cbi_toolbox

Subpackages

• cbi_toolbox.bsplines
  • bspline()
• cbi_toolbox.parallel
  • cbi_toolbox.parallel.mpi
    • compute_vector_extent()
    • create_slice_view()
    • create_vector_type()
    • distribute_mpi()
    • distribute_mpi_all()
    • gather_full_shape()
    • get_rank()
    • get_size()
    • is_root_process()
    • load()
    • redistribute()
    • save()
    • to_mpi_datatype()
    • wait_all()
  • distribute_bin()
  • distribute_bin_all()
  • parallelize()
• cbi_toolbox.reconstruct
  • cbi_toolbox.reconstruct.fpsopt
    • deconvolve_sinogram()
    • inverse_psf_rfft()
  • cbi_toolbox.reconstruct.preprocess
    • erase_corners()
    • remove_background_illumination()
    • transmission_to_absorption()
  • cbi_toolbox.reconstruct.vhf
    • argsort_tsp()
    • average_frequency()
    • estimate_di()
    • l_curve()
    • orient_phases()
    • phase_correction()
    • phase_diff()
    • phase_error()
    • sample_video()
    • unfold_phases()
    • vhf_phase_naive()
    • vhf_phase_uncorrected()
  • mse()
  • mutual_information()
  • normalize()
  • psnr()
  • scale_to_mse()
• cbi_toolbox.simu
  • cbi_toolbox.simu.dynamic
    • sample_phases()
    • sigsin()
    • sigsin_beat()
  • cbi_toolbox.simu.imaging
    • fps_opt()
    • fss_opt()
    • noise()
    • opt()
    • quantize()
    • spim()
    • widefield()
  • cbi_toolbox.simu.optics
    • create_wf_1d()
    • gaussian_psf()
    • openspim_illumination()
    • resample_wavefront()
    • wf_mix()
    • wf_to_2d()
  • cbi_toolbox.simu.primitives
    • ball()
    • boccia()
    • fiber()
    • forward_ellipse()
    • phantom()
    • quadrant_symmetry()
    • quadrant_to_volume()
    • torus_boccia()
  • cbi_toolbox.simu.textures
    • forward_simplex()
    • simplex()
    • spheres()
• cbi_toolbox.splineradon
  • iradon()
  • iradon_inner()
  • iradon_post()
  • iradon_pre()
  • is_cuda_available()
  • radon()
  • radon_inner()
  • radon_post()
  • radon_pre()
• cbi_toolbox.utils
  • cbi_toolbox.utils.ome
    • load_ome_tiff()
    • save_ome_tiff()
  • cbi_toolbox.utils.plotting
    • AnimImshow
      • AnimImshow.save_to_gif()
    • trace_points()
  • fft_size()

Module contents

cbi_toolbox contains a collection of algorithms used for computational bioimaging and microscopy.