paradigma 0.1.5__py3-none-any.whl → 0.3.0__py3-none-any.whl

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Files changed (112) hide show
  1. paradigma/__init__.py +1 -3
  2. paradigma/constants.py +65 -0
  3. paradigma/feature_extraction.py +703 -0
  4. paradigma/gait_analysis.py +415 -0
  5. paradigma/gait_analysis_config.py +266 -0
  6. paradigma/heart_rate_analysis.py +127 -0
  7. paradigma/heart_rate_analysis_config.py +9 -0
  8. paradigma/heart_rate_util.py +173 -0
  9. paradigma/imu_preprocessing.py +232 -0
  10. paradigma/ppg/classifier/LR_PPG_quality.pkl +0 -0
  11. paradigma/ppg/classifier/LR_model.mat +0 -0
  12. paradigma/ppg/feat_extraction/acc_feature.m +20 -0
  13. paradigma/ppg/feat_extraction/peakdet.m +64 -0
  14. paradigma/ppg/feat_extraction/ppg_features.m +53 -0
  15. paradigma/ppg/glob_functions/extract_hr_segments.m +37 -0
  16. paradigma/ppg/glob_functions/extract_overlapping_segments.m +23 -0
  17. paradigma/ppg/glob_functions/jsonlab/AUTHORS.txt +41 -0
  18. paradigma/ppg/glob_functions/jsonlab/ChangeLog.txt +74 -0
  19. paradigma/ppg/glob_functions/jsonlab/LICENSE_BSD.txt +25 -0
  20. paradigma/ppg/glob_functions/jsonlab/LICENSE_GPLv3.txt +699 -0
  21. paradigma/ppg/glob_functions/jsonlab/README.txt +394 -0
  22. paradigma/ppg/glob_functions/jsonlab/examples/.svn/entries +368 -0
  23. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/demo_jsonlab_basic.m.svn-base +180 -0
  24. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/demo_ubjson_basic.m.svn-base +180 -0
  25. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/example1.json.svn-base +23 -0
  26. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/example2.json.svn-base +22 -0
  27. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/example3.json.svn-base +11 -0
  28. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/example4.json.svn-base +34 -0
  29. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/jsonlab_basictest.matlab.svn-base +662 -0
  30. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/jsonlab_selftest.m.svn-base +27 -0
  31. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/jsonlab_selftest.matlab.svn-base +144 -0
  32. paradigma/ppg/glob_functions/jsonlab/examples/.svn/text-base/jsonlab_speedtest.m.svn-base +21 -0
  33. paradigma/ppg/glob_functions/jsonlab/examples/demo_jsonlab_basic.m +180 -0
  34. paradigma/ppg/glob_functions/jsonlab/examples/demo_ubjson_basic.m +180 -0
  35. paradigma/ppg/glob_functions/jsonlab/examples/example1.json +23 -0
  36. paradigma/ppg/glob_functions/jsonlab/examples/example2.json +22 -0
  37. paradigma/ppg/glob_functions/jsonlab/examples/example3.json +11 -0
  38. paradigma/ppg/glob_functions/jsonlab/examples/example4.json +34 -0
  39. paradigma/ppg/glob_functions/jsonlab/examples/jsonlab_basictest.matlab +662 -0
  40. paradigma/ppg/glob_functions/jsonlab/examples/jsonlab_selftest.m +27 -0
  41. paradigma/ppg/glob_functions/jsonlab/examples/jsonlab_selftest.matlab +144 -0
  42. paradigma/ppg/glob_functions/jsonlab/examples/jsonlab_speedtest.m +21 -0
  43. paradigma/ppg/glob_functions/jsonlab/jsonopt.m +32 -0
  44. paradigma/ppg/glob_functions/jsonlab/loadjson.m +566 -0
  45. paradigma/ppg/glob_functions/jsonlab/loadubjson.m +528 -0
  46. paradigma/ppg/glob_functions/jsonlab/mergestruct.m +33 -0
  47. paradigma/ppg/glob_functions/jsonlab/savejson.m +475 -0
  48. paradigma/ppg/glob_functions/jsonlab/saveubjson.m +504 -0
  49. paradigma/ppg/glob_functions/jsonlab/varargin2struct.m +40 -0
  50. paradigma/ppg/glob_functions/sample_prob_final.m +49 -0
  51. paradigma/ppg/glob_functions/synchronization.m +76 -0
  52. paradigma/ppg/glob_functions/tsdf_scan_meta.m +22 -0
  53. paradigma/ppg/hr_functions/Long_TFD_JOT.m +37 -0
  54. paradigma/ppg/hr_functions/PPG_TFD_HR.m +59 -0
  55. paradigma/ppg/hr_functions/TFD toolbox JOT/.gitignore +4 -0
  56. paradigma/ppg/hr_functions/TFD toolbox JOT/CHANGELOG.md +23 -0
  57. paradigma/ppg/hr_functions/TFD toolbox JOT/LICENCE.md +27 -0
  58. paradigma/ppg/hr_functions/TFD toolbox JOT/README.md +251 -0
  59. paradigma/ppg/hr_functions/TFD toolbox JOT/README.pdf +0 -0
  60. paradigma/ppg/hr_functions/TFD toolbox JOT/common/gen_Doppler_kern.m +142 -0
  61. paradigma/ppg/hr_functions/TFD toolbox JOT/common/gen_Doppler_lag_kern.m +314 -0
  62. paradigma/ppg/hr_functions/TFD toolbox JOT/common/gen_lag_kern.m +123 -0
  63. paradigma/ppg/hr_functions/TFD toolbox JOT/dec_tfd.m +154 -0
  64. paradigma/ppg/hr_functions/TFD toolbox JOT/decimated_TFDs/dec_di_gdtfd.m +194 -0
