Index Symbols | A | B | C | D | E | F | G | H | I | J | L | M | N | O | P | R | S | T | U | V Symbols --accumulate-grad-batches mednet-experiment command line option mednet-train command line option --alpha mednet-segment-view command line option --augmentations mednet-experiment command line option mednet-train command line option --balance-classes mednet-experiment command line option mednet-train command line option --batch-size mednet-experiment command line option mednet-predict command line option mednet-train command line option --binning mednet-classify-evaluate command line option mednet-detect-evaluate command line option --cache-samples mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-train command line option --compare-annotator mednet-segment-evaluate command line option --credible-regions mednet-classify-evaluate command line option --datamodule mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-train command line option --device mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-predict command line option mednet-train command line option --drop-incomplete-batch mednet-experiment command line option mednet-train command line option --dump-config mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-upload command line option --epochs mednet-experiment command line option mednet-train command line option --experiment-folder mednet-upload command line option --experiment-name mednet-upload command line option --grayscale mednet-database-preprocess command line option --initial-weights mednet-experiment command line option mednet-train command line option --input-folder mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option --iou-threshold mednet-detect-evaluate command line option --limit mednet-database-check command line option mednet-database-preprocess command line option --logdir mednet-train-analysis command line option --metric mednet-segment-evaluate command line option mednet-segment-view command line option --model mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-train command line option --monitoring-interval mednet-experiment command line option mednet-train command line option --no-balance-classes mednet-experiment command line option mednet-train command line option --no-cache-samples mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-train command line option --no-credible-regions mednet-classify-evaluate command line option --no-drop-incomplete-batch mednet-experiment command line option mednet-train command line option --no-plot mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-interpretability command line option mednet-detect-evaluate command line option mednet-segment-evaluate command line option --no-positive-only mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option --no-show-errors mednet-segment-view command line option --no-show-groundtruth mednet-classify-saliency-view command line option --only-dataset mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option --output-folder mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-train-analysis command line option --parallel mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-predict command line option mednet-train command line option --percentile mednet-classify-saliency-completeness command line option --plot mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-interpretability command line option mednet-detect-evaluate command line option mednet-segment-evaluate command line option --positive-only mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option --predictions mednet-classify-evaluate command line option mednet-detect-evaluate command line option mednet-segment-evaluate command line option mednet-segment-view command line option --project-path mednet-upload command line option --run-name mednet-upload command line option --saliency-map-algorithm mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option --seed mednet-classify-evaluate command line option mednet-experiment command line option mednet-train command line option --show-errors mednet-segment-view command line option --show-groundtruth mednet-classify-saliency-view command line option --steps mednet-segment-evaluate command line option mednet-segment-view command line option --target-class mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option --target-label mednet-classify-saliency-interpretability command line option --threshold mednet-classify-evaluate command line option mednet-classify-saliency-view command line option mednet-segment-evaluate command line option mednet-segment-view command line option --upload-limit-mb mednet-upload command line option --validation-period mednet-experiment command line option mednet-train command line option --verbose mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-config-copy command line option mednet-config-describe command line option mednet-config-list command line option mednet-database-check command line option mednet-database-list command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-info command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-train-analysis command line option mednet-upload command line option mednet-version command line option --weight mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-predict command line option -A mednet-experiment command line option mednet-train command line option -a mednet-experiment command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option -B mednet-experiment command line option mednet-train command line option -b mednet-classify-evaluate command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-train command line option -C mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option -D mednet-experiment command line option mednet-train command line option -d mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-experiment command line option mednet-predict command line option, [1] mednet-segment-dump-annotations command line option mednet-train command line option -E mednet-segment-view command line option -e mednet-classify-saliency-completeness command line option mednet-experiment command line option mednet-segment-view command line option mednet-train command line option mednet-upload command line option -G mednet-classify-saliency-view command line option -g mednet-classify-saliency-view command line option mednet-database-preprocess command line option -H mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-upload command line option -I mednet-classify-evaluate command line option mednet-experiment command line option mednet-train command line option -i mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option -l mednet-database-check command line option mednet-database-preprocess command line option mednet-train-analysis command line option mednet-upload command line option -m mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option -N mednet-experiment command line option mednet-train command line option -n mednet-upload command line option -o mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-train-analysis command line option -P mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option, [1] mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-evaluate command line option mednet-train command line option -p mednet-classify-evaluate command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-upload command line option -r mednet-upload command line option -S mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option -s mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option -t mednet-classify-evaluate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-detect-evaluate command line option mednet-segment-evaluate command line option mednet-segment-view command line option -v mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-config-copy command line option mednet-config-describe command line option mednet-config-list command line option mednet-database-check command line option mednet-database-list command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-info command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-train-analysis command line option mednet-upload command line option mednet-version command line option -W mednet-experiment command line option mednet-train command line option -w mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-predict command