vbi 0.1.3__cp310-cp310-manylinux2014_x86_64.whl

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 (121) hide show
  1. vbi/__init__.py +37 -0
  2. vbi/_version.py +17 -0
  3. vbi/dataset/__init__.py +0 -0
  4. vbi/dataset/connectivity_84/centers.txt +84 -0
  5. vbi/dataset/connectivity_84/centres.txt +84 -0
  6. vbi/dataset/connectivity_84/cortical.txt +84 -0
  7. vbi/dataset/connectivity_84/tract_lengths.txt +84 -0
  8. vbi/dataset/connectivity_84/weights.txt +84 -0
  9. vbi/dataset/connectivity_88/Aud_88.txt +88 -0
  10. vbi/dataset/connectivity_88/Bold.npz +0 -0
  11. vbi/dataset/connectivity_88/Labels.txt +17 -0
  12. vbi/dataset/connectivity_88/Region_labels.txt +88 -0
  13. vbi/dataset/connectivity_88/tract_lengths.txt +88 -0
  14. vbi/dataset/connectivity_88/weights.txt +88 -0
  15. vbi/feature_extraction/__init__.py +1 -0
  16. vbi/feature_extraction/calc_features.py +293 -0
  17. vbi/feature_extraction/features.json +535 -0
  18. vbi/feature_extraction/features.py +2124 -0
  19. vbi/feature_extraction/features_settings.py +374 -0
  20. vbi/feature_extraction/features_utils.py +1357 -0
  21. vbi/feature_extraction/infodynamics.jar +0 -0
  22. vbi/feature_extraction/utility.py +507 -0
  23. vbi/inference.py +98 -0
  24. vbi/models/__init__.py +0 -0
  25. vbi/models/cpp/__init__.py +0 -0
  26. vbi/models/cpp/_src/__init__.py +0 -0
  27. vbi/models/cpp/_src/__pycache__/mpr_sde.cpython-310.pyc +0 -0
  28. vbi/models/cpp/_src/_do.cpython-310-x86_64-linux-gnu.so +0 -0
  29. vbi/models/cpp/_src/_jr_sdde.cpython-310-x86_64-linux-gnu.so +0 -0
  30. vbi/models/cpp/_src/_jr_sde.cpython-310-x86_64-linux-gnu.so +0 -0
  31. vbi/models/cpp/_src/_km_sde.cpython-310-x86_64-linux-gnu.so +0 -0
  32. vbi/models/cpp/_src/_mpr_sde.cpython-310-x86_64-linux-gnu.so +0 -0
  33. vbi/models/cpp/_src/_vep.cpython-310-x86_64-linux-gnu.so +0 -0
  34. vbi/models/cpp/_src/_wc_ode.cpython-310-x86_64-linux-gnu.so +0 -0
  35. vbi/models/cpp/_src/bold.hpp +303 -0
  36. vbi/models/cpp/_src/do.hpp +167 -0
  37. vbi/models/cpp/_src/do.i +17 -0
  38. vbi/models/cpp/_src/do.py +467 -0
  39. vbi/models/cpp/_src/do_wrap.cxx +12811 -0
  40. vbi/models/cpp/_src/jr_sdde.hpp +352 -0
  41. vbi/models/cpp/_src/jr_sdde.i +19 -0
  42. vbi/models/cpp/_src/jr_sdde.py +688 -0
  43. vbi/models/cpp/_src/jr_sdde_wrap.cxx +18718 -0
  44. vbi/models/cpp/_src/jr_sde.hpp +264 -0
  45. vbi/models/cpp/_src/jr_sde.i +17 -0
  46. vbi/models/cpp/_src/jr_sde.py +470 -0
  47. vbi/models/cpp/_src/jr_sde_wrap.cxx +13406 -0
