DeepCell
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Training a segmentation model
Training a cell tracking model
deepcell API
DeepCell API Key
Deepcell Datasets
Deepcell Applications
DeepCell
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C
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_batch_predict() (deepcell.applications.application.Application method)
_format_model_output() (deepcell.applications.application.Application method)
_postprocess() (deepcell.applications.application.Application method)
_predict_segmentation() (deepcell.applications.application.Application method)
_preprocess() (deepcell.applications.application.Application method)
_resize_input() (deepcell.applications.application.Application method)
_resize_output() (deepcell.applications.application.Application method)
_run_model() (deepcell.applications.application.Application method)
_tile_input() (deepcell.applications.application.Application method)
_untile_output() (deepcell.applications.application.Application method)
A
Application (class in deepcell.applications.application)
B
build() (deepcell.layers.normalization.ImageNormalization2D method)
(deepcell.layers.normalization.ImageNormalization3D method)
(deepcell.layers.tensor_product.TensorProduct method)
C
call() (deepcell.layers.location.Location2D method)
(deepcell.layers.location.Location3D method)
(deepcell.layers.normalization.ImageNormalization2D method)
(deepcell.layers.normalization.ImageNormalization3D method)
(deepcell.layers.padding.ReflectionPadding2D method)
(deepcell.layers.padding.ReflectionPadding3D method)
(deepcell.layers.pooling.DilatedMaxPool2D method)
(deepcell.layers.pooling.DilatedMaxPool3D method)
(deepcell.layers.tensor_product.TensorProduct method)
(deepcell.layers.upsample.UpsampleLike method)
CellTracking (class in deepcell.applications.cell_tracking)
cf() (in module deepcell.utils.plot_utils)
compute_output_shape() (deepcell.layers.location.Location2D method)
(deepcell.layers.location.Location3D method)
(deepcell.layers.normalization.ImageNormalization2D method)
(deepcell.layers.normalization.ImageNormalization3D method)
(deepcell.layers.pooling.DilatedMaxPool2D method)
(deepcell.layers.pooling.DilatedMaxPool3D method)
(deepcell.layers.tensor_product.TensorProduct method)
(deepcell.layers.upsample.UpsampleLike method)
count_gpus() (in module deepcell.utils.train_utils)
create_rgb_image() (in module deepcell.utils.plot_utils)
CytoplasmSegmentation (class in deepcell.applications.cytoplasm_segmentation)
D
dataset_metadata (deepcell.applications.cell_tracking.CellTracking attribute)
(deepcell.applications.cytoplasm_segmentation.CytoplasmSegmentation attribute)
(deepcell.applications.mesmer.Mesmer attribute)
(deepcell.applications.nuclear_segmentation.NuclearSegmentation attribute)
deepcell.layers
module
deepcell.layers.location
module
deepcell.layers.normalization
module
deepcell.layers.padding
module
deepcell.layers.pooling
module
deepcell.layers.tensor_product
module
deepcell.layers.upsample
module
deepcell.utils
module
deepcell.utils.backbone_utils
module
deepcell.utils.data_utils
module
deepcell.utils.export_utils
module
deepcell.utils.io_utils
module
deepcell.utils.misc_utils
module
deepcell.utils.plot_utils
module
deepcell.utils.tracking_utils
module
deepcell.utils.train_utils
module
deepcell.utils.transform_utils
module
DilatedMaxPool2D (class in deepcell.layers.pooling)
DilatedMaxPool3D (class in deepcell.layers.pooling)
E
export_model() (in module deepcell.utils.export_utils)
export_model_to_tflite() (in module deepcell.utils.export_utils)
F
featurenet_3D_backbone() (in module deepcell.utils.backbone_utils)
featurenet_3D_block() (in module deepcell.utils.backbone_utils)
featurenet_backbone() (in module deepcell.utils.backbone_utils)
featurenet_block() (in module deepcell.utils.backbone_utils)
G
get_backbone() (in module deepcell.utils.backbone_utils)
