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Functions823 in github.com/AI4HealthUOL/ecg-fm-benchmarking

Functionarrays_equal_with_nans
helper function to compare arrays with nans
code/clinical_ts/data/time_series_dataset.py:91
Methodbackward
(ctx, dout)
code/extensions/cauchy/cauchy.py:84
Methodbackward
(ctx, dout)
code/extensions/cauchy/cauchy.py:108
Functionbasic1d
(filters=[128]*5,kernel_size=3, stride=2, dilation=1, pool=0, pool_stride=1, squeeze_excite_reduction=0, num_c
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:199
Functionbasic1d
(filters=[128]*5,kernel_size=3, stride=2, dilation=1, pool=0, pool_stride=1, squeeze_excite_reduction=0, num_c
code/clinical_ts/models/basic_conv1d.py:199
Functionbilinear
dt: (...) timescales A: (... N N) B: (... N)
code/clinical_ts/ts/s4_modules/s42.py:456
Functionbilinear
dt: (...) timescales A: (... N N) B: (... N)
code/clinical_ts/models/s42.py:455
Functioncheck_and_clean_numpy_files
Check .npy files in directory and delete corrupted ones. Args: directory (str): Path to directory to check
code/clinical_ts/data/time_series_dataset_utils.py:26
Methodcheck_key
(k)
code/clinical_ts/template_model.py:683
Methodclassification_and_regression_loss
(preds, targs)
code/main_lite_ecg.py:101
Methodconcat_columns
(row)
code/clinical_ts/template_model.py:138
Methodconcat_columns
(row)
code/clinical_ts/data/time_series_dataset.py:156
Methodconfigure_optimizers
(self)
code/main_lite_base.py:407
Methodconfigure_optimizers
(self)
code/main_lite_ecg.py:365
Methodconfigure_optimizers
(self)
code/main_lite.py:286
Methodconfigure_optimizers
(self)
code/clinical_ts/template_model.py:621
Methodcontract_fn
(p, x, y)
code/clinical_ts/ts/s4_modules/s42.py:799
Methodcontract_fn
(p, x, y)
code/clinical_ts/models/s42.py:798
Methodcustom_forward
(x)
code/clinical_ts/models/fm_ecg.py:113
Methodcustom_forward
(x)
code/clinical_ts/models/fm_ecg.py:579
Methodcustom_forward
(x)
code/clinical_ts/models/fm_ecg.py:734
Methodcustom_forward
(x, attention_mask=None, output_attentions=None, output_hidden_states=None, return_dict=None)
code/clinical_ts/models/fm_ecg.py:946
Methodcustom_forward_encoding
(x)
code/clinical_ts/models/fm_ecg.py:432
Methodcustom_forward_encoding
(x)
code/clinical_ts/models/fm_ecg.py:596
Methodcustom_representation
(x)
code/clinical_ts/models/fm_ecg.py:263
Methodd_output
(self)
code/clinical_ts/ts/s4_modules/s42.py:1176
Methodd_output
(self)
code/clinical_ts/models/s42.py:1174
Methodd_state
(self)
code/clinical_ts/ts/s4_modules/s42.py:1172
Methodd_state
(self)
code/clinical_ts/models/s42.py:1170
Functiondataset_add_chunk_col
add a chunk column to the dataset df
code/clinical_ts/data/time_series_dataset_utils.py:128
Functiondataset_add_iqr_col
adds a column with mean
code/clinical_ts/data/time_series_dataset_utils.py:152
Functiondataset_add_labels_col
add a column with unique labels in column col
code/clinical_ts/data/time_series_dataset_utils.py:136
Functiondataset_add_median_col
adds a column with median
code/clinical_ts/data/time_series_dataset_utils.py:144
Methoddefault_state
(self, *batch_shape)
code/clinical_ts/ts/s4_modules/s42.py:887
Methoddefault_state
(self, *args, **kwargs)
code/clinical_ts/ts/s4_modules/s42.py:1019
Methoddefault_state
(self, *batch_shape)
code/clinical_ts/models/s42.py:886
Methoddefault_state
(self, *args, **kwargs)
code/clinical_ts/models/s42.py:1018
Functiondelegates
Decorator: replace `**kwargs` in signature with params from `to`
code/clinical_ts/models/ecg_foundation_models/ecgfm_ked.py:21
Functioneval_prrc
eval instance-wise scores across all samples for a single threshold
code/clinical_ts/utils/eval_utils_cafa.py:125
Functioneval_prrc_parallel
(y_true,y_pred,thresholds)
code/clinical_ts/utils/eval_utils_cafa.py:154
Functioneval_scores_bootstrap
(y_true, y_pred,classes=None, n_iterations = 10000, alpha=0.95)
code/clinical_ts/utils/eval_utils_cafa.py:248
Functionfcn
(filters=[128]*5,num_classes=2,input_channels=8,**kwargs)
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:186
Functionfcn
(filters=[128]*5,num_classes=2,input_channels=8,**kwargs)
code/clinical_ts/models/basic_conv1d.py:186
Functionfcn_wang
(num_classes=2,input_channels=8,lin_ftrs_head=None, ps_head=0.5, bn_final_head=False, bn_head=True, act_head="
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:190
Functionfcn_wang
(num_classes=2,input_channels=8,lin_ftrs_head=None, ps_head=0.5, bn_final_head=False, bn_head=True, act_head="
code/clinical_ts/models/basic_conv1d.py:190
Methodfinalize
(self, status: str)
code/pretrain.py:50
Methodfinetune_function
Called on every epoch starts.
