Index

_

__eq__() (mibidata.mibi_image.MibiImage method)

__getitem__() (mibidata.mibi_image.MibiImage method)

A

add_attr() (mibidata.mibi_image.MibiImage method)

aperture (mibidata.mibi_image.MibiImage property) append() (mibidata.mibi_image.MibiImage method)

C

car2pol() (in module mibidata.util) channel_inds() (mibidata.mibi_image.MibiImage method) channels (mibidata.mibi_image.MibiImage attribute) (mibidata.mibi_image.MibiImage property) check_tag module check_tag() (in module check_tag)

compose_overlay() (in module mibidata.color) composite() (in module mibidata.color) copy() (mibidata.mibi_image.MibiImage method) copy_run() (mibitracker.request_helpers.MibiRequests method) copy_run_image_metadata() (mibitracker.request_helpers.MibiRequests method) create_imageset() (mibitracker.request_helpers.MibiRequests method) create_mibitiffs() (in module mibidata.combine_tiffs)

D

data (mibidata.mibi_image.MibiImage attribute) decode_strings() (in module mibidata.util) delete() (mibitracker.request_helpers.MibiRequests method) (mibitracker.request_helpers.StatusCheckedSession method)

divide() (in module mibidata.pseudodepths) download_file() (mibitracker.request_helpers.MibiRequests method)

E

encode_strings() (in module mibidata.util) expand_objects() (in module mibidata.segmentation)

export_pngs() (mibidata.mibi_image.MibiImage method) extract_cell_dataframe() (in module mibidata.segmentation)

F

filter_by_size() (in module mibidata.segmentation) folder (mibidata.mibi_image.MibiImage property)

format_for_filename() (in module mibidata.util) fov_id (mibidata.mibi_image.MibiImage property)

G

get() (mibitracker.request_helpers.MibiRequests method) (mibitracker.request_helpers.StatusCheckedSession method) get_adjacency_matrix() (in module mibidata.segmentation)

get_channel_data() (mibitracker.request_helpers.MibiRequests method) get_latest_tag() (in module check_tag) get_mibi_image() (mibitracker.request_helpers.MibiRequests method) get_tag_in_setuppy() (in module check_tag)

H

hsl2rgb() (in module mibidata.color)

I

image_conjugates() (mibitracker.request_helpers.MibiRequests method) image_id() (mibitracker.request_helpers.MibiRequests method)

info() (in module mibidata.tiff) invert_luminosity() (in module mibidata.color)

K

kwargs (mibidata.mibi_image.MibiImage attribute)

M

merge_masses() (in module mibidata.panels) merge_mibitiffs() (in module mibidata.combine_tiffs) metadata() (mibidata.mibi_image.MibiImage method) mibidata module mibidata.color module mibidata.combine_tiffs module mibidata.constants module mibidata.mibi_image module mibidata.panels module mibidata.pseudodepths module mibidata.runs module mibidata.segmentation module mibidata.tiff module mibidata.util module

MibiImage (class in mibidata.mibi_image) MibiRequests (class in mibitracker.request_helpers) mibitracker module mibitracker.mibitracker_exceptions module mibitracker.request_helpers module MibiTrackerError module check_tag mibidata mibidata.color mibidata.combine_tiffs mibidata.constants mibidata.mibi_image mibidata.panels mibidata.pseudodepths mibidata.runs mibidata.segmentation mibidata.tiff mibidata.util mibitracker mibitracker.mibitracker_exceptions mibitracker.request_helpers

N

natural_sort() (in module mibidata.util)

O

options() (mibitracker.request_helpers.StatusCheckedSession method)

P

parse_aperture() (mibidata.mibi_image.MibiImage static method) parse_xml() (in module mibidata.runs) pixel_size (mibidata.mibi_image.MibiImage property) point_name (mibidata.mibi_image.MibiImage property)

post() (mibitracker.request_helpers.MibiRequests method) (mibitracker.request_helpers.StatusCheckedSession method) put() (mibitracker.request_helpers.MibiRequests method) (mibitracker.request_helpers.StatusCheckedSession method)

R

read() (in module mibidata.tiff) read_csv() (in module mibidata.panels) refresh() (mibitracker.request_helpers.MibiRequests method) remove_attr() (mibidata.mibi_image.MibiImage method) remove_channels() (mibidata.mibi_image.MibiImage method)

rename_targets() (mibidata.mibi_image.MibiImage method) replace_labeled_pixels() (in module mibidata.segmentation) resize() (mibidata.mibi_image.MibiImage method) rgb2cym() (in module mibidata.color) rgb2hsl() (in module mibidata.color) run_images() (mibitracker.request_helpers.MibiRequests method)

S

search_runs() (mibitracker.request_helpers.MibiRequests method) session (mibitracker.request_helpers.MibiRequests attribute) set_fov_id() (mibidata.mibi_image.MibiImage method)

slice_data() (mibidata.mibi_image.MibiImage method) slice_image() (mibidata.mibi_image.MibiImage method) sort_channel_names() (in module mibidata.util) StatusCheckedSession (class in mibitracker.request_helpers)

U

upload_channel() (mibitracker.request_helpers.MibiRequests method)

upload_mibitiff() (mibitracker.request_helpers.MibiRequests method) url (mibitracker.request_helpers.MibiRequests attribute)

W

write() (in module mibidata.tiff)