get_callbacks() (in module deepcell.utils.train_utils)
get_config() (deepcell.layers.location.Location2D method)
(deepcell.layers.location.Location3D method)
(deepcell.layers.normalization.ImageNormalization2D method)
(deepcell.layers.normalization.ImageNormalization3D method)
(deepcell.layers.pooling.DilatedMaxPool2D method)
(deepcell.layers.pooling.DilatedMaxPool3D method)
(deepcell.layers.tensor_product.TensorProduct method)
(deepcell.layers.upsample.UpsampleLike method)
get_data() (in module deepcell.utils.data_utils)
get_image() (in module deepcell.utils.io_utils)
get_js_video() (in module deepcell.utils.plot_utils)
get_max_sample_num_list() (in module deepcell.utils.data_utils)
get_sorted_keys() (in module deepcell.utils.misc_utils)
I
ImageNormalization2D (class in deepcell.layers.normalization)
ImageNormalization3D (class in deepcell.layers.normalization)
inner_distance_transform_2d() (in module deepcell.utils.transform_utils)
inner_distance_transform_3d() (in module deepcell.utils.transform_utils)
inner_distance_transform_movie() (in module deepcell.utils.transform_utils)
L
LabelDetectionModel() (in module deepcell.applications.label_detection)
Location2D (class in deepcell.layers.location)
Location3D (class in deepcell.layers.location)
M
make_outline_overlay() (in module deepcell.utils.plot_utils)
Mesmer (class in deepcell.applications.mesmer)
model_metadata (deepcell.applications.cell_tracking.CellTracking attribute)
(deepcell.applications.cytoplasm_segmentation.CytoplasmSegmentation attribute)
(deepcell.applications.mesmer.Mesmer attribute)
(deepcell.applications.nuclear_segmentation.NuclearSegmentation attribute)
module
deepcell.layers
deepcell.layers.location
deepcell.layers.normalization
deepcell.layers.padding
deepcell.layers.pooling
deepcell.layers.tensor_product
deepcell.layers.upsample
deepcell.utils
deepcell.utils.backbone_utils
deepcell.utils.data_utils
deepcell.utils.export_utils
deepcell.utils.io_utils
deepcell.utils.misc_utils
deepcell.utils.plot_utils
deepcell.utils.tracking_utils
deepcell.utils.train_utils
deepcell.utils.transform_utils
N
NuclearSegmentation (class in deepcell.applications.nuclear_segmentation)
O
outer_distance_transform_2d() (in module deepcell.utils.transform_utils)
outer_distance_transform_3d() (in module deepcell.utils.transform_utils)
outer_distance_transform_movie() (in module deepcell.utils.transform_utils)
P
pixelwise_transform() (in module deepcell.utils.transform_utils)
plot_error() (in module deepcell.utils.plot_utils)
plot_training_data_2d() (in module deepcell.utils.plot_utils)
plot_training_data_3d() (in module deepcell.utils.plot_utils)
predict() (deepcell.applications.application.Application method)
(deepcell.applications.cell_tracking.CellTracking method)
(deepcell.applications.cytoplasm_segmentation.CytoplasmSegmentation method)
(deepcell.applications.mesmer.Mesmer method)
(deepcell.applications.nuclear_segmentation.NuclearSegmentation method)
R
rate_scheduler() (in module deepcell.utils.train_utils)
ReflectionPadding2D (class in deepcell.layers.padding)
ReflectionPadding3D (class in deepcell.layers.padding)
relabel_movie() (in module deepcell.utils.data_utils)
reshape_matrix() (in module deepcell.utils.data_utils)
reshape_movie() (in module deepcell.utils.data_utils)
resize_volumes() (deepcell.layers.upsample.UpsampleLike method)
S
sample_label_matrix() (in module deepcell.utils.data_utils)
sample_label_movie() (in module deepcell.utils.data_utils)
save_model_output() (in module deepcell.utils.io_utils)
ScaleDetectionModel() (in module deepcell.applications.scale_detection)
sorted_nicely() (in module deepcell.utils.misc_utils)
T
TensorProduct (class in deepcell.layers.tensor_product)
track() (deepcell.applications.cell_tracking.CellTracking method)
trim_padding() (in module deepcell.utils.data_utils)
U
UpsampleLike (class in deepcell.layers.upsample)
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