code/clinical_ts/utils/callbacks.py:58
Methodforward
(self, **kwargs)
code/clinical_ts/template_model.py:880
Methodforward
(self, **kwargs)
code/clinical_ts/template_modules.py:453
Methodforward
(self, **kwargs)
code/clinical_ts/template_modules.py:658
Methodforward
(self, x)
code/clinical_ts/utils/heads.py:46
Methodforward
(self, **kwargs)
code/clinical_ts/utils/heads.py:84
Methodforward
(self,**kwargs)
code/clinical_ts/ts/head.py:62
Methodforward
(self,x)
code/clinical_ts/ts/head.py:107
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:153
Methodforward
(self, x)
code/clinical_ts/ts/head.py:181
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:211
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:240
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:277
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:309
Methodforward
(self, **kwargs)
code/clinical_ts/ts/head.py:338
Methodforward
(self, **kwargs)
code/clinical_ts/ts/s4.py:28
Methodforward
(self, **kwargs)
code/clinical_ts/ts/encoder.py:40
Methodforward
Input x is shape (B, d_input, L) if transposed_input else (B, L, d_input)
code/clinical_ts/ts/s4_modules/s4_model.py:80
Methodforward
(self, x)
code/clinical_ts/ts/s4_modules/s42.py:174
Methodforward
state: (..., s, N) extra tensor that augments B rate: sampling rate factor returns: (..., c+s, L)
code/clinical_ts/ts/s4_modules/s42.py:625
Methodforward
(self, L=None, rate=1.0)
code/clinical_ts/ts/s4_modules/s42.py:1011
Methodforward
u: (B H L) if self.transposed else (B L H) state: (H N) never needed unless you know what you're doing Returns: same shape a
code/clinical_ts/ts/s4_modules/s42.py:1102
Methodforward
X: (batch, dim, lengths...).
code/clinical_ts/ts/s4_modules/s4_utils.py:19
Methodforward
(self, x)
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:17
Methodforward
(self, x)
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:47
Methodforward
(self, x)
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:91
Methodforward
(self, x)
code/clinical_ts/ts/basic_conv1d_modules/basic_conv1d.py:102
Methodforward
Input x is shape (B, d_input, L) if transposed_input else (B, L, d_input)
code/clinical_ts/models/s4_model.py:69
Methodforward
(self, x)
code/clinical_ts/models/xresnet1d.py:68
Methodforward
(self, x)
code/clinical_ts/models/xresnet1d.py:120
Methodforward
(self, x)
code/clinical_ts/models/s42.py:173
Methodforward
state: (..., s, N) extra tensor that augments B rate: sampling rate factor returns: (..., c+s, L)
code/clinical_ts/models/s42.py:624
Methodforward
(self, L=None, rate=1.0)
code/clinical_ts/models/s42.py:1010
Methodforward
u: (B H L) if self.transposed else (B L H) state: (H N) never needed unless you know what you're doing Returns: same shape a
code/clinical_ts/models/s42.py:1100
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:160
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:292
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:323
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:467
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:614
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:750
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:829
Methodforward
(self, x, **kwargs)
code/clinical_ts/models/fm_ecg.py:965
Methodforward
(self, x)
code/clinical_ts/models/basic_conv1d.py:17
Methodforward
(self, x)
code/clinical_ts/models/basic_conv1d.py:47
Methodforward
(self, x)
code/clinical_ts/models/basic_conv1d.py:91
Methodforward
(self, x)
code/clinical_ts/models/basic_conv1d.py:102
Methodforward
(self, x)
code/clinical_ts/models/inception1d.py:29
Methodforward
(self, inp, out)
code/clinical_ts/models/inception1d.py:43
Methodforward
(self, x)
code/clinical_ts/models/inception1d.py:61
Methodforward
(self,x)
code/clinical_ts/models/inception1d.py:87
Methodforward
(self, x)
code/clinical_ts/models/ecg_foundation_models/ecgfm_ked.py:64
Methodforward
(self, x)
code/clinical_ts/models/ecg_foundation_models/ecgfm_ked.py:171
Methodforward
(self, x)
code/clinical_ts/models/ecg_foundation_models/ecg_founder.py:33
Methodforward
(self, x)
code/clinical_ts/models/ecg_foundation_models/ecg_founder.py:64
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