  48. vbi/models/cpp/_src/km_sde.hpp +158 -0
  49. vbi/models/cpp/_src/km_sde.i +19 -0
  50. vbi/models/cpp/_src/km_sde.py +671 -0
  51. vbi/models/cpp/_src/km_sde_wrap.cxx +17367 -0
  52. vbi/models/cpp/_src/makefile +52 -0
  53. vbi/models/cpp/_src/mpr_sde.hpp +327 -0
  54. vbi/models/cpp/_src/mpr_sde.i +19 -0
  55. vbi/models/cpp/_src/mpr_sde.py +711 -0
  56. vbi/models/cpp/_src/mpr_sde_wrap.cxx +18618 -0
  57. vbi/models/cpp/_src/utility.hpp +307 -0
  58. vbi/models/cpp/_src/vep.hpp +171 -0
  59. vbi/models/cpp/_src/vep.i +16 -0
  60. vbi/models/cpp/_src/vep.py +464 -0
  61. vbi/models/cpp/_src/vep_wrap.cxx +12968 -0
  62. vbi/models/cpp/_src/wc_ode.hpp +294 -0
  63. vbi/models/cpp/_src/wc_ode.i +19 -0
  64. vbi/models/cpp/_src/wc_ode.py +686 -0
  65. vbi/models/cpp/_src/wc_ode_wrap.cxx +24263 -0
  66. vbi/models/cpp/damp_oscillator.py +143 -0
  67. vbi/models/cpp/jansen_rit.py +543 -0
  68. vbi/models/cpp/km.py +187 -0
  69. vbi/models/cpp/mpr.py +289 -0
  70. vbi/models/cpp/vep.py +150 -0
  71. vbi/models/cpp/wc.py +216 -0
  72. vbi/models/cupy/__init__.py +0 -0
  73. vbi/models/cupy/bold.py +111 -0
  74. vbi/models/cupy/ghb.py +284 -0
  75. vbi/models/cupy/jansen_rit.py +473 -0
  76. vbi/models/cupy/km.py +224 -0
  77. vbi/models/cupy/mpr.py +475 -0
  78. vbi/models/cupy/mpr_modified_bold.py +12 -0
  79. vbi/models/cupy/utils.py +184 -0
  80. vbi/models/numba/__init__.py +0 -0
  81. vbi/models/numba/_ww_EI.py +444 -0
  82. vbi/models/numba/damp_oscillator.py +162 -0
  83. vbi/models/numba/ghb.py +208 -0
  84. vbi/models/numba/mpr.py +383 -0
  85. vbi/models/pytorch/__init__.py +0 -0
  86. vbi/models/pytorch/data/default_parameters.npz +0 -0
  87. vbi/models/pytorch/data/input/ROI_sim.mat +0 -0
  88. vbi/models/pytorch/data/input/fc_test.csv +68 -0
  89. vbi/models/pytorch/data/input/fc_train.csv +68 -0
  90. vbi/models/pytorch/data/input/fc_vali.csv +68 -0
  91. vbi/models/pytorch/data/input/fcd_test.mat +0 -0
  92. vbi/models/pytorch/data/input/fcd_test_high_window.mat +0 -0
  93. vbi/models/pytorch/data/input/fcd_test_low_window.mat +0 -0
  94. vbi/models/pytorch/data/input/fcd_train.mat +0 -0
  95. vbi/models/pytorch/data/input/fcd_vali.mat +0 -0
  96. vbi/models/pytorch/data/input/myelin.csv +68 -0
  97. vbi/models/pytorch/data/input/rsfc_gradient.csv +68 -0
  98. vbi/models/pytorch/data/input/run_label_testset.mat +0 -0
  99. vbi/models/pytorch/data/input/sc_test.csv +68 -0
  100. vbi/models/pytorch/data/input/sc_train.csv +68 -0
