Python Module Index

a | c | g | i | p | s | u | v


	a
	`ClearMap.Alignment`
	`ClearMap.Alignment.Annotation`
	`ClearMap.Alignment.Elastix`
	`ClearMap.Alignment.orientation`
	`ClearMap.Alignment.Resampling`
	`ClearMap.Alignment.Stitching`
	`ClearMap.Alignment.Stitching.layout_graph_utils`
	`ClearMap.Alignment.Stitching.plot_utils`
	`ClearMap.Alignment.Stitching.StitchingRigid`
	`ClearMap.Alignment.Stitching.StitchingWobbly`
	`ClearMap.Alignment.Stitching.Tracking`
	`ClearMap.Alignment.Transformation`
	`ClearMap.Alignment.Transformations`
	`ClearMap.Alignment.Transformations.LinearTransformation`
	`ClearMap.Alignment.Transformations.ResamplingTransformation`
	`ClearMap.Alignment.Transformations.SlicingTransformation`
	`ClearMap.Alignment.Transformations.Transformation`
	`ClearMap.Alignment.utils`
	`ClearMap.Analysis`
	`ClearMap.Analysis.Curves`
	`ClearMap.Analysis.Curves.Extrapolation`
	`ClearMap.Analysis.Curves.Resampling`
	`ClearMap.Analysis.DimensionReduction`
	`ClearMap.Analysis.Graphs`
	`ClearMap.Analysis.Graphs.Graph`
	`ClearMap.Analysis.Graphs.GraphGt`
	`ClearMap.Analysis.Graphs.GraphProcessing`
	`ClearMap.Analysis.Graphs.GraphRendering`
	`ClearMap.Analysis.Measurements`
	`ClearMap.Analysis.Measurements.maxima_detection`
	`ClearMap.Analysis.Measurements.MeasureExpression`
	`ClearMap.Analysis.Measurements.MeasureRadius`
	`ClearMap.Analysis.Measurements.shape_detection`
	`ClearMap.Analysis.Measurements.Voxelization`
	`ClearMap.Analysis.Statistics`
	`ClearMap.Analysis.Statistics.data_frame_operations`
	`ClearMap.Analysis.Statistics.group_statistics`
	`ClearMap.Analysis.Statistics.MultipleComparisonCorrection`
	`ClearMap.Analysis.Statistics.StatisticalTests`
	`ClearMap.Analysis.vasculature`
	`ClearMap.Analysis.vasculature.annotation_utils`
	`ClearMap.Analysis.vasculature.flow`
	`ClearMap.Analysis.vasculature.flow.assign_p_bc`
	`ClearMap.Analysis.vasculature.flow.linear_system`
	`ClearMap.Analysis.vasculature.flow.units`
	`ClearMap.Analysis.vasculature.graph_corrections`
	`ClearMap.Analysis.vasculature.vasc_graph_utils`

	c
	`ClearMap`
	`ClearMap.config`
	`ClearMap.config.atlas`
	`ClearMap.config.config_loader`
	`ClearMap.config.update_config`

	g
	`ClearMap.gui`
	`ClearMap.gui.creator`
	`ClearMap.gui.creator.graphics_resources_rc`
	`ClearMap.gui.creator.icons_rc`
	`ClearMap.gui.dialogs`
	`ClearMap.gui.gui_logging`
	`ClearMap.gui.gui_utils`
	`ClearMap.gui.interfaces`
	`ClearMap.gui.params`
	`ClearMap.gui.params_interfaces`
	`ClearMap.gui.preferences`
	`ClearMap.gui.pyuic_utils`
	`ClearMap.gui.style`
	`ClearMap.gui.tabs`
	`ClearMap.gui.widget_monkeypatch_callbacks`
	`ClearMap.gui.widgets`