line option -x mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-experiment command line option mednet-train command line option -Z mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option -z mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option A accuracy() (in module mednet.engine.segment.evaluator) aggregate() (in module mednet.utils.resources) Alexnet (class in mednet.models.classify.alexnet) all_metrics() (in module mednet.engine.segment.evaluator) augmentation_transforms (mednet.models.model.Model property) B balance_losses() (mednet.models.model.Model method) BCEWithLogitsLossWeightedPerBatch (class in mednet.models.losses) binarize_findings() (in module mednet.data.classify.nih_cxr14) bounding_boxes() (mednet.data.classify.tbx11k.RawDataLoader method) C CachedDataset (class in mednet.data.datamodule) CachingDataModule (class in mednet.data.datamodule) check_database_split_loading() (in module mednet.data.split) Checkpoint (in module mednet.models.typing) checkpoint() (mednet.utils.resources.ResourceMonitor method) CHECKPOINT_ALIASES (in module mednet.utils.checkpointer) clear() (mednet.utils.resources.ResourceMonitor method) compare_annotators() (in module mednet.engine.segment.evaluator) compute_metric() (in module mednet.engine.segment.evaluator) ConcatDatabaseSplit (in module mednet.data.typing) ConcatDataModule (class in mednet.data.datamodule) ConcatDataset (class in mednet.data.datamodule) ConcatFuseBlock (class in mednet.models.segment.driu) (class in mednet.models.segment.driu_bn) (class in mednet.models.segment.hed) CONFIG mednet-classify-evaluate command line option mednet-classify-saliency-completeness command line option mednet-classify-saliency-generate command line option mednet-classify-saliency-interpretability command line option mednet-classify-saliency-view command line option mednet-database-preprocess command line option mednet-detect-evaluate command line option mednet-experiment command line option mednet-predict command line option mednet-segment-dump-annotations command line option mednet-segment-evaluate command line option mednet-segment-view command line option mednet-train command line option mednet-upload command line option ConfigCommand (class in mednet.scripts.click) CONFIGURATION_KEY_DATADIR (in module mednet.data.classify.hivtb) (in module mednet.data.classify.indian) (in module mednet.data.classify.montgomery) (in module mednet.data.classify.nih_cxr14) (in module mednet.data.classify.padchest) (in module mednet.data.classify.shenzhen) (in module mednet.data.classify.tbpoc) (in module mednet.data.classify.tbx11k) (in module mednet.data.classify.visceral) (in module mednet.data.segment.avdrive) (in module mednet.data.segment.chasedb1) (in module mednet.data.segment.cxr8) (in module mednet.data.segment.drhagis) (in module mednet.data.segment.drionsdb) (in module mednet.data.segment.drishtigs1) (in module mednet.data.segment.drive) (in module mednet.data.segment.hrf) (in module mednet.data.segment.iostar) (in module mednet.data.segment.jsrt) (in module mednet.data.segment.montgomery) (in module mednet.data.segment.refuge) (in module mednet.data.segment.rimoner3) (in module mednet.data.segment.shenzhen) (in module mednet.data.segment.stare) CONFIGURATION_KEY_IDIAP_FILESTRUCTURE (in module mednet.data.classify.nih_cxr14) (in module mednet.data.segment.cxr8) configure_losses() (mednet.models.model.Model method) configure_optimizers() (mednet.models.model.Model method) Conv3DNet (class in mednet.models.classify.cnn3d) conv_with_kaiming_uniform() (in module mednet.models.segment.make_layers) ConvBlock (class in mednet.models.segment.lwnet) ConvBridgeBlock (class in mednet.models.segment.lwnet) convert() (mednet.scripts.click.PathOrURL method) convtrans_with_kaiming_uniform() (in module mednet.models.segment.make_layers) cpu_constants() (in module mednet.utils.resources) crop_image_to_mask() (in module mednet.models.transforms) cuda_constants() (in module mednet.utils.resources) custom_collate_fn() (in module mednet.data.classify.tbx11k) CustomTensorboardLogger (class in mednet.engine.loggers) D DATABASE_SLUG (in module mednet.data.classify.hivtb) (in module mednet.data.classify.indian) (in module mednet.data.classify.montgomery) (in module mednet.data.classify.montgomery_shenzhen) (in module mednet.data.classify.montgomery_shenzhen_indian) (in module mednet.data.classify.montgomery_shenzhen_indian_tbx11k) (in module mednet.data.classify.nih_cxr14) (in module mednet.data.classify.padchest) (in module mednet.data.classify.shenzhen) (in module mednet.data.classify.tbpoc) (in module mednet.data.classify.tbx11k) (in module mednet.data.classify.visceral) (in module mednet.data.segment.avdrive) (in module mednet.data.segment.chasedb1) (in module mednet.data.segment.cxr8) (in module mednet.data.segment.drhagis) (in module mednet.data.segment.drionsdb) (in module mednet.data.segment.drishtigs1) (in module mednet.data.segment.drive) (in module mednet.data.segment.hrf) (in module mednet.data.segment.iostar) (in module mednet.data.segment.jsrt) (in module mednet.data.segment.montgomery) (in module mednet.data.segment.refuge) (in module mednet.data.segment.rimoner3) (in module mednet.data.segment.shenzhen) (in module mednet.data.segment.stare) DatabaseSample (in module mednet.data.classify.tbx11k) DatabaseSplit (in module mednet.data.typing) datadir (mednet.data.classify.hivtb.RawDataLoader attribute) (mednet.data.classify.montgomery.RawDataLoader attribute) (mednet.data.classify.nih_cxr14.RawDataLoader attribute) (mednet.data.classify.padchest.RawDataLoader attribute) (mednet.data.classify.shenzhen.RawDataLoader attribute) (mednet.data.classify.tbpoc.RawDataLoader attribute) (mednet.data.classify.tbx11k.RawDataLoader attribute) (mednet.data.classify.visceral.RawDataLoader attribute) (mednet.data.segment.avdrive.RawDataLoader attribute) (mednet.data.segment.chasedb1.RawDataLoader attribute) (mednet.data.segment.cxr8.RawDataLoader attribute) (mednet.data.segment.drhagis.RawDataLoader attribute) (mednet.data.segment.drionsdb.RawDataLoader attribute) (mednet.data.segment.drishtigs1.RawDataLoader attribute) (mednet.data.segment.drive.RawDataLoader attribute) (mednet.data.segment.hrf.RawDataLoader attribute) (mednet.data.segment.iostar.RawDataLoader attribute) (mednet.data.segment.jsrt.RawDataLoader attribute) (mednet.data.segment.montgomery.RawDataLoader attribute) (mednet.data.segment.refuge.RawDataLoader attribute) (mednet.data.segment.rimoner3.RawDataLoader attribute) (mednet.data.segment.shenzhen.RawDataLoader attribute) (mednet.data.segment.stare.RawDataLoader attribute) DataLoader (in module mednet.data.typing) DataModule (class in mednet.data.classify.hivtb) (class in mednet.data.classify.indian) (class in mednet.data.classify.montgomery) (class in mednet.data.classify.montgomery_shenzhen) (class in mednet.data.classify.montgomery_shenzhen_indian) (class in mednet.data.classify.montgomery_shenzhen_indian_tbx11k) (class in mednet.data.classify.nih_cxr14) (class in mednet.data.classify.padchest) (class in mednet.data.classify.shenzhen) (class in mednet.data.classify.tbpoc) (class in mednet.data.classify.tbx11k) (class in mednet.data.classify.visceral) (class in mednet.data.detect.cxr8) (class in mednet.data.detect.jsrt) (class in mednet.data.detect.montgomery) (class in mednet.data.detect.shenzhen) (class in mednet.data.segment.avdrive) (class in mednet.data.segment.chasedb1) (class in mednet.data.segment.cxr8) (class in mednet.data.segment.drhagis) (class in mednet.data.segment.drionsdb) (class in mednet.data.segment.drishtigs1) (class in mednet.data.segment.drive) (class in mednet.data.segment.hrf) (class in mednet.data.segment.iostar) (class in mednet.data.segment.jsrt) (class in mednet.data.segment.montgomery) (class in mednet.data.segment.refuge) (class in mednet.data.segment.rimoner3) (class in mednet.data.segment.shenzhen) (class in mednet.data.segment.stare) Dataset (class in mednet.data.typing) DatasetDictionary (mednet.data.datamodule.ConcatDataModule attribute) DecoderBlock (class in mednet.models.segment.m2unet) DEFAULT (torchvision.models.VGG16_BN_Weights attribute) (torchvision.models.VGG16_Weights attribute) default() (mednet.scripts.utils.NumpyJSONEncoder method) Densenet (class in mednet.models.classify.densenet) DESTINATION mednet-config-copy command line option device_properties() (in