Index
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
K
|
L
|
M
|
N
|
O
|
P
|
R
|
S
|
T
|
U
|
V
|
W
|
X
|
Y
|
Z
A
add_attribute_to_graph() (flyqma.annotation.spatial.sampling.NeighborSampler method)
add_contour() (flyqma.data.images.ImageScalar method)
add_contours() (flyqma.data.images.ImageScalar method)
add_marker() (flyqma.selection.interface.LayerVisualization method)
add_point() (flyqma.selection.interface.LayerInterface method)
add_polygon() (flyqma.selection.interface.LayerVisualization method)
add_subdir() (flyqma.data.layers.LayerIO method)
adjacency() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
adjacency_positional() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
aggregate_measurements() (flyqma.data.experiments.Experiment method)
(flyqma.data.stacks.Stack method)
AIC() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
(flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
AIC_optimal() (flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
angle_threshold() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
angles() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
annotate() (flyqma.annotation.annotation.Annotation method)
(flyqma.data.layers.LayerAnnotation method)
Annotation (class in flyqma.annotation.annotation)
AnnotationIO (class in flyqma.annotation.annotation)
apply_annotation() (flyqma.data.layers.LayerAnnotation method)
apply_concurrency() (flyqma.data.layers.LayerAnnotation method)
apply_correction() (flyqma.data.layers.LayerCorrection method)
apply_custom_roller() (in module flyqma.annotation.spatial.timeseries)
apply_normalization() (flyqma.data.layers.LayerMeasurement method)
array_to_dict() (flyqma.measurement.segmentation.Segmentation static method)
assess_weights() (flyqma.annotation.spatial.graphs.WeightFunction method)
assign_community() (flyqma.annotation.spatial.graphs.CommunityDetection method)
assign_labels() (flyqma.annotation.labelers.AttributeLabeler method)
attr_used() (flyqma.annotation.spatial.sampling.NeighborSampler property)
AttributeLabeler (class in flyqma.annotation.labelers)
autocorrelate() (flyqma.annotation.spatial.sampling.CommunitySampler method)
average_over_neighbors() (flyqma.annotation.spatial.sampling.CommunitySampler method)
(flyqma.annotation.spatial.sampling.NeighborSampler method)
(flyqma.annotation.spatial.sampling.RadialSampler method)
averaged_attr() (flyqma.annotation.spatial.sampling.CommunitySampler property)
(flyqma.annotation.spatial.sampling.NeighborSampler property)
(flyqma.annotation.spatial.sampling.RadialSampler property)
B
BackgroundExtraction (class in flyqma.bleedthrough.background)
bg_key() (flyqma.data.layers.LayerProperties property)
BIC() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
(flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
BIC_optimal() (flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
bit_depth() (flyqma.data.stacks.Stack property)
BivariateMixture (class in flyqma.annotation.mixtures.bivariate)
BivariateMixtureClassifier (class in flyqma.annotation.classification.mixtures)
BivariateMixtureProperties (class in flyqma.annotation.mixtures.bivariate)
BivariateModelSelection (class in flyqma.annotation.model_selection.bivariate)
BivariateVisualization (class in flyqma.annotation.mixtures.visualization)
bootstrap() (in module flyqma.annotation.spatial.timeseries)
bounds() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
build_attribute_mask() (flyqma.data.layers.LayerVisualization method)
build_background_mask() (flyqma.bleedthrough.background.BackgroundExtraction method)
build_classifier() (flyqma.annotation.classification.classifiers.Classifier method)
(flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier method)
(flyqma.annotation.spatial.infomap.InfoMap method)
build_classifier_mask() (flyqma.data.layers.LayerVisualization method)