	i
	`ClearMap.ImageProcessing`
	`ClearMap.ImageProcessing.Binary`
	`ClearMap.ImageProcessing.Binary.Filling`
	`ClearMap.ImageProcessing.Binary.FillingCode`
	`ClearMap.ImageProcessing.Binary.Smoothing`
	`ClearMap.ImageProcessing.Clipping`
	`ClearMap.ImageProcessing.Clipping.Clipping`
	`ClearMap.ImageProcessing.Clipping.ClippingCode`
	`ClearMap.ImageProcessing.Differentiation`
	`ClearMap.ImageProcessing.Differentiation.Gradient`
	`ClearMap.ImageProcessing.Differentiation.Hessian`
	`ClearMap.ImageProcessing.Differentiation.HessianCode`
	`ClearMap.ImageProcessing.Experts`
	`ClearMap.ImageProcessing.Experts.Axons`
	`ClearMap.ImageProcessing.Experts.Cells`
	`ClearMap.ImageProcessing.Experts.utils`
	`ClearMap.ImageProcessing.Experts.Vasculature`
	`ClearMap.ImageProcessing.Filter`
	`ClearMap.ImageProcessing.Filter.FilterKernel`
	`ClearMap.ImageProcessing.Filter.Orientation`
	`ClearMap.ImageProcessing.Filter.Orientation.Orientation`
	`ClearMap.ImageProcessing.Filter.Rank`
	`ClearMap.ImageProcessing.Filter.Rank.Bilateral`
	`ClearMap.ImageProcessing.Filter.Rank.BilateralCode`
	`ClearMap.ImageProcessing.Filter.Rank.Parametric`
	`ClearMap.ImageProcessing.Filter.Rank.ParametricCode`
	`ClearMap.ImageProcessing.Filter.Rank.Percentile`
	`ClearMap.ImageProcessing.Filter.Rank.PercentileCode`
	`ClearMap.ImageProcessing.Filter.Rank.Rank`
	`ClearMap.ImageProcessing.Filter.Rank.RankCode`
	`ClearMap.ImageProcessing.Filter.Rank.RankCoreCode`
	`ClearMap.ImageProcessing.Filter.Rank.RankResample`
	`ClearMap.ImageProcessing.Filter.StructureElement`
	`ClearMap.ImageProcessing.Filter.Vector`
	`ClearMap.ImageProcessing.Filter.Vector.Vector`
	`ClearMap.ImageProcessing.Filter.Vector.VectorCode`
	`ClearMap.ImageProcessing.Filter.Vector.VectorFilter`
	`ClearMap.ImageProcessing.Filter.Vector.VectorStructureElement`
	`ClearMap.ImageProcessing.GreyReconstruction`
	`ClearMap.ImageProcessing.IlluminationCorrection`
	`ClearMap.ImageProcessing.LightsheetCorrection`
	`ClearMap.ImageProcessing.LocalStatistics`
	`ClearMap.ImageProcessing.machine_learning`
	`ClearMap.ImageProcessing.machine_learning.vessel_filling`
	`ClearMap.ImageProcessing.Skeletonization`
	`ClearMap.ImageProcessing.Skeletonization.PK12`
	`ClearMap.ImageProcessing.Skeletonization.Skeletonization`
	`ClearMap.ImageProcessing.Skeletonization.SkeletonProcessing`
	`ClearMap.ImageProcessing.Thresholding`
	`ClearMap.ImageProcessing.Thresholding.Thresholding`
	`ClearMap.ImageProcessing.Thresholding.ThresholdingCode`
	`ClearMap.ImageProcessing.Topology`
	`ClearMap.ImageProcessing.Topology.Topology2d`
	`ClearMap.ImageProcessing.Topology.Topology3d`
	`ClearMap.ImageProcessing.Tracing`
	`ClearMap.ImageProcessing.Tracing.Connect`
	`ClearMap.ImageProcessing.Tracing.Trace`
	`ClearMap.ImageProcessing.Tracing.TraceCode`
	`ClearMap.IO`
	`ClearMap.IO.assets_constants`
	`ClearMap.IO.CSV`
	`ClearMap.IO.elastix_config`
	`ClearMap.IO.FileList`
	`ClearMap.IO.FileUtils`
	`ClearMap.IO.GT`
	`ClearMap.IO.IO`
	`ClearMap.IO.metadata`
	`ClearMap.IO.MHD`
	`ClearMap.IO.MMP`
	`ClearMap.IO.NPY`
	`ClearMap.IO.NRRD`
	`ClearMap.IO.Slice`
	`ClearMap.IO.SMA`
	`ClearMap.IO.Source`
	`ClearMap.IO.Temporary`
	`ClearMap.IO.TIF`
	`ClearMap.IO.Workspace`

