physioex 1.0.0.dev3__tar.gz → 1.0.0.dev4__tar.gz

This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
Files changed (147) hide show
  1. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/PKG-INFO +1 -1
  2. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/index.md +17 -7
  3. physioex-1.0.0.dev4/examples/basic_usage.ipynb +1040 -0
  4. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/examples/spectral_gradients.ipynb +221 -633
  5. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/examples/visualize_data.ipynb +17 -17
  6. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/bin/parser.py +0 -9
  7. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/PKG-INFO +1 -1
  8. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/SOURCES.txt +1 -1
  9. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/pyproject.toml +1 -1
  10. physioex-1.0.0.dev3/examples/test_accuracy.ipynb +0 -308
  11. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/.DS_Store +0 -0
  12. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/.github/workflows/black.yml +0 -0
  13. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/.github/workflows/ci.yml +0 -0
  14. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/.gitignore +0 -0
  15. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/LICENSE +0 -0
  16. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/README.md +0 -0
  17. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/__init__.py +0 -0
  18. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/bin.py +0 -0
  19. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/concept_learning.py +0 -0
  20. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/data.py +0 -0
  21. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/network.py +0 -0
  22. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/preprocessor.py +0 -0
  23. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/api/train.py +0 -0
  24. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/assets/images/data/sequence_viz.png +0 -0
  25. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/assets/images/logo.psd +0 -0
  26. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/assets/images/logo.svg +0 -0
  27. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/assets/images/logo_bar.svg +0 -0
  28. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/css/custom.css +0 -0
  29. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/examples/latent_space_visualization.md +0 -0
  30. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/examples/latent_space_visualization_files/latent_space_visualization_11_1.png +0 -0
  31. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/examples/latent_space_visualization_files/latent_space_visualization_12_1.png +0 -0
  32. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/examples/latent_space_visualization_files/latent_space_visualization_6_0.png +0 -0
  33. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/examples/latent_space_visualization_files/latent_space_visualization_8_1.png +0 -0
  34. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/javascript/extra.js +0 -0
  35. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/contribute.md +0 -0
  36. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/data.md +0 -0
  37. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/preprocess.md +0 -0
  38. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/train/cli.md +0 -0
  39. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/train/networks/chambon2018.md +0 -0
  40. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/train/networks.md +0 -0
  41. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/train/train.md +0 -0
  42. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/pages/unavailable.md +0 -0
  43. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/docs/stylesheets/extra.css +0 -0
  44. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/examples/tesi_sostegni.ipynb +0 -0
  45. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/examples/utils.py +0 -0
  46. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/mkdocs.yml +0 -0
  47. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/__init__.py +0 -0
  48. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/data/__init__.py +0 -0
  49. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/data/datamodule.py +0 -0
  50. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/data/datareader.py +0 -0
  51. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/data/dataset.py +0 -0
  52. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/__init__.py +0 -0
  53. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/ari_explainer.py +0 -0
  54. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/base.py +0 -0
  55. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/freq_bands_explainer.py +0 -0
  56. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/metrics/__init__.py +0 -0
  57. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/metrics/base.py +0 -0
  58. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/metrics/infidelity.py +0 -0
  59. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/metrics/sensitivity.py +0 -0
  60. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/__init__.py +0 -0
  61. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/explainer.py +0 -0
  62. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/importance.py +0 -0
  63. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/spectral_gradients.py +0 -0
  64. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/utils.py +0 -0
  65. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/explain/spectralgradients/viz.py +0 -0
  66. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/cap/preprocessing.py +0 -0
  67. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/config/create_dreem.py +0 -0
  68. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/config/dreem.yaml +0 -0
  69. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/config/mit-bih.yaml +0 -0
  70. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/config/sleep-edf.yaml +0 -0
  71. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/dreem/__init__.py +0 -0
  72. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/dreem/dreem.py +0 -0
  73. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/dreem/preprocess.py +0 -0
  74. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/dreem/utils.py +0 -0
  75. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/isruc/isruc.py +0 -0
  76. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/isruc/preprocess.py +0 -0
  77. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/mitdb.py +0 -0
  78. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/physio2018/checksum.csv +0 -0
  79. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/physio2018/download.py +0 -0
  80. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/physio2018/physio2018.py +0 -0
  81. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/physio2018/preprocess.py +0 -0