build_cmap() (flyqma.annotation.spatial.graphs.NetworkxGraphVisualization method)
build_colormap() (flyqma.annotation.classification.classifiers.Classifier method)
build_contours() (flyqma.data.silhouette_write.WriteSilhouetteLayer method)
build_dataframe() (flyqma.measurement.measure.Measurements method)
build_feud() (flyqma.data.silhouette_write.WriteSilhouette method)
build_graph() (flyqma.data.layers.Layer method)
build_interface() (flyqma.selection.interface.StackInterface method)
build_network() (flyqma.annotation.spatial.infomap.InfoMap static method)
build_posterior() (flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier method)
C
CelltypeComparison (class in flyqma.analysis.statistics)
CelltypeLabeler (class in flyqma.annotation.labelers)
centroids() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
characteristic_length() (flyqma.annotation.spatial.correlation.CharacteristicLength property)
CharacteristicLength (class in flyqma.annotation.spatial.correlation)
clahe() (flyqma.data.images.ImageScalar method)
Classifier (class in flyqma.annotation.classification.classifiers)
ClassifierIO (class in flyqma.annotation.classification.classifiers)
ClassifierProperties (class in flyqma.annotation.classification.classifiers)
clear() (flyqma.selection.interface.LayerInterface method)
clear_markers() (flyqma.selection.interface.LayerVisualization method)
clustering_level() (flyqma.annotation.spatial.sampling.CommunitySampler property)
color_depth() (flyqma.data.layers.LayerProperties property)
(flyqma.data.stacks.Stack property)
combine_posteriors() (flyqma.annotation.annotation.Annotation method)
CommunityAggregator (class in flyqma.annotation.spatial.infomap)
CommunityDetection (class in flyqma.annotation.spatial.graphs)
CommunitySampler (class in flyqma.annotation.spatial.sampling)
compare() (flyqma.analysis.statistics.PairwiseComparison method)
compare_celltype() (flyqma.analysis.statistics.CelltypeComparison method)
compile_edge_list() (flyqma.annotation.spatial.triangulation.LocalTriangulation method)
compile_measurements() (flyqma.data.silhouette_read.ReadSilhouetteData method)
component_cdfs() (flyqma.annotation.classification.visualization.MixtureVisualization property)
component_groups() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
component_pdfs() (flyqma.annotation.classification.visualization.MixtureVisualization property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
component_to_label() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
components() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
connect() (flyqma.selection.gui.GUI method)
copy() (flyqma.annotation.annotation.Annotation class method)
(flyqma.annotation.spatial.graphs.Graph method)
correct_measurements() (flyqma.bleedthrough.correction.Correction method)
Correction (class in flyqma.bleedthrough.correction)
CorrectionVisualization (class in flyqma.bleedthrough.visualization)
CorrelationVisualization (class in flyqma.annotation.spatial.correlation)
D
data() (flyqma.annotation.spatial.sampling.NeighborSampler property)
define_roi() (flyqma.data.layers.LayerROI method)
detect_communities() (flyqma.annotation.spatial.graphs.CommunityDetection method)
detrend() (flyqma.bleedthrough.models.OLS method)
detrend_signal() (in module flyqma.annotation.spatial.timeseries)
difference() (flyqma.annotation.spatial.graphs.WeightFunction method)
diffuse_posteriors() (flyqma.annotation.annotation.Annotation static method)
dilate_foreground() (flyqma.bleedthrough.background.BackgroundExtraction static method)
disconnect() (flyqma.selection.gui.GUI method)
distance_matrix() (flyqma.annotation.spatial.graphs.SpatialProperties property)
(flyqma.annotation.spatial.sampling.RadialSampler property)
draw() (flyqma.annotation.spatial.graphs.NetworkxGraphVisualization method)
E
ecdf() (flyqma.annotation.classification.visualization.MixtureVisualization property)