module mednet.scripts.utils) DeviceManager (class in mednet.engine.device) DRIU (class in mednet.models.segment.driu) DRIUBN (class in mednet.models.segment.driu_bn) DRIUBNHead (class in mednet.models.segment.driu_bn) DRIUHead (class in mednet.models.segment.driu) DRIUOD (class in mednet.models.segment.driu_od) DRIUODHead (class in mednet.models.segment.driu_od) DRIUPix (class in mednet.models.segment.driu_pix) DRIUPIXHead (class in mednet.models.segment.driu_pix) E eer_threshold() (in module mednet.engine.classify.evaluator) ElasticDeformation (class in mednet.data.augmentations) ENTRYPOINT mednet-database-check command line option execution_metadata() (in module mednet.scripts.utils) extract_statistics() (in module mednet.engine.classify.saliency.utils) F f1_score() (in module mednet.engine.segment.evaluator) FasterRCNN (class in mednet.models.detect.faster_rcnn) format_epilog() (mednet.scripts.click.ConfigCommand method) forward() (mednet.models.classify.alexnet.Alexnet method) (mednet.models.classify.cnn3d.Conv3DNet method) (mednet.models.classify.densenet.Densenet method) (mednet.models.classify.logistic_regression.LogisticRegression method) (mednet.models.classify.mlp.MultiLayerPerceptron method) (mednet.models.classify.pasa.Pasa method) (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.losses.BCEWithLogitsLossWeightedPerBatch method) (mednet.models.losses.MOONBCEWithLogitsLoss method) (mednet.models.losses.MultiLayerBCELogitsLossWeightedPerBatch method) (mednet.models.losses.MultiLayerSoftJaccardAndBCELogitsLoss method) (mednet.models.losses.SoftJaccardAndBCEWithLogitsLoss method) (mednet.models.model.Model method) (mednet.models.segment.backbones.mobilenetv2.MobileNetV24Segmentation method) (mednet.models.segment.backbones.vgg.VGG4Segmentation method) (mednet.models.segment.driu.ConcatFuseBlock method) (mednet.models.segment.driu.DRIU method) (mednet.models.segment.driu.DRIUHead method) (mednet.models.segment.driu_bn.ConcatFuseBlock method) (mednet.models.segment.driu_bn.DRIUBN method) (mednet.models.segment.driu_bn.DRIUBNHead method) (mednet.models.segment.driu_od.DRIUOD method) (mednet.models.segment.driu_od.DRIUODHead method) (mednet.models.segment.driu_pix.DRIUPix method) (mednet.models.segment.driu_pix.DRIUPIXHead method) (mednet.models.segment.hed.ConcatFuseBlock method) (mednet.models.segment.hed.HED method) (mednet.models.segment.hed.HEDHead method) (mednet.models.segment.lwnet.ConvBlock method) (mednet.models.segment.lwnet.ConvBridgeBlock method) (mednet.models.segment.lwnet.LittleUNet method) (mednet.models.segment.lwnet.LittleWNet method) (mednet.models.segment.lwnet.UpConvBlock method) (mednet.models.segment.lwnet.UpsampleBlock method) (mednet.models.segment.m2unet.DecoderBlock method) (mednet.models.segment.m2unet.LastDecoderBlock method) (mednet.models.segment.m2unet.M2Unet method) (mednet.models.segment.m2unet.M2UNetHead method) (mednet.models.segment.make_layers.PixelShuffleICNR method) (mednet.models.segment.make_layers.UnetBlock method) (mednet.models.segment.make_layers.UpsampleCropBlock method) (mednet.models.segment.unet.Unet method) (mednet.models.segment.unet.UNetHead method) G GB (in module mednet.utils.resources) get_arguments_from_datamodule() (mednet.models.losses.MOONBCEWithLogitsLoss class method) get_checkpoint_file() (in module mednet.engine.trainer) get_checkpoint_to_resume_training() (in module mednet.utils.checkpointer) get_checkpoint_to_run_inference() (in module mednet.utils.checkpointer) get_counts_for_threshold() (in module mednet.engine.segment.evaluator) H HED (class in mednet.models.segment.hed) HEDHead (class in mednet.models.segment.hed) I icnr() (in module mednet.models.segment.make_layers) idiap_file_organisation (mednet.data.classify.nih_cxr14.RawDataLoader attribute) ifnone() (in module mednet.models.segment.make_layers) IMAGENET1K_FEATURES (torchvision.models.VGG16_Weights attribute) IMAGENET1K_V1 (torchvision.models.VGG16_BN_Weights attribute) (torchvision.models.VGG16_Weights attribute) J jaccard() (in module mednet.engine.segment.evaluator) JSONable (in module mednet.scripts.utils) JSONDatabaseSplit (class in mednet.data.split) L LastDecoderBlock (class in mednet.models.segment.m2unet) lightning_accelerator() (mednet.engine.device.DeviceManager method) LittleUNet (class in mednet.models.segment.lwnet) LittleWNet (class in mednet.models.segment.lwnet) load_checkpoint() (in module mednet.engine.trainer) load_count() (in module mednet.engine.segment.evaluator) load_pil_raw_12bit_jsrt() (mednet.data.segment.jsrt.RawDataLoader method) load_predictions() (in module mednet.engine.segment.evaluator) load_rc() (in module mednet.utils.rc) log_dir (mednet.engine.loggers.CustomTensorboardLogger property) LoggingCallback (class in mednet.engine.callbacks) LogisticRegression (class in mednet.models.classify.logistic_regression) M M2Unet (class in mednet.models.segment.m2unet) M2UNetHead (class in mednet.models.segment.m2unet) make_cocov1_normalizer() (in module mednet.models.normalizer) make_histogram() (in module mednet.engine.classify.saliency.utils) make_imagenet_normalizer() (in module mednet.models.normalizer) make_plots() (in module mednet.engine.classify.evaluator) (in module mednet.engine.classify.saliency.utils) (in module mednet.engine.detect.evaluator) (in module mednet.engine.segment.evaluator) make_split() (in module mednet.data.split) make_table() (in module mednet.engine.classify.evaluator) (in module mednet.engine.classify.saliency.utils) (in module mednet.engine.detect.evaluator) (in module mednet.engine.segment.evaluator) make_z_normalizer() (in module mednet.models.normalizer) maxf1_threshold() (in module mednet.engine.classify.evaluator) mednet module mednet-classify-evaluate command line option --binning --credible-regions --dump-config --no-credible-regions --no-plot --output-folder --plot --predictions --seed --threshold --verbose -b -H -I -o -p -P -s -t -v CONFIG mednet-classify-saliency-completeness command line option --cache-samples --datamodule --device --dump-config --model --no-cache-samples --no-plot --no-positive-only --only-dataset --output-folder --parallel --percentile --plot --positive-only --saliency-map-algorithm --target-class --verbose --weight -C -d -e -H -m -o -P, [1] -s -S -v -w -x -z -Z CONFIG mednet-classify-saliency-generate command line option --cache-samples --datamodule --device --dump-config --model --no-cache-samples --no-positive-only --only-dataset --output-folder --parallel --positive-only --saliency-map-algorithm --target-class --verbose --weight -C -d -H -m -o -P -s -S -v -w -x -z -Z CONFIG mednet-classify-saliency-interpretability command line option --datamodule --dump-config --input-folder --model --no-plot --only-dataset --output-folder --plot --target-label --verbose -d -H -i -m -o -P -S -t -v CONFIG mednet-classify-saliency-view command line option --datamodule --dump-config --input-folder --model --no-show-groundtruth --output-folder --show-groundtruth --threshold --verbose -d -G -g -H -i -m -o -t -v CONFIG mednet-config-copy command line option --verbose -v DESTINATION SOURCE mednet-config-describe command line option --verbose -v NAME mednet-config-list command line option --verbose -v mednet-database-check command line option --limit --verbose -l -v ENTRYPOINT mednet-database-list command line option --verbose -v mednet-database-preprocess command line option --datamodule --dump-config --grayscale --limit --model --output-folder --verbose -d -g -H -l -m -o -v CONFIG mednet-detect-evaluate command line option --binning --dump-config --iou-threshold --no-plot --output-folder --plot --predictions --verbose -b -H -o -p -P -t -v CONFIG mednet-experiment command line option --accumulate-grad-batches --augmentations --balance-classes --batch-size --cache-samples --datamodule --device --drop-incomplete-batch --dump-config --epochs --initial-weights --model --monitoring-interval --no-balance-classes --no-cache-samples --no-drop-incomplete-batch --output-folder --parallel --seed --validation-period --verbose -a -A -b -B -d -D -e -H -I -m -N -o -p -P -s -v -W -x CONFIG mednet-info command line option --verbose -v mednet-predict command line option --batch-size --datamodule --device --dump-config --model --output-folder --parallel --verbose --weight -b -d, [1] -H -m -o -P -v -w CONFIG mednet-segment-dump-annotations command line option --datamodule --dump-config --model --output-folder --verbose -d -H -m -o -v CONFIG mednet-segment-evaluate command line option --compare-annotator --dump-config --metric --no-plot --output-folder --plot --predictions --steps --threshold --verbose -a -H -m -o -p -P -s -t -v CONFIG mednet-segment-view command line option --alpha --dump-config --metric --no-show-errors --output-folder --predictions --show-errors --steps --threshold --verbose -a -e -E -H -m -o -p -s -t -v CONFIG mednet-train command line option --accumulate-grad-batches --augmentations --balance-classes --batch-size --cache-samples --datamodule --device --drop-incomplete-batch --dump-config --epochs --initial-weights --model --monitoring-interval --no-balance-classes --no-cache-samples --no-drop-incomplete-batch --output-folder --parallel --seed --validation-period --verbose -a -A -b -B -d -D -e -H -I -m -N -o -p -P -s -v -W -x CONFIG mednet-train-analysis command line option --logdir --output-folder --verbose -l -o -v mednet-upload command line option --dump-config --experiment-folder --experiment-name --project-path --run-name --upload-limit-mb --verbose -e -H -l -n -p -r -v CONFIG mednet-version command line option --verbose -v mednet.config module mednet.config.augmentations module mednet.config.augmentations.affine module mednet.config.augmentations.elastic module mednet.config.augmentations.hflip module mednet.config.augmentations.hflip_affine module mednet.config.augmentations.hflip_jitter_affine module mednet.config.augmentations.jitter module mednet.config.classify module mednet.config.classify.data module mednet.config.classify.data.hivtb module mednet.config.classify.data.hivtb.fold_0 module mednet.config.classify.data.hivtb.fold_1 module mednet.config.classify.data.hivtb.fold_2 module mednet.config.classify.data.hivtb.fold_3 module mednet.config.classify.data.hivtb.fold_4 module mednet.config.classify.data.hivtb.fold_5 module mednet.config.classify.data.hivtb.fold_6 module mednet.config.classify.data.hivtb.fold_7 module mednet.config.classify.data.hivtb.fold_8 module mednet.config.classify.data.hivtb.fold_9 module mednet.config.classify.data.indian module mednet.config.classify.data.indian.default module mednet.config.classify.data.indian.fold_0 module mednet.config.classify.data.indian.fold_1 module mednet.config.classify.data.indian.fold_2 module mednet.config.classify.data.indian.fold_3 module mednet.config.classify.data.indian.fold_4 module mednet.config.classify.data.indian.fold_5 module mednet.config.classify.data.indian.fold_6 module mednet.config.classify.data.indian.fold_7 module mednet.config.classify.data.indian.fold_8 module mednet.config.classify.data.indian.fold_9 module mednet.config.classify.data.montgomery module mednet.config.classify.data.montgomery.default module mednet.config.classify.data.montgomery.fold_0 module mednet.config.classify.data.montgomery.fold_1 module mednet.config.classify.data.montgomery.fold_2 module mednet.config.classify.data.montgomery.fold_3 module mednet.config.classify.data.montgomery.fold_4 module mednet.config.classify.data.montgomery.fold_5 module mednet.config.classify.data.montgomery.fold_6 module mednet.config.classify.data.montgomery.fold_7 module mednet.config.classify.data.montgomery.fold_8 module mednet.config.classify.data.montgomery.fold_9 module mednet.config.classify.data.montgomery.multiclass module mednet.config.classify.data.montgomery_shenzhen module mednet.config.classify.data.montgomery_shenzhen.default module mednet.config.classify.data.montgomery_shenzhen.fold_0 module mednet.config.classify.data.montgomery_shenzhen.fold_1 module mednet.config.classify.data.montgomery_shenzhen.fold_2 module mednet.config.classify.data.montgomery_shenzhen.fold_3 module mednet.config.classify.data.montgomery_shenzhen.fold_4 module mednet.config.classify.data.montgomery_shenzhen.fold_5 module mednet.config.classify.data.montgomery_shenzhen.fold_6 module mednet.config.classify.data.montgomery_shenzhen.fold_7 module mednet.config.classify.data.montgomery_shenzhen.fold_8 module mednet.config.classify.data.montgomery_shenzhen.fold_9 module mednet.config.classify.data.montgomery_shenzhen_indian module mednet.config.classify.data.montgomery_shenzhen_indian.default module mednet.config.classify.data.montgomery_shenzhen_indian.fold_0 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_1 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_2 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_3 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_4 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_5 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_6 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_7 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_8 module mednet.config.classify.data.montgomery_shenzhen_indian.fold_9 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_0 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_1 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_2 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_3 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_4 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_5 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_6 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_7 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_8 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_9 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_healthy_vs_atb module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_0 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_1 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_2 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_3 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_4 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_5 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_6 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_7 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_8 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_9 module mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_others_vs_atb module mednet.config.classify.data.nih_cxr14 module mednet.config.classify.data.nih_cxr14.default module mednet.config.classify.data.nih_cxr14.first_100 module mednet.config.classify.data.padchest module mednet.config.classify.data.padchest.cardiomegaly_idiap module mednet.config.classify.data.padchest.idiap module mednet.config.classify.data.padchest.no_tb_idiap module mednet.config.classify.data.padchest.tb_idiap module mednet.config.classify.data.shenzhen module mednet.config.classify.data.shenzhen.alltest module mednet.config.classify.data.shenzhen.default module mednet.config.classify.data.shenzhen.fold_0 module mednet.config.classify.data.shenzhen.fold_1 module mednet.config.classify.data.shenzhen.fold_2 module mednet.config.classify.data.shenzhen.fold_3 module mednet.config.classify.data.shenzhen.fold_4 module mednet.config.classify.data.shenzhen.fold_5 module mednet.config.classify.data.shenzhen.fold_6 module mednet.config.classify.data.shenzhen.fold_7 module mednet.config.classify.data.shenzhen.fold_8 module mednet.config.classify.data.shenzhen.fold_9 module mednet.config.classify.data.tbpoc module mednet.config.classify.data.tbpoc.fold_0 module mednet.config.classify.data.tbpoc.fold_1 module mednet.config.classify.data.tbpoc.fold_2 module mednet.config.classify.data.tbpoc.fold_3 module mednet.config.classify.data.tbpoc.fold_4 module mednet.config.classify.data.tbpoc.fold_5 module mednet.config.classify.data.tbpoc.fold_6 module mednet.config.classify.data.tbpoc.fold_7 module mednet.config.classify.data.tbpoc.fold_8 module mednet.config.classify.data.tbpoc.fold_9 module mednet.config.classify.data.tbx11k module mednet.config.classify.data.tbx11k.v1_fold_0 module mednet.config.classify.data.tbx11k.v1_fold_1 module mednet.config.classify.data.tbx11k.v1_fold_2 module mednet.config.classify.data.tbx11k.v1_fold_3 module mednet.config.classify.data.tbx11k.v1_fold_4 module mednet.config.classify.data.tbx11k.v1_fold_5 module mednet.config.classify.data.tbx11k.v1_fold_6 module mednet.config.classify.data.tbx11k.v1_fold_7 module mednet.config.classify.data.tbx11k.v1_fold_8 module mednet.config.classify.data.tbx11k.v1_fold_9 module mednet.config.classify.data.tbx11k.v1_healthy_vs_atb module mednet.config.classify.data.tbx11k.v2_fold_0 module mednet.config.classify.data.tbx11k.v2_fold_1 