  65. paradigma/ppg/hr_functions/TFD toolbox JOT/decimated_TFDs/dec_li_gdtfd.m +200 -0
  66. paradigma/ppg/hr_functions/TFD toolbox JOT/decimated_TFDs/dec_nonsep_gdtfd.m +229 -0
  67. paradigma/ppg/hr_functions/TFD toolbox JOT/decimated_TFDs/dec_sep_gdtfd.m +241 -0
  68. paradigma/ppg/hr_functions/TFD toolbox JOT/full_TFDs/di_gdtfd.m +157 -0
  69. paradigma/ppg/hr_functions/TFD toolbox JOT/full_TFDs/li_gdtfd.m +190 -0
  70. paradigma/ppg/hr_functions/TFD toolbox JOT/full_TFDs/nonsep_gdtfd.m +196 -0
  71. paradigma/ppg/hr_functions/TFD toolbox JOT/full_TFDs/sep_gdtfd.m +199 -0
  72. paradigma/ppg/hr_functions/TFD toolbox JOT/full_tfd.m +144 -0
  73. paradigma/ppg/hr_functions/TFD toolbox JOT/load_curdir.m +13 -0
  74. paradigma/ppg/hr_functions/TFD toolbox JOT/pics/decimated_TFDs_examples.png +0 -0
  75. paradigma/ppg/hr_functions/TFD toolbox JOT/pics/full_TFDs_examples.png +0 -0
  76. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/check_dec_params_seq.m +79 -0
  77. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/dispEE.m +9 -0
  78. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/dispVars.m +26 -0
  79. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/disp_bytes.m +25 -0
  80. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/fold_vector_full.m +40 -0
  81. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/fold_vector_half.m +34 -0
  82. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/gen_LFM.m +29 -0
  83. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/get_analytic_signal.m +76 -0
  84. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/get_window.m +176 -0
  85. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/isreal_fn.m +11 -0
  86. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/padWin.m +97 -0
  87. paradigma/ppg/hr_functions/TFD toolbox JOT/utils/vtfd.m +149 -0
  88. paradigma/ppg/preprocessing/preprocessing_imu.m +15 -0
  89. paradigma/ppg/preprocessing/preprocessing_ppg.m +13 -0
  90. paradigma/ppg_preprocessing.py +313 -0
  91. paradigma/preprocessing_config.py +69 -0
  92. paradigma/quantification.py +58 -0
  93. paradigma/tremor/TremorFeaturesAndClassification.m +345 -0
  94. paradigma/tremor/feat_extraction/DerivativesExtract.m +22 -0
  95. paradigma/tremor/feat_extraction/ExtractBandSignalsRMS.m +72 -0
  96. paradigma/tremor/feat_extraction/MFCCExtract.m +100 -0
  97. paradigma/tremor/feat_extraction/PSDBandPower.m +52 -0
  98. paradigma/tremor/feat_extraction/PSDEst.m +63 -0
  99. paradigma/tremor/feat_extraction/PSDExtrAxis.m +88 -0
  100. paradigma/tremor/feat_extraction/PSDExtrOpt.m +95 -0
  101. paradigma/tremor/preprocessing/InterpData.m +32 -0
  102. paradigma/tremor/weekly_aggregates/WeeklyAggregates.m +295 -0
  103. paradigma/util.py +50 -0
  104. paradigma/windowing.py +219 -0
  105. paradigma-0.3.0.dist-info/LICENSE +192 -0
  106. paradigma-0.3.0.dist-info/METADATA +79 -0
  107. paradigma-0.3.0.dist-info/RECORD +108 -0
  108. paradigma/dummy.py +0 -3
  109. paradigma-0.1.5.dist-info/LICENSE +0 -201
  110. paradigma-0.1.5.dist-info/METADATA +0 -18
  111. paradigma-0.1.5.dist-info/RECORD +0 -6
  112. {paradigma-0.1.5.dist-info → paradigma-0.3.0.dist-info}/WHEEL +0 -0
paradigma/__init__.py CHANGED
@@ -3,6 +3,4 @@ from importlib.metadata import version
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  __version__ = version("paradigma")
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- from .dummy import (
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- hello_world
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- )
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+ __all__ = []
paradigma/constants.py ADDED
@@ -0,0 +1,65 @@
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+ from dataclasses import dataclass
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+
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+
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+ @dataclass(frozen=True)
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+ class DataColumns():
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+ """
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+ Class containing the data channels in `tsdf`.
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+ """
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+ ACCELEROMETER_X : str = "accelerometer_x"
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+ ACCELEROMETER_Y : str = "accelerometer_y"