  82. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/sleep_edf/constant.py +0 -0
  83. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/sleep_edf/preprocess.py +0 -0
  84. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/sleep_edf/sleep_edf.py +0 -0
  85. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/sleep_edf/subjects.xls +0 -0
  86. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/svuh/constant.py +0 -0
  87. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/svuh/preprocess.py +0 -0
  88. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/.future/svuh/svuh.py +0 -0
  89. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/__init__.py +0 -0
  90. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/bin/compress_datasets.py +0 -0
  91. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/bin/main.py +0 -0
  92. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/dcsm.py +0 -0
  93. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/hmc.py +0 -0
  94. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/mass.py +0 -0
  95. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/mesa.py +0 -0
  96. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/mros.py +0 -0
  97. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/preprocessor.py +0 -0
  98. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/shhs.py +0 -0
  99. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/sleepedf.py +0 -0
  100. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/utils/signal.py +0 -0
  101. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/preprocess/utils/sleepdata.py +0 -0
  102. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/__init__.py +0 -0
  103. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/bin/__init__.py +0 -0
  104. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/bin/finetune.py +0 -0
  105. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/bin/test.py +0 -0
  106. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/bin/train.py +0 -0
  107. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/__init__.py +0 -0
  108. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/chambon-EEG-EOG-EMG-L=21-test_acc=0.867.ckpt +0 -0
  109. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/chambon-EEG-L=21-test_acc=0.843.ckpt +0 -0
  110. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/seqsleepnet-EEG-EOG-EMG-L=21-test_acc=0.877.ckpt +0 -0
  111. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/seqsleepnet-EEG-L=21-test_acc=0.864.ckpt +0 -0
  112. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/tiny-EEG-EOG-EMG-L=21-test_acc=0.885.ckpt +0 -0
  113. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/backup/tiny-EEG-L=21-test_acc=0.871.ckpt +0 -0
  114. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/check_table.csv +0 -0
  115. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/chambon-EEG-EOG-EMG-L=21-test_acc=0.867.ckpt +0 -0
  116. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/chambon-EEG-L=21-test_acc=0.843.ckpt +0 -0
  117. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/seqsleepnet-EEG-EOG-EMG-L=21-test_acc=0.877.ckpt +0 -0
  118. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/seqsleepnet-EEG-L=21-test_acc=0.864.ckpt +0 -0
  119. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/tiny-EEG-EOG-EMG-L=21-test_acc=0.885.ckpt +0 -0
  120. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/checkpoints/tiny-EEG-L=21-test_acc=0.871.ckpt +0 -0
  121. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/models/load.py +0 -0
  122. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/__init__.py +0 -0
  123. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/base.py +0 -0
  124. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/chambon2018.py +0 -0
  125. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/chambon2018.yaml +0 -0
  126. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/finetuned.yaml +0 -0
  127. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/multisource.yaml +0 -0
  128. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/seqecgnet.yaml +0 -0
  129. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/seqsleepnet.yaml +0 -0
  130. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/sleeptransformer.yaml +0 -0
  131. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config/tinysleepnet.yaml +0 -0
  132. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/config.yaml +0 -0
  133. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/seqsleepnet.py +0 -0
  134. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/tinysleepnet.py +0 -0
  135. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/utils/filterbank_shape.py +0 -0
  136. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/utils/loss.py +0 -0
  137. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/networks/utils/target_transform.py +0 -0
  138. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/utils/__init__.py +0 -0
  139. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/utils/finetune.py +0 -0
  140. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/utils/test.py +0 -0
  141. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex/train/utils/train.py +0 -0
  142. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/dependency_links.txt +0 -0
  143. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/entry_points.txt +0 -0
  144. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/requires.txt +0 -0
  145. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/physioex.egg-info/top_level.txt +0 -0
  146. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/requirements.txt +0 -0
  147. {physioex-1.0.0.dev3 → physioex-1.0.0.dev4}/setup.cfg +0 -0
@@ -1,6 +1,6 @@
1
1
  Metadata-Version: 2.1
2
2
  Name: physioex
3
- Version: 1.0.0.dev3
3
+ Version: 1.0.0.dev4
4
4
  Summary: A python package for explainable sleep staging via deep learning
5
5
  Author-email: Guido Gagliardi <guido.gagliardi@phd.unipi.it>
6
6
  License: MIT License
@@ -32,19 +32,29 @@ For the public available datasets ( DCSM, HMC ) PhysioEx takes care of automatic
32
32
 
33
33
  ## Installation guidelines
34
34
 
35
- 1. **Clone the Repository:**
36
- ```bash
37
- git clone https://github.com/guidogagl/physioex.git
38
- cd physioex
39
- ```
40
- 2. **Create a Virtual Environment (Optional but Recommended)**
35
+ ### Create a Virtual Environment (Optional but Recommended)
36
+
41
37
  ```bash
42
38
  conda create -n physioex python==3.10
43
39
  conda activate physioex
44
40
  conda install pip
45
41
  pip install --upgrade pip # On Windows, use `venv\Scripts\activate`
46
42
  ```
47
- 3. **Install Dependencies and Package in Development Mode**
43
+ ### Install via pip
44
+
45
+ 1. **Install PhysioEx from PyPI:**
46
+ ```bash
47
+ pip install physioex
48
+ ```
49
+
50
+ ### Install from source
51
+ 1. **Clone the Repository:**
52
+ ```bash
53
+ git clone https://github.com/guidogagl/physioex.git
54
+ cd physioex
55
+ ```
56
+
57
+ 2. **Install Dependencies and Package in Development Mode**
48
58
  ```bash
49
59
  pip install -e .
50
60
  ```