Index

B

bc_connected() (in module connectomics.utils.process) bc_watershed() (in module connectomics.utils.process) bcd_watershed() (in module connectomics.utils.process) binary_connected() (in module connectomics.utils.process)

binary_watershed() (in module connectomics.utils.process) build_dataloader() (in module connectomics.data.dataset) build_from_cfg() (connectomics.data.augmentation.TestAugmentor class method) (connectomics.model.loss.Criterion class method) build_train_augmentor() (in module connectomics.data.augmentation)

C

Compose (class in connectomics.data.augmentation) connectomics.data.augmentation module connectomics.data.dataset module connectomics.data.utils module connectomics.engine module connectomics.model.arch module connectomics.model.loss module

connectomics.model.utils module connectomics.utils.process module connectomics.utils.visualizer module copy_paste_single() (connectomics.data.augmentation.CopyPasteAugmentor method) CopyPasteAugmentor (class in connectomics.data.augmentation) Criterion (class in connectomics.model.loss) CutBlur (class in connectomics.data.augmentation) CutNoise (class in connectomics.data.augmentation)

D

DataAugment (class in connectomics.data.augmentation)

DeepLabV3 (class in connectomics.model.arch) Discriminator3D (class in connectomics.model.arch)

E

Elastic (class in connectomics.data.augmentation)

F

Flip (class in connectomics.data.augmentation) forward() (connectomics.model.arch.DeepLabV3 method) (connectomics.model.arch.Discriminator3D method) (connectomics.model.arch.FPN3D method) (connectomics.model.arch.SwinUNETR method) (connectomics.model.arch.UNet2D method) (connectomics.model.arch.UNet3D method) (connectomics.model.arch.UNetPlus2D method) (connectomics.model.arch.UNetPlus3D method) (connectomics.model.arch.UNETR method)

FPN3D (class in connectomics.model.arch)

G

GANLoss (class in connectomics.model.loss) get_activation() (in module connectomics.model.utils) get_coord_name() (connectomics.data.dataset.TileDataset method) get_dataset() (in module connectomics.data.dataset)

get_functional_act() (in module connectomics.model.utils) get_norm_2d() (in module connectomics.model.utils) get_norm_3d() (in module connectomics.model.utils) get_target_tensor() (connectomics.model.loss.GANLoss method) Grayscale (class in connectomics.data.augmentation)

I

ImagePool (class in connectomics.model.utils)

L

loadchunk() (connectomics.data.dataset.TileDataset method)

M

MisAlignment (class in connectomics.data.augmentation) MissingParts (class in connectomics.data.augmentation) MissingSection (class in connectomics.data.augmentation) MixupAugmentor (class in connectomics.data.augmentation) model_init() (in module connectomics.model.utils) module connectomics.data.augmentation connectomics.data.dataset connectomics.data.utils connectomics.engine connectomics.model.arch connectomics.model.loss connectomics.model.utils connectomics.utils.process connectomics.utils.visualizer

MotionBlur (class in connectomics.data.augmentation)

P

polarity2instance() (in module connectomics.utils.process)

Q

query() (connectomics.model.utils.ImagePool method)

R

Rescale (class in connectomics.data.augmentation)

Rotate (class in connectomics.data.augmentation) run_chunk() (connectomics.engine.Trainer method)

S

save_checkpoint() (connectomics.engine.Trainer method) set_params() (connectomics.data.augmentation.CopyPasteAugmentor method) (connectomics.data.augmentation.CutBlur method) (connectomics.data.augmentation.CutNoise method) (connectomics.data.augmentation.DataAugment method) (connectomics.data.augmentation.Elastic method) (connectomics.data.augmentation.Flip method) (connectomics.data.augmentation.Grayscale method) (connectomics.data.augmentation.MisAlignment method) (connectomics.data.augmentation.MissingParts method) (connectomics.data.augmentation.MissingSection method) (connectomics.data.augmentation.MotionBlur method) (connectomics.data.augmentation.Rescale method) (connectomics.data.augmentation.Rotate method)

SplitActivation (class in connectomics.model.utils) SwinUNETR (class in connectomics.model.arch)

T

test() (connectomics.engine.Trainer method) TestAugmentor (class in connectomics.data.augmentation)

TileDataset (class in connectomics.data.dataset) train() (connectomics.engine.Trainer method) Trainer (class in connectomics.engine)

U

UNet2D (class in connectomics.model.arch) UNet3D (class in connectomics.model.arch) UNetPlus2D (class in connectomics.model.arch) UNetPlus3D (class in connectomics.model.arch)

UNETR (class in connectomics.model.arch) update_checkpoint() (connectomics.engine.Trainer method) update_name() (connectomics.data.augmentation.TestAugmentor method) updatechunk() (connectomics.data.dataset.TileDataset method)

V

validate() (connectomics.engine.Trainer method) Visualizer (class in connectomics.utils.visualizer)

VolumeDataset (class in connectomics.data.dataset) VolumeDatasetCond (class in connectomics.data.dataset) VolumeDatasetRecon (class in connectomics.data.dataset)