  101. vbi/models/pytorch/data/input/sc_vali.csv +68 -0
  102. vbi/models/pytorch/data/obs_kong0.npz +0 -0
  103. vbi/models/pytorch/ww_sde_kong.py +570 -0
  104. vbi/models/tvbk/__init__.py +9 -0
  105. vbi/models/tvbk/tvbk_wrapper.py +166 -0
  106. vbi/models/tvbk/utils.py +72 -0
  107. vbi/papers/__init__.py +0 -0
  108. vbi/papers/pavlides_pcb_2015/pavlides.py +211 -0
  109. vbi/tests/__init__.py +0 -0
  110. vbi/tests/_test_mpr_nb.py +36 -0
  111. vbi/tests/test_features.py +355 -0
  112. vbi/tests/test_ghb_cupy.py +90 -0
  113. vbi/tests/test_mpr_cupy.py +49 -0
  114. vbi/tests/test_mpr_numba.py +84 -0
  115. vbi/tests/test_suite.py +19 -0
  116. vbi/utils.py +402 -0
  117. vbi-0.1.3.dist-info/METADATA +166 -0
  118. vbi-0.1.3.dist-info/RECORD +121 -0
  119. vbi-0.1.3.dist-info/WHEEL +5 -0
  120. vbi-0.1.3.dist-info/licenses/LICENSE +201 -0
  121. vbi-0.1.3.dist-info/top_level.txt +1 -0
vbi/dataset/connectivity_88/weights.txt ADDED
@@ -0,0 +1,88 @@
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84
+ 9.900000e+01 7.500000e+01 8.000000e+00 7.300000e+01 8.000000e+00 8.000000e+00 1.900000e+01 7.000000e+00 1.500000e+01 9.000000e+00 1.200000e+01 7.400000e+01 4.000000e+00 4.000000e+00 2.100000e+01 1.100000e+01 7.200000e+01 5.000000e+00 1.070000e+02 2.900000e+01 1.000000e+01 3.000000e+01 3.900000e+01 7.000000e+00 9.000000e+00 2.900000e+01 3.000000e+00 1.200000e+01 3.750000e+02 4.600000e+01 3.400000e+01 5.500000e+01 5.000000e+00 2.120000e+02 1.170000e+02 2.300000e+01 3.300000e+01 1.900000e+01 7.200000e+01 1.255000e+03 3.100000e+01 6.900000e+01 2.000000e+01 4.900000e+01 3.830000e+02 2.250000e+02 1.800000e+01 4.910000e+02 5.700000e+01 1.260000e+02 6.540000e+02 6.640000e+02 2.139000e+03 3.710000e+02 1.500000e+01 3.100000e+02 7.000000e+00 1.100000e+01 1.999000e+03 1.700000e+01 5.300000e+01 6.000000e+00 4.400000e+01 4.800000e+01 3.000000e+00 1.270000e+02 8.700000e+01 4.400000e+01 1.510000e+02 2.460000e+02 1.200000e+01 1.500000e+01 1.041000e+03 1.600000e+02 9.200000e+01 5.180000e+02 4.100000e+02 5.320000e+02 8.340000e+02 4.000000e+01 2.500000e+02 9.000000e+01 3.700000e+01 0.000000e+00 1.637000e+03 4.149000e+03 2.040000e+02 1.290000e+02
85
+ 1.470000e+02 1.530000e+02 9.000000e+00 4.590000e+02 6.000000e+00 7.300000e+01 2.900000e+01 1.400000e+01 4.100000e+01 7.400000e+01 6.200000e+01 6.200000e+01 1.700000e+01 1.400000e+01 4.800000e+01 2.700000e+01 6.300000e+01 7.000000e+00 5.300000e+01 2.100000e+01 4.000000e+00 1.460000e+02 6.200000e+01 1.200000e+01 1.900000e+01 4.200000e+01 1.200000e+01 2.300000e+01 7.500000e+01 1.800000e+01 4.000000e+00 1.200000e+01 5.000000e+00 8.700000e+01 6.500000e+01 1.600000e+01 3.400000e+01 2.100000e+01 3.900000e+01 4.450000e+02 5.400000e+01 4.600000e+01 2.400000e+01 6.300000e+01 2.820000e+02 3.790000e+02 4.040000e+02 3.950000e+02 2.530000e+02 3.570000e+02 3.080000e+02 1.026000e+03 8.930000e+02 2.114000e+03 2.060000e+02 4.070000e+02 8.700000e+01 3.400000e+02 1.682000e+03 6.700000e+01 5.000000e+01 1.000000e+01 3.890000e+02 3.420000e+02 1.740000e+02 6.810000e+02 2.450000e+02 3.510000e+02 4.040000e+02 3.670000e+02 8.200000e+01 1.160000e+02 9.370000e+02 1.900000e+02 1.030000e+02 8.800000e+01 2.250000e+02 4.470000e+02 2.210000e+02 1.430000e+02 2.150000e+02 7.200000e+01 1.520000e+02 1.637000e+03 0.000000e+00 8.190000e+02 4.420000e+02 2.290000e+02
86
+ 2.500000e+01 1.130000e+02 2.900000e+01 1.260000e+02 1.800000e+01 1.900000e+01 2.400000e+01 3.400000e+01 1.500000e+01 1.500000e+01 2.500000e+01 1.530000e+02 1.700000e+01 1.100000e+01 3.000000e+01 3.000000e+01 3.100000e+01 9.000000e+00 1.640000e+02 5.900000e+01 8.000000e+00 2.090000e+02 3.150000e+02 2.800000e+01 6.600000e+01 2.160000e+02 3.300000e+01 4.800000e+01 1.050000e+02 9.200000e+01 2.200000e+01 5.000000e+01 1.700000e+01 2.750000e+02 2.000000e+01 2.800000e+01 3.400000e+01 1.200000e+01 1.090000e+02 8.100000e+01 9.000000e+01 1.890000e+02 3.900000e+01 1.610000e+02 1.810000e+02 4.860000e+02 1.210000e+02 3.235000e+03 1.740000e+02 3.850000e+02 1.651000e+03 8.050000e+02 1.580000e+02 1.290000e+02 4.500000e+01 2.780000e+02 2.300000e+01 6.200000e+01 5.120000e+02 2.800000e+01 3.500000e+01 1.100000e+01 3.800000e+01 7.800000e+01 4.000000e+00 8.730000e+02 3.770000e+02 4.990000e+02 7.910000e+02 2.116000e+03 3.390000e+02 1.100000e+02 1.810000e+02 1.470000e+02 1.200000e+02 4.790000e+02 1.433000e+03 5.220000e+02 4.300000e+01 4.000000e+01 6.900000e+01 1.600000e+01 5.400000e+01 4.149000e+03 8.190000e+02 0.000000e+00 7.300000e+02 2.491000e+03
87
+ 2.200000e+01 3.800000e+01 1.300000e+01 3.700000e+01 6.000000e+00 1.000000e+00 7.000000e+00 1.900000e+01 3.000000e+00 0.000000e+00 1.680000e+02 3.200000e+01 1.100000e+01 3.100000e+01 1.500000e+01 2.500000e+01 2.200000e+01 3.000000e+00 9.100000e+01 4.600000e+01 7.000000e+00 2.220000e+02 8.300000e+01 4.300000e+01 2.500000e+01 6.900000e+01 3.800000e+01 6.300000e+01 3.900000e+01 1.900000e+01 3.000000e+00 4.000000e+00 5.000000e+00 5.900000e+01 3.300000e+01 2.100000e+01 2.300000e+01 4.200000e+01 4.500000e+01 2.100000e+01 5.700000e+01 5.400000e+01 4.100000e+01 1.070000e+02 8.500000e+01 1.110000e+02 3.130000e+02 1.250000e+02 1.730000e+02 1.200000e+01 4.400000e+01 2.350000e+02 7.200000e+01 1.050000e+02 4.720000e+02 1.640000e+02 2.110000e+02 7.600000e+02 1.760000e+02 1.070000e+02 3.500000e+01 9.000000e+00 6.540000e+02 6.420000e+02 2.510000e+02 9.520000e+02 3.000000e+02 6.650000e+02 3.940000e+02 3.080000e+02 2.090000e+02 8.730000e+02 3.530000e+02 8.000000e+01 1.000000e+01 2.100000e+01 1.050000e+02 3.820000e+02 9.800000e+01 1.370000e+02 9.400000e+01 3.200000e+01 4.200000e+02 2.040000e+02 4.420000e+02 7.300000e+02 0.000000e+00 1.282000e+03
88
+ 1.400000e+01 7.300000e+01 1.300000e+01 8.900000e+01 2.300000e+01 1.100000e+01 2.300000e+01 1.800000e+01 1.000000e+01 8.000000e+00 4.700000e+01 9.100000e+01 1.200000e+01 1.100000e+01 1.600000e+01 3.100000e+01 1.000000e+01 7.000000e+00 1.030000e+02 4.800000e+01 1.000000e+00 2.380000e+02 1.950000e+02 7.200000e+01 5.300000e+01 1.080000e+02 3.600000e+01 8.400000e+01 1.700000e+01 3.000000e+01 6.000000e+00 8.000000e+00 8.000000e+00 7.700000e+01 8.000000e+00 1.700000e+01 1.900000e+01 2.800000e+01 3.300000e+01 3.000000e+00 5.400000e+01 7.700000e+01 4.100000e+01 1.170000e+02 5.700000e+01 3.610000e+02 8.900000e+01 2.076000e+03 1.460000e+02 2.800000e+02 8.730000e+02 1.240000e+02 8.000000e+00 1.440000e+02 1.130000e+02 2.180000e+02 4.000000e+01 7.800000e+01 4.900000e+01 6.700000e+01 2.700000e+01 3.000000e+00 3.420000e+02 1.050000e+03 4.500000e+01 1.563000e+03 7.720000e+02 1.761000e+03 1.001000e+03 2.266000e+03 2.570000e+03 3.914000e+03 4.000000e+01 9.100000e+01 2.400000e+01 6.500000e+01 1.390000e+02 4.350000e+02 1.100000e+01 1.060000e+02 2.400000e+01 3.000000e+01 2.230000e+02 1.290000e+02 2.290000e+02 2.491000e+03 1.282000e+03 0.000000e+00
vbi/feature_extraction/__init__.py ADDED
@@ -0,0 +1 @@
1
+ # from .tests.all_tests import tests
vbi/feature_extraction/calc_features.py ADDED
@@ -0,0 +1,293 @@
1
+ import os
2
+ import vbi
3
+ import sys
4
+ import tqdm
5
+ import importlib
6
+ import numpy as np
7
+ import pandas as pd
8
+ from multiprocessing import Pool
9
+ import vbi.feature_extraction.features
10
+ from vbi.feature_extraction.features_settings import Data_F
11
+
12
+
13
+ def calc_features(
14
+ ts: np.ndarray,
15
+ fs: float,
16
+ cfg: dict,
17
+ preprocess=None,
18
+ preprocess_args: dict = {},
19
+ verbose: bool = False,
20
+ ):
21
+ """
22
+ Extract features from time series data.
23
+
24
+ Parameters
25
+ ----------
26
+ ts : np.ndarray
27
+ Time series data
28
+ fs : int, float
29
+ Sampling frequency
30
+ cfg : dict
31
+ Dictionary of features configurations
32
+ preprocess : function
33
+ Function for preprocessing the time series
34
+ preprocess_args : dictionary
35
+ Arguments for preprocessing function
36
+
37
+ Returns
38
+ -------
39
+ features : list of numpy arrays
40
+
41
+ """
42
+
43
+ features_path = cfg["features_path"] if ("features_path" in cfg.keys()) else None
44
+
45
+ if features_path:
46
+ module_name = features_path.split(os.sep)[-1][:-3]
47
+ sys.path.append(features_path[: -len(features_path.split(os.sep)[-1]) - 1])
48
+ exec("import " + module_name)
49
+ importlib.reload(sys.modules[features_path.split(os.sep)[-1][:-3]])
50
+ exec("from " + module_name + " import *")
51
+
52
+ # module = sys.modules[module_name]
53
+ # print(module.calc_mean)
54
+ # print(module.calc_mean([1,2,3], 1, 2))
55
+
56
+ def length(x):
57
+ return (len(x)) if (len(x) > 0) else 0
58
+
59
+ labels = []
60
+ features = []
61
+ info = {}
62
+
63
+ domain = list(cfg.keys())
64
+ # remove features_path from domain if exists
65
+ if "features_path" in domain:
66
+ domain.remove("features_path")
67
+
68
+ for _type in domain:
69
+ domain_feats = cfg[_type]
70
+ for fe in domain_feats:
71
+ if cfg[_type][fe]["use"] == "yes":
72
+ c = length(features)
73
+ func_name = fe
74
+ func = cfg[_type][fe]["function"]
75
+ params = cfg[_type][fe]["parameters"]
76
+
77
+ if "verbose" in params.keys():
78
+ params["verbose"] = verbose
79
+
80
+ if params is None:
81
+ params = {}
82
+
83
+ if "fs" in params.keys():
84
+ params["fs"] = fs
85
+
86
+ if preprocess is not None:
87
+ ts = preprocess(ts, **preprocess_args)
88
+ val, lab = eval(func)(ts, **params)
89
+
90
+ if isinstance(val, (np.ndarray, list)):
91
+ labels.extend(lab)
92
+ features.extend(val)
93
+ else:
94
+ labels.append(func_name)
95
+ features.append(val)
96
+ info[func_name] = {"index": [c, length(features)]}
97
+
98
+ return features, labels, info
99
+
100
+
101
+ def extract_features(
102
+ ts: np.ndarray, fs: float, cfg: dict, output_type=Data_F, **kwargs
103
+ ):
104
+ """
105
+ Extract features from time series data
106
+
107
+ Parameters
108
+ ----------
109
+ ts : list of np.ndarray [[n_regions x n_samples]]
110
+ Input from which the features are extracted
111
+ fs : int, float
112
+ Sampling frequency
113
+ cfg : dictionary
114
+ Dictionary of features to extract
115
+ output_format : string
116
+ Output format, either
117
+ 'list' (list of numpy arrays)
118
+ 'dataframe' (pandas dataframe)
119
+ (default is 'list')
120
+
121
+ **kwargs
122
+ - n_workers : int
123
+ Number of workers for parallelization, default is 1
124
+ Parallelization is done by ensembles (first dimension of ts)
125
+ - dtype : type
126
+ Data type of the features extracted, default is np.float32
127
+ - verbose : boolean
128
+ If True, print the some information
129
+ - preprocess : function
130
+ Function for preprocessing the time series
131
+ - preprocess_args : dictionary
132
+ Arguments for preprocessing function
133
+ - n_trial: int
134
+ Number of trials
135
+
136
+ Returns
137
+ -------
138
+ Data Object with the following attributes:
139
+ values: list of numpy arrays or pandas dataframe
140
+ extracted features
141
+ labels: list of strings
142
+ List of labels of the features
143
+ info: dictionary
144
+ Dictionary with the information of the features extracted
145
+
146
+ """
147
+
148
+ labels = []
149
+ features = []
150
+
151
+ n_workers = kwargs.get("n_workers", 1)
152
+ dtype = kwargs.get("dtype", np.float32)
153
+ verbose = kwargs.get("verbose", True)
154
+ preprocess = kwargs.get("preprocess", None)
155
+ preprocess_args = kwargs.get("preprocess_args", {})
156
+ n_trial = kwargs.get("n_trial", len(ts))
157
+
158
+ def update_bar(verbose):
159
+ if verbose:
160
+ pbar.update()
161
+ else:
162
+ pass
163
+
164
+ # ts, n_trial = prepare_input(ts)
165
+ labels = None
166
+ info = None
167
+
168
+ if n_workers == 1:
169
+ features = []
170
+ for i in tqdm.tqdm(range(n_trial), disable=not verbose):
171
+ values, _labels, _info = calc_features(
172
+ ts[i], fs, cfg, preprocess, preprocess_args
173
+ )
174
+ features.append(np.array(values).astype(dtype))
175
+ if (labels is None) and (not np.isnan(values).any()):
176
+ labels = _labels
177
+ info = _info
178
+ else:
179
+ for i in range(n_trial):
180
+ values, _labels, _info = calc_features(
181
+ ts[i],
182
+ fs,
183
+ cfg,
184
+ preprocess=preprocess,
185
+ preprocess_args=preprocess_args
186
+ )
187
+ if (labels is None) and (not np.isnan(values).any()):
188
+ labels = _labels
189
+ info = _info
190
+ break
191
+ with Pool(processes=n_workers) as pool:
192
+ with tqdm.tqdm(total=n_trial, disable=not verbose) as pbar:
193
+ async_res = [
194
+ pool.apply_async(
195
+ calc_features,
196
+ args=(ts[i], fs, cfg, preprocess, preprocess_args),
197
+ # kwds=dict(kwargs),
198
+ callback=update_bar,
199
+ )
200
+ for i in range(n_trial)
201
+ ]
202
+ features = [np.array(res.get()[0]).astype(dtype) for res in async_res]
203
+
204
+ if output_type == "dataframe":
205
+ df = pd.DataFrame(features)
206
+ if labels is not None:
207
+ df.columns = labels
208
+ return df
209
+ elif output_type == "list":
210
+ return features, labels
211
+
212
+ data = Data_F(values=features, labels=labels, info=info)
213
+
214
+ return data
215
+
216
+
217
+ def extract_features_df(ts: np.ndarray, fs: float, cfg: dict, **kwargs):
218
+ """
219
+ Extract features from time series data and return a pandas dataframe
220
+
221
+ Parameters
222
+ ----------
223
+ ts : list of np.ndarray [[n_regions x n_samples]]
224
+ Input from which the features are extracted
225
+ fs : int, float
226
+ Sampling frequency
227
+ cfg : dictionary
228
+ Dictionary of features to extract
229
+
230
+ **kwargs
231
+ - n_workers : int
232
+ Number of workers for parallelization, default is 1
233
+ Parallelization is done by ensembles (first dimension of ts)
234
+ - dtype : type
235
+ Data type of the features extracted, default is np.float32
236
+ - verbose : boolean
237
+ If True, print the some information
238
+ - preprocess : function
239
+ Function for preprocessing the time series
240
+ - preprocess_args : dictionary
241
+ Arguments for preprocessing function
242
+
243
+ Returns
244
+ -------
245
+
246
+ Data Object with the following attributes:
247
+ - values: pandas dataframe
248
+ extracted features
249
+ - labels: list of strings
250
+ List of labels of the features
251
+ - info: dictionary
252
+ Dictionary with the information of the features extracted
253
+ """
254
+ return extract_features(ts, fs, cfg, "dataframe", **kwargs)
255
+
256
+
257
+ def extract_features_list(ts, fs, cfg, **kwargs):
258
+ """
259
+ extract features from time series data and return a list of features and labels
260
+
261
+ Parameters
262
+ ----------
263
+ ts : list of np.ndarray [[n_regions x n_samples]]
264
+ Input from which the features are extracted
265
+ fs : int, float
266
+ Sampling frequency
267
+ cfg : dictionary
268
+ Dictionary of features to extract
269
+
270
+ **kwargs
271
+ - n_workers : int
272
+ Number of workers for parallelization, default is 1
273
+ Parallelization is done by ensembles (first dimension of ts)
274
+ - dtype : type
275
+ Data type of the features extracted, default is np.float32
276
+ - verbose : boolean
277
+ If True, print the some information
278
+ - preprocess : function
279
+ Function for preprocessing the time series
280
+ - preprocess_args : dictionary
281
+ Arguments for preprocessing function
282
+
283
+ Returns
284
+ -------
285
+ Data Object with the following attributes:
286
+ - values: list of numpy arrays
287
+ extracted features
288
+ - labels: list of strings
289
+ List of labels of the features
290
+ - info: dictionary
291
+ Dictionary with the information of the features extracted
292
+ """
293
+ return extract_features(ts, fs, cfg, "list", **kwargs)