module mednet.config.classify.data.tbx11k.v2_fold_2 module mednet.config.classify.data.tbx11k.v2_fold_3 module mednet.config.classify.data.tbx11k.v2_fold_4 module mednet.config.classify.data.tbx11k.v2_fold_5 module mednet.config.classify.data.tbx11k.v2_fold_6 module mednet.config.classify.data.tbx11k.v2_fold_7 module mednet.config.classify.data.tbx11k.v2_fold_8 module mednet.config.classify.data.tbx11k.v2_fold_9 module mednet.config.classify.data.tbx11k.v2_others_vs_atb module mednet.config.classify.data.visceral module mednet.config.classify.data.visceral.default module mednet.config.classify.models module mednet.config.classify.models.alexnet module mednet.config.classify.models.alexnet_pretrained module mednet.config.classify.models.cnn3d module mednet.config.classify.models.densenet module mednet.config.classify.models.densenet_pretrained module mednet.config.classify.models.logistic_regression module mednet.config.classify.models.mlp module mednet.config.classify.models.pasa module mednet.config.detect module mednet.config.detect.data module mednet.config.detect.data.cxr8 module mednet.config.detect.data.cxr8.default module mednet.config.detect.data.jsrt module mednet.config.detect.data.jsrt.default module mednet.config.detect.data.montgomery module mednet.config.detect.data.montgomery.default module mednet.config.detect.data.shenzhen module mednet.config.detect.data.shenzhen.default module mednet.config.detect.models module mednet.config.detect.models.faster_rcnn module mednet.config.segment module mednet.config.segment.data module mednet.config.segment.data.avdrive module mednet.config.segment.data.avdrive.default module mednet.config.segment.data.chasedb1 module mednet.config.segment.data.chasedb1.first_annotator module mednet.config.segment.data.chasedb1.second_annotator module mednet.config.segment.data.cxr8 module mednet.config.segment.data.cxr8.default module mednet.config.segment.data.drhagis module mednet.config.segment.data.drhagis.default module mednet.config.segment.data.drionsdb module mednet.config.segment.data.drionsdb.expert1 module mednet.config.segment.data.drionsdb.expert2 module mednet.config.segment.data.drishtigs1 module mednet.config.segment.data.drishtigs1.optic_cup_all module mednet.config.segment.data.drishtigs1.optic_cup_any module mednet.config.segment.data.drishtigs1.optic_disc_all module mednet.config.segment.data.drishtigs1.optic_disc_any module mednet.config.segment.data.drive module mednet.config.segment.data.drive.default module mednet.config.segment.data.drive.drive_2nd module mednet.config.segment.data.hrf module mednet.config.segment.data.hrf.default module mednet.config.segment.data.iostar module mednet.config.segment.data.iostar.optic_disc module mednet.config.segment.data.iostar.vessel module mednet.config.segment.data.jsrt module mednet.config.segment.data.jsrt.default module mednet.config.segment.data.montgomery module mednet.config.segment.data.montgomery.default module mednet.config.segment.data.refuge module mednet.config.segment.data.refuge.cup module mednet.config.segment.data.refuge.disc module mednet.config.segment.data.rimoner3 module mednet.config.segment.data.rimoner3.cup_exp1 module mednet.config.segment.data.rimoner3.cup_exp2 module mednet.config.segment.data.rimoner3.disc_exp1 module mednet.config.segment.data.rimoner3.disc_exp2 module mednet.config.segment.data.shenzhen module mednet.config.segment.data.shenzhen.default module mednet.config.segment.data.stare module mednet.config.segment.data.stare.ah module mednet.config.segment.data.stare.vk module mednet.config.segment.models module mednet.config.segment.models.driu module mednet.config.segment.models.driu_bn module mednet.config.segment.models.driu_od module mednet.config.segment.models.driu_pix module mednet.config.segment.models.hed module mednet.config.segment.models.lwnet module mednet.config.segment.models.m2unet module mednet.config.segment.models.unet module mednet.data module mednet.data.augmentations module mednet.data.classify module mednet.data.classify.hivtb module mednet.data.classify.indian module mednet.data.classify.montgomery module mednet.data.classify.montgomery_shenzhen module mednet.data.classify.montgomery_shenzhen_indian module mednet.data.classify.montgomery_shenzhen_indian_tbx11k module mednet.data.classify.nih_cxr14 module mednet.data.classify.padchest module mednet.data.classify.shenzhen module mednet.data.classify.tbpoc module mednet.data.classify.tbx11k module mednet.data.classify.visceral module mednet.data.datamodule module mednet.data.detect module mednet.data.detect.cxr8 module mednet.data.detect.jsrt module mednet.data.detect.montgomery module mednet.data.detect.shenzhen module mednet.data.image_utils module mednet.data.segment module mednet.data.segment.avdrive module mednet.data.segment.chasedb1 module mednet.data.segment.cxr8 module mednet.data.segment.drhagis module mednet.data.segment.drionsdb module mednet.data.segment.drishtigs1 module mednet.data.segment.drive module mednet.data.segment.hrf module mednet.data.segment.iostar module mednet.data.segment.jsrt module mednet.data.segment.montgomery module mednet.data.segment.refuge module mednet.data.segment.rimoner3 module mednet.data.segment.shenzhen module mednet.data.segment.stare module mednet.data.split module mednet.data.typing module mednet.engine module mednet.engine.callbacks module mednet.engine.classify module mednet.engine.classify.evaluator module mednet.engine.classify.predictor module mednet.engine.classify.saliency module mednet.engine.classify.saliency.completeness module mednet.engine.classify.saliency.generator module mednet.engine.classify.saliency.interpretability module mednet.engine.classify.saliency.utils module mednet.engine.classify.saliency.viewer module mednet.engine.detect module mednet.engine.detect.evaluator module mednet.engine.detect.predictor module mednet.engine.device module mednet.engine.loggers module mednet.engine.segment module mednet.engine.segment.dumper module mednet.engine.segment.evaluator module mednet.engine.segment.predictor module mednet.engine.segment.viewer module mednet.engine.trainer module mednet.engine.uploader module mednet.models module mednet.models.classify module mednet.models.classify.alexnet module mednet.models.classify.cnn3d module mednet.models.classify.densenet module mednet.models.classify.logistic_regression module mednet.models.classify.mlp module mednet.models.classify.model module mednet.models.classify.pasa module mednet.models.classify.typing module mednet.models.detect module mednet.models.detect.faster_rcnn module mednet.models.detect.model module mednet.models.detect.typing module mednet.models.losses module mednet.models.model module mednet.models.normalizer module mednet.models.segment module mednet.models.segment.backbones module mednet.models.segment.backbones.mobilenetv2 module mednet.models.segment.backbones.vgg module mednet.models.segment.driu module mednet.models.segment.driu_bn module mednet.models.segment.driu_od module mednet.models.segment.driu_pix module mednet.models.segment.hed module mednet.models.segment.lwnet module mednet.models.segment.m2unet module mednet.models.segment.make_layers module mednet.models.segment.model module mednet.models.segment.unet module mednet.models.transforms module mednet.models.typing module mednet.scripts module mednet.scripts.classify module mednet.scripts.classify.cli module mednet.scripts.classify.evaluate module mednet.scripts.classify.saliency module mednet.scripts.classify.saliency.completeness module mednet.scripts.classify.saliency.generate module mednet.scripts.classify.saliency.interpretability module mednet.scripts.classify.saliency.view module mednet.scripts.cli module mednet.scripts.click module mednet.scripts.config module mednet.scripts.database module mednet.scripts.detect module mednet.scripts.detect.cli module mednet.scripts.detect.evaluate module mednet.scripts.experiment module mednet.scripts.info module mednet.scripts.logging module mednet.scripts.predict module mednet.scripts.preprocess module mednet.scripts.segment module mednet.scripts.segment.cli module mednet.scripts.segment.dump_annotations module mednet.scripts.segment.evaluate module mednet.scripts.segment.view module mednet.scripts.train module mednet.scripts.train_analysis module mednet.scripts.upload module mednet.scripts.utils