edge_angles() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
edge_lengths() (flyqma.annotation.spatial.graphs.SpatialProperties property)
edge_list() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
(flyqma.annotation.spatial.graphs.WeightedGraph property)
edge_radii() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
edges() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
(flyqma.annotation.spatial.triangulation.LocalTriangulation property)
epdf() (flyqma.annotation.classification.visualization.MixtureVisualization property)
estimate_required_samples() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
esupport() (flyqma.annotation.classification.visualization.MixtureVisualization property)
evaluate_centroids() (flyqma.measurement.measure.Measurements static method)
evaluate_classifier() (flyqma.annotation.classification.classifiers.Classifier method)
evaluate_edge_lengths() (flyqma.annotation.spatial.triangulation.LocalTriangulation static method)
evaluate_edge_weights() (flyqma.annotation.spatial.graphs.WeightedGraph method)
evaluate_fluctuations() (flyqma.annotation.spatial.graphs.SpatialProperties static method)
evaluate_marginal_posterior() (flyqma.annotation.annotation.Annotation method)
evaluate_posterior() (flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier method)
exclude_edge_segments() (flyqma.measurement.segmentation.Segmentation method)
exclude_small_segments() (flyqma.measurement.segmentation.Segmentation method)
exit() (flyqma.selection.gui.GUI method)
Experiment (class in flyqma.data.experiments)
extent() (flyqma.annotation.mixtures.bivariate.BivariateMixtureProperties property)
extract_background() (flyqma.bleedthrough.correction.LayerCorrection method)
extract_decay() (flyqma.annotation.spatial.correlation.CharacteristicLength static method)
extract_pixels() (flyqma.bleedthrough.background.BackgroundExtraction method)
F
figure() (in module flyqma.annotation.mixtures.visualization)
filename() (flyqma.data.stacks.Stack property)
filter_edges() (flyqma.annotation.spatial.triangulation.LocalTriangulation class method)
filter_hull() (flyqma.annotation.spatial.triangulation.LocalTriangulation method)
filter_longest_edge() (flyqma.annotation.spatial.triangulation.LocalTriangulation method)
filter_outliers() (flyqma.annotation.spatial.triangulation.LocalTriangulation class method)
find_disconnected_nodes() (flyqma.annotation.spatial.triangulation.LocalTriangulation static method)
find_first_edge() (flyqma.annotation.spatial.triangulation.LocalTriangulation static method)
find_maxima() (flyqma.measurement.segmentation.Segmentation static method)
find_subdirs() (flyqma.data.layers.LayerIO method)
fit() (flyqma.annotation.classification.kmeans.KMeansClassifier static method)
(flyqma.annotation.classification.mixtures.BivariateMixtureClassifier static method)
(flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier static method)
(flyqma.annotation.spatial.correlation.CharacteristicLength static method)
(flyqma.bleedthrough.models.GLM method)
(flyqma.bleedthrough.models.OLS method)
fit_model() (flyqma.annotation.model_selection.bivariate.BivariateModelSelection static method)
(flyqma.annotation.model_selection.univariate.UnivariateModelSelection static method)
fit_models() (flyqma.annotation.model_selection.univariate.UnivariateModelSelection method)
flyqma.analysis.statistics (module)
flyqma.annotation.annotation (module)
flyqma.annotation.classification.classifiers (module)
flyqma.annotation.classification.kmeans (module)
flyqma.annotation.classification.mixtures (module)
flyqma.annotation.classification.visualization (module)
flyqma.annotation.labelers (module)
flyqma.annotation.mixtures.bivariate (module)
flyqma.annotation.mixtures.univariate (module)
flyqma.annotation.mixtures.visualization (module)
flyqma.annotation.model_selection.bivariate (module)
