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_
__enter__() (Omero.Omero method)
(OmeroLabelReader.OmeroLabelReader method)
__exit__() (Omero.Omero method)
(OmeroLabelReader.OmeroLabelReader method)
__getitem__() (XmlDict.XmlDict method)
(XmlDict.XmlList method)
__iter__() (XmlDict.XmlList method)
__next__() (XmlDict.XmlList method)
_asarray_level() (BioSource.BioSource method)
(GeneratorSource.GeneratorSource method)
(OmeroSource.OmeroSource method)
(OmeSource.OmeSource method)
(OmeZarrSource.OmeZarrSource method)
(PlainImageSource.PlainImageSource method)
(TiffSource.TiffSource method)
_connect() (Omero.Omero method)
_decode() (TiffSource.TiffSource method)
_decompress() (TiffSource.TiffSource method)
_disconnect() (Omero.Omero method)
_find_metadata() (BioSource.BioSource method)
(GeneratorSource.GeneratorSource method)
(OmeroSource.OmeroSource method)
(OmeSource.OmeSource method)
(OmeZarrSource.OmeZarrSource method)
(PlainImageSource.PlainImageSource method)
(TiffSource.TiffSource method)
_get_dataset() (Omero.Omero method)
_get_dataset_images() (Omero.Omero method)
_get_image_annotations() (Omero.Omero method)
_get_ome_metadate() (OmeSource.OmeSource method)
_get_project() (Omero.Omero method)
_init_metadata() (OmeSource.OmeSource method)
_init_sizes() (OmeSource.OmeSource method)
_load_as_dask() (TiffSource.TiffSource method)
_segments() (TiffSource.TiffSource method)
_switch_user_group() (Omero.Omero method)
A
arrays (PlainImageSource.PlainImageSource attribute)
(TiffSource.TiffSource attribute)
asarray() (OmeSource.OmeSource method)
asarray_um() (OmeSource.OmeSource method)
asdask() (OmeSource.OmeSource method)
B
BioSource
module
BioSource (class in BioSource)
blur_image() (in module image_util)
blur_image_single() (in module image_util)
C
calc_color() (GeneratorSource.GeneratorSource method)
calc_fraction_used() (in module image_util)
calc_pyramid() (in module image_util)
calc_shape_scale() (in module ome_zarr_util)
calc_tiles_median() (in module image_util)
calc_tiles_quantiles() (in module image_util)
ChannelOperation (class in parameters)
channels (OmeSource.OmeSource attribute)
check_round_significants() (in module util)
check_versions() (in module image_util)
clear_arrays() (TiffSource.TiffSource method)
clone_empty() (OmeSource.OmeSource method)
close() (BioSource.BioSource method)
(Omero.Omero method)
(OmeroSource.OmeroSource method)
(OmeSource.OmeSource method)
close_javabridge() (in module BioSource)
color_conversion
module
COMBINE (parameters.ChannelOperation attribute)
combine_images() (in module conversion)
compare_image() (in module image_util)
compare_image_dist() (in module image_util)
compare_image_dist_simple() (in module image_util)
compressed (TiffSource.TiffSource attribute)
conversion
module
convert_image() (in module conversion)
convert_image_sign_type() (in module image_util)
convert_rational_value() (in module util)
copy() (XmlDict.XmlDict method)
create() (Zarr.Zarr method)
create_axes_metadata() (in module ome_zarr_util)
create_channel_metadata() (in module ome_zarr_util)
create_compression_filter() (in module image_util)
create_credentials_file() (in module omero_credentials)
create_label_csv() (OmeroLabelReader.OmeroLabelReader method)
create_ome_metadata() (in module ome_metadata)
create_ome_metadata_from_omero() (in module omero_metadata)
create_pixels_store() (Omero.Omero method)
create_source() (in module conversion)
create_transformation_metadata() (in module ome_zarr_util)