module mednet.utils module mednet.utils.checkpointer module mednet.utils.rc module mednet.utils.resources module mednet.utils.string module mednet.utils.summary module mednet.utils.tensorboard module mobilenet_v2_for_segmentation() (in module mednet.models.segment.backbones.mobilenetv2) MobileNetV24Segmentation (class in mednet.models.segment.backbones.mobilenetv2) Model (class in mednet.models.classify.model) (class in mednet.models.detect.model) (class in mednet.models.model) (class in mednet.models.segment.model) model_summary() (in module mednet.scripts.utils) model_transforms (mednet.data.datamodule.ConcatDataModule property) module mednet mednet.config mednet.config.augmentations mednet.config.augmentations.affine mednet.config.augmentations.elastic mednet.config.augmentations.hflip mednet.config.augmentations.hflip_affine mednet.config.augmentations.hflip_jitter_affine mednet.config.augmentations.jitter mednet.config.classify mednet.config.classify.data mednet.config.classify.data.hivtb mednet.config.classify.data.hivtb.fold_0 mednet.config.classify.data.hivtb.fold_1 mednet.config.classify.data.hivtb.fold_2 mednet.config.classify.data.hivtb.fold_3 mednet.config.classify.data.hivtb.fold_4 mednet.config.classify.data.hivtb.fold_5 mednet.config.classify.data.hivtb.fold_6 mednet.config.classify.data.hivtb.fold_7 mednet.config.classify.data.hivtb.fold_8 mednet.config.classify.data.hivtb.fold_9 mednet.config.classify.data.indian mednet.config.classify.data.indian.default mednet.config.classify.data.indian.fold_0 mednet.config.classify.data.indian.fold_1 mednet.config.classify.data.indian.fold_2 mednet.config.classify.data.indian.fold_3 mednet.config.classify.data.indian.fold_4 mednet.config.classify.data.indian.fold_5 mednet.config.classify.data.indian.fold_6 mednet.config.classify.data.indian.fold_7 mednet.config.classify.data.indian.fold_8 mednet.config.classify.data.indian.fold_9 mednet.config.classify.data.montgomery mednet.config.classify.data.montgomery.default mednet.config.classify.data.montgomery.fold_0 mednet.config.classify.data.montgomery.fold_1 mednet.config.classify.data.montgomery.fold_2 mednet.config.classify.data.montgomery.fold_3 mednet.config.classify.data.montgomery.fold_4 mednet.config.classify.data.montgomery.fold_5 mednet.config.classify.data.montgomery.fold_6 mednet.config.classify.data.montgomery.fold_7 mednet.config.classify.data.montgomery.fold_8 mednet.config.classify.data.montgomery.fold_9 mednet.config.classify.data.montgomery.multiclass mednet.config.classify.data.montgomery_shenzhen mednet.config.classify.data.montgomery_shenzhen.default mednet.config.classify.data.montgomery_shenzhen.fold_0 mednet.config.classify.data.montgomery_shenzhen.fold_1 mednet.config.classify.data.montgomery_shenzhen.fold_2 mednet.config.classify.data.montgomery_shenzhen.fold_3 mednet.config.classify.data.montgomery_shenzhen.fold_4 mednet.config.classify.data.montgomery_shenzhen.fold_5 mednet.config.classify.data.montgomery_shenzhen.fold_6 mednet.config.classify.data.montgomery_shenzhen.fold_7 mednet.config.classify.data.montgomery_shenzhen.fold_8 mednet.config.classify.data.montgomery_shenzhen.fold_9 mednet.config.classify.data.montgomery_shenzhen_indian mednet.config.classify.data.montgomery_shenzhen_indian.default mednet.config.classify.data.montgomery_shenzhen_indian.fold_0 mednet.config.classify.data.montgomery_shenzhen_indian.fold_1 mednet.config.classify.data.montgomery_shenzhen_indian.fold_2 mednet.config.classify.data.montgomery_shenzhen_indian.fold_3 mednet.config.classify.data.montgomery_shenzhen_indian.fold_4 mednet.config.classify.data.montgomery_shenzhen_indian.fold_5 mednet.config.classify.data.montgomery_shenzhen_indian.fold_6 mednet.config.classify.data.montgomery_shenzhen_indian.fold_7 mednet.config.classify.data.montgomery_shenzhen_indian.fold_8 mednet.config.classify.data.montgomery_shenzhen_indian.fold_9 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_0 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_1 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_2 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_3 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_4 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_5 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_6 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_7 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_8 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_fold_9 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v1_healthy_vs_atb mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_0 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_1 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_2 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_3 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_4 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_5 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_6 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_7 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_8 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_fold_9 mednet.config.classify.data.montgomery_shenzhen_indian_tbx11k.v2_others_vs_atb mednet.config.classify.data.nih_cxr14 mednet.config.classify.data.nih_cxr14.default mednet.config.classify.data.nih_cxr14.first_100 mednet.config.classify.data.padchest mednet.config.classify.data.padchest.cardiomegaly_idiap mednet.config.classify.data.padchest.idiap mednet.config.classify.data.padchest.no_tb_idiap mednet.config.classify.data.padchest.tb_idiap mednet.config.classify.data.shenzhen mednet.config.classify.data.shenzhen.alltest mednet.config.classify.data.shenzhen.default mednet.config.classify.data.shenzhen.fold_0 mednet.config.classify.data.shenzhen.fold_1 mednet.config.classify.data.shenzhen.fold_2 mednet.config.classify.data.shenzhen.fold_3 mednet.config.classify.data.shenzhen.fold_4 mednet.config.classify.data.shenzhen.fold_5 mednet.config.classify.data.shenzhen.fold_6 mednet.config.classify.data.shenzhen.fold_7 mednet.config.classify.data.shenzhen.fold_8 mednet.config.classify.data.shenzhen.fold_9 mednet.config.classify.data.tbpoc mednet.config.classify.data.tbpoc.fold_0 mednet.config.classify.data.tbpoc.fold_1 mednet.config.classify.data.tbpoc.fold_2 mednet.config.classify.data.tbpoc.fold_3 mednet.config.classify.data.tbpoc.fold_4 mednet.config.classify.data.tbpoc.fold_5 mednet.config.classify.data.tbpoc.fold_6 mednet.config.classify.data.tbpoc.fold_7 mednet.config.classify.data.tbpoc.fold_8 mednet.config.classify.data.tbpoc.fold_9 mednet.config.classify.data.tbx11k mednet.config.classify.data.tbx11k.v1_fold_0 mednet.config.classify.data.tbx11k.v1_fold_1 mednet.config.classify.data.tbx11k.v1_fold_2 mednet.config.classify.data.tbx11k.v1_fold_3 mednet.config.classify.data.tbx11k.v1_fold_4 mednet.config.classify.data.tbx11k.v1_fold_5 mednet.config.classify.data.tbx11k.v1_fold_6 mednet.config.classify.data.tbx11k.v1_fold_7 mednet.config.classify.data.tbx11k.v1_fold_8 mednet.config.classify.data.tbx11k.v1_fold_9 mednet.config.classify.data.tbx11k.v1_healthy_vs_atb mednet.config.classify.data.tbx11k.v2_fold_0 mednet.config.classify.data.tbx11k.v2_fold_1 mednet.config.classify.data.tbx11k.v2_fold_2 mednet.config.classify.data.tbx11k.v2_fold_3 mednet.config.classify.data.tbx11k.v2_fold_4 mednet.config.classify.data.tbx11k.v2_fold_5 mednet.config.classify.data.tbx11k.v2_fold_6 mednet.config.classify.data.tbx11k.v2_fold_7 mednet.config.classify.data.tbx11k.v2_fold_8 mednet.config.classify.data.tbx11k.v2_fold_9 mednet.config.classify.data.tbx11k.v2_others_vs_atb mednet.config.classify.data.visceral mednet.config.classify.data.visceral.default mednet.config.classify.models mednet.config.classify.models.alexnet mednet.config.classify.models.alexnet_pretrained mednet.config.classify.models.cnn3d mednet.config.classify.models.densenet mednet.config.classify.models.densenet_pretrained mednet.config.classify.models.logistic_regression mednet.config.classify.models.mlp mednet.config.classify.models.pasa mednet.config.detect mednet.config.detect.data mednet.config.detect.data.cxr8 mednet.config.detect.data.cxr8.default mednet.config.detect.data.jsrt mednet.config.detect.data.jsrt.default mednet.config.detect.data.montgomery mednet.config.detect.data.montgomery.default mednet.config.detect.data.shenzhen mednet.config.detect.data.shenzhen.default mednet.config.detect.models