flyqma.annotation.model_selection.univariate (module)
flyqma.annotation.model_selection.visualization (module)
flyqma.annotation.spatial.correlation (module)
flyqma.annotation.spatial.graphs (module)
flyqma.annotation.spatial.infomap (module)
flyqma.annotation.spatial.sampling (module)
flyqma.annotation.spatial.timeseries (module)
flyqma.annotation.spatial.triangulation (module)
flyqma.bleedthrough.background (module)
flyqma.bleedthrough.correction (module)
flyqma.bleedthrough.models (module)
flyqma.bleedthrough.resampling (module)
flyqma.bleedthrough.visualization (module)
flyqma.data.experiments (module)
flyqma.data.images (module)
flyqma.data.layers (module)
flyqma.data.silhouette_read (module)
flyqma.data.silhouette_write (module)
flyqma.data.stacks (module)
flyqma.measurement.measure (module)
flyqma.measurement.segmentation (module)
flyqma.selection.gui (module)
flyqma.selection.interface (module)
format_axis() (flyqma.analysis.statistics.PairwiseCelltypeComparison method)
from_data() (flyqma.annotation.annotation.Annotation class method)
from_grouped_measurements() (flyqma.annotation.classification.classifiers.Classifier class method)
from_layer() (flyqma.annotation.annotation.Annotation class method)
from_logsample() (flyqma.annotation.mixtures.univariate.UnivariateMixture class method)
from_measurements() (flyqma.annotation.classification.classifiers.Classifier class method)
from_parameters() (flyqma.annotation.mixtures.univariate.UnivariateMixture class method)
from_sample() (flyqma.annotation.mixtures.univariate.UnivariateMixture class method)
from_silhouette() (flyqma.data.stacks.StackIO static method)
from_tif() (flyqma.data.stacks.StackIO static method)
G
G() (flyqma.annotation.spatial.sampling.NeighborSampler property)
gaussian_filter() (flyqma.data.images.ImageScalar method)
get_binned_mean() (in module flyqma.annotation.spatial.timeseries)
get_borders() (flyqma.measurement.segmentation.Segmentation static method)
get_channel() (flyqma.data.images.ImageMultichromatic method)
get_component_pdf() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
get_correlations() (flyqma.annotation.spatial.graphs.Graph method)
get_fluctuations_matrix() (flyqma.annotation.spatial.graphs.SpatialProperties method)
get_included_layers() (flyqma.data.stacks.Stack method)
get_marginal_mixture() (flyqma.annotation.mixtures.bivariate.BivariateMixture method)
get_matrix_upper() (flyqma.annotation.spatial.graphs.SpatialProperties static method)
get_networkx() (flyqma.annotation.spatial.graphs.Graph method)
get_rolling_gaussian() (in module flyqma.annotation.spatial.timeseries)
get_rolling_mean() (in module flyqma.annotation.spatial.timeseries)
get_rolling_mean_interval() (in module flyqma.annotation.spatial.timeseries)
get_rolling_window() (in module flyqma.annotation.spatial.timeseries)
get_running_mean() (in module flyqma.annotation.spatial.timeseries)
get_sample() (flyqma.annotation.annotation.Annotation method)
get_sampler() (flyqma.annotation.annotation.Annotation method)
get_seeds_from_distance() (flyqma.measurement.segmentation.Segmentation class method)
get_segment_mask() (flyqma.measurement.segmentation.Segmentation class method)
get_subgraph() (flyqma.annotation.spatial.graphs.Graph method)
GLM (class in flyqma.bleedthrough.models)
Graph (class in flyqma.annotation.spatial.graphs)
GraphVisualizationMethods (class in flyqma.annotation.spatial.graphs)
GUI (class in flyqma.selection.gui)
H
has_image() (flyqma.data.layers.LayerProperties property)
has_trained_annotator() (flyqma.data.layers.LayerProperties property)
hull() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
I
ImageMultichromatic (class in flyqma.data.images)
ImageScalar (class in flyqma.data.images)
import_roi_mask() (flyqma.data.layers.LayerROI method)
import_segmentation_mask() (flyqma.data.layers.LayerMeasurement method)