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+ ACCELEROMETER_Z : str = "accelerometer_z"
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+ GYROSCOPE_X : str = "gyroscope_x"
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+ GYROSCOPE_Y : str = "gyroscope_y"
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+ GYROSCOPE_Z : str = "gyroscope_z"
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+ PPG : str = "green"
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+ TIME : str = "time"
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+
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+ # The following are used in gait analysis
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+ GRAV_ACCELEROMETER_X : str = "grav_accelerometer_x"
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+ GRAV_ACCELEROMETER_Y : str = "grav_accelerometer_y"
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+ GRAV_ACCELEROMETER_Z : str = "grav_accelerometer_z"
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+ PRED_GAIT : str = "pred_gait"
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+ PRED_ARM_SWING : str = "pred_arm_swing"
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+ ANGLE : str = "angle"
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+ ANGLE_SMOOTH : str = "angle_smooth"
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+ VELOCITY : str = "velocity"
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+ SEGMENT_NR : str = "segment_nr"
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+
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+ @dataclass(frozen=True)
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+ class DataUnits():
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+ """
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+ Class containing the data channel unit types in `tsdf`.
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+ """
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+ ACCELERATION: str = "m/s^2"
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+ """ The acceleration is in m/s^2. """
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+
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+ ROTATION: str = "deg/s"
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+ """ The rotation is in degrees per second. """
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+
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+ GRAVITY: str = "g"
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+ """ The acceleration due to gravity is in g. """
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+
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+ POWER_SPECTRAL_DENSITY: str = "g^2/Hz"
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+ """ The power spectral density is in g^2/Hz. """
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+
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+ FREQUENCY: str = "Hz"
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+ """ The frequency is in Hz. """
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+
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+ NONE: str = "none"
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+ """ The data channel has no unit. """
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+
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+
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+ @dataclass(frozen=True)
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+ class TimeUnit():
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+ """
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+ Class containing the `time` channel unit types in `tsdf`.
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+ """
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+ RELATIVE_MS : str = "relative_ms"
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+ """ The time is relative to the start time in milliseconds. """
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+ ABSOLUTE_MS : str = "absolute_ms"
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+ """ The time is absolute in milliseconds. """
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+ DIFFERENCE_MS : str = "difference_ms"
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+ """ The time is the difference between consecutive samples in milliseconds. """
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+
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+ UNIX_TICKS_MS: int = 1000