create_xml_metadata() (OmeroSource.OmeroSource method)
(OmeSource.OmeSource method)
D
data (TiffSource.TiffSource attribute)
dct (in module XmlDict)
decompress() (TiffSource.TiffSource method)
decompressed (TiffSource.TiffSource attribute)
decrypt_credentials() (in module omero_credentials)
default_physical_unit (OmeSource.OmeSource attribute)
desc_to_dict() (in module util)
dict2xml() (in module XmlDict)
dimension_order (OmeSource.OmeSource attribute)
E
ensure_list() (in module util)
ensure_unsigned_image() (in module image_util)
ensure_unsigned_type() (in module image_util)
extract_thumbnail() (in module conversion)
F
filename (BioSource.BioSource attribute)
(OmeZarrSource.OmeZarrSource attribute)
(PlainImageSource.PlainImageSource attribute)
(TiffSource.TiffSource attribute)
filter_dict() (in module util)
float2int_image() (in module image_util)
G
generate_asymmetric_keys() (in module omero_credentials)
GeneratorSource
module
GeneratorSource (class in GeneratorSource)
get() (XmlDict.XmlDict method)
(Zarr.Zarr method)
get_annotation_image_ids() (Omero.Omero method)
get_best_level_factor() (in module OmeSource)
get_best_size() (in module OmeSource)
get_channel_window() (OmeSource.OmeSource method)
get_channels() (OmeSource.OmeSource method)
get_default() (in module util)
get_dimension_order() (OmeSource.OmeSource method)
get_filetitle() (in module util)
get_image_annotation() (Omero.Omero method)
get_image_info() (in module conversion)
get_image_object() (Omero.Omero method)
get_image_quantile() (in module image_util)
get_image_size_info() (in module image_util)
get_mag() (OmeSource.OmeSource method)
get_metadata() (OmeSource.OmeSource method)
get_nchannels() (OmeSource.OmeSource method)
get_numpy_slicing() (in module image_util)
get_physical_size() (OmeSource.OmeSource method)
get_pil_metadata() (in module image_util)
get_pixel_nbytes() (OmeSource.OmeSource method)
get_pixel_size() (OmeSource.OmeSource method)
get_pixel_size_micrometer() (OmeSource.OmeSource method)
get_pixel_type() (OmeSource.OmeSource method)
get_resolution_from_pixel_size() (in module OmeSource)
get_shape() (OmeSource.OmeSource method)
get_size() (OmeSource.OmeSource method)
get_size_xyzct() (OmeSource.OmeSource method)
get_source_dask() (OmeSource.OmeSource method)
(OmeZarrSource.OmeZarrSource method)
(TiffSource.TiffSource method)
get_source_image() (in module conversion)
get_source_image_chunked() (in module conversion)
get_source_image_dask() (in module conversion)
get_thumbnail() (OmeroSource.OmeroSource method)
(OmeSource.OmeSource method)
get_tiff_pages() (in module image_util)
get_tile() (GeneratorSource.GeneratorSource method)
get_value_units_micrometer() (in module util)
H
has_ome_metadata (OmeSource.OmeSource attribute)
hexrgb_to_rgba() (in module color_conversion)
I
IMAGE_DIR (in module parameters)
image_id (OmeroSource.OmeroSource attribute)
image_object (OmeroSource.OmeroSource attribute)
image_reshape() (in module image_util)
image_resize() (in module image_util)
image_util
module
indexes (BioSource.BioSource attribute)
init() (Omero.Omero method)
int2float_image() (in module image_util)
int_to_rgba() (in module color_conversion)
J
javabridge_open (in module BioSource)
L
levels (OmeZarrSource.OmeZarrSource attribute)
load() (PlainImageSource.PlainImageSource method)
(TiffSource.TiffSource method)
loaded (PlainImageSource.PlainImageSource attribute)
M
manage_omero (OmeroLabelReader.OmeroLabelReader attribute)