included() (flyqma.data.stacks.Stack property)
InfoMap (class in flyqma.annotation.spatial.infomap)
initialize() (flyqma.data.experiments.Experiment method)
(flyqma.data.layers.Layer method)
(flyqma.data.stacks.Stack method)
is_annotated() (flyqma.data.stacks.Stack property)
is_greater_than() (flyqma.analysis.statistics.PairwiseComparison property)
is_initialized() (flyqma.data.experiments.Experiment property)
(flyqma.data.stacks.Stack property)
is_outlier() (flyqma.annotation.spatial.triangulation.LocalTriangulation static method)
is_segmented() (flyqma.data.layers.LayerProperties property)
(flyqma.data.stacks.Stack property)
isolate_pixels() (flyqma.bleedthrough.background.BackgroundExtraction method)
K
keys() (flyqma.annotation.spatial.sampling.NeighborSampler property)
KMeansClassifier (class in flyqma.annotation.classification.kmeans)
L
label_colors() (flyqma.annotation.classification.visualization.MixtureVisualization property)
label_triangles() (flyqma.annotation.spatial.graphs.GraphVisualizationMethods method)
labels() (flyqma.data.silhouette_read.ReadSilhouetteData property)
Layer (class in flyqma.data.layers)
LayerAnnotation (class in flyqma.data.layers)
LayerCorrection (class in flyqma.bleedthrough.correction)
(class in flyqma.data.layers)
LayerCorrectionVisualization (class in flyqma.bleedthrough.visualization)
LayerInterface (class in flyqma.selection.interface)
LayerIO (class in flyqma.data.layers)
LayerMeasurement (class in flyqma.data.layers)
LayerProperties (class in flyqma.data.layers)
LayerROI (class in flyqma.data.layers)
LayerVisualization (class in flyqma.data.layers)
(class in flyqma.selection.interface)
lbound() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
load() (flyqma.annotation.annotation.AnnotationIO class method)
(flyqma.annotation.classification.classifiers.ClassifierIO class method)
(flyqma.annotation.classification.mixtures.MixtureModelIO class method)
(flyqma.annotation.model_selection.univariate.SelectionIO class method)
(flyqma.bleedthrough.correction.LayerCorrection class method)
(flyqma.data.layers.LayerIO method)
(flyqma.data.silhouette_read.ReadSilhouetteData method)
(flyqma.selection.gui.GUI static method)
(flyqma.selection.interface.LayerInterface method)
load_annotator() (flyqma.data.layers.LayerIO method)
(flyqma.data.stacks.StackIO method)
load_correction() (flyqma.data.layers.LayerIO method)
load_image() (flyqma.data.stacks.StackIO method)
load_inclusion() (flyqma.data.layers.LayerIO method)
load_labels() (flyqma.data.layers.LayerIO method)
load_layer() (flyqma.data.stacks.Stack method)
load_measurements() (flyqma.data.layers.LayerIO method)
(flyqma.data.silhouette_read.ReadSilhouetteData method)
load_metadata() (flyqma.data.layers.LayerIO method)
(flyqma.data.stacks.StackIO method)
load_model() (flyqma.annotation.model_selection.bivariate.BivariateModelSelection static method)
(flyqma.annotation.model_selection.univariate.SelectionIO static method)
load_processed_data() (flyqma.data.layers.LayerIO method)
load_silhouette_labels() (flyqma.data.silhouette_write.WriteSilhouette method)
load_stack() (flyqma.data.experiments.Experiment method)
LocalTriangulation (class in flyqma.annotation.spatial.triangulation)
log_likelihood() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
logratio() (flyqma.annotation.spatial.graphs.WeightFunction method)
logsample() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
M
make_subdir() (flyqma.data.layers.LayerIO method)
marginalize() (flyqma.annotation.classification.mixtures.BivariateMixtureClassifier method)
mark_boundaries() (flyqma.data.layers.LayerAnnotation method)
mask_to_vertices() (flyqma.data.layers.LayerROI class method)
max_depth() (flyqma.annotation.spatial.infomap.InfoMap property)
means() (flyqma.annotation.classification.kmeans.KMeansClassifier property)
(flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
