megafish package

Submodules

• megafish.config module
  • set_resource()
  • use_gpu()
  • set_scheduler()
  • show_resource()
• megafish.decode module
  • gaussian_kernel()
  • merfish_prefilter()
  • scaling()
  • norm_value()
  • divide_by_norm()
  • nearest_neighbor()
  • split_nnd()
  • select_decoded()
  • coordinates_decoded()
• megafish.load module
  • make_dirlist()
  • make_imagepath_cYX_from_dirlist()
  • make_imagepath_cYX()
  • ims_cYXzyx()
  • tif_cYXzyx()
  • stitched_ims()
  • stitched_tif()
• megafish.napari module
  • tile_2d()
  • registered()
  • registered_is()
  • segment()
• megafish.process module
  • projection()
  • masking()
  • gaussian_blur()
  • binarization()
• megafish.register module
  • shift_cycle_cYXyx()
  • shift_tile_cYXyx()
  • dummy_shift_tile()
  • merge_shift_cYXyx()
  • get_edges()
  • create_chunk_dataframe()
  • get_overlap()
  • registration_cYXyx()
  • registration_cYXyx_noref()
• megafish.segment module
  • watershed_label()
  • dilation()
  • merge_split_label()
  • grow_voronoi()
  • masking()
  • fill_holes()
  • remove_edge_mask()
  • label_edge()
  • repeat_cycle()
  • info_csv()
  • merge_groups()
  • normalize_groups()
  • select_slice()
  • merge_to_one_group()
  • scaled_mip()
• megafish.seqfish module
  • dog_sds()
  • DoG_filter()
  • local_maxima_footprint()
  • local_maxima()
  • select_by_intensity_sd()
  • select_by_intensity_threshold()
  • count_spots()
  • count_summary()
  • spot_coordinates()
  • spot_intensity()
• megafish.seqif module
  • TCEP_subtraction()
  • skip_odd_cycle()
  • get_intensity()
  • intnensity_summary()
• megafish.tif module
  • save()
  • save_tile_montage()
  • save_whole_image()
  • save_chunk()
  • load()
  • save_rgb()
• megafish.user module
• megafish.utils module
  • natural_sort()
  • get_tile_yx()
  • get_round_cycle()
  • copy_groups()
• megafish.view module
  • make_pyramid()
  • mask_edge()
  • max_filter()