Index

A

apply_bspline_transform_to_msi() (in module MSIght.refactor_mz_image_extract)

apply_dimensionality_reduction() (in module MSIght.refactor_common_functions)

B

bin_he_image() (in module MSIght.refactor_histology_preprocess)

C

create_intensity_matrix() (in module MSIght.refactor_common_functions)

D

display_and_save_image() (in module MSIght.refactor_affine_transform)

E

extract_mz_image_transform() (in module MSIght.refactor_mz_image_extract)

F

foreground_extract() (in module MSIght.refactor_histology_preprocess)

foreground_mask_make() (in module MSIght.refactor_histology_preprocess)

G

global_proteomics_search() (in module MSIght.refactor_fragger_process)

I

interpolate_and_visualize() (in module MSIght.refactor_interpolation)

interpolate_MSI() (in module MSIght.refactor_interpolation)

L

load_and_preprocess_imzml() (in module MSIght.refactor_common_functions)

load_he_image() (in module MSIght.refactor_histology_preprocess)

M

manual_register_he_msi() (in module MSIght.refactor_manual_affine) (in module MSIght.refactor_manual_affine_transform) module MSIght.refactor_affine_transform, [1] MSIght.refactor_bspline, [1] MSIght.refactor_common_functions, [1] MSIght.refactor_fragger_process, [1] MSIght.refactor_histology_preprocess, [1] MSIght.refactor_interpolation, [1] MSIght.refactor_manual_affine, [1] MSIght.refactor_manual_affine_transform, [1] MSIght.refactor_mz_image_extract, [1] MSIght.refactor_affine_transform module, [1] MSIght.refactor_bspline module, [1]

MSIght.refactor_common_functions module, [1] MSIght.refactor_fragger_process module, [1] MSIght.refactor_histology_preprocess module, [1] MSIght.refactor_interpolation module, [1] MSIght.refactor_manual_affine module, [1] MSIght.refactor_manual_affine_transform module, [1] MSIght.refactor_mz_image_extract module, [1]

O

overlay_msi_he() (in module MSIght.refactor_mz_image_extract)

P

perform_bspline() (in module MSIght.refactor_bspline) preprocess_he() (in module MSIght.refactor_histology_preprocess)

process_fragger() (in module MSIght.refactor_fragger_process) process_fragger_gene() (in module MSIght.refactor_fragger_process)

R

red_channel_extract() (in module MSIght.refactor_histology_preprocess)

register_he_msi() (in module MSIght.refactor_affine_transform)

S

show_msi_he_coords() (in module MSIght.refactor_manual_affine)

smooth_he_image() (in module MSIght.refactor_histology_preprocess)