measure() (flyqma.data.layers.LayerMeasurement method)
measure_centroids() (flyqma.measurement.measure.Measurements method)
measure_expression() (flyqma.measurement.measure.Measurements method)
measure_segment_size() (flyqma.measurement.measure.Measurements method)
Measurements (class in flyqma.measurement.measure)
median_edge_length() (flyqma.annotation.spatial.graphs.SpatialProperties property)
median_filter() (flyqma.data.images.ImageScalar method)
MixtureModelIO (class in flyqma.annotation.classification.mixtures)
MixtureProperties (class in flyqma.annotation.mixtures.univariate)
MixtureVisualization (class in flyqma.annotation.classification.visualization)
(class in flyqma.annotation.mixtures.visualization)
model() (flyqma.annotation.spatial.correlation.CharacteristicLength static method)
models() (flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
ModelSelectionVisualization (class in flyqma.annotation.model_selection.visualization)
multi_logsample() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
multi_sample() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
multisample() (flyqma.annotation.spatial.sampling.NeighborSampler class method)
N
neighbors() (flyqma.annotation.spatial.sampling.CommunitySampler property)
(flyqma.annotation.spatial.sampling.NeighborSampler property)
(flyqma.annotation.spatial.sampling.RadialSampler property)
NeighborSampler (class in flyqma.annotation.spatial.sampling)
NetworkxGraphVisualization (class in flyqma.annotation.spatial.graphs)
node_positions() (flyqma.annotation.spatial.graphs.SpatialProperties property)
node_positions_arr() (flyqma.annotation.spatial.graphs.SpatialProperties property)
node_values() (flyqma.annotation.spatial.sampling.NeighborSampler property)
node_values_dict() (flyqma.annotation.spatial.sampling.NeighborSampler property)
nodes() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
(flyqma.annotation.spatial.triangulation.LocalTriangulation property)
nodes_order() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
num_cells() (flyqma.data.layers.LayerProperties property)
num_components() (flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
num_nodes() (flyqma.annotation.spatial.graphs.TopologicalProperties property)
(flyqma.annotation.spatial.sampling.NeighborSampler property)
num_objects() (flyqma.measurement.segmentation.Segmentation property)
num_samples() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
num_triangles() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
O
OLS (class in flyqma.bleedthrough.models)
on_click() (flyqma.selection.gui.GUI method)
on_key() (flyqma.selection.gui.GUI method)
order() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
overlay() (flyqma.selection.interface.LayerVisualization method)
P
pairs() (flyqma.analysis.statistics.CelltypeComparison property)
PairwiseCelltypeComparison (class in flyqma.analysis.statistics)
PairwiseComparison (class in flyqma.analysis.statistics)
parameters() (flyqma.annotation.annotation.AnnotationIO property)
(flyqma.annotation.model_selection.univariate.UnivariateModelSelection property)
parse_contour() (flyqma.data.silhouette_read.ReadSilhouetteData static method)
pdf() (flyqma.annotation.classification.visualization.MixtureVisualization property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
plot() (flyqma.analysis.statistics.PairwiseCelltypeComparison method)
plot_boundaries() (flyqma.data.layers.LayerVisualization method)
plot_boundary() (flyqma.data.layers.LayerVisualization method)
plot_edges() (flyqma.annotation.spatial.graphs.GraphVisualizationMethods method)
plot_fit() (flyqma.annotation.spatial.correlation.CharacteristicLength method)
plot_foreground_mask() (flyqma.bleedthrough.background.BackgroundExtraction method)
plot_mean() (in module flyqma.annotation.spatial.timeseries)
