- a -

• assert_same_size() : debug.h
• atox() : multispot5.cc
• auto_fixed_scaling() : storm_imagery.cc
• average_image() : multispot5.cc

- b -

• backward_sampling() : forward_algorithm.h
• boundingbox() : utility.h
• brightness_motion_limit() : multispot5.cc

- d -

• diff_log_log_normal() : storm.h
• dilate_mask() : multispot5.cc
• draw_bbox() : multispot5_gui.cc

- e -

• EndOfProgram() : randomc.h

- f -

• FatalError() : randomc.h
• fit_spots_new() : multispot5.cc , multispot5.h , multispot5.cc
• forward_algorithm() : forward_algorithm.h
• forward_algorithm_delta() : forward_algorithm.h
• forward_algorithm_delta2() : forward_algorithm.h
• forward_algorithm_deriv() : forward_algorithm.h
• forward_algorithm_hessian() : forward_algorithm.h
• forward_backward_algorithm() : forward_algorithm.h

- g -

• generate_state_parameters_ye_olde() : multispot5.cc , multispot5.h
• get_local_copy_of_image() : multispot5_jni.cc
• get_regions() : multispot5_gui.cc , multispot5_headless.cc
• get_spot_pixels() : multispot5.cc
• get_string() : multispot5_jni.cc
• GUI_Pause() : multispot5_gui.cc

- h -

• hess_log_log_normal() : storm.h

- j -

• Java_ThreeBRunner_call() : multispot5_jni.cc

- l -

• lim() : multispot5_gui.cc
• ln() : forward_algorithm.h
• load_and_normalize_images() : storm_imagery.cc
• load_and_preprocess_images() : storm_imagery.cc
• load_and_preprocess_images2() : storm_imagery.cc
• log_log_normal() : storm.h
• log_normal_mode() : storm.h
• log_normal_std() : storm.h
• log_probability_no_spot() : storm.h
• log_probability_spot() : storm.h
• log_probability_spot_diff() : storm.h
• log_probability_spot_hess() : storm.h

- m -

• main() : multispot5_gui.cc , multispot5_headless.cc
• mmain() : multispot5_gui.cc , multispot5_headless.cc

- n -

• null_graphics() : multispot5.cc , multispot5.h
• null_ui() : multispot5.cc , multispot5.h

- o -

• open_or_die() : utility.h

- p -

• parse_log_file() : multispot5.cc , multispot5.h

- s -

• sample_unscaled_log() : forward_algorithm.h
• sampled_background_spot_hessian2() : multispot5.cc
• sampled_background_spot_hessian_FAKE() : multispot5.cc
• sampled_background_spot_hessian_ffbs() : multispot5.cc
• scale() : multispot5_gui.cc
• scale_to_bytes() : multispot5.cc , debug.cc , multispot5.cc
• select_random_element() : forward_algorithm.h
• sign() : utility.h
• split() : multispot5.cc
• spot_shape() : storm.h
• spot_shape_diff() : storm.h
• spot_shape_diff_position() : storm.h
• spot_shape_hess() : storm.h
• spot_shape_hess_position() : storm.h
• spot_shape_s() : storm.h
• spots_to_Vector() : multispot5.cc
• spots_to_vector() : multispot5.cc
• sq() : utility.h
• sub_images() : utility.h

- t -

• test_output_patch_variance() : debug.cc

- w -

• watch_update() : multispot5_gui.cc
• watch_var() : multispot5_gui.cc

- x -

• xtoa() : multispot5.cc