metadata (OmeSource.OmeSource attribute)
module
BioSource
color_conversion
conversion
GeneratorSource
image_util
ome_metadata
ome_zarr_util
Omero
omero_credentials
omero_metadata
OmeroLabelReader
OmeroSource
OmeSource
OmeZarr
OmeZarrSource
parameters
PlainImageSource
TiffSource
util
XmlDict
Zarr
N
NONE (parameters.ChannelOperation attribute)
normalise_values() (in module image_util)
O
ome_metadata
module
OME_SCHEMA_LOC (in module ome_metadata)
(in module omero_metadata)
OME_URI (in module ome_metadata)
(in module omero_metadata)
OME_XSI (in module ome_metadata)
(in module omero_metadata)
ome_zarr_util
module
Omero
module
Omero (class in Omero)
omero (OmeroLabelReader.OmeroLabelReader attribute)
(OmeroSource.OmeroSource attribute)
omero_credentials
module
omero_metadata
module
OmeroLabelReader
module
OmeroLabelReader (class in OmeroLabelReader)
OmeroSource
module
OmeroSource (class in OmeroSource)
OmeSource
module
OmeSource (class in OmeSource)
OmeZarr
module
OmeZarr (class in OmeZarr)
OmeZarrSource
module
OmeZarrSource (class in OmeZarrSource)
open_javabridge() (in module BioSource)
output_dimension_order (OmeSource.OmeSource attribute)
P
pages (TiffSource.TiffSource attribute)
PARAMETER_FILE (in module parameters)
parameters
module
params (OmeroLabelReader.OmeroLabelReader attribute)
pilmode_to_pixelinfo() (in module image_util)
pixel_nbits (OmeSource.OmeSource attribute)
pixel_types (OmeSource.OmeSource attribute)
pixels_store (OmeroSource.OmeroSource attribute)
pixels_store_pyramid_order (OmeroSource.OmeroSource attribute)
PlainImageSource
module
PlainImageSource (class in PlainImageSource)
position (OmeSource.OmeSource attribute)
precise_resize() (in module image_util)
print_dict() (in module util)
print_hbytes() (in module util)
print_omero_object() (in module Omero)
print_projects() (Omero.Omero method)
produce_chunks() (OmeSource.OmeSource method)
R
redimension_data() (in module image_util)
render() (OmeSource.OmeSource method)
RESOURCE_DIR (in module parameters)
rgba_to_hexrgb() (in module color_conversion)
rgba_to_int() (in module color_conversion)
round_significants() (in module util)
S
save_image() (in module image_util)
save_image_as_ome_zarr() (in module conversion)
save_image_as_tiff() (in module conversion)
save_image_as_zarr() (in module conversion)
save_tiff() (in module conversion)
set() (Zarr.Zarr method)
show_image() (in module image_util)
show_image_gray() (in module image_util)
size (in module GeneratorSource)
sizes (OmeSource.OmeSource attribute)
sizes_xyzct (OmeSource.OmeSource attribute)
source_pixel_size (OmeSource.OmeSource attribute)
SPLIT (parameters.ChannelOperation attribute)
split_num_text() (in module util)
split_value_unit_list() (in module util)
store_tiles() (in module conversion)
T
tags_to_dict() (in module image_util)
target_pixel_size (OmeSource.OmeSource attribute)
tiff_info() (in module image_util)
tiff_info_short() (in module image_util)
TiffSource
module
TiffSource (class in TiffSource)
U
unload() (PlainImageSource.PlainImageSource method)
(TiffSource.TiffSource method)
util
module
W
write() (OmeZarr.OmeZarr method)
write_dataset() (OmeZarr.OmeZarr method)
X
xml2dict() (in module XmlDict)
XmlDict
module
XmlDict (class in XmlDict)
XmlList (class in XmlDict)
Z
Zarr
module
Zarr (class in Zarr)
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OmeSliCC 0.6.12 documentation
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