spatial_proteomics
Contents:
The preprocessing (
pp
) accessor
The label (
la
) accessor
The plot (
pl
) accessor
The tool (
tl
) accessor
Tutorials:
Example Workflow with spatialproteomics
Subselecting Data
Segmentation
Custom Cropping
Plotting
Image Processing
Cell Type Prediction
Interoparability
Interactivity
spatial_proteomics
»
Index
Index
A
|
C
|
D
|
F
|
G
|
I
|
L
|
M
|
N
|
P
|
R
|
S
|
T
A
add_box() (spatialproteomics.pl.plot.PlotAccessor method)
add_channel() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_feature() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_label_property() (spatialproteomics.la.label.LabelAccessor method)
add_label_type() (spatialproteomics.la.label.LabelAccessor method)
add_labels() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_labels_from_dataframe() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_layer() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_obs_from_dataframe() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_observations() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_properties() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_quantification() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_quantification_from_dataframe() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
add_segmentation() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
annotate() (spatialproteomics.pl.plot.PlotAccessor method)
apply() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
astir() (spatialproteomics.tl.tool.ToolAccessor method)
autocrop() (spatialproteomics.pl.plot.PlotAccessor method)
C
cellpose() (spatialproteomics.tl.tool.ToolAccessor method)
cellpose_denoise() (spatialproteomics.tl.tool.ToolAccessor method)
colorize() (spatialproteomics.pl.plot.PlotAccessor method)
convert_to_8bit() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
convert_to_anndata() (spatialproteomics.tl.tool.ToolAccessor method)
convert_to_spatialdata() (spatialproteomics.tl.tool.ToolAccessor method)
D
deselect() (spatialproteomics.la.label.LabelAccessor method)
downsample() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
drop_layers() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
F
filter_by_obs() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
G
get_bbox() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
get_channels() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
get_disconnected_cell() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
get_layer_as_df() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
grow_cells() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
I
imshow() (spatialproteomics.pl.plot.PlotAccessor method)
L
LabelAccessor (class in spatialproteomics.la.label)
M
mask_cells() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
mask_region() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
merge_segmentation() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
mesmer() (spatialproteomics.tl.tool.ToolAccessor method)
module
spatialproteomics.la.label
spatialproteomics.pl.plot
spatialproteomics.pp.preprocessing
spatialproteomics.tl.tool
N
normalize() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
P
PlotAccessor (class in spatialproteomics.pl.plot)
predict_cell_types_argmax() (spatialproteomics.la.label.LabelAccessor method)
PreprocessingAccessor (class in spatialproteomics.pp.preprocessing)
R
remove_label_type() (spatialproteomics.la.label.LabelAccessor method)
render_labels() (spatialproteomics.pl.plot.PlotAccessor method)
render_segmentation() (spatialproteomics.pl.plot.PlotAccessor method)
rescale() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
S
scatter() (spatialproteomics.pl.plot.PlotAccessor method)
scatter_labels() (spatialproteomics.pl.plot.PlotAccessor method)
set_label_colors() (spatialproteomics.la.label.LabelAccessor method)
set_label_name() (spatialproteomics.la.label.LabelAccessor method)
show() (spatialproteomics.pl.plot.PlotAccessor method)
spatialproteomics.la.label
module
spatialproteomics.pl.plot
module
spatialproteomics.pp.preprocessing
module
spatialproteomics.tl.tool
module
stardist() (spatialproteomics.tl.tool.ToolAccessor method)
T
threshold() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)
threshold_labels() (spatialproteomics.la.label.LabelAccessor method)
ToolAccessor (class in spatialproteomics.tl.tool)
transform_expression_matrix() (spatialproteomics.pp.preprocessing.PreprocessingAccessor method)