mednet.config.detect.models.faster_rcnn mednet.config.segment mednet.config.segment.data mednet.config.segment.data.avdrive mednet.config.segment.data.avdrive.default mednet.config.segment.data.chasedb1 mednet.config.segment.data.chasedb1.first_annotator mednet.config.segment.data.chasedb1.second_annotator mednet.config.segment.data.cxr8 mednet.config.segment.data.cxr8.default mednet.config.segment.data.drhagis mednet.config.segment.data.drhagis.default mednet.config.segment.data.drionsdb mednet.config.segment.data.drionsdb.expert1 mednet.config.segment.data.drionsdb.expert2 mednet.config.segment.data.drishtigs1 mednet.config.segment.data.drishtigs1.optic_cup_all mednet.config.segment.data.drishtigs1.optic_cup_any mednet.config.segment.data.drishtigs1.optic_disc_all mednet.config.segment.data.drishtigs1.optic_disc_any mednet.config.segment.data.drive mednet.config.segment.data.drive.default mednet.config.segment.data.drive.drive_2nd mednet.config.segment.data.hrf mednet.config.segment.data.hrf.default mednet.config.segment.data.iostar mednet.config.segment.data.iostar.optic_disc mednet.config.segment.data.iostar.vessel mednet.config.segment.data.jsrt mednet.config.segment.data.jsrt.default mednet.config.segment.data.montgomery mednet.config.segment.data.montgomery.default mednet.config.segment.data.refuge mednet.config.segment.data.refuge.cup mednet.config.segment.data.refuge.disc mednet.config.segment.data.rimoner3 mednet.config.segment.data.rimoner3.cup_exp1 mednet.config.segment.data.rimoner3.cup_exp2 mednet.config.segment.data.rimoner3.disc_exp1 mednet.config.segment.data.rimoner3.disc_exp2 mednet.config.segment.data.shenzhen mednet.config.segment.data.shenzhen.default mednet.config.segment.data.stare mednet.config.segment.data.stare.ah mednet.config.segment.data.stare.vk mednet.config.segment.models mednet.config.segment.models.driu mednet.config.segment.models.driu_bn mednet.config.segment.models.driu_od mednet.config.segment.models.driu_pix mednet.config.segment.models.hed mednet.config.segment.models.lwnet mednet.config.segment.models.m2unet mednet.config.segment.models.unet mednet.data mednet.data.augmentations mednet.data.classify mednet.data.classify.hivtb mednet.data.classify.indian mednet.data.classify.montgomery mednet.data.classify.montgomery_shenzhen mednet.data.classify.montgomery_shenzhen_indian mednet.data.classify.montgomery_shenzhen_indian_tbx11k mednet.data.classify.nih_cxr14 mednet.data.classify.padchest mednet.data.classify.shenzhen mednet.data.classify.tbpoc mednet.data.classify.tbx11k mednet.data.classify.visceral mednet.data.datamodule mednet.data.detect mednet.data.detect.cxr8 mednet.data.detect.jsrt mednet.data.detect.montgomery mednet.data.detect.shenzhen mednet.data.image_utils mednet.data.segment mednet.data.segment.avdrive mednet.data.segment.chasedb1 mednet.data.segment.cxr8 mednet.data.segment.drhagis mednet.data.segment.drionsdb mednet.data.segment.drishtigs1 mednet.data.segment.drive mednet.data.segment.hrf mednet.data.segment.iostar mednet.data.segment.jsrt mednet.data.segment.montgomery mednet.data.segment.refuge mednet.data.segment.rimoner3 mednet.data.segment.shenzhen mednet.data.segment.stare mednet.data.split mednet.data.typing mednet.engine mednet.engine.callbacks mednet.engine.classify mednet.engine.classify.evaluator mednet.engine.classify.predictor mednet.engine.classify.saliency mednet.engine.classify.saliency.completeness mednet.engine.classify.saliency.generator mednet.engine.classify.saliency.interpretability mednet.engine.classify.saliency.utils mednet.engine.classify.saliency.viewer mednet.engine.detect mednet.engine.detect.evaluator mednet.engine.detect.predictor mednet.engine.device mednet.engine.loggers mednet.engine.segment mednet.engine.segment.dumper mednet.engine.segment.evaluator mednet.engine.segment.predictor mednet.engine.segment.viewer mednet.engine.trainer mednet.engine.uploader mednet.models mednet.models.classify mednet.models.classify.alexnet mednet.models.classify.cnn3d mednet.models.classify.densenet mednet.models.classify.logistic_regression mednet.models.classify.mlp mednet.models.classify.model mednet.models.classify.pasa mednet.models.classify.typing mednet.models.detect mednet.models.detect.faster_rcnn mednet.models.detect.model mednet.models.detect.typing mednet.models.losses mednet.models.model mednet.models.normalizer mednet.models.segment mednet.models.segment.backbones mednet.models.segment.backbones.mobilenetv2 mednet.models.segment.backbones.vgg mednet.models.segment.driu mednet.models.segment.driu_bn mednet.models.segment.driu_od mednet.models.segment.driu_pix mednet.models.segment.hed mednet.models.segment.lwnet mednet.models.segment.m2unet mednet.models.segment.make_layers mednet.models.segment.model mednet.models.segment.unet mednet.models.transforms mednet.models.typing mednet.scripts mednet.scripts.classify mednet.scripts.classify.cli mednet.scripts.classify.evaluate mednet.scripts.classify.saliency mednet.scripts.classify.saliency.completeness mednet.scripts.classify.saliency.generate mednet.scripts.classify.saliency.interpretability mednet.scripts.classify.saliency.view mednet.scripts.cli mednet.scripts.click mednet.scripts.config mednet.scripts.database mednet.scripts.detect mednet.scripts.detect.cli mednet.scripts.detect.evaluate mednet.scripts.experiment mednet.scripts.info mednet.scripts.logging mednet.scripts.predict mednet.scripts.preprocess mednet.scripts.segment mednet.scripts.segment.cli mednet.scripts.segment.dump_annotations mednet.scripts.segment.evaluate mednet.scripts.segment.view mednet.scripts.train mednet.scripts.train_analysis mednet.scripts.upload mednet.scripts.utils mednet.utils mednet.utils.checkpointer mednet.utils.rc mednet.utils.resources mednet.utils.string mednet.utils.summary mednet.utils.tensorboard MOONBCEWithLogitsLoss (class in mednet.models.losses) mps_constants() (in module mednet.utils.resources) MultiLayerBCELogitsLossWeightedPerBatch (class in mednet.models.losses) MultiLayerPerceptron (class in mednet.models.classify.mlp) MultiLayerSoftJaccardAndBCELogitsLoss (class in mednet.models.losses) N NAME mednet-config-describe command line option name (mednet.scripts.click.PathOrURL attribute) name2metric() (in module mednet.engine.segment.evaluator) normalizer (mednet.models.model.Model property) normalizer_is_set() (mednet.models.model.Model method) num_classes (mednet.models.classify.alexnet.Alexnet property) (mednet.models.classify.cnn3d.Conv3DNet property) (mednet.models.classify.densenet.Densenet property) (mednet.models.classify.logistic_regression.LogisticRegression property) (mednet.models.classify.mlp.MultiLayerPerceptron property) (mednet.models.classify.pasa.Pasa property) (mednet.models.detect.faster_rcnn.FasterRCNN property) (mednet.models.model.Model property) (mednet.models.segment.lwnet.LittleUNet property) (mednet.models.segment.lwnet.LittleWNet property) NumpyJSONEncoder (class in mednet.scripts.utils) O on_load_checkpoint() (mednet.models.classify.alexnet.Alexnet method) (mednet.models.classify.cnn3d.Conv3DNet method) (mednet.models.classify.densenet.Densenet method) (mednet.models.classify.logistic_regression.LogisticRegression method) (mednet.models.classify.mlp.MultiLayerPerceptron method) (mednet.models.classify.pasa.Pasa method) (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.model.Model method) on_save_checkpoint() (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.model.Model method) on_train_batch_end() (mednet.engine.callbacks.LoggingCallback method) on_train_end() (mednet.engine.callbacks.LoggingCallback method) on_train_epoch_end() (mednet.engine.callbacks.LoggingCallback method) on_train_epoch_start() (mednet.engine.callbacks.LoggingCallback method) on_train_start() (mednet.engine.callbacks.LoggingCallback method) on_validation_batch_end() (mednet.engine.callbacks.LoggingCallback method) on_validation_epoch_end() (mednet.engine.callbacks.LoggingCallback method) on_validation_epoch_start() (mednet.engine.callbacks.LoggingCallback method) P parallel (mednet.data.datamodule.ConcatDataModule property) Pasa (class in mednet.models.classify.pasa) PathOrURL (class in mednet.scripts.click) PixelShuffleICNR (class in mednet.models.segment.make_layers) pos_weight_for_bcewithlogitsloss() (in module mednet.models.losses) precision() (in module mednet.engine.segment.evaluator) predict_dataloader() (mednet.data.datamodule.ConcatDataModule