plot_mean_interval() (in module flyqma.annotation.spatial.timeseries)
plot_measured() (flyqma.annotation.spatial.correlation.CharacteristicLength method)
plot_models() (flyqma.annotation.model_selection.visualization.ModelSelectionVisualization method)
plot_triangles() (flyqma.annotation.spatial.graphs.GraphVisualizationMethods method)
predict() (flyqma.annotation.classification.kmeans.KMeansClassifier method)
(flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier method)
(flyqma.bleedthrough.models.OLS method)
predict_proba() (flyqma.annotation.classification.mixtures.UnivariateMixtureClassifier method)
preprocess() (flyqma.data.images.ImageScalar method)
process_measurements() (flyqma.data.layers.Layer method)
prompt_initialization() (flyqma.data.experiments.Experiment method)
(flyqma.data.stacks.Stack method)
R
RadialSampler (class in flyqma.annotation.spatial.sampling)
radii() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
read_contours() (flyqma.data.silhouette_read.ReadSilhouetteData method)
read_json() (flyqma.data.silhouette_read.ReadSilhouette method)
read_labels() (flyqma.data.silhouette_read.ReadSilhouetteData method)
ReadSilhouette (class in flyqma.data.silhouette_read)
ReadSilhouetteData (class in flyqma.data.silhouette_read)
remove_marker() (flyqma.selection.interface.LayerVisualization method)
remove_point() (flyqma.selection.interface.LayerInterface method)
remove_polygon() (flyqma.selection.interface.LayerVisualization method)
render_images() (flyqma.selection.interface.LayerVisualization method)
report() (flyqma.analysis.statistics.CelltypeComparison method)
resample_uniformly() (in module flyqma.bleedthrough.resampling)
restore_directory() (flyqma.data.stacks.Stack method)
run() (flyqma.analysis.statistics.CelltypeComparison method)
(flyqma.annotation.spatial.infomap.InfoMap method)
S
sample() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
(flyqma.annotation.spatial.sampling.NeighborSampler property)
sample_component() (flyqma.annotation.mixtures.univariate.UnivariateMixture method)
save() (flyqma.annotation.annotation.AnnotationIO method)
(flyqma.annotation.classification.classifiers.ClassifierIO method)
(flyqma.annotation.classification.mixtures.MixtureModelIO method)
(flyqma.annotation.model_selection.univariate.SelectionIO method)
(flyqma.bleedthrough.correction.LayerCorrection method)
(flyqma.data.layers.LayerIO method)
(flyqma.data.stacks.StackIO method)
(flyqma.selection.gui.GUI method)
(flyqma.selection.interface.LayerInterface method)
save_annotator() (flyqma.data.layers.LayerIO method)
(flyqma.data.stacks.StackIO method)
save_figs() (flyqma.bleedthrough.correction.LayerCorrection method)
save_measurements() (flyqma.data.layers.LayerIO method)
(flyqma.data.silhouette_read.ReadSilhouetteData method)
save_metadata() (flyqma.data.layers.LayerIO method)
(flyqma.data.stacks.StackIO method)
save_processed_data() (flyqma.data.layers.LayerIO method)
save_segmentation() (flyqma.data.layers.LayerIO method)
savgol() (in module flyqma.annotation.spatial.timeseries)
scale_factor() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
segment() (flyqma.data.layers.LayerMeasurement method)
(flyqma.data.stacks.Stack method)
Segmentation (class in flyqma.measurement.segmentation)
SelectionIO (class in flyqma.annotation.model_selection.univariate)
selector_path() (flyqma.data.stacks.Stack property)
set_cmap() (flyqma.annotation.classification.classifiers.Classifier method)
set_mean_mask() (flyqma.data.images.ImageScalar method)
set_otsu_mask() (flyqma.data.images.ImageScalar method)
show() (flyqma.annotation.classification.classifiers.Classifier method)
(flyqma.annotation.spatial.graphs.GraphVisualizationMethods method)
(flyqma.data.images.ImageScalar method)
(flyqma.measurement.segmentation.Segmentation method)
show_annotation() (flyqma.data.layers.LayerAnnotation method)
