Index

A

active_dataset (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) add_annotations() (in module goatpy.he_image) Add_Pseudo_Image() (in module goatpy.pseudo_image) add_qupath_annotations() (in module goatpy.annotation)

add_uns() (in module goatpy.pseudo_image) align_image_using_landmarks() (in module goatpy.landmark_alignment) annotate_glycans() (in module goatpy.tools) annotate_per_pixel() (in module goatpy.annotation) annotations_to_pixels() (in module goatpy.annotation)

B

batch_correction() (in module goatpy.batch_correction)

bin_and_align() (in module goatpy.bin) bin_imzml() (in module goatpy.bin)

C

centroids_to_pixel_squares() (in module goatpy.io) check_batch() (in module goatpy.plotting)

clear_all() (goatpy.landmark_alignment.LandmarkAlignmentWidget method) create_image_from_data() (in module goatpy.pseudo_image)

F

filter_spatialdata() (in module goatpy.filter)

G

generate_continuous_bins() (in module goatpy.pseudo_image) generate_random_colors() (in module goatpy.pseudo_image) get_kmean_clusters() (in module goatpy.graphpca_mod) getimage() (in module goatpy.io) glyco_spatialdata() (in module goatpy.io) goatpy module goatpy.annotation module goatpy.auto_align module goatpy.batch_correction module goatpy.bin module goatpy.data module goatpy.filter module

goatpy.graphpca_mod module goatpy.he_image module goatpy.io module goatpy.landmark_alignment module goatpy.plotting module goatpy.preprocessing module goatpy.pseudo_image module goatpy.tools module graphpca_spatialdata() (in module goatpy.graphpca_mod)

H

he_image_key (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) he_landmarks (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) he_scale_factor (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute)

he_scale_level (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) he_sd (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) he_spatialdata() (in module goatpy.he_image)

I

ihc_spatialdata() (in module goatpy.io)

init_ui() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)

K

kneighbors_graph_spatial() (in module goatpy.graphpca_mod)

L

LandmarkAlignmentWidget (class in goatpy.landmark_alignment)

launch_landmark_gui() (in module goatpy.landmark_alignment) load_and_align() (in module goatpy.auto_align)

M

maldi_image_key (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) maldi_landmarks (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) maldi_scale_factor (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) maldi_scale_level (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) maldi_sd (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute) map_categories_to_colors() (in module goatpy.pseudo_image) merge_spatialdata() (in module goatpy.tools) module goatpy goatpy.annotation goatpy.auto_align goatpy.batch_correction goatpy.bin goatpy.data goatpy.filter goatpy.graphpca_mod goatpy.he_image goatpy.io goatpy.landmark_alignment goatpy.plotting goatpy.preprocessing goatpy.pseudo_image goatpy.tools

N

normalize_matrix() (in module goatpy.preprocessing)

normalize_spatialdata() (in module goatpy.preprocessing)

O

on_click_combined() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)

on_click_split() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)

P

parmap() (in module goatpy.io) plot_spectra_comparison() (in module goatpy.plotting)

plot_spectrum() (in module goatpy.plotting) postpone_transformation() (in module goatpy.landmark_alignment)

R

rd_peaks() (in module goatpy.io)

rd_peaks_from_package() (in module goatpy.io)

S

save_landmarks() (goatpy.landmark_alignment.LandmarkAlignmentWidget method) set_active_dataset() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)

setup_layers() (goatpy.landmark_alignment.LandmarkAlignmentWidget method) split_view (goatpy.landmark_alignment.LandmarkAlignmentWidget attribute)

U

undo_last() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)

update_status() (goatpy.landmark_alignment.LandmarkAlignmentWidget method)