	p
	`ClearMap.ParallelProcessing`
	`ClearMap.ParallelProcessing.Block`
	`ClearMap.ParallelProcessing.BlockProcessing`
	`ClearMap.ParallelProcessing.DataProcessing`
	`ClearMap.ParallelProcessing.DataProcessing.ArrayProcessing`
	`ClearMap.ParallelProcessing.DataProcessing.ArrayProcessingCode`
	`ClearMap.ParallelProcessing.DataProcessing.ConvolvePointList`
	`ClearMap.ParallelProcessing.DataProcessing.ConvolvePointListCode`
	`ClearMap.ParallelProcessing.DataProcessing.DevolvePointList`
	`ClearMap.ParallelProcessing.DataProcessing.DevolvePointListCode`
	`ClearMap.ParallelProcessing.DataProcessing.MeasurePointList`
	`ClearMap.ParallelProcessing.DataProcessing.MeasurePointListCode`
	`ClearMap.ParallelProcessing.DataProcessing.statistics`
	`ClearMap.ParallelProcessing.ParallelTraceback`
	`ClearMap.ParallelProcessing.ProcessWriter`
	`ClearMap.ParallelProcessing.SharedMemoryArray`
	`ClearMap.ParallelProcessing.SharedMemoryManager`
	`ClearMap.processors`
	`ClearMap.processors.batch_process`
	`ClearMap.processors.cell_map`
	`ClearMap.processors.generic_tab_processor`
	`ClearMap.processors.sample_preparation`

	s
	`ClearMap.Scripts`
	`ClearMap.Scripts.align_new_api`
	`ClearMap.Scripts.cell_map_new_api`
	`ClearMap.Scripts.CellMap`
	`ClearMap.Scripts.clearmap_utils`
	`ClearMap.Scripts.create_distance_file`
	`ClearMap.Scripts.generate_jsonl_file_ontology`
	`ClearMap.Scripts.TubeMap`
	`ClearMap.Settings`

	u
	`ClearMap.Utils`
	`ClearMap.Utils.array_utils`
	`ClearMap.Utils.array_utils_cy`
	`ClearMap.Utils.exceptions`
	`ClearMap.Utils.Formatting`
	`ClearMap.Utils.HierarchicalDict`
	`ClearMap.Utils.install_utils`
	`ClearMap.Utils.Lazy`
	`ClearMap.Utils.path_utils`
	`ClearMap.Utils.RegularExpression`
	`ClearMap.Utils.Sound`
	`ClearMap.Utils.TagExpression`
	`ClearMap.Utils.Timer`
	`ClearMap.Utils.utilities`

	v
	`ClearMap.Visualization`
	`ClearMap.Visualization.atlas`
	`ClearMap.Visualization.Color`
	`ClearMap.Visualization.Color.Color`
	`ClearMap.Visualization.Color.orientation_colormap`
	`ClearMap.Visualization.Matplotlib`
	`ClearMap.Visualization.Matplotlib.PlotUtils`
	`ClearMap.Visualization.Mesh`
	`ClearMap.Visualization.Mesh.IcoSphere`
	`ClearMap.Visualization.Plot3d`
	`ClearMap.Visualization.Qt`
	`ClearMap.Visualization.Qt.data_viewer_luts`
	`ClearMap.Visualization.Qt.DataViewer`
	`ClearMap.Visualization.Qt.DataViewerAxon`
	`ClearMap.Visualization.Qt.Plot3d`
	`ClearMap.Visualization.Qt.utils`
	`ClearMap.Visualization.Qt.widgets`
	`ClearMap.Visualization.Vispy`
	`ClearMap.Visualization.Vispy.arbitrary_rotation_camera`
	`ClearMap.Visualization.Vispy.GraphVisual`
	`ClearMap.Visualization.Vispy.Plot3d`
	`ClearMap.Visualization.Vispy.PlotGraph3d`
	`ClearMap.Visualization.Vispy.VolumeVisual`