method) predict_step() (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.model.Model method) (mednet.models.segment.lwnet.LittleWNet method) Prediction (in module mednet.models.classify.typing) (in module mednet.models.detect.typing) PredictionSplit (in module mednet.models.classify.typing) (in module mednet.models.detect.typing) R RADIOLOGICAL_FINDINGS (in module mednet.data.classify.nih_cxr14) RawDataLoader (class in mednet.data.classify.hivtb) (class in mednet.data.classify.montgomery) (class in mednet.data.classify.nih_cxr14) (class in mednet.data.classify.padchest) (class in mednet.data.classify.shenzhen) (class in mednet.data.classify.tbpoc) (class in mednet.data.classify.tbx11k) (class in mednet.data.classify.visceral) (class in mednet.data.detect.cxr8) (class in mednet.data.detect.jsrt) (class in mednet.data.detect.montgomery) (class in mednet.data.detect.shenzhen) (class in mednet.data.segment.avdrive) (class in mednet.data.segment.chasedb1) (class in mednet.data.segment.cxr8) (class in mednet.data.segment.drhagis) (class in mednet.data.segment.drionsdb) (class in mednet.data.segment.drishtigs1) (class in mednet.data.segment.drive) (class in mednet.data.segment.hrf) (class in mednet.data.segment.iostar) (class in mednet.data.segment.jsrt) (class in mednet.data.segment.montgomery) (class in mednet.data.segment.refuge) (class in mednet.data.segment.rimoner3) (class in mednet.data.segment.shenzhen) (class in mednet.data.segment.stare) (class in mednet.data.typing) recall() (in module mednet.engine.segment.evaluator) remove_black_borders() (in module mednet.data.image_utils) ResourceMonitor (class in mednet.utils.resources) reusable_options() (in module mednet.scripts.train) rewrap() (in module mednet.utils.string) run() (in module mednet.engine.classify.evaluator) (in module mednet.engine.classify.predictor) (in module mednet.engine.classify.saliency.completeness) (in module mednet.engine.classify.saliency.generator) (in module mednet.engine.classify.saliency.interpretability) (in module mednet.engine.classify.saliency.viewer) (in module mednet.engine.detect.evaluator) (in module mednet.engine.detect.predictor) (in module mednet.engine.segment.dumper) (in module mednet.engine.segment.evaluator) (in module mednet.engine.segment.predictor) (in module mednet.engine.trainer) (in module mednet.engine.uploader) S SaliencyMapAlgorithm (in module mednet.models.classify.typing) Sample (in module mednet.data.typing) sample() (mednet.data.classify.hivtb.RawDataLoader method) (mednet.data.classify.montgomery.RawDataLoader method) (mednet.data.classify.nih_cxr14.RawDataLoader method) (mednet.data.classify.padchest.RawDataLoader method) (mednet.data.classify.shenzhen.RawDataLoader method) (mednet.data.classify.tbpoc.RawDataLoader method) (mednet.data.classify.tbx11k.RawDataLoader method) (mednet.data.classify.visceral.RawDataLoader method) (mednet.data.detect.cxr8.RawDataLoader method) (mednet.data.detect.jsrt.RawDataLoader method) (mednet.data.detect.montgomery.RawDataLoader method) (mednet.data.detect.shenzhen.RawDataLoader method) (mednet.data.segment.avdrive.RawDataLoader method) (mednet.data.segment.chasedb1.RawDataLoader method) (mednet.data.segment.cxr8.RawDataLoader method) (mednet.data.segment.drhagis.RawDataLoader method) (mednet.data.segment.drionsdb.RawDataLoader method) (mednet.data.segment.drishtigs1.RawDataLoader method) (mednet.data.segment.drive.RawDataLoader method) (mednet.data.segment.hrf.RawDataLoader method) (mednet.data.segment.iostar.RawDataLoader method) (mednet.data.segment.jsrt.RawDataLoader method) (mednet.data.segment.montgomery.RawDataLoader method) (mednet.data.segment.refuge.RawDataLoader method) (mednet.data.segment.rimoner3.RawDataLoader method) (mednet.data.segment.shenzhen.RawDataLoader method) (mednet.data.segment.stare.RawDataLoader method) (mednet.data.typing.RawDataLoader method) save_json_metadata() (in module mednet.scripts.utils) save_json_with_backup() (in module mednet.scripts.utils) scalars_to_dict() (in module mednet.utils.tensorboard) set_normalizer_from_dataloader() (mednet.models.model.Model method) setup() (mednet.data.datamodule.ConcatDataModule method) setup_cli_logger() (in module mednet.scripts.logging) setup_datamodule() (in module mednet.engine.trainer) SigmoidClassifierOutputTarget (class in mednet.engine.classify.saliency.completeness) SoftJaccardAndBCEWithLogitsLoss (class in mednet.models.losses) SOURCE mednet-config-copy command line option specificity() (in module mednet.engine.segment.evaluator) square_center_pad() (in module mednet.models.transforms) SquareCenterPad (class in mednet.models.transforms) start() (mednet.utils.resources.ResourceMonitor method) stop() (mednet.utils.resources.ResourceMonitor method) summary() (in module mednet.utils.summary) SUPPORTED_METRIC_TYPE (in module mednet.engine.segment.evaluator) SupportedPytorchDevice (in module mednet.engine.device) T target() (mednet.data.classify.hivtb.RawDataLoader method) (mednet.data.classify.montgomery.RawDataLoader method) (mednet.data.classify.nih_cxr14.RawDataLoader method) (mednet.data.classify.padchest.RawDataLoader method) (mednet.data.classify.shenzhen.RawDataLoader method) (mednet.data.classify.tbpoc.RawDataLoader method) (mednet.data.classify.tbx11k.RawDataLoader method) (mednet.data.classify.visceral.RawDataLoader method) (mednet.data.detect.cxr8.RawDataLoader method) (mednet.data.detect.jsrt.RawDataLoader method) (mednet.data.detect.montgomery.RawDataLoader method) (mednet.data.detect.shenzhen.RawDataLoader method) (mednet.data.segment.avdrive.RawDataLoader method) (mednet.data.segment.chasedb1.RawDataLoader method) (mednet.data.segment.cxr8.RawDataLoader method) (mednet.data.segment.drhagis.RawDataLoader method) (mednet.data.segment.drionsdb.RawDataLoader method) (mednet.data.segment.drishtigs1.RawDataLoader method) (mednet.data.segment.drive.RawDataLoader method) (mednet.data.segment.hrf.RawDataLoader method) (mednet.data.segment.iostar.RawDataLoader method) (mednet.data.segment.jsrt.RawDataLoader method) (mednet.data.segment.montgomery.RawDataLoader method) (mednet.data.segment.refuge.RawDataLoader method) (mednet.data.segment.rimoner3.RawDataLoader method) (mednet.data.segment.shenzhen.RawDataLoader method) (mednet.data.segment.stare.RawDataLoader method) (mednet.data.typing.RawDataLoader method) targets() (mednet.data.datamodule.CachedDataset method) (mednet.data.datamodule.ConcatDataset method) (mednet.data.typing.Dataset method) TargetType (in module mednet.models.typing) TaskType (in module mednet.models.typing) teardown() (mednet.data.datamodule.ConcatDataModule method) test_dataloader() (mednet.data.datamodule.ConcatDataModule method) tfpn_masks() (in module mednet.engine.segment.evaluator) to() (mednet.models.losses.MOONBCEWithLogitsLoss method) (mednet.models.model.Model method) torch_device() (mednet.engine.device.DeviceManager method) train_dataloader() (mednet.data.datamodule.ConcatDataModule method) training_step() (mednet.models.classify.model.Model method) (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.model.Model method) (mednet.models.segment.model.Model method) Transform (in module mednet.data.typing) TransformSequence (in module mednet.data.typing) U Unet (class in mednet.models.segment.unet) UnetBlock (class in mednet.models.segment.make_layers) UNetHead (class in mednet.models.segment.unet) unshuffled_train_dataloader() (mednet.data.datamodule.ConcatDataModule method) UpConvBlock (class in mednet.models.segment.lwnet) UpsampleBlock (class in mednet.models.segment.lwnet) UpsampleCropBlock (class in mednet.models.segment.make_layers) V val_dataloader() (mednet.data.datamodule.ConcatDataModule method) val_dataset_keys() (mednet.data.datamodule.ConcatDataModule method) validate_model_datamodule() (in module mednet.engine.trainer) validate_threshold() (in module mednet.engine.segment.evaluator) validation_step() (mednet.models.detect.faster_rcnn.FasterRCNN method) (mednet.models.model.Model method) vgg16_bn_for_segmentation() (in module mednet.models.segment.backbones.vgg) VGG16_BN_Weights (class in torchvision.models) vgg16_for_segmentation() (in module mednet.models.segment.backbones.vgg) VGG16_Weights (class in torchvision.models) VGG4Segmentation (class in mednet.models.segment.backbones.vgg) view() (in module mednet.engine.segment.viewer)