Index

A

add_microscopy_response_series() (ndx_microscopy.MicroscopyResponseSeriesContainer method) add_planar_microscopy_series() (ndx_microscopy.MultiPlaneMicroscopyContainer method) add_roi() (ndx_microscopy.PlanarSegmentation method), [1] (ndx_microscopy.VolumetricSegmentation method), [1]

add_segmentation() (ndx_microscopy.SegmentationContainer method), [1] add_summary_images() (ndx_microscopy.PlanarSegmentation method) (ndx_microscopy.Segmentation method) (ndx_microscopy.VolumetricSegmentation method)

C

create_microscopy_response_series() (ndx_microscopy.MicroscopyResponseSeriesContainer method) create_planar_microscopy_series() (ndx_microscopy.MultiPlaneMicroscopyContainer method) create_roi_table_region() (ndx_microscopy.PlanarSegmentation method), [1] (ndx_microscopy.VolumetricSegmentation method), [1]

create_segmentation() (ndx_microscopy.SegmentationContainer method) create_summary_images() (ndx_microscopy.PlanarSegmentation method) (ndx_microscopy.Segmentation method) (ndx_microscopy.VolumetricSegmentation method)

D

data (ndx_microscopy.SummaryImage property) description (ndx_microscopy.IlluminationPattern property) (ndx_microscopy.ImagingSpace property) (ndx_microscopy.MicroscopyChannel property) (ndx_microscopy.MicroscopyRig property) (ndx_microscopy.SummaryImage property)

dichroic_mirror (ndx_microscopy.MicroscopyRig property) dimensions_in_pixels (ndx_microscopy.PlanarImagingSpace property) dimensions_in_voxels (ndx_microscopy.VolumetricImagingSpace property) dwell_time_in_s (ndx_microscopy.LineScan property) (ndx_microscopy.RandomAccessScan property)

E

emission_filter (ndx_microscopy.MicroscopyRig property) emission_wavelength_in_nm (ndx_microscopy.MicroscopyChannel property)

excitation_filter (ndx_microscopy.MicroscopyRig property) excitation_source (ndx_microscopy.MicroscopyRig property) excitation_wavelength_in_nm (ndx_microscopy.MicroscopyChannel property)

G

get_FOV_size() (ndx_microscopy.PlanarImagingSpace method), [1] (ndx_microscopy.VolumetricImagingSpace method), [1] get_microscopy_response_series() (ndx_microscopy.MicroscopyResponseSeriesContainer method) get_planar_microscopy_series() (ndx_microscopy.MultiPlaneMicroscopyContainer method)

get_segmentation() (ndx_microscopy.SegmentationContainer method) get_summary_images() (ndx_microscopy.PlanarSegmentation method) (ndx_microscopy.Segmentation method) (ndx_microscopy.VolumetricSegmentation method)

I

illumination_angle_in_degrees (ndx_microscopy.PlaneAcquisition property) illumination_pattern (ndx_microscopy.ImagingSpace property) IlluminationPattern (class in ndx_microscopy)

image_to_pixel() (ndx_microscopy.PlanarSegmentation static method), [1] ImagingSpace (class in ndx_microscopy) indicator (ndx_microscopy.MicroscopyChannel property)

L

line_rate_in_Hz (ndx_microscopy.LineScan property)

LineScan (class in ndx_microscopy) location (ndx_microscopy.ImagingSpace property)

M

max_scan_points (ndx_microscopy.RandomAccessScan property) Microscope (class in ndx_microscopy) microscope (ndx_microscopy.MicroscopyRig property) MicroscopeModel (class in ndx_microscopy) microscopy_channel (ndx_microscopy.MicroscopySeries property) microscopy_response_series (ndx_microscopy.MicroscopyResponseSeriesContainer property) microscopy_rig (ndx_microscopy.MicroscopySeries property)

microscopy_series (ndx_microscopy.MicroscopyResponseSeries property) MicroscopyChannel (class in ndx_microscopy) MicroscopyResponseSeries (class in ndx_microscopy) MicroscopyResponseSeriesContainer (class in ndx_microscopy) MicroscopyRig (class in ndx_microscopy) MicroscopySeries (class in ndx_microscopy) MultiPlaneMicroscopyContainer (class in ndx_microscopy)

N

namespace (ndx_microscopy.IlluminationPattern attribute) (ndx_microscopy.ImagingSpace attribute) (ndx_microscopy.LineScan attribute) (ndx_microscopy.Microscope attribute) (ndx_microscopy.MicroscopeModel attribute) (ndx_microscopy.MicroscopyChannel attribute) (ndx_microscopy.MicroscopyResponseSeries attribute) (ndx_microscopy.MicroscopyResponseSeriesContainer attribute) (ndx_microscopy.MicroscopyRig attribute) (ndx_microscopy.MicroscopySeries attribute) (ndx_microscopy.MultiPlaneMicroscopyContainer attribute) (ndx_microscopy.PlanarImagingSpace attribute) (ndx_microscopy.PlanarMicroscopySeries attribute) (ndx_microscopy.PlanarSegmentation attribute) (ndx_microscopy.PlaneAcquisition attribute) (ndx_microscopy.RandomAccessScan attribute) (ndx_microscopy.Segmentation attribute) (ndx_microscopy.SegmentationContainer attribute) (ndx_microscopy.SummaryImage attribute) (ndx_microscopy.VolumetricImagingSpace attribute) (ndx_microscopy.VolumetricMicroscopySeries attribute) (ndx_microscopy.VolumetricSegmentation attribute)

neurodata_type (ndx_microscopy.IlluminationPattern attribute) (ndx_microscopy.ImagingSpace attribute) (ndx_microscopy.LineScan attribute) (ndx_microscopy.Microscope attribute) (ndx_microscopy.MicroscopeModel attribute) (ndx_microscopy.MicroscopyChannel attribute) (ndx_microscopy.MicroscopyResponseSeries attribute) (ndx_microscopy.MicroscopyResponseSeriesContainer attribute) (ndx_microscopy.MicroscopyRig attribute) (ndx_microscopy.MicroscopySeries attribute) (ndx_microscopy.MultiPlaneMicroscopyContainer attribute) (ndx_microscopy.PlanarImagingSpace attribute) (ndx_microscopy.PlanarMicroscopySeries attribute) (ndx_microscopy.PlanarSegmentation attribute) (ndx_microscopy.PlaneAcquisition attribute) (ndx_microscopy.RandomAccessScan attribute) (ndx_microscopy.Segmentation attribute) (ndx_microscopy.SegmentationContainer attribute) (ndx_microscopy.SummaryImage attribute) (ndx_microscopy.VolumetricImagingSpace attribute) (ndx_microscopy.VolumetricMicroscopySeries attribute) (ndx_microscopy.VolumetricSegmentation attribute)

O

optical_lens (ndx_microscopy.MicroscopyRig property) orientation (ndx_microscopy.ImagingSpace property)

origin_coordinates (ndx_microscopy.ImagingSpace property) origin_coordinates__unit (ndx_microscopy.ImagingSpace property)

P

photodetector (ndx_microscopy.MicroscopyRig property) pixel_size_in_um (ndx_microscopy.PlanarImagingSpace property) pixel_to_image() (ndx_microscopy.PlanarSegmentation static method), [1] planar_imaging_space (ndx_microscopy.PlanarMicroscopySeries property) (ndx_microscopy.PlanarSegmentation property) planar_microscopy_series (ndx_microscopy.MultiPlaneMicroscopyContainer property) PlanarImagingSpace (class in ndx_microscopy) PlanarMicroscopySeries (class in ndx_microscopy) PlanarSegmentation (class in ndx_microscopy) plane_rate_in_Hz (ndx_microscopy.PlaneAcquisition property) PlaneAcquisition (class in ndx_microscopy) point_spread_function_in_um (ndx_microscopy.PlaneAcquisition property) post_init_method (ndx_microscopy.IlluminationPattern attribute) (ndx_microscopy.ImagingSpace attribute) (ndx_microscopy.LineScan attribute) (ndx_microscopy.Microscope attribute) (ndx_microscopy.MicroscopeModel attribute) (ndx_microscopy.MicroscopyChannel attribute) (ndx_microscopy.MicroscopyResponseSeries attribute) (ndx_microscopy.MicroscopyResponseSeriesContainer attribute) (ndx_microscopy.MicroscopyRig attribute) (ndx_microscopy.MicroscopySeries attribute) (ndx_microscopy.MultiPlaneMicroscopyContainer attribute) (ndx_microscopy.PlanarImagingSpace attribute) (ndx_microscopy.PlanarMicroscopySeries attribute) (ndx_microscopy.PlanarSegmentation attribute) (ndx_microscopy.PlaneAcquisition attribute) (ndx_microscopy.RandomAccessScan attribute) (ndx_microscopy.Segmentation attribute) (ndx_microscopy.SummaryImage attribute) (ndx_microscopy.VolumetricImagingSpace attribute) (ndx_microscopy.VolumetricMicroscopySeries attribute) (ndx_microscopy.VolumetricSegmentation attribute)

R

RandomAccessScan (class in ndx_microscopy)

reference_frame (ndx_microscopy.ImagingSpace property) rois (ndx_microscopy.MicroscopyResponseSeries property)

S

scan_direction (ndx_microscopy.LineScan property) scanning_pattern (ndx_microscopy.RandomAccessScan property) Segmentation (class in ndx_microscopy)

SegmentationContainer (class in ndx_microscopy) segmentations (ndx_microscopy.SegmentationContainer property) summary_images (ndx_microscopy.Segmentation property) SummaryImage (class in ndx_microscopy)

T

technique (ndx_microscopy.Microscope property)

V

volume_to_voxel() (ndx_microscopy.VolumetricSegmentation static method), [1] volumetric_imaging_space (ndx_microscopy.VolumetricMicroscopySeries property) (ndx_microscopy.VolumetricSegmentation property) VolumetricImagingSpace (class in ndx_microscopy)

VolumetricMicroscopySeries (class in ndx_microscopy) VolumetricSegmentation (class in ndx_microscopy) voxel_size_in_um (ndx_microscopy.VolumetricImagingSpace property) voxel_to_volume() (ndx_microscopy.VolumetricSegmentation static method), [1]