyGate
        • cytoflowgui.workflow.operations.import_op
        • cytoflowgui.workflow.operations.kmeans
        • cytoflowgui.workflow.operations.merge_stat
        • cytoflowgui.workflow.operations.mst
        • cytoflowgui.workflow.operations.multi_channel_stat
        • cytoflowgui.workflow.operations.operation_base
        • cytoflowgui.workflow.operations.pca
        • cytoflowgui.workflow.operations.polygon
        • cytoflowgui.workflow.operations.quad
        • cytoflowgui.workflow.operations.range
        • cytoflowgui.workflow.operations.range2d
        • cytoflowgui.workflow.operations.ratio
        • cytoflowgui.workflow.operations.register
        • cytoflowgui.workflow.operations.som
        • cytoflowgui.workflow.operations.tasbe
        • cytoflowgui.workflow.operations.threshold
        • cytoflowgui.workflow.operations.tsne
        • cytoflowgui.workflow.operations.xform_stat
      • cytoflowgui.workflow.views package
        • cytoflowgui.workflow.views.bar_chart
        • cytoflowgui.workflow.views.density
        • cytoflowgui.workflow.views.export_fcs
        • cytoflowgui.workflow.views.histogram
        • cytoflowgui.workflow.views.histogram_2d
        • cytoflowgui.workflow.views.kde_1d
        • cytoflowgui.workflow.views.kde_2d
        • cytoflowgui.workflow.views.long_table
        • cytoflowgui.workflow.views.matrix
        • cytoflowgui.workflow.views.mst
        • cytoflowgui.workflow.views.parallel_coords
        • cytoflowgui.workflow.views.radviz
        • cytoflowgui.workflow.views.scatterplot
        • cytoflowgui.workflow.views.stats_1d
        • cytoflowgui.workflow.views.stats_2d
        • cytoflowgui.workflow.views.table
        • cytoflowgui.workflow.views.view_base
        • cytoflowgui.workflow.views.violin
      • cytoflowgui.workflow.serialization
      • cytoflowgui.workflow.subset
      • cytoflowgui.workflow.workflow
      • cytoflowgui.workflow.workflow_item
    • cytoflowgui.cytoflow_application
    • cytoflowgui.experiment_pane
    • cytoflowgui.experiment_pane_model
    • cytoflowgui.export_task
    • FlowTaskPane
    • cytoflowgui.help_pane
    • cytoflowgui.import_dialog
    • cytoflowgui.matplotlib_backend_local
    • cytoflowgui.matplotlib_backend_remote
    • cytoflowgui.preferences
    • cytoflowgui.run
    • cytoflowgui.subset_controllers
    • cytoflowgui.util
    • cytoflowgui.view_pane
    • cytoflowgui.workflow_controller
    • cytoflowgui.workflow_pane
  • Developer Manual
  • cytoflowgui package
  • cytoflowgui.workflow package
  • cytoflowgui.workflow.operations package
  • <no title>
class cytoflowgui.workflow.operations.hierarchy.HierarchyGate[source]#

Bases: HasStrictTraits

class cytoflowgui.workflow.operations.hierarchy.HierarchyWorkflowOp[source]#

Bases: WorkflowOperation, HierarchyOp

get_notebook_code(idx)[source]#

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On this page
  • HierarchyGate
  • HierarchyWorkflowOp
    • HierarchyWorkflowOp.get_notebook_code()

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