Contents:
main_macro.czmac
ZeissApiProcessor
AcquisitionPipeline
find_overview_positions.czmac
AcquisitionGrid
log()
PythonAnalysisRunner
PathManager
path_config.json
preprocessing_config.json
visualize_points()
parse_args_to_dict()
choose_the_closest_point()
CziFileReader
CziFileReader.read_czi_file()
CziFileReader.extract_metadata()
CziFileReader.get_image_to_analyze()
read_confo_cor3()
ZeissFCSProcessor
ZeissFCSProcessor.mean_intensity_from_photon_data()
ZeissFCSProcessor.find_highest_intensity_file()
ZeissFCSProcessor.get_measurement_points()
ZeissFCSProcessor.save_measurement_points()
ZeissImageProcessor
ZeissImageProcessor.get_analysis_type()
ZeissImageProcessor.get_measurement_points()
ZeissImageProcessor.save_measurement_points()
ImageAnalysisTemplate
ImageAnalysisTemplate.get_measurement_points()
Cellpose_algorithm
Cellpose_algorithm.filter_cellpose_masks()
Cellpose_algorithm.image_segmentation()
Cellpose_algorithm.get_measurement_points()
Circles
Circles.get_contour_centers_and_radii()
Circles.filter_by_size()
Circles.get_measurement_points()
HexagonalMesh
HexagonalMesh.get_mesh_nodes()
HexagonalMesh.get_delaunay_edges()
HexagonalMesh.filter_edges_by_distance()
HexagonalMesh.find_midpoints_and_centroids()
HexagonalMesh.get_measurement_points()
z_no_transform()
z_normal()
PixelStageConverter
PixelStageConverter.convert_xy()
PixelStageConverter.convert_z_auto()
PixelStageConverter.convert_z()
PixelStageConverter.convert_points()
Max_intensity_Z_Scan
Max_intensity_Z_Scan.get_max_intensity()
Max_intensity_Z_Scan.get_measurement_points()
Module for cPython analysis of .czi and .raw files and writing objects or positions for the microscope to measure.