show_background_extraction() (flyqma.bleedthrough.visualization.LayerCorrectionVisualization method)
show_correction() (flyqma.bleedthrough.visualization.CorrectionVisualization method)
show_fit() (flyqma.bleedthrough.visualization.CorrectionVisualization method)
show_resampling() (flyqma.bleedthrough.visualization.CorrectionVisualization method)
silhouette_path() (flyqma.data.silhouette_write.WriteSilhouette property)
size() (flyqma.annotation.spatial.triangulation.LocalTriangulation property)
size_attr() (flyqma.annotation.spatial.sampling.CommunitySampler property)
(flyqma.annotation.spatial.sampling.NeighborSampler property)
(flyqma.annotation.spatial.sampling.RadialSampler property)
smooth() (in module flyqma.annotation.spatial.timeseries)
sort_clockwise() (flyqma.data.layers.LayerROI static method)
SpatialCorrelation (class in flyqma.annotation.spatial.correlation)
SpatialProperties (class in flyqma.annotation.spatial.graphs)
Stack (class in flyqma.data.stacks)
stack_depth() (flyqma.data.stacks.Stack property)
StackInterface (class in flyqma.selection.interface)
StackIO (class in flyqma.data.stacks)
stds() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
subsample() (in module flyqma.annotation.spatial.timeseries)
summary() (flyqma.annotation.mixtures.visualization.MixtureVisualization property)
support() (flyqma.annotation.classification.visualization.MixtureVisualization property)
(flyqma.annotation.mixtures.univariate.MixtureProperties property)
support_labels() (flyqma.annotation.classification.visualization.MixtureVisualization property)
support_size() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
supportx() (flyqma.annotation.mixtures.bivariate.BivariateMixtureProperties property)
surface_figure() (in module flyqma.annotation.mixtures.visualization)
T
tick_positions() (flyqma.annotation.mixtures.visualization.BivariateVisualization property)
to_RGB() (flyqma.data.images.ImageMultichromatic method)
TopologicalProperties (class in flyqma.annotation.spatial.graphs)
train() (flyqma.annotation.annotation.Annotation method)
train_annotator() (flyqma.data.layers.LayerAnnotation method)
(flyqma.data.stacks.Stack method)
U
ubound() (flyqma.annotation.mixtures.univariate.MixtureProperties property)
undo() (flyqma.selection.interface.LayerInterface method)
unique_distances() (flyqma.annotation.spatial.graphs.SpatialProperties property)
UnivariateMixture (class in flyqma.annotation.mixtures.univariate)
UnivariateMixtureClassifier (class in flyqma.annotation.classification.mixtures)
UnivariateModelSelection (class in flyqma.annotation.model_selection.univariate)
update_cmap() (flyqma.measurement.segmentation.Segmentation method)
update_marker() (flyqma.selection.interface.LayerVisualization method)
update_polygon() (flyqma.selection.interface.LayerInterface method)
V
values() (flyqma.annotation.classification.classifiers.ClassifierProperties property)
visualize() (flyqma.annotation.mixtures.visualization.BivariateVisualization method)
W
watershed() (flyqma.measurement.segmentation.Segmentation method)
WeightedGraph (class in flyqma.annotation.spatial.graphs)
WeightFunction (class in flyqma.annotation.spatial.graphs)
which_layer() (flyqma.selection.gui.GUI method)
write_silhouette() (flyqma.data.silhouette_write.WriteSilhouette method)
(flyqma.data.silhouette_write.WriteSilhouetteLayer method)
WriteSilhouette (class in flyqma.data.silhouette_write)
WriteSilhouetteLayer (class in flyqma.data.silhouette_write)
X
x_normed() (flyqma.annotation.spatial.correlation.CharacteristicLength property)
xkey() (flyqma.bleedthrough.correction.LayerCorrection property)
Y
ykey() (flyqma.bleedthrough.correction.LayerCorrection property)
yp() (flyqma.annotation.spatial.correlation.CharacteristicLength property)
Z
z_attr() (flyqma.annotation.spatial